@datagrok/bio 2.25.4 → 2.25.5

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (10) hide show
  1. package/dist/package-test.js +1 -1
  2. package/dist/package-test.js.map +1 -1
  3. package/dist/package.js +1 -1
  4. package/dist/package.js.map +1 -1
  5. package/package.json +1 -1
  6. package/scripts/mol-to-helm.py +306 -31
  7. package/src/package.g.ts +1 -1
  8. package/src/package.ts +1 -1
  9. package/test-console-output-1.log +323 -320
  10. package/test-record-1.mp4 +0 -0
package/dist/package-test.js CHANGED
@@ -4,5 +4,5 @@ var bio_test;(()=>{var e={117:(e,t,n)=>{"use strict";Object.defineProperty(t,"__
4
4
  || ${a} === "boolean" || ${o} === null`).assign(l,s._`[${o}]`)}}i.else(),p(e),i.endIf(),i.if(s._`${l} !== undefined`,()=>{i.assign(o,l),function({gen:e,parentData:t,parentDataProperty:n},i){e.if(s._`${t} !== undefined`,()=>e.assign(s._`${t}[${n}]`,i))}(e,l)})}(e,t,a):p(e)})}return c};const u=new Set(["string","number","integer","boolean","null"]);function h(e,t,n,i=l.Correct){const o=i===l.Correct?s.operators.EQ:s.operators.NEQ;let r;switch(e){case"null":return s._`${t} ${o} null`;case"array":r=s._`Array.isArray(${t})`;break;case"object":r=s._`${t} && typeof ${t} == "object" && !Array.isArray(${t})`;break;case"integer":r=a(s._`!(${t} % 1) && !isNaN(${t})`);break;case"number":r=a();break;default:return s._`typeof ${t} ${o} ${e}`}return i===l.Correct?r:(0,s.not)(r);function a(e=s.nil){return(0,s.and)(s._`typeof ${t} == "number"`,e,n?s._`isFinite(${t})`:s.nil)}}function d(e,t,n,i){if(1===e.length)return h(e[0],t,n,i);let o;const r=(0,a.toHash)(e);if(r.array&&r.object){const e=s._`typeof ${t} != "object"`;o=r.null?e:s._`!${t} || ${e}`,delete r.null,delete r.array,delete r.object}else o=s.nil;r.number&&delete r.integer;for(const e in r)o=(0,s.and)(o,h(e,t,n,i));return o}t.checkDataType=h,t.checkDataTypes=d;const m={message:({schema:e})=>`must be ${e}`,params:({schema:e,schemaValue:t})=>"string"==typeof e?s._`{type: ${e}}`:s._`{type: ${t}}`};function p(e){const t=function(e){const{gen:t,data:n,schema:i}=e,o=(0,a.schemaRefOrVal)(e,i,"type");return{gen:t,keyword:"type",data:n,schema:i.type,schemaCode:o,schemaValue:o,parentSchema:i,params:{},it:e}}(e);(0,r.reportError)(t,m)}t.reportTypeError=p},250:(e,t,n)=>{"use strict";n.d(t,{VN:()=>_,n5:()=>T,Ue:()=>S,Tc:()=>E,oP:()=>I,eN:()=>L});var i=n(4328),o=n(7389),r=n(6082),s=n(1757),a=n.n(s),l=n(1991),c=n.n(l),u=n(1858),h=n(2003),d=n(4326);function m(e){var t;return"string"==typeof e||e instanceof String?e:("object"==typeof e||e instanceof Object)&&"$thrownJsError"in e?m(e.$thrownJsError):e instanceof Error?null!==(t=e.stack)&&void 0!==t?t:e.message:e.toString()}var p=n(8070),g=n(7602),f=n(439),y=n(6882);var b=n(7150);function w(e,t,n){return Math.abs(e-t)<=n}var v,T,C=n(6307),A=n(6197);HTMLCanvasElement.prototype.getCursorPosition=function(e,t){const n=this.getBoundingClientRect();return new r.Point((e.clientX-n.left)*t,(e.clientY-n.top)*t)},r.Rect.prototype.contains=function(e,t){return this.left<=e&&e<=this.right&&this.top<=t&&t<=this.bottom};class E{rowCount;value;plotValue;valueList=null;valueIdx=0;bounds;constructor(e=0,t){this.value=this.rowCount=e,this.bounds=t}push(e){this.valueList||(this.valueList=new Array(this.rowCount),this.valueIdx=0),this.valueList[this.valueIdx]=e,++this.valueIdx}aggregate(e){this.value=e(this.valueList)??0,this.valueList=null}}class S{pos;name;_label;get label(){return this._label?this._label:this.name}_freqs;sumRowCount=0;sumPlotValue;sumPlotValueForHeight;constructor(e,t,n,i){this.pos=e,this.name=t,this._freqs=n??{},i?.sumRowCount&&(this.sumRowCount=i.sumRowCount),i?.sumValueForHeight&&(this.sumPlotValue=i.sumValueForHeight),i?.label&&(this._label=i.label)}getMonomers(){return Object.keys(this._freqs)}hasMonomer(e){return e in this._freqs}getFreq(e){let t=this._freqs[e];return t||(t=this._freqs[e]=new E),t}aggregate(e){const t=function(e){return t=>{const n=function(e){let t;const n="agg";return t=e instanceof Float32Array?r.Column.fromFloat32Array(n,e):e instanceof Int32Array?r.Column.fromInt32Array(n,e):r.Column.fromList(r.COLUMN_TYPE.FLOAT,n,e),t}(t);return n.aggregate(e)}}(e);for(const[e,n]of Object.entries(this._freqs))n.aggregate(t)}getMinValue(){return Math.min(...Object.values(this._freqs).map(e=>e.value))}calcPlotValue(e){for(const t of Object.values(this._freqs))t.plotValue=t.value-e}calcHeights(e){this.sumPlotValue=0;for(const e of Object.values(this._freqs))this.sumPlotValue+=e.plotValue;if(this.sumPlotValueForHeight=0,e===d.fH.Entropy){const e=Object.keys(this._freqs).length,t=.01*this.sumPlotValue,n=t/e;for(const e of Object.values(this._freqs)){const i=(e.plotValue+n)/(this.sumPlotValue+t);this.sumPlotValueForHeight+=-i*Math.log2(i)}}else if(e===d.fH.full)for(const[e,t]of Object.entries(this._freqs)){const e=t.plotValue/this.sumPlotValue;this.sumPlotValueForHeight+=e}}calcScreen(e,t,n,i,o,s,a,l,c){const u=i===d.fH.Entropy?n*(o-this.sumPlotValueForHeight)/o:n;let h=c*l+(n-u-1);const m=Object.entries(this._freqs).sort((e,t)=>e[0]!==f._S&&t[0]!==f._S?t[1].value-e[1].value:e[0]===f._S&&t[0]===f._S?0:e[0]===f._S?-1:1);for(const[n,i]of m){const n=u*i.plotValue/this.sumPlotValue;i.bounds=new r.Rect((e-t)*l*s,h,a*l,n),h+=n}}render(e,t,n,i,o,r,s){for(const[a,l]of Object.entries(this._freqs))if(a!==f._S){let c=a;const u=l.bounds,d=u.left;let p=y.S$;if(r)try{p=r.getMonomerTextColor(o,a);const e=r.getMonomer((0,A.Y)(o),a);e&&e.symbol!==a&&(c=e.symbol)}catch(e){m(e)}const g=(0,h.zS)(c,s);e.resetTransform(),e.strokeStyle="lightgray",e.lineWidth=1,e.rect(d,u.top,u.width,u.height),e.fillStyle=p,e.textAlign="left",e.font=t;const f=e.measureText(g);e.setTransform(u.width/f.width,0,0,u.height/i,d,u.top),e.fillText(g,0,-n)}}getMonomerAt(e,t){const n=Object.entries(this._freqs).find(([n,i])=>i.bounds.contains(e,t));return n?n[0]:void 0}buildCompositionTable(e,t){if("-"in this._freqs)throw new Error("Unexpected monomer symbol '-'.");return(0,C.F)(Object.assign({},...Object.entries(this._freqs).map(([e,t])=>({[e]:t.rowCount}))),e,t)}}!function(e){e.STYLE="Style",e.BEHAVIOR="Behavior",e.LAYOUT="Layout",e.DATA="Data"}(v||(v={})),function(e){e.sequenceColumnName="sequenceColumnName",e.valueAggrType="valueAggrType",e.valueColumnName="valueColumnName",e.startPositionName="startPositionName",e.endPositionName="endPositionName",e.skipEmptySequences="skipEmptySequences",e.skipEmptyPositions="skipEmptyPositions",e.shrinkEmptyTail="shrinkEmptyTail",e.backgroundColor="backgroundColor",e.positionHeight="positionHeight",e.positionWidth="positionWidth",e.verticalAlignment="verticalAlignment",e.horizontalAlignment="horizontalAlignment",e.fixWidth="fixWidth",e.fitArea="fitArea",e.minHeight="minHeight",e.maxHeight="maxHeight",e.maxMonomerLetters="maxMonomerLetters",e.showPositionLabels="showPositionLabels",e.positionMarginState="positionMarginState",e.positionMargin="positionMargin",e.filterSource="filterSource"}(T||(T={}));const M=d.Fo;var P;!function(e){e[e.None=0]="None",e[e.Render=1]="Render",e[e.Layout=1]="Layout",e[e.Freqs=2]="Freqs"}(P||(P={}));const _=new class{render=20};class I extends r.JsViewer{static residuesSet="nucleotides";viewed=!1;seqHelper;seqHandler;initialized=!1;monomerLib=null;host;msgHost;canvas;slider;textBaseline;seqCol=null;positions=[];visibleSlider=!1;allowResize=!0;turnOfResizeForOneSetValue=!1;sequenceColumnName;valueAggrType;valueColumnName;skipEmptySequences;skipEmptyPositions;positionWidth;_positionWidth;_positionWidthWithMargin;get positionWidthWithMargin(){return this._positionWidthWithMargin}minHeight;backgroundColor=4294967295;maxHeight;maxMonomerLetters;showPositionLabels;positionMarginState;positionMargin=0;_positionMargin;startPositionName;endPositionName;fixWidth;verticalAlignment;horizontalAlignment;fitArea;shrinkEmptyTail;positionHeight;filterSource;positionNames=[];positionLabels=void 0;startPosition=-1;endPosition=-1;error=null;get Length(){return this.skipEmptyPositions?this.positions.length:this.startPosition<=this.endPosition?this.endPosition-this.startPosition+1:0}get positionMarginValue(){return this.positionMarginState===d.mH.AUTO&&!0===this.seqHandler.getAlphabetIsMultichar()||this.positionMarginState===d.mH.ON?this.positionMargin:0}constructor(){super(),this.seqHelper=b._package.seqHelper,this.textBaseline="top",this.seqHandler=null,this.sequenceColumnName=this.string(T.sequenceColumnName,M.sequenceColumnName,{category:v.DATA,semType:r.SEMTYPE.MACROMOLECULE,description:"Column with sequences"});const e=[r.AGG.KEY,r.AGG.PIVOT,r.AGG.MISSING_VALUE_COUNT,r.AGG.SKEW,r.AGG.KURT,r.AGG.SELECTED_ROWS_COUNT],t=Object.values(r.AGG).filter(t=>!e.includes(t));this.valueColumnName=this.string(T.valueColumnName,M.valueColumnName,{category:v.DATA,columnTypeFilter:"numerical",description:"Column with values used in aggregation for position heights"}),this.valueAggrType=this.string(T.valueAggrType,M.valueAggrType,{category:v.DATA,choices:t,description:"Aggregation method for value column"}),this.startPositionName=this.string(T.startPositionName,M.startPositionName,{category:v.DATA,description:"Position or column name for start position. If column with given name is found, its values will be used as start position. If number is supplied, it will be used as start position of WebLogo."}),this.endPositionName=this.string(T.endPositionName,M.endPositionName,{category:v.DATA,description:"Position or column name for end position. If column with given name is found, its values will be used as end position. If number is supplied, it will be used as end position of WebLogo."}),this.skipEmptySequences=this.bool(T.skipEmptySequences,M.skipEmptySequences,{category:v.DATA,description:"Skip sequences which are empty in all positions"}),this.skipEmptyPositions=this.bool(T.skipEmptyPositions,M.skipEmptyPositions,{category:v.DATA,description:"Skip positions which are empty in all sequences"}),this.shrinkEmptyTail=this.bool(T.shrinkEmptyTail,M.shrinkEmptyTail,{category:v.DATA,description:"Skip empty tail (if found for all sequences within a subset) in WebLogo"}),this.backgroundColor=this.int(T.backgroundColor,M.backgroundColor,{category:v.STYLE,description:"Background color of WebLogo canvas"}),this.positionHeight=this.string(T.positionHeight,M.positionHeight,{category:v.STYLE,choices:Object.values(d.fH),description:"Monomer-Position height mode. Entropy of 100%(full height)"}),this._positionWidth=this.positionWidth=this.float(T.positionWidth,M.positionWidth,{category:v.LAYOUT,editor:"slider",min:4,max:100,description:'Width of position in WebLogo. If "Fit Area" is enabled, width will be calculated to fit horizontal space'}),this.verticalAlignment=this.string(T.verticalAlignment,M.verticalAlignment,{category:v.LAYOUT,choices:Object.values(d.Lp)}),this.horizontalAlignment=this.string(T.horizontalAlignment,M.horizontalAlignment,{category:v.LAYOUT,choices:Object.values(d.P4)}),this.fixWidth=this.bool(T.fixWidth,M.fixWidth,{category:v.LAYOUT,userEditable:!1}),this.fitArea=this.bool(T.fitArea,M.fitArea,{category:v.LAYOUT,description:"Fit WebLogo to the horizontal space. Calculates position width as maximum between provided width value and value needed to fit whole horizontal space."}),this.minHeight=this.int(T.minHeight,M.minHeight,{category:v.LAYOUT,editor:"slider",min:10,max:250,description:"Minimum height of WebLogo"}),this.maxHeight=this.int(T.maxHeight,M.maxHeight,{category:v.LAYOUT,editor:"slider",min:25,max:Math.max(window.innerHeight??0,1e3),nullable:!0,description:"Maximum height of WebLogo"}),this.maxMonomerLetters=this.int(T.maxMonomerLetters,M.maxMonomerLetters,{category:v.LAYOUT,editor:"slider",min:1,max:40,description:"Maximum monomer letters to display before shortening"}),this.showPositionLabels=this.bool(T.showPositionLabels,M.showPositionLabels,{category:v.LAYOUT,description:"Show position labels on top of the weblogo"}),this.positionMarginState=this.string(T.positionMarginState,M.positionMarginState,{category:v.LAYOUT,choices:Object.values(d.mH),description:"Calculate optimal margins between positions or turn it on/off"});let n=0;"auto"===this.positionMarginState&&(n=4),this.positionMargin=this.int(T.positionMargin,n,{category:v.LAYOUT,min:0,max:25,description:"Margin between positions in WebLogo"}),this.filterSource=this.string(T.filterSource,M.filterSource,{category:v.BEHAVIOR,choices:Object.values(d.lT),description:"Data source for weblogo. Selected or filtered rows."}),this.slider=o.rangeSlider(0,100,0,20,!1,{style:"barbell"}),this.canvas=o.canvas(),this.canvas.classList.value="bio-wl-canvas",this.canvas.style.width="100%",b.PackageFunctions.getMonomerLibHelper().then(e=>{this.monomerLib=e.getMonomerLib(),this.render(P.Render,"monomerLib"),this.subs.push(this.monomerLib.onChanged.subscribe(()=>{this.render(P.Render,"monomerLib changed")}))}),this.viewSyncer=new g.g(b._package.logger)}static viewerCounter=-1;viewerId=++I.viewerCounter;toLog(){return`WebLogoViewer<${this.viewerId}>`}setData(){const e=`${this.toLog()}.setData()`;b._package.logger.debug(`${e}, in`),this.viewSyncer.sync(`${e}`,async()=>{if(!this.setDataInProgress){this.setDataInProgress=!0;try{this.viewed&&(this.renderRequestSub.unsubscribe(),await this.destroyView(),this.viewed=!1),this.updateSeqCol(),this.updateEditors(),this.viewed||(await this.buildView(),this.viewed=!0)}finally{this.setDataInProgress=!1}}}),b._package.logger.debug(`${e}, out`)}viewSyncer;setDataInProgress=!1;viewSubs=[];async destroyView(){for(const e of this.viewSubs)e.unsubscribe();this.viewSubs=[];const e=this.dataFrame?"data":"null";b._package.logger.debug(`${this.toLog()}.destroyView( dataFrame = ${e} ) start`),this.host.remove(),this.msgHost=void 0,this.host=void 0,b._package.logger.debug(`${this.toLog()}.destroyView() end`)}async buildView(){const e=this.dataFrame?"data":"null";b._package.logger.debug(`${this.toLog()}.buildView( dataFrame = ${e} ) start`),window.devicePixelRatio,this.viewSubs.push(r.debounce(this.renderRequest,_.render).subscribe(this.renderRequestOnDebounce.bind(this))),this.helpUrl="/help/visualize/viewers/web-logo.md",this.msgHost=o.div("No message",{classes:"bio-wl-msg"}),this.msgHost.style.display="none",this.canvas=o.canvas(),this.canvas.style.width="100%",this.slider.root.style.position="absolute",this.slider.root.style.zIndex="999",this.slider.root.style.display="none",this.slider.root.style.height="0.7em",this.visibleSlider=!1,this.host=o.div([this.msgHost,this.canvas],{classes:"bio-wl-host",style:{display:"flex",flexDirection:"row",flexGrow:"0",flexWrap:"wrap"}}),this.root.append(this.host),this.root.append(this.slider.root),this.error&&(this.msgHost.innerText=this.error.message,o.tooltip.bind(this.msgHost,this.error.stack),this.msgHost.style.setProperty("display",null)),this.dataFrame&&(this.viewSubs.push(this.dataFrame.filter.onChanged.subscribe(this.dataFrameFilterOnChanged.bind(this))),this.viewSubs.push(this.dataFrame.selection.onChanged.subscribe(this.dataFrameSelectionOnChanged.bind(this)))),this.viewSubs.push(o.onSizeChanged(this.root).subscribe(this.rootOnSizeChanged.bind(this))),this.viewSubs.push(this.slider.onValuesChanged.subscribe(this.sliderOnValuesChanged.bind(this))),this.viewSubs.push((0,u.fromEvent)(this.canvas,"mousemove").subscribe(this.canvasOnMouseMove.bind(this))),this.viewSubs.push((0,u.fromEvent)(this.canvas,"mousedown").subscribe(this.canvasOnMouseDown.bind(this))),this.viewSubs.push((0,u.fromEvent)(this.canvas,"wheel").subscribe(this.canvasOnWheel.bind(this))),this.render(P.Freqs,"buildView"),b._package.logger.debug(`${this.toLog()}.buildView() end`)}lastSize={width:-1,height:-1};rootOnSizeChanged(e){const t={width:e.target.clientWidth,height:e.target.clientHeight};this.lastSize.width==t.width&&this.lastSize.height==t.height||(b._package.logger.debug(`${this.toLog()}.rootOnSizeChanged(), ${JSON.stringify(t)}, start `),this.render(P.Layout,"rootOnSizeChanged")),this.lastSize=t}updateEditors(){this.props.getProperty(T.valueColumnName).choices=c()(this.dataFrame.columns.numerical).map(e=>e.name).toArray()}updateSeqCol(){if(this.dataFrame&&(this.seqCol=this.sequenceColumnName?this.dataFrame.col(this.sequenceColumnName):null,null==this.seqCol&&(this.seqCol=(0,h.mn)(this.dataFrame),this.sequenceColumnName=this.seqCol?this.seqCol.name:null),this.seqCol)){try{this.seqHandler=this.seqHelper.getSeqHandler(this.seqCol),this.render(P.Freqs,"updateSeqCol()"),this.error=null}catch(e){throw this.seqCol=null,this.error=e instanceof Error?e:new Error(e.toString()),e}this.seqCol||(this.seqHandler=null,this.positionNames=[],this.positionLabels=[],this.startPosition=-1,this.endPosition=-1)}}getFilter(){let e;switch(this.filterSource){case d.lT.Filtered:e=this.dataFrame.filter;break;case d.lT.Selected:e=0===this.dataFrame.selection.trueCount?this.dataFrame.filter:this.dataFrame.selection}return e}setSliderVisibility(e){e?(this.slider.root.style.display="inherit",this.visibleSlider=!0):(this.slider.root.style.display="none",this.visibleSlider=!1)}calcLayout(e){this.host&&this.canvas&&this.slider&&(this.host.classList.remove("bio-wl-fixWidth","bio-wl-fitArea"),this.canvas.classList.remove("bio-wl-fixWidth","bio-wl-fitArea"),this._positionWidth=this.positionWidth,this._positionMargin=this.positionMargin,this._positionWidthWithMargin=this._positionWidth+this.positionMarginValue,this.fixWidth?this.calcLayoutFixWidth(e):this.calcLayoutNoFitArea(e),this.slider.root.style.width=`${this.host.clientWidth}px`)}calcLayoutFixWidth(e){if(!this.host||!this.canvas||!this.slider)return;this.host.classList.add("bio-wl-fixWidth"),this.canvas.classList.add("bio-wl-fitArea");const t=this._positionWidthWithMargin*this.Length,n=Math.min(Math.max(this.minHeight,this.root.clientHeight),this.maxHeight??this.root.clientHeight);this.host.style.justifyContent=d.P4.LEFT,this.host.style.removeProperty("margin-left"),this.host.style.removeProperty("margin-top"),this.host.style.width=this.canvas.style.width=`${t}px`,this.host.style.height=this.canvas.style.height=`${n}px`,this.host.style.left=this.canvas.style.left="0",this.host.style.top=this.canvas.style.top="0",this.host.style.setProperty("overflow","hidden","important"),this.slider.root.style.display="none",this.slider.setValues(0,Math.max(0,this.Length-1),0,Math.max(0,this.Length-1)),this.canvas.width=t*e,this.canvas.height=n*e}calcLayoutNoFitArea(e){if(!this.host||!this.canvas||!this.slider)return;let t=this._positionWidthWithMargin*this.Length,n=Math.min(this.root.clientWidth,t);this.fitArea&&t<this.root.clientWidth&&(this._positionWidth=Math.floor(this._positionWidth*this.root.clientWidth/t),this._positionWidthWithMargin=this._positionWidth+this.positionMarginValue,t=this._positionWidthWithMargin*this.Length,n=Math.min(this.root.clientWidth,t));const i=Math.min(Math.max(this.minHeight,this.root.clientHeight),this.maxHeight??this.root.clientHeight);this.canvas.style.width=`${n}px`,this.canvas.style.height=`${i}px`,this.host.style.width=`${this.root.clientWidth}px`,this.host.style.height=`${this.root.clientHeight}px`,this.host.style.justifyContent=this.horizontalAlignment,this.host.style.alignContent=this.verticalAlignment===d.Lp.TOP?"start":this.verticalAlignment===d.Lp.MIDDLE?"center":this.verticalAlignment===d.Lp.BOTTOM?"end":"inherit",this.root.clientHeight<this.minHeight&&(this.host.style.alignContent="start",this.host.style.width=`${n+8}px`);const o=t>n;if(this.setSliderVisibility(o),o){this.slider.root.style.removeProperty("display"),this.host.style.justifyContent="left",this.host.style.height=this.root.clientHeight-this.slider.root.offsetHeight+"px",this.canvas.style.height=i-this.slider.root.offsetHeight+"px",this.slider.root.style.top=`${this.host.offsetHeight}px`;let e=Math.min(Math.max(0,this.slider.min),this.Length-.001),t=Math.min(Math.max(0,this.slider.max),this.Length-.001);const n=this.canvas.clientWidth/this._positionWidthWithMargin;t=Math.min(Math.max(e,0)+n,this.Length-.001),e=Math.max(0,Math.min(t,this.Length-.001)-n),this.safeUpdateSlider(0,Math.max(this.Length-.001),e,t)}else this.safeUpdateSlider(0,Math.max(0,this.Length-.001),0,Math.max(0,this.Length-.001));this.canvas.width=n*e,this.canvas.height=i*e}calcLayoutFitArea(e){if(!this.host||!this.canvas||!this.slider)return;const t=this._positionWidth*this.Length,n=Math.min(Math.max(this.minHeight,this.root.clientHeight),this.maxHeight??this.root.clientHeight),i=t>0?(this.root.clientWidth-this.positionMarginValue*this.Length)/t:0,o=this.root.clientHeight/n,r=Math.max(1,Math.min(i,o));this._positionWidth=this.positionWidth*r,this._positionWidthWithMargin=this._positionWidth+this.positionMarginValue;const s=(this._positionWidth+this.positionMarginValue)*this.Length,a=r*n,l=Math.min(this.root.clientWidth,s);this.canvas.style.width=`${l}px`,this.canvas.style.height=`${a}px`,this.host.style.width=`${l}px`,this.host.style.height=`${this.root.clientHeight}px`,this.host.style.justifyContent=this.horizontalAlignment,this.host.style.alignContent=this.verticalAlignment===d.Lp.TOP?"start":this.verticalAlignment===d.Lp.MIDDLE?"center":this.verticalAlignment===d.Lp.BOTTOM?"end":"inherit",this.root.clientHeight<this.minHeight&&(this.host.style.alignContent="start",this.host.style.width=`${l+6}px`),this.host.style.width=`${this.host}px`;const c=s>l;if(this.setSliderVisibility(c),c){this.slider.root.style.removeProperty("display"),this.host.style.justifyContent="left",this.host.style.height=this.root.clientHeight-this.slider.root.offsetHeight+"px",this.slider.root.style.top=`${this.host.offsetHeight}px`;let e=Math.min(Math.max(0,this.slider.min),this.Length-.001),t=Math.min(Math.max(0,this.slider.max),this.Length-.001);const n=this.root.clientWidth/this._positionWidthWithMargin;t=Math.min(Math.max(e,0)+n,this.Length-.001),e=Math.max(0,Math.min(t,this.Length-.001)-n),this.safeUpdateSlider(0,Math.max(0,this.Length-.001),e,t)}else this.safeUpdateSlider(0,Math.max(0,this.Length-.001),0,Math.max(0,this.Length-.001));this.canvas.width=l*e,this.canvas.height=a*e}safeUpdateSlider(e,t,n,i){w(e,this.slider.minRange,.1)&&w(t,this.slider.maxRange,.1)&&w(n,this.slider.min,.1)&&w(i,this.slider.max,.1)||this.slider.setValues(e,t,n,i)}onPropertyChanged(e){switch(super.onPropertyChanged(e),e.name){case T.sequenceColumnName:this.updateSeqCol();break;case T.sequenceColumnName:case T.startPositionName:case T.endPositionName:case T.filterSource:case T.shrinkEmptyTail:case T.skipEmptyPositions:case T.positionHeight:case T.valueColumnName:case T.valueAggrType:this.render(P.Freqs,`onPropertyChanged( ${e.name} )`);break;case T.minHeight:case T.maxHeight:case T.maxMonomerLetters:case T.positionWidth:case T.showPositionLabels:case T.fixWidth:case T.fitArea:case T.horizontalAlignment:case T.verticalAlignment:case T.positionMargin:case T.positionMarginState:this.render(P.Layout,`onPropertyChanged(${e.name})`);break;case T.backgroundColor:this.render(P.Render,`onPropertyChanged(${e.name})`)}}onTableAttached(){b._package.logger.debug(`${this.toLog()}.onTableAttached(), `),super.onTableAttached(),this.setData()}detach(){const e=`${this.toLog()}.detach()`;b._package.logger.debug(`${e}, in`);const t=super.detach.bind(this);this.viewSyncer.sync(`${e}`,async()=>{this.setDataInProgress||(this.viewed&&(await this.destroyView(),this.viewed=!1),t())}),b._package.logger.debug(`${e}, out`)}_onSizeChanged=new u.Subject;get onSizeChanged(){return this._onSizeChanged}_onFreqsCalculated=new u.Subject;get onFreqsCalculated(){return this._onFreqsCalculated}_onLayoutCalculated=new u.Subject;get onLayoutCalculated(){return this._onLayoutCalculated}getMonomer(e,t){const n=e.x,i=Math.floor(e.x/(this._positionWidthWithMargin*t)+Math.floor(this.slider.min)),o=this.positions[i];if(!o)return[null,null,null];const r=o.getMonomerAt(n,e.y);return null==r?[o,null,null]:[o,r,o.getFreq(r)]}_nullSequence(e="X"){return this.skipEmptySequences?"":new Array(this.Length).fill(e).join("")}_removeEmptyPositions(){this.skipEmptyPositions&&(this.positions=c()(this.positions).filter(e=>!e.hasMonomer(f._S)||e.getFreq(f._S).rowCount!==e.sumRowCount).toArray())}requestedRenderLevel=P.Freqs;renderRequest=new u.Subject;renderRequestSub;render(e,t){b._package.logger.debug(`${this.toLog()}.render( recalcLevelVal=${e}, reason='${t}' )`),this.requestedRenderLevel=Math.max(this.requestedRenderLevel,e),this.renderRequest.next(this.requestedRenderLevel)}async renderInt(e){if(b._package.logger.debug(`${this.toLog()}.render.renderInt( renderLevel=${e} ), start `),this.msgHost&&(this.msgHost.style.display="none"),!this.seqCol||!this.dataFrame||null==this.host||null==this.slider)return;const t=window.devicePixelRatio,n=this.showPositionLabels?12:0;if(e>=P.Freqs&&(()=>{if(b._package.logger.debug(`${this.toLog()}.render.calculateFreqsInt(), start `),!this.host||!this.seqCol||!this.dataFrame)return;const e=this.seqCol.getTag(h.gp.positionNames),t=this.seqCol.getTag(h.gp.positionLabels);let n;!e&&this.endPositionName&&/\d+/.test(this.endPositionName)?n=Number(this.endPositionName):e&&this.endPositionName&&(n=e.split(h.z1).indexOf(this.endPositionName),n=-1!==n?n:void 0);const i=this.getFilter(),o=0===i.trueCount?this.seqHandler.maxLength:c().count(0).take(this.seqHandler.length).map(e=>{const t=this.seqHandler.getSplitted(e,n);return i.get(e)&&t?t.length:0}).reduce((e,t)=>Math.max(e,t),0);this.positionNames=e?e.split(h.z1).map(e=>e.trim()):[...Array(o).keys()].map(e=>`${e+1}`),this.positionLabels=t?t.split(h.z1).map(e=>e.trim()):void 0,this.startPosition=this.startPositionName&&this.positionNames&&this.positionNames.includes(this.startPositionName)?this.positionNames.indexOf(this.startPositionName):0,this.endPosition=this.endPositionName&&this.positionNames&&this.positionNames.includes(this.endPositionName)?this.positionNames.indexOf(this.endPositionName):o-1;const s=this.startPosition<=this.endPosition?this.endPosition-this.startPosition+1:0;this.seqHandler=this.seqHelper.getSeqHandler(this.seqCol);const a=this.startPosition<=this.endPosition?this.endPosition-this.startPosition+1:0;this.positions=new Array(a);for(let e=0;e<s;e++){const t=this.positionNames[this.startPosition+e],n=this.positionLabels?this.positionLabels[this.startPosition+e]:void 0;this.positions[e]=new S(this.startPosition+e,t,{},{label:n})}this.dataFrame.rowCount;const l=i.getSelectedIndexes();for(let e=0;e<s;++e){for(const t of l){const n=this.seqHandler.getSplitted(t),i=e+this.startPosition<n.length?n.getCanonical(this.startPosition+e):this.seqHandler.defaultGapOriginal,o=this.seqHandler.defaultGapOriginal===i?f._S:i,r=this.positions[e],s=r.getFreq(o);++r.sumRowCount,s.value=++s.rowCount}if(this.valueAggrType===r.AGG.TOTAL_COUNT)continue;let t=null;try{t=this.dataFrame.getCol(this.valueColumnName),t.matches("numerical")||(t=null)}catch{t=null}if(t){for(const n of l){const i=this.seqHandler.getSplitted(n),o=e+this.startPosition<i.length?i.getCanonical(this.startPosition+e):this.seqHandler.defaultGapOriginal,r=this.seqHandler.defaultGapOriginal===o?f._S:o,s=t.get(n);this.positions[e].getFreq(r).push(s)}this.positions[e].aggregate(this.valueAggrType)}}const u=this.valueAggrType===r.AGG.TOTAL_COUNT?0:Math.min(0,Math.min(...this.positions.map(e=>e.getMinValue())));for(let e=0;e<s;++e)this.positions[e].calcPlotValue(u),this.positions[e].calcHeights(this.positionHeight);this._removeEmptyPositions(),this._onFreqsCalculated.next()})(),this.calcLayout(t),-1===this.startPosition)return;const o=Math.max(Math.floor(this.slider.min),0),s=Math.min(this.positions.length-1,Math.floor(this.slider.max));e>=P.Layout&&((e,t,n,o)=>{b._package.logger.debug(`${this.toLog()}.render.calculateLayoutInt(), start `);const s=this.canvas.height-o*n;let a;if(this.valueAggrType===r.AGG.TOTAL_COUNT){const e=this.seqHandler.getAlphabetSize();this.positionHeight==d.fH.Entropy&&null==e&&i.shell.error("WebLogo: alphabet is undefined."),a=Math.log2(e)}else a=Math.max(...c().count(e).takeWhile(e=>e<=t).map(e=>this.positions[e].sumPlotValueForHeight));for(let i=e;i<=t;++i)i in this.positions?this.positions[i].calcScreen(i,this.slider.min,s,this.positionHeight,a,this._positionWidthWithMargin,this._positionWidth,n,o):b._package.logger.warning(`${this.toLog()}.render.calculateLayoutInt() this.positions.length = ${this.positions.length}, jPos = ${i}`);b._package.logger.debug(`${this.toLog()}.render.calculateLayoutInt(), end `),this._onLayoutCalculated.next()})(o,s,window.devicePixelRatio,n);const a=this.canvas.getContext("2d");if(a){a.save();try{this.Length,a.resetTransform(),a.fillStyle=function(e){const t=r.Color.a(e);return`#${(16777215&e).toString(16).padStart(6,"0")}`+t.toString(16).padStart(2,"0")}(this.backgroundColor),a.fillRect(0,0,this.canvas.width,this.canvas.height),a.textBaseline=this.textBaseline;const e=10*t;a.resetTransform(),a.fillStyle="black",a.textAlign="center",a.font=`${e.toFixed(1)}px Roboto, Roboto Local, sans-serif`,n>0&&this.positions.length>0&&function(e,t,n,i,o,r,s,a){e.save();try{e.textAlign="center";let l=null,c=null;for(let t=Math.floor(s);t<=Math.floor(a);t++){const n=r[t],i=e.measureText(n.name),o=i.actualBoundingBoxDescent-i.actualBoundingBoxAscent;l=null==l?i.width:Math.max(l,i.width),c=null==c?o:Math.max(c,o)}const u=l<i*t-2?1:(i*t-2)/l;for(let l=Math.floor(s);l<=Math.floor(a);l++){const a=r[l],h=(l-s)*n*t+i*t/2,d=(o*t-c)/2;e.setTransform(u,0,0,1,h,d),e.measureText(a.label),e.fillText(a.label,0,0)}}finally{e.restore()}}(a,t,this._positionWidthWithMargin,this._positionWidth,n,this.positions,this.slider.min,this.slider.max);const i="16px Roboto, Roboto Local, sans-serif",l=.25,c=12.2,u=this.seqHandler.defaultBiotype;for(let e=o;e<=s;e++)this.positions[e].render(a,i,l,c,u,this.monomerLib,this.maxMonomerLetters)}finally{a.restore()}b._package.logger.debug(`${this.toLog()}.render.renderInt( recalcLevel=${e} ), end`)}}renderRequestOnDebounce(e){const t=`${this.toLog()}.renderRequestOnDebounce()`;"HTML"!==a()(this.root).offsetParent().get()[0]?.tagName?(this.requestedRenderLevel=P.None,this.viewSyncer.sync(t,async()=>{await this.renderInt(e)})):b._package.logger.warning(`${t}, $(this.root).offsetParent() is the 'HTML' tag.`)}_lastWidth;_lastHeight;sliderOnValuesChanged(e){try{const e={minRange:this.slider.minRange,min:this.slider.min,max:this.slider.max,maxRange:this.slider.maxRange};if(this.canvas&&this.canvas.offsetWidth>0&&(this._positionWidthWithMargin??0)>0){const t=e.max-e.min,n=this.canvas.offsetWidth/t-this.positionMarginValue;w(n,this.positionWidth,.1)?this.render(P.Layout,"sliderOnValuesChanged"):this.getProperty(T.positionWidth)?.set(this,n)}}catch(e){const t=m(e);b._package.logger.error(`${this.toLog()}.sliderOnValuesChanged() error:\n`+t)}}dataFrameFilterOnChanged(e){b._package.logger.debug(`${this.toLog()}.dataFrameFilterChanged()`);try{this.filterSource===d.lT.Filtered&&this.render(P.Freqs,"dataFrameFilterOnChanged")}catch(e){const t=m(e);b._package.logger.error(`${this.toLog()}.dataFrameFilterOnChanged() error:\n`+t)}}dataFrameSelectionOnChanged(e){b._package.logger.debug(`${this.toLog()}.dataFrameSelectionOnChanged()`);try{this.filterSource===d.lT.Selected&&this.render(P.Freqs,"dataFrameSelectionOnChanged")}catch(e){const t=m(e);b._package.logger.error(`${this.toLog()}.dataFrameSelectionOnChanged() error:\n`+t)}}canvasOnMouseMove(e){if(!this.monomerLib||!this.seqHandler)return;const t=window.devicePixelRatio;try{const n=e,i=this.canvas.getCursorPosition(n,t),[s,a]=this.getMonomer(i,t),l=this.showPositionLabels?12*t:0;if(null!==s&&null==a&&0<=i.y&&i.y<=l){const e=[o.divText(`Position ${s.label}`)];if(this.valueAggrType===r.AGG.TOTAL_COUNT){const t=this.seqHandler.defaultBiotype;e.push(s.buildCompositionTable(t,this.monomerLib))}const t=o.divV(e);t.style.maxHeight="80vh",o.tooltip.show(t,n.x+16,n.y+16)}else if(null!==s&&a&&this.dataFrame&&this.seqCol&&this.seqHandler){const e=s.getFreq(a),t=[o.div(`${a}`),o.div(`${e.rowCount} rows`)];this.valueAggrType!==r.AGG.TOTAL_COUNT&&t.push(o.div(`${this.valueAggrType}: ${e.value.toFixed(3)}`));const i=o.divV(t);o.tooltip.show(i,n.x+16,n.y+16)}else o.tooltip.hide()}catch(e){const t=m(e);b._package.logger.error(`${this.toLog()}.canvasOnMouseMove() error:\n`+t)}}canvasOnMouseDown(e){try{const t=e,n=window.devicePixelRatio,[i,o]=this.getMonomer(this.canvas.getCursorPosition(t,n),n);if(null!==i&&null!==o&&this.dataFrame&&this.seqCol&&this.seqHandler){const e=r.BitSet.create(this.dataFrame.selection.length,e=>function(e,t,n,i,o,r){const s=t.getSplitted(i),a=r.pos<s.length?s.getCanonical(r.pos):null;return null!==a&&a===o}(this.dataFrame,this.seqHandler,this.getFilter(),e,o,i));this.dataFrame.selection.init(t=>e.get(t))}}catch(e){const t=m(e);b._package.logger.error(`${this.toLog()}.canvasOnMouseDown() error:\n`+t)}}canvasOnWheel(e){const t=window.devicePixelRatio;try{if(!this.visibleSlider)return;const n=this.canvas.width/(this._positionWidthWithMargin*t),i=e.deltaY/100*Math.max(Math.floor(n/5),1);this.slider.scrollBy(this.slider.min+i)}catch(e){const t=m(e);b._package.logger.error(`${this.toLog()}.canvasOnWheel() error:\n`+t)}}_onRendered=new u.Subject;get onRendered(){return this._onRendered}invalidate(e){const t=`invalidate(${e?` <- ${e} `:""})`,n=`${this.toLog()}.${t}`;this.render(P.None,t),this.viewSyncer.sync(`${n}`,async()=>{this._onRendered.next()})}async awaitRendered(e=5e3){await(0,p.PE)(this.onRendered,()=>{},()=>{this.invalidate()},e);const t=this.viewSyncer.resetErrors();if(t.length>0)throw t[0]}}function L(e,t,n,i,o){let r=0,s=-1;for(;-1!=(s=n.findNext(s,!0));){const e=t.getSplitted(s),n=o.pos,a=n<e.length?e.getCanonical(n):null;null!==a&&a===i&&r++}return r}},294:(e,t,n)=>{"use strict";function i(e,t){return e[t.polymerType]?.[t.symbol]}function o(e,t){return!!e[t.polymerType]?.[t.symbol]}function r(e,t,n){let i=e[t.polymerType];i||(i=e[t.polymerType]={}),i[t.symbol]=n}n.d(t,{Cg:()=>s,LQ:()=>r,bq:()=>o,vF:()=>a,xb:()=>i});class s extends Map{constructor(e){super(e)}}class a{constructor(e,t){this.molfile=e,this.monomers=t}static createEmpty(){return new a("",new s(null))}}},330:(e,t,n)=>{"use strict";n.d(t,{kA:()=>o,pz:()=>s,qj:()=>r,vG:()=>a});var i=n(2003);function o(e,t){return e?e.columns.getUnusedName(t):t}function r(e,t){return o(e,`molfile(${t})`)}function s(e){let t;if(e===i.YI.PT||e===i.YI.UN)t="PEPTIDE";else{if(e!==i.YI.RNA&&e!==i.YI.DNA)throw new Error(`Unexpected alphabet '${e}'.`);t="RNA"}return t}function a(e){const t=7===e.length?/^#?([a-f\d]{2})([a-f\d]{2})([a-f\d]{2})$/i.exec(e):/^#?([a-f\d]{2})([a-f\d]{2})([a-f\d]{2})([a-f\d]{2})$/i.exec(e);return t?[parseInt(t[1],16)/256,parseInt(t[2],16)/256,parseInt(t[3],16)/256,t.length>4?parseInt(t[4],16)/256:.3]:null}},343:e=>{"use strict";const t=/^[\da-f]{8}-[\da-f]{4}-[\da-f]{4}-[\da-f]{4}-[\da-f]{12}$/iu,n=/([\da-z][\d\-a-z]{0,31}):((?:[\w!$'()*+,\-.:;=@]|%[\da-f]{2})+)/iu;function i(e){return"boolean"==typeof e.secure?e.secure:"wss"===String(e.scheme).toLowerCase()}function o(e){return e.host||(e.error=e.error||"HTTP URIs must have a host."),e}function r(e){const t="https"===String(e.scheme).toLowerCase();return e.port!==(t?443:80)&&""!==e.port||(e.port=void 0),e.path||(e.path="/"),e}const s={scheme:"http",domainHost:!0,parse:o,serialize:r},a={scheme:"ws",domainHost:!0,parse:function(e){return e.secure=i(e),e.resourceName=(e.path||"/")+(e.query?"?"+e.query:""),e.path=void 0,e.query=void 0,e},serialize:function(e){if(e.port!==(i(e)?443:80)&&""!==e.port||(e.port=void 0),"boolean"==typeof e.secure&&(e.scheme=e.secure?"wss":"ws",e.secure=void 0),e.resourceName){const[t,n]=e.resourceName.split("?");e.path=t&&"/"!==t?t:void 0,e.query=n,e.resourceName=void 0}return e.fragment=void 0,e}},l={http:s,https:{scheme:"https",domainHost:s.domainHost,parse:o,serialize:r},ws:a,wss:{scheme:"wss",domainHost:a.domainHost,parse:a.parse,serialize:a.serialize},urn:{scheme:"urn",parse:function(e,t){if(!e.path)return e.error="URN can not be parsed",e;const i=e.path.match(n);if(i){const n=t.scheme||e.scheme||"urn";e.nid=i[1].toLowerCase(),e.nss=i[2];const o=`${n}:${t.nid||e.nid}`,r=l[o];e.path=void 0,r&&(e=r.parse(e,t))}else e.error=e.error||"URN can not be parsed.";return e},serialize:function(e,t){const n=t.scheme||e.scheme||"urn",i=e.nid.toLowerCase(),o=`${n}:${t.nid||i}`,r=l[o];r&&(e=r.serialize(e,t));const s=e,a=e.nss;return s.path=`${i||t.nid}:${a}`,t.skipEscape=!0,s},skipNormalize:!0},"urn:uuid":{scheme:"urn:uuid",parse:function(e,n){const i=e;return i.uuid=i.nss,i.nss=void 0,n.tolerant||i.uuid&&t.test(i.uuid)||(i.error=i.error||"UUID is not valid."),i},serialize:function(e){const t=e;return t.nss=(e.uuid||"").toLowerCase(),t},skipNormalize:!0}};e.exports=l},392:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(2023),s={keyword:"unevaluatedProperties",type:"object",schemaType:["boolean","object"],trackErrors:!0,error:{message:"must NOT have unevaluated properties",params:({params:e})=>i._`{unevaluatedProperty: ${e.unevaluatedProperty}}`},code(e){const{gen:t,schema:n,data:s,errsCount:a,it:l}=e;if(!a)throw new Error("ajv implementation error");const{allErrors:c,props:u}=l;function h(r){if(!1===n)return e.setParams({unevaluatedProperty:r}),e.error(),void(c||t.break());if(!(0,o.alwaysValidSchema)(l,n)){const n=t.name("valid");e.subschema({keyword:"unevaluatedProperties",dataProp:r,dataPropType:o.Type.Str},n),c||t.if((0,i.not)(n),()=>t.break())}}u instanceof i.Name?t.if(i._`${u} !== true`,()=>t.forIn("key",s,e=>t.if(function(e,t){return i._`!${e} || !${e}[${t}]`}(u,e),()=>h(e)))):!0!==u&&t.forIn("key",s,e=>void 0===u?h(e):t.if(function(e,t){const n=[];for(const o in e)!0===e[o]&&n.push(i._`${t} !== ${o}`);return(0,i.and)(...n)}(u,e),()=>h(e))),l.props=!0,e.ok(i._`${a} === ${r.default.errors}`)}};t.default=s},396:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.getRules=t.isJSONType=void 0;const n=new Set(["string","number","integer","boolean","null","object","array"]);t.isJSONType=function(e){return"string"==typeof e&&n.has(e)},t.getRules=function(){const e={number:{type:"number",rules:[]},string:{type:"string",rules:[]},array:{type:"array",rules:[]},object:{type:"object",rules:[]}};return{types:{...e,integer:!0,boolean:!0,null:!0},rules:[{rules:[]},e.number,e.string,e.array,e.object],post:{rules:[]},all:{},keywords:{}}}},422:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5765),o=n(9029),r={keyword:"pattern",type:"string",schemaType:"string",$data:!0,error:{message:({schemaCode:e})=>o.str`must match pattern "${e}"`,params:({schemaCode:e})=>o._`{pattern: ${e}}`},code(e){const{data:t,$data:n,schema:r,schemaCode:s,it:a}=e,l=a.opts.unicodeRegExp?"u":"",c=n?o._`(new RegExp(${s}, ${l}))`:(0,i.usePattern)(e,r);e.fail$data(o._`!${c}.test(${t})`)}};t.default=r},439:(e,t,n)=>{"use strict";n.d(t,{B5:()=>l,Hi:()=>i,Vl:()=>c,YI:()=>o,_S:()=>h,b9:()=>d,gp:()=>r,ot:()=>m,q7:()=>u,qE:()=>r,z1:()=>a});var i,o,r,s=n(2738);!function(e){e.FASTA="fasta",e.SEPARATOR="separator",e.HELM="helm",e.CUSTOM="custom",e.BILN="biln"}(i||(i={})),function(e){e.DNA="DNA",e.RNA="RNA",e.PT="PT",e.UN="UN"}(o||(o={})),function(e){e.aligned="aligned",e.alphabet="alphabet",e.alphabetSize=".alphabetSize",e.alphabetIsMultichar=".alphabetIsMultichar",e.separator="separator",e.isHelmCompatible=".isHelmCompatible",e.positionNames=".positionNames",e.positionLabels=".positionLabels",e.regions=".regions",e.positionShift=".positionShift",e.selectedPosition=".selectedPosition",e.polymerTypeColumnName=".polymerTypeColumnName"}(r||(r={}));const a=", ",l=/(?:\[([A-Za-z0-9_\-,()]+)\])|([A-Za-z\-])/g,c=new class{constructor(){this.fasta={peptide:new Set(["G","L","Y","S","E","Q","D","N","F","A","K","R","H","C","V","P","W","I","M","T"]),dna:new Set(["A","C","G","T"]),rna:new Set(["A","C","G","U"])}}},u=[new s.a(o.PT,c.fasta.peptide,.5),new s.a(o.DNA,c.fasta.dna,.55),new s.a(o.RNA,c.fasta.rna,.55)],h="",d={[i.FASTA]:"-",[i.SEPARATOR]:"",[i.HELM]:"*",[i.BILN]:""},m=" , "},494:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateTuple=void 0;const i=n(9029),o=n(4227),r=n(5765),s={keyword:"items",type:"array",schemaType:["object","array","boolean"],before:"uniqueItems",code(e){const{schema:t,it:n}=e;if(Array.isArray(t))return a(e,"additionalItems",t);n.items=!0,(0,o.alwaysValidSchema)(n,t)||e.ok((0,r.validateArray)(e))}};function a(e,t,n=e.schema){const{gen:r,parentSchema:s,data:a,keyword:l,it:c}=e;!function(e){const{opts:i,errSchemaPath:r}=c,s=n.length,a=s===e.minItems&&(s===e.maxItems||!1===e[t]);if(i.strictTuples&&!a){const e=`"${l}" is ${s}-tuple, but minItems or maxItems/${t} are not specified or different at path "${r}"`;(0,o.checkStrictMode)(c,e,i.strictTuples)}}(s),c.opts.unevaluated&&n.length&&!0!==c.items&&(c.items=o.mergeEvaluated.items(r,n.length,c.items));const u=r.name("valid"),h=r.const("len",i._`${a}.length`);n.forEach((t,n)=>{(0,o.alwaysValidSchema)(c,t)||(r.if(i._`${h} > ${n}`,()=>e.subschema({keyword:l,schemaProp:n,dataProp:n},u)),e.ok(u))})}t.validateTuple=a,t.default=s},518:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/core","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/core":true},"$dynamicAnchor":"meta","title":"Core vocabulary meta-schema","type":["object","boolean"],"properties":{"$id":{"$ref":"#/$defs/uriReferenceString","$comment":"Non-empty fragments not allowed.","pattern":"^[^#]*#?$"},"$schema":{"$ref":"#/$defs/uriString"},"$ref":{"$ref":"#/$defs/uriReferenceString"},"$anchor":{"$ref":"#/$defs/anchorString"},"$dynamicRef":{"$ref":"#/$defs/uriReferenceString"},"$dynamicAnchor":{"$ref":"#/$defs/anchorString"},"$vocabulary":{"type":"object","propertyNames":{"$ref":"#/$defs/uriString"},"additionalProperties":{"type":"boolean"}},"$comment":{"type":"string"},"$defs":{"type":"object","additionalProperties":{"$dynamicRef":"#meta"}}},"$defs":{"anchorString":{"type":"string","pattern":"^[A-Za-z_][-A-Za-z0-9._]*$"},"uriString":{"type":"string","format":"uri"},"uriReferenceString":{"type":"string","format":"uri-reference"}}}')},540:e=>{"use strict";e.exports=function(e){var t=document.createElement("style");return e.setAttributes(t,e.attributes),e.insert(t,e.options),t}},608:(e,t,n)=>{"use strict";n.d(t,{Ap:()=>D,aZ:()=>B,eE:()=>F});var i=n(7389),o=n(6082),r=n(1991),s=n.n(r),a=n(3516),l=n(2003);const c=Symbol("Comlink.proxy"),u=Symbol("Comlink.endpoint"),h=Symbol("Comlink.releaseProxy"),d=Symbol("Comlink.thrown"),m=e=>"object"==typeof e&&null!==e||"function"==typeof e,p=new Map([["proxy",{canHandle:e=>m(e)&&e[c],serialize(e){const{port1:t,port2:n}=new MessageChannel;return g(e,t),[n,[n]]},deserialize:e=>(e.start(),y(e))}],["throw",{canHandle:e=>m(e)&&d in e,serialize({value:e}){let t;return t=e instanceof Error?{isError:!0,value:{message:e.message,name:e.name,stack:e.stack}}:{isError:!1,value:e},[t,[]]},deserialize(e){throw e.isError?Object.assign(new Error(e.value.message),e.value):e.value}}]]);function g(e,t=self){t.addEventListener("message",function n(i){if(!i||!i.data)return;const{id:o,type:r,path:s}=Object.assign({path:[]},i.data),a=(i.data.argumentList||[]).map(E);let l;try{const t=s.slice(0,-1).reduce((e,t)=>e[t],e),n=s.reduce((e,t)=>e[t],e);switch(r){case"GET":l=n;break;case"SET":t[s.slice(-1)[0]]=E(i.data.value),l=!0;break;case"APPLY":l=n.apply(t,a);break;case"CONSTRUCT":l=function(e){return Object.assign(e,{[c]:!0})}(new n(...a));break;case"ENDPOINT":{const{port1:t,port2:n}=new MessageChannel;g(e,n),l=function(e,t){return C.set(e,t),e}(t,[t])}break;case"RELEASE":l=void 0;break;default:return}}catch(e){l={value:e,[d]:0}}Promise.resolve(l).catch(e=>({value:e,[d]:0})).then(e=>{const[i,s]=A(e);t.postMessage(Object.assign(Object.assign({},i),{id:o}),s),"RELEASE"===r&&(t.removeEventListener("message",n),f(t))})}),t.start&&t.start()}function f(e){(function(e){return"MessagePort"===e.constructor.name})(e)&&e.close()}function y(e,t){return w(e,[],t)}function b(e){if(e)throw new Error("Proxy has been released and is not useable")}function w(e,t=[],n=function(){}){let i=!1;const o=new Proxy(n,{get(n,r){if(b(i),r===h)return()=>S(e,{type:"RELEASE",path:t.map(e=>e.toString())}).then(()=>{f(e),i=!0});if("then"===r){if(0===t.length)return{then:()=>o};const n=S(e,{type:"GET",path:t.map(e=>e.toString())}).then(E);return n.then.bind(n)}return w(e,[...t,r])},set(n,o,r){b(i);const[s,a]=A(r);return S(e,{type:"SET",path:[...t,o].map(e=>e.toString()),value:s},a).then(E)},apply(n,o,r){b(i);const s=t[t.length-1];if(s===u)return S(e,{type:"ENDPOINT"}).then(E);if("bind"===s)return w(e,t.slice(0,-1));const[a,l]=T(r);return S(e,{type:"APPLY",path:t.map(e=>e.toString()),argumentList:a},l).then(E)},construct(n,o){b(i);const[r,s]=T(o);return S(e,{type:"CONSTRUCT",path:t.map(e=>e.toString()),argumentList:r},s).then(E)}});return o}function v(e){return Array.prototype.concat.apply([],e)}function T(e){const t=e.map(A);return[t.map(e=>e[0]),v(t.map(e=>e[1]))]}const C=new WeakMap;function A(e){for(const[t,n]of p)if(n.canHandle(e)){const[i,o]=n.serialize(e);return[{type:"HANDLER",name:t,value:i},o]}return[{type:"RAW",value:e},C.get(e)||[]]}function E(e){switch(e.type){case"HANDLER":return p.get(e.name).deserialize(e.value);case"RAW":return e.value}}function S(e,t,n){return new Promise(i=>{const o=new Array(4).fill(0).map(()=>Math.floor(Math.random()*Number.MAX_SAFE_INTEGER).toString(16)).join("-");e.addEventListener("message",function t(n){!n.data||!n.data.id||n.data.id!==o||(e.removeEventListener("message",t),i(n.data))}),e.start&&e.start(),e.postMessage(Object.assign({id:o},t),n)})}const M="(function(){"use strict";const $=Symbol("Comlink.proxy"),A=Symbol("Comlink.endpoint"),R=Symbol("Comlink.releaseProxy"),y=Symbol("Comlink.thrown"),_=e=>typeof e=="object"&&e!==null||typeof e=="function",L={canHandle:e=>_(e)&&e[$],serialize(e){const{port1:r,port2:i}=new MessageChannel;return w(e,r),[i,[i]]},deserialize(e){return e.start(),C(e)}},O={canHandle:e=>_(e)&&y in e,serialize({value:e}){let r;return e instanceof Error?r={isError:!0,value:{message:e.message,name:e.name,stack:e.stack}}:r={isError:!1,value:e},[r,[]]},deserialize(e){throw e.isError?Object.assign(new Error(e.value.message),e.value):e.value}},E=new Map([["proxy",L],["throw",O]]);function w(e,r=self){r.addEventListener("message",function i(s){if(!s||!s.data)return;const{id:o,type:a,path:n}=Object.assign({path:[]},s.data),c=(s.data.argumentList||[]).map(m);let l;try{const u=n.slice(0,-1).reduce((d,p)=>d[p],e),f=n.reduce((d,p)=>d[p],e);switch(a){case"GET":l=f;break;case"SET":u[n.slice(-1)[0]]=m(s.data.value),l=!0;break;case"APPLY":l=f.apply(u,c);break;case"CONSTRUCT":{const d=new f(...c);l=z(d)}break;case"ENDPOINT":{const{port1:d,port2:p}=new MessageChannel;w(e,p),l=N(d,[d])}break;case"RELEASE":l=void 0;break;default:return}}catch(u){l={value:u,[y]:0}}Promise.resolve(l).catch(u=>({value:u,[y]:0})).then(u=>{const[f,d]=S(u);r.postMessage(Object.assign(Object.assign({},f),{id:o}),d),a==="RELEASE"&&(r.removeEventListener("message",i),M(r))})}),r.start&&r.start()}function T(e){return e.constructor.name==="MessagePort"}function M(e){T(e)&&e.close()}function C(e,r){return b(e,[],r)}function h(e){if(e)throw new Error("Proxy has been released and is not useable")}function b(e,r=[],i=function(){}){let s=!1;const o=new Proxy(i,{get(a,n){if(h(s),n===R)return()=>g(e,{type:"RELEASE",path:r.map(c=>c.toString())}).then(()=>{M(e),s=!0});if(n==="then"){if(r.length===0)return{then:()=>o};const c=g(e,{type:"GET",path:r.map(l=>l.toString())}).then(m);return c.then.bind(c)}return b(e,[...r,n])},set(a,n,c){h(s);const[l,u]=S(c);return g(e,{type:"SET",path:[...r,n].map(f=>f.toString()),value:l},u).then(m)},apply(a,n,c){h(s);const l=r[r.length-1];if(l===A)return g(e,{type:"ENDPOINT"}).then(m);if(l==="bind")return b(e,r.slice(0,-1));const[u,f]=F(c);return g(e,{type:"APPLY",path:r.map(d=>d.toString()),argumentList:u},f).then(m)},construct(a,n){h(s);const[c,l]=F(n);return g(e,{type:"CONSTRUCT",path:r.map(u=>u.toString()),argumentList:c},l).then(m)}});return o}function D(e){return Array.prototype.concat.apply([],e)}function F(e){const r=e.map(S);return[r.map(i=>i[0]),D(r.map(i=>i[1]))]}const P=new WeakMap;function N(e,r){return P.set(e,r),e}function z(e){return Object.assign(e,{[$]:!0})}function S(e){for(const[r,i]of E)if(i.canHandle(e)){const[s,o]=i.serialize(e);return[{type:"HANDLER",name:r,value:s},o]}return[{type:"RAW",value:e},P.get(e)||[]]}function m(e){switch(e.type){case"HANDLER":return E.get(e.name).deserialize(e.value);case"RAW":return e.value}}function g(e,r,i){return new Promise(s=>{const o=U();e.addEventListener("message",function a(n){!n.data||!n.data.id||n.data.id!==o||(e.removeEventListener("message",a),s(n.data))}),e.start&&e.start(),e.postMessage(Object.assign({id:o},r),i)})}function U(){return new Array(4).fill(0).map(()=>Math.floor(Math.random()*Number.MAX_SAFE_INTEGER).toString(16)).join("-")}const W=async()=>WebAssembly.validate(new Uint8Array([0,97,115,109,1,0,0,0,1,5,1,96,0,1,123,3,2,1,0,10,10,1,8,0,65,0,253,15,253,98,11])),k="eager",x="lazy",j={ssw:["simd"],minimap2:["simd"]},t={tools:[],config:{},files:[],base:{},fs:{},async init(){if(t.tools.length===0)throw"Expecting at least 1 tool.";if(new Set(t.tools.map(r=>`${r.tool}/${r.program||r.tool}`)).size!==t.tools.length)throw"Found duplicate tools; can only have each tool/program combination at most once.";if(t.base=t.tools.find(r=>r.reinit!==!0),!t.base)throw"Could not find a tool with `reinit: false` to use as the base module. To fix this issue, include the tool `base/1.0.0` when initializing Aioli.";return t.base.isBaseModule=!0,await this._setup(t.base),await this._initModules(),t._log("Ready"),!0},async _initModules(){await Promise.all(t.tools.map(this._setup)),await this._setupFS()},mount(e=[]){const r=`${t.config.dirShared}${t.config.dirData}`,i=`${t.config.dirShared}${t.config.dirMounted}`;let s=[],o=[],a=[];!Array.isArray(e)&&!(e instanceof FileList)&&(e=[e]),t._log(`Mounting ${e.length} files`);for(let n of e){if(n instanceof File||(n==null?void 0:n.data)instanceof Blob&&n.name||typeof(n==null?void 0:n.data)=="string"&&n.name)typeof(n==null?void 0:n.data)=="string"&&(n.data=new Blob([n.data],{type:"text/plain"})),s.push(n);else if(n.name&&n.url)o.push(n);else if(typeof n=="string"&&n.startsWith("http"))n={url:n,name:n.split("//").pop().replace(/\//g,"-")},o.push(n);else throw'Cannot mount file(s) specified. Must be a File, Blob, a URL string, or { name: "file.txt", data: "string" }.';a.push(n.name)}try{t.fs.unmount(i)}catch{}for(let n of o)t.fs.createLazyFile(r,n.name,n.url,!0,!0);return t.files=t.files.concat(s),t.base.module.FS.mount(t.base.module.WORKERFS,{files:t.files.filter(n=>n instanceof File),blobs:t.files.filter(n=>(n==null?void 0:n.data)instanceof Blob)},i),s.map(n=>{const c=`${i}/${n.name}`,l=`${r}/${n.name}`;try{t.fs.unlink(l)}catch{}t._log(`Creating symlink: ${l} --> ${c}`),t.fs.symlink(c,l)}),a.map(n=>`${r}/${n}`)},async exec(e,r=null){if(t._log(`Executing %c${e}%c args=${r}`,"color:darkblue; font-weight:bold",""),!e)throw"Expecting a command";let i=e;r==null&&(r=e.split(" "),i=r.shift());const s=t.tools.find(a=>{var c;let n=i;return((c=a==null?void 0:a.features)==null?void 0:c.simd)===!0&&(n=`${n}-simd`),a.program==n});if(s==null)throw`Program ${i} not found.`;s.stdout="",s.stderr="",s.loading==x&&(s.loading=k,await this._initModules());try{s.module.callMain(r)}catch(a){console.error(a)}try{s.module.FS.close(s.module.FS.streams[1]),s.module.FS.close(s.module.FS.streams[2])}catch{}s.module.FS.streams[1]=s.module.FS.open("/dev/stdout","w"),s.module.FS.streams[2]=s.module.FS.open("/dev/stderr","w");let o={stdout:s.stdout,stderr:s.stderr};return t.config.printInterleaved&&(o=s.stdout),s.reinit===!0&&await this.reinit(s.tool),o},cat(e){return t._fileop("cat",e)},ls(e){return t._fileop("ls",e)},download(e){return t._fileop("download",e)},pwd(){return t.fs.cwd()},cd(e){for(let r of t.tools)!r.module||r.module.FS.chdir(e)},mkdir(e){return t.fs.mkdir(e),!0},read({path:e,length:r,flag:i="r",offset:s=0,position:o=0}){const a=t.fs.open(e,i),n=new Uint8Array(r);return t.fs.read(a,n,s,r,o),t.fs.close(a),n},write({path:e,buffer:r,flag:i="w+",offset:s=0,position:o=0}){const a=t.fs.open(e,i);t.fs.write(a,r,s,r.length,o),t.fs.close(a)},async reinit(e){const r=t.tools.find(s=>s.tool==e),i=t.base.module.FS.cwd();Object.assign(r,r.config),r.ready=!1,await this.init(),r.isBaseModule&&this.mount(),this.cd(i)},_stdinTxt:"",_stdinPtr:0,get stdin(){return t._stdinTxt},set stdin(e=""){t._log(`Setting stdin to %c${e}%c`,"color:darkblue",""),t._stdinTxt=e,t._stdinPtr=0},async _setup(e){if(e.ready)return;if(t._log(`Setting up ${e.tool} (base = ${e.isBaseModule===!0})...`),e.config=Object.assign({},e),e.urlPrefix||(e.urlPrefix=`${t.config.urlCDN}/${e.tool}/${e.version}`),e.program||(e.program=e.tool),e.features||(e.features={},(j[e.program]||[]).includes("simd")&&(await W()?(e.program+="-simd",e.features.simd=!0):t._log(`WebAssembly SIMD is not supported in this browser; will load non-SIMD version of ${e.program}.`))),e.isBaseModule&&(e.loading=k),e.loading===x){t._log(`Will lazy-load ${e.tool}; skipping initialization.`);return}self.importScripts(`${e.urlPrefix}/${e.program}.js`),e.module=await Module({thisProgram:e.program,locateFile:(i,s)=>`${e.urlPrefix}/${i}`,stdin:()=>t._stdinPtr<t.stdin.length?t.stdin.charCodeAt(t._stdinPtr++):(t.stdin="",null),print:i=>{t.config.printStream?postMessage({type:"biowasm",value:{stdout:i}}):e.stdout+=i+`
`},printErr:i=>{const s=t.config.printInterleaved?"stdout":"stderr";t.config.printStream?postMessage({type:"biowasm",value:{[s]:i}}):e[s]+=i+`
`}});const r=e.module.FS;e.isBaseModule?(t._log(`Setting up ${e.tool} with base module filesystem...`),r.mkdir(t.config.dirShared,511),r.mkdir(`${t.config.dirShared}/${t.config.dirData}`,511),r.mkdir(`${t.config.dirShared}/${t.config.dirMounted}`,511),r.chdir(`${t.config.dirShared}/${t.config.dirData}`),t.fs=r):(t._log(`Setting up ${e.tool} with filesystem...`),r.mkdir(t.config.dirShared),r.mount(e.module.PROXYFS,{root:t.config.dirShared,fs:t.fs},t.config.dirShared),r.chdir(t.fs.cwd())),e.stdout="",e.stderr="",e.ready=!0},async _setupFS(){const e=t.fs;for(let r of t.tools){if(!r.ready)continue;const i=r.module.FS,s=`/${r.tool}`,o=`${t.config.dirShared}${s}`;!i.analyzePath(s).exists||e.analyzePath(o).exists||(t._log(`Mounting ${s} onto ${t.base.tool} filesystem at ${o}`),e.mkdir(o),e.mount(t.base.module.PROXYFS,{root:s,fs:i},o))}},_fileop(e,r){t._log(`Running ${e} ${r}`);const i=t.fs.analyzePath(r);if(!i.exists)return t._log(`File ${r} not found.`),!1;switch(e){case"cat":return t.fs.readFile(r,{encoding:"utf8"});case"ls":return t.fs.isFile(i.object.mode)?t.fs.stat(r):t.fs.readdir(r);case"download":const s=new Blob([this.cat(r)]);return URL.createObjectURL(s)}return!1},_log(e){if(!t.config.debug)return;let r=[...arguments];r.shift(),console.log(`%c[WebWorker]%c ${e}`,"font-weight:bold","",...r)}};w(t)})();
",P=typeof window<"u"&&window.Blob&&new Blob([atob(M)],{type:"text/javascript;charset=utf-8"});function _(){const e=P&&(window.URL||window.webkitURL).createObjectURL(P);try{return e?new Worker(e):new Worker("data:application/javascript;base64,"+M)}finally{e&&(window.URL||window.webkitURL).revokeObjectURL(e)}}const I={urlCDN:"https://biowasm.com/cdn/v3",urlCDNStg:"https://stg.biowasm.com/cdn/v3",dirShared:"/shared",dirMounted:"/mnt",dirData:"/data",printInterleaved:!0,printStream:!1,callback:null,debug:!1,env:"prd"};class L{constructor(e,t={}){if(null==e)throw"Expecting array of tools as input to Aioli constructor.";return Array.isArray(e)||(e=[e]),t=Object.assign({},I,t),e=e.map(this._parseTool),"stg"===t.env&&(t.urlCDN=t.urlCDNStg),this.tools=e,this.config=t,null!=this.config.callback&&(this.callback=this.config.callback),delete this.config.callback,this.init()}async init(){const e=new _;this.callback&&(e.onmessage=e=>{"biowasm"===e.data.type&&this.callback(e.data.value)});const t=y(e);return t.tools=this.tools,t.config=this.config,await t.init(),t}_parseTool(e){if("string"!=typeof e)return e;const t=e.split("/");if(2!=t.length&&3!=t.length)throw"Expecting '<tool>/<version>' or '<tool>/<program>/<version>'";return{tool:t[0],program:3==t.length?t[1]:t[0],version:t[t.length-1]}}}var x=n(3629);class N{static getAvailableScales(){return Object.entries(this.scales).map(([e,t])=>e)}static getScale(e){return(0,x.vA)(!(void 0===this.scales[e]),`Scale '${e}' was not found.`),this.scales[e]}}N.scales={WimleyWhite:{"-":0,A:.17,C:-.24,D:-.07,E:-.01,F:-1.13,G:.01,H:.17,I:-.31,K:.99,L:-.56,M:-.23,N:.42,P:.45,Q:.58,R:.81,S:.13,T:.14,V:.07,W:-1.85,Y:-.94},categorial:{"-":0,A:1,C:2,D:3,E:4,F:5,G:6,H:7,I:8,K:9,L:10,M:11,N:12,P:13,Q:14,R:15,S:16,T:17,V:18,W:19,Y:20}};class R{constructor(e="categorial"){this.aa2num=N.getScale(e),this.num2aa={},Object.entries(this.aa2num).forEach(([e,t])=>this.num2aa[t]=e)}static _truncateSequence(e){let t=0,n=e.length;const i=["NH2","COOH"];if(e.startsWith(i[0])){const n=i[0].length;(0,x.vA)("-"==e[n],`Wrong sequence format: ${i[0]} without following '-' in '${e}'.`),t=n}if(e.endsWith(i[1])){const t=i[1].length+1;(0,x.vA)("-"==e[n-t],`Wrong sequence format: ${i[1]} without '-' precending in '${e}'.`),n-=t}return e.substring(t,n)}static _dropDefises(e){return e.replace(/(-)([^-]+)/g,"$2")}static clean(e){return R._dropDefises(R._truncateSequence(e))}encode(e){const t=e.length,n=new Array(t).fill(0);for(let i=0;i<t;++i){const t=e[i];(0,x.vA)(t in this.aa2num,`Unknown char '${t}' found in sequence '${e}'`),n[i]=this.encodeLettter(t)}return n}encodeLettter(e){return this.aa2num[e]}decode(e){let t="";for(let n=0;n<e.length;++n){const i=e[n];(0,x.vA)(i in this.num2aa,`Unknown code '${i}' found in vector '${e}'`),t+=this.num2aa[i]}return t}}var $=n(4139);const H="input.fa",O="result.fasta";class D extends Error{element;constructor(e,t){super(e.innerText,t),this.element=e}}function k(e){return e.reduce((e,t,n)=>e+`>sample${n+1}\n${t}\n`,"")}async function F(e,t,n=!1,i="",r=null,s,c,u,h){let d=t.toList();n&&(d=d.map(e=>R.clean(e).replace(/\-/g,"")));const m=t.length;r??=o.Column.string("Clusters",m).init("0"),r.type!=o.COLUMN_TYPE.STRING&&(r=r.convertTo(o.TYPE.STRING)),r.compact();const p=r.categories,g=r.getRawData(),f=new Array(p.length),y=new Array(p.length);if(h){const t=e.selection;if(0===t.length)throw new Error("No selected rows in the table.");for(let e=-1;-1!==(e=t.findNext(e,!0));){const t=g[e];(f[t]??=[]).push(d[e]),(y[t]??=[]).push(e)}}else for(let e=0;e<m;++e){const t=g[e];(f[t]??=[]).push(d[e]),(y[t]??=[]).push(e)}B(y,p);const b=await new L(["base/1.0.0",{tool:"kalign",version:$.b9,reinit:!0}]),w=o.Column.string(i,m);for(let e=0;e<p.length;++e){const t=f[e];if(!t||0===t.length)continue;const n=k(t);await b.fs.writeFile(H,n);const i=`${void 0!==s?` --gpo ${s}`:""}${void 0!==c?` --gpe ${c}`:""}${void 0!==u?` --tgpe ${u}`:""}`,o=await b.exec(`kalign ${H} -f fasta -o ${O}${i}`);console.warn(o);const r=await b.cat(O);if(!r){const e=G(o,1);throw new Error(e)}const l=new a.m(r).sequencesArray,h=y[e];for(let e=0;e<l.length;++e)w.set(h[e],l[e])}const v=t.meta.units,T=t.getTag(l.gp.alphabet);return w.meta.units=v,w.setTag(l.gp.aligned,"SEQ.MSA"),w.setTag(l.gp.alphabet,T),w.semType=o.SEMTYPE.MACROMOLECULE,w}function G(e,t){const n=[],i=/^.+ERROR : (.+)$/gm;let o;for(;null!=(o=i.exec(e))&&(null==t||n.length<t);)n.push(o[1]);return n.join("\n")}function B(e,t){const n=e.map((e,t)=>[e,t]).filter(([e,t])=>1==e.length).map(([e,t])=>t);if(n.length>0){const e=i.div([i.divText(`MSA analysis is not available on single sequence clusters #${n.length}:`),...s()(n).take(3).map(e=>{let o=t[e];return o.length>25&&(o=o.slice(0,25)+"..."),i.divText(`"${o}"${e<n.length-1?", ":"."}`)}).toArray(),...n.length>3?[i.divText("...")]:[]]);throw new D(e)}}},617:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(208),o=n(9029),r=n(4227),s=n(6250),a={keyword:"uniqueItems",type:"array",schemaType:"boolean",$data:!0,error:{message:({params:{i:e,j:t}})=>o.str`must NOT have duplicate items (items ## ${t} and ${e} are identical)`,params:({params:{i:e,j:t}})=>o._`{i: ${e}, j: ${t}}`},code(e){const{gen:t,data:n,$data:a,schema:l,parentSchema:c,schemaCode:u,it:h}=e;if(!a&&!l)return;const d=t.let("valid"),m=c.items?(0,i.getSchemaTypes)(c.items):[];function p(r,s){const a=t.name("item"),l=(0,i.checkDataTypes)(m,a,h.opts.strictNumbers,i.DataType.Wrong),c=t.const("indices",o._`{}`);t.for(o._`;${r}--;`,()=>{t.let(a,o._`${n}[${r}]`),t.if(l,o._`continue`),m.length>1&&t.if(o._`typeof ${a} == "string"`,o._`${a} += "_"`),t.if(o._`typeof ${c}[${a}] == "number"`,()=>{t.assign(s,o._`${c}[${a}]`),e.error(),t.assign(d,!1).break()}).code(o._`${c}[${a}] = ${r}`)})}function g(i,a){const l=(0,r.useFunc)(t,s.default),c=t.name("outer");t.label(c).for(o._`;${i}--;`,()=>t.for(o._`${a} = ${i}; ${a}--;`,()=>t.if(o._`${l}(${n}[${i}], ${n}[${a}])`,()=>{e.error(),t.assign(d,!1).break(c)})))}e.block$data(d,function(){const i=t.let("i",o._`${n}.length`),r=t.let("j");e.setParams({i,j:r}),t.assign(d,!0),t.if(o._`${i} > 1`,()=>(m.length>0&&!m.some(e=>"object"===e||"array"===e)?p:g)(i,r))},o._`${u} === false`),e.ok(d)}};t.default=a},673:(e,t,n)=>{"use strict";n.d(t,{s:()=>i});const i={true:"1",false:"0"}},684:(e,t,n)=>{"use strict";n.d(t,{C0:()=>r,GP:()=>i,Gi:()=>a,YP:()=>c,_X:()=>s,n3:()=>o,vb:()=>l});const i="dim-red-preprocessing-function",o="supportedSemTypes",r="supportedTypes",s="supportedUnits",a="supportedDistanceFunctions",l="bypassLargeDataWarning",c="show-scatterplot-progress"},857:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".monomer-manager-root .grok-sketcher {\n min-width: unset !important;\n}\n\n.monomer-manager-root {\n width: 100% !important;\n height: 100% !important;\n}\n\n.monomer-manager-sketcher .ketcher-host {\n height: 100% !important;\n width: unset !important;\n} \n\n.monomer-manager-root > div:first-child {\n flex-basis: 40% !important;\n}\n.monomer-manager-root > div:nth-child(2) {\n flex-basis: 60% !important;\n}\n\n.monomer-manager-root > div:first-child > .ui-form {\n max-width: unset !important;\n}\n\n.monomer-card-info-row {\n width: 100%;\n overflow: hidden;\n text-overflow: ellipsis;\n margin-bottom: 10px;\n}\n\n.monomer-card-info-row > div:nth-child(2) {\n white-space: nowrap;\n overflow: hidden;\n text-overflow: ellipsis;\n}\n\n.monomer-card-info-row > div:nth-child(1) {\n font-weight: bold;\n margin-right: 5px;\n text-wrap: nowrap;\n}\n\n.duplicate-monomer-symbol-row {\n visibility: visible !important;\n}\n\n.monomer-card-root {\n border: 2px solid var(--grey-2);\n border-radius: 5px;\n padding: 5px;\n margin: 5px;\n overflow: hidden;\n align-items: center;\n cursor: pointer;\n width: 200px;\n height: 300px;\n min-width: 200px;\n min-height: 300px;\n}\n\n.duplicate-monomers-virtual-view {\n width: 100% !important;\n overflow-x: clip;\n overflow-y: auto;\n}\n\n.monomer-manager-form-tab-control input.d4-invalid {\n background: #ff000030;\n}\n\n.monomer-lib-controls-form .ui-input-root {\n flex-wrap: nowrap !important;\n}","",{version:3,sources:["webpack://./css/monomer-manager.css"],names:[],mappings:"AAAA;IACI,2BAA2B;AAC/B;;AAEA;IACI,sBAAsB;IACtB,uBAAuB;AAC3B;;AAEA;IACI,uBAAuB;IACvB,uBAAuB;AAC3B;;AAEA;IACI,0BAA0B;AAC9B;AACA;IACI,0BAA0B;AAC9B;;AAEA;IACI,2BAA2B;AAC/B;;AAEA;IACI,WAAW;IACX,gBAAgB;IAChB,uBAAuB;IACvB,mBAAmB;AACvB;;AAEA;IACI,mBAAmB;IACnB,gBAAgB;IAChB,uBAAuB;AAC3B;;AAEA;IACI,iBAAiB;IACjB,iBAAiB;IACjB,iBAAiB;AACrB;;AAEA;IACI,8BAA8B;AAClC;;AAEA;IACI,+BAA+B;IAC/B,kBAAkB;IAClB,YAAY;IACZ,WAAW;IACX,gBAAgB;IAChB,mBAAmB;IACnB,eAAe;IACf,YAAY;IACZ,aAAa;IACb,gBAAgB;IAChB,iBAAiB;AACrB;;AAEA;IACI,sBAAsB;IACtB,gBAAgB;IAChB,gBAAgB;AACpB;;AAEA;IACI,qBAAqB;AACzB;;AAEA;IACI,4BAA4B;AAChC",sourcesContent:[".monomer-manager-root .grok-sketcher {\n min-width: unset !important;\n}\n\n.monomer-manager-root {\n width: 100% !important;\n height: 100% !important;\n}\n\n.monomer-manager-sketcher .ketcher-host {\n height: 100% !important;\n width: unset !important;\n} \n\n.monomer-manager-root > div:first-child {\n flex-basis: 40% !important;\n}\n.monomer-manager-root > div:nth-child(2) {\n flex-basis: 60% !important;\n}\n\n.monomer-manager-root > div:first-child > .ui-form {\n max-width: unset !important;\n}\n\n.monomer-card-info-row {\n width: 100%;\n overflow: hidden;\n text-overflow: ellipsis;\n margin-bottom: 10px;\n}\n\n.monomer-card-info-row > div:nth-child(2) {\n white-space: nowrap;\n overflow: hidden;\n text-overflow: ellipsis;\n}\n\n.monomer-card-info-row > div:nth-child(1) {\n font-weight: bold;\n margin-right: 5px;\n text-wrap: nowrap;\n}\n\n.duplicate-monomer-symbol-row {\n visibility: visible !important;\n}\n\n.monomer-card-root {\n border: 2px solid var(--grey-2);\n border-radius: 5px;\n padding: 5px;\n margin: 5px;\n overflow: hidden;\n align-items: center;\n cursor: pointer;\n width: 200px;\n height: 300px;\n min-width: 200px;\n min-height: 300px;\n}\n\n.duplicate-monomers-virtual-view {\n width: 100% !important;\n overflow-x: clip;\n overflow-y: auto;\n}\n\n.monomer-manager-form-tab-control input.d4-invalid {\n background: #ff000030;\n}\n\n.monomer-lib-controls-form .ui-input-root {\n flex-wrap: nowrap !important;\n}"],sourceRoot:""}]);const a=s},934:function(e){e.exports=function(){"use strict";function e(t){return(e="function"==typeof Symbol&&"symbol"==typeof Symbol.iterator?function(e){return typeof e}:function(e){return e&&"function"==typeof Symbol&&e.constructor===Symbol&&e!==Symbol.prototype?"symbol":typeof e})(t)}function t(e,t){e.prototype=Object.create(t.prototype),e.prototype.constructor=e,i(e,t)}function n(e){return n=Object.setPrototypeOf?Object.getPrototypeOf.bind():function(e){return e.__proto__||Object.getPrototypeOf(e)},n(e)}function i(e,t){return i=Object.setPrototypeOf?Object.setPrototypeOf.bind():function(e,t){return e.__proto__=t,e},i(e,t)}function o(e,t,n){return o=function(){if("undefined"==typeof Reflect||!Reflect.construct)return!1;if(Reflect.construct.sham)return!1;if("function"==typeof Proxy)return!0;try{return Boolean.prototype.valueOf.call(Reflect.construct(Boolean,[],function(){})),!0}catch(e){return!1}}()?Reflect.construct.bind():function(e,t,n){var o=[null];o.push.apply(o,t);var r=new(Function.bind.apply(e,o));return n&&i(r,n.prototype),r},o.apply(null,arguments)}function r(e){var t="function"==typeof Map?new Map:void 0;return r=function(e){if(null===e||(r=e,-1===Function.toString.call(r).indexOf("[native code]")))return e;var r;if("function"!=typeof e)throw new TypeError("Super expression must either be null or a function");if(void 0!==t){if(t.has(e))return t.get(e);t.set(e,s)}function s(){return o(e,arguments,n(this).constructor)}return s.prototype=Object.create(e.prototype,{constructor:{value:s,enumerable:!1,writable:!0,configurable:!0}}),i(s,e)},r(e)}function s(e){if(void 0===e)throw new ReferenceError("this hasn't been initialised - super() hasn't been called");return e}var a=function(){for(var e=arguments[0],t=1,n=arguments.length;t<n;t++)if(arguments[t])for(var i in arguments[t])e[i]=arguments[t][i];return e};function l(e,t,n,i){var o=e._nodes.get(t),r=null;return o?r="mixed"===i?o.out&&o.out[n]||o.undirected&&o.undirected[n]:"directed"===i?o.out&&o.out[n]:o.undirected&&o.undirected[n]:r}function c(t){return"object"===e(t)&&null!==t}function u(e){var t;for(t in e)return!1;return!0}function h(e,t,n){Object.defineProperty(e,t,{enumerable:!1,configurable:!1,writable:!0,value:n})}function d(e,t,n){var i={enumerable:!0,configurable:!0};"function"==typeof n?i.get=n:(i.value=n,i.writable=!1),Object.defineProperty(e,t,i)}function m(e){return!(!c(e)||e.attributes&&!Array.isArray(e.attributes))}"function"==typeof Object.assign&&(a=Object.assign);var p,g={exports:{}},f="object"==typeof Reflect?Reflect:null,y=f&&"function"==typeof f.apply?f.apply:function(e,t,n){return Function.prototype.apply.call(e,t,n)};p=f&&"function"==typeof f.ownKeys?f.ownKeys:Object.getOwnPropertySymbols?function(e){return Object.getOwnPropertyNames(e).concat(Object.getOwnPropertySymbols(e))}:function(e){return Object.getOwnPropertyNames(e)};var b=Number.isNaN||function(e){return e!=e};function w(){w.init.call(this)}g.exports=w,g.exports.once=function(e,t){return new Promise(function(n,i){function o(n){e.removeListener(t,r),i(n)}function r(){"function"==typeof e.removeListener&&e.removeListener("error",o),n([].slice.call(arguments))}I(e,t,r,{once:!0}),"error"!==t&&function(e,t){"function"==typeof e.on&&I(e,"error",t,{once:!0})}(e,o)})},w.EventEmitter=w,w.prototype._events=void 0,w.prototype._eventsCount=0,w.prototype._maxListeners=void 0;var v=10;function T(e){if("function"!=typeof e)throw new TypeError('The "listener" argument must be of type Function. Received type '+typeof e)}function C(e){return void 0===e._maxListeners?w.defaultMaxListeners:e._maxListeners}function A(e,t,n,i){var o,r,s,a;if(T(n),void 0===(r=e._events)?(r=e._events=Object.create(null),e._eventsCount=0):(void 0!==r.newListener&&(e.emit("newListener",t,n.listener?n.listener:n),r=e._events),s=r[t]),void 0===s)s=r[t]=n,++e._eventsCount;else if("function"==typeof s?s=r[t]=i?[n,s]:[s,n]:i?s.unshift(n):s.push(n),(o=C(e))>0&&s.length>o&&!s.warned){s.warned=!0;var l=new Error("Possible EventEmitter memory leak detected. "+s.length+" "+String(t)+" listeners added. Use emitter.setMaxListeners() to increase limit");l.name="MaxListenersExceededWarning",l.emitter=e,l.type=t,l.count=s.length,a=l,console&&console.warn&&console.warn(a)}return e}function E(){if(!this.fired)return this.target.removeListener(this.type,this.wrapFn),this.fired=!0,0===arguments.length?this.listener.call(this.target):this.listener.apply(this.target,arguments)}function S(e,t,n){var i={fired:!1,wrapFn:void 0,target:e,type:t,listener:n},o=E.bind(i);return o.listener=n,i.wrapFn=o,o}function M(e,t,n){var i=e._events;if(void 0===i)return[];var o=i[t];return void 0===o?[]:"function"==typeof o?n?[o.listener||o]:[o]:n?function(e){for(var t=new Array(e.length),n=0;n<t.length;++n)t[n]=e[n].listener||e[n];return t}(o):_(o,o.length)}function P(e){var t=this._events;if(void 0!==t){var n=t[e];if("function"==typeof n)return 1;if(void 0!==n)return n.length}return 0}function _(e,t){for(var n=new Array(t),i=0;i<t;++i)n[i]=e[i];return n}function I(e,t,n,i){if("function"==typeof e.on)i.once?e.once(t,n):e.on(t,n);else{if("function"!=typeof e.addEventListener)throw new TypeError('The "emitter" argument must be of type EventEmitter. Received type '+typeof e);e.addEventListener(t,function o(r){i.once&&e.removeEventListener(t,o),n(r)})}}function L(e){if("function"!=typeof e)throw new Error("obliterator/iterator: expecting a function!");this.next=e}Object.defineProperty(w,"defaultMaxListeners",{enumerable:!0,get:function(){return v},set:function(e){if("number"!=typeof e||e<0||b(e))throw new RangeError('The value of "defaultMaxListeners" is out of range. It must be a non-negative number. Received '+e+".");v=e}}),w.init=function(){void 0!==this._events&&this._events!==Object.getPrototypeOf(this)._events||(this._events=Object.create(null),this._eventsCount=0),this._maxListeners=this._maxListeners||void 0},w.prototype.setMaxListeners=function(e){if("number"!=typeof e||e<0||b(e))throw new RangeError('The value of "n" is out of range. It must be a non-negative number. Received '+e+".");return this._maxListeners=e,this},w.prototype.getMaxListeners=function(){return C(this)},w.prototype.emit=function(e){for(var t=[],n=1;n<arguments.length;n++)t.push(arguments[n]);var i="error"===e,o=this._events;if(void 0!==o)i=i&&void 0===o.error;else if(!i)return!1;if(i){var r;if(t.length>0&&(r=t[0]),r instanceof Error)throw r;var s=new Error("Unhandled error."+(r?" ("+r.message+")":""));throw s.context=r,s}var a=o[e];if(void 0===a)return!1;if("function"==typeof a)y(a,this,t);else{var l=a.length,c=_(a,l);for(n=0;n<l;++n)y(c[n],this,t)}return!0},w.prototype.addListener=function(e,t){return A(this,e,t,!1)},w.prototype.on=w.prototype.addListener,w.prototype.prependListener=function(e,t){return A(this,e,t,!0)},w.prototype.once=function(e,t){return T(t),this.on(e,S(this,e,t)),this},w.prototype.prependOnceListener=function(e,t){return T(t),this.prependListener(e,S(this,e,t)),this},w.prototype.removeListener=function(e,t){var n,i,o,r,s;if(T(t),void 0===(i=this._events))return this;if(void 0===(n=i[e]))return this;if(n===t||n.listener===t)0==--this._eventsCount?this._events=Object.create(null):(delete i[e],i.removeListener&&this.emit("removeListener",e,n.listener||t));else if("function"!=typeof n){for(o=-1,r=n.length-1;r>=0;r--)if(n[r]===t||n[r].listener===t){s=n[r].listener,o=r;break}if(o<0)return this;0===o?n.shift():function(e,t){for(;t+1<e.length;t++)e[t]=e[t+1];e.pop()}(n,o),1===n.length&&(i[e]=n[0]),void 0!==i.removeListener&&this.emit("removeListener",e,s||t)}return this},w.prototype.off=w.prototype.removeListener,w.prototype.removeAllListeners=function(e){var t,n,i;if(void 0===(n=this._events))return this;if(void 0===n.removeListener)return 0===arguments.length?(this._events=Object.create(null),this._eventsCount=0):void 0!==n[e]&&(0==--this._eventsCount?this._events=Object.create(null):delete n[e]),this;if(0===arguments.length){var o,r=Object.keys(n);for(i=0;i<r.length;++i)"removeListener"!==(o=r[i])&&this.removeAllListeners(o);return this.removeAllListeners("removeListener"),this._events=Object.create(null),this._eventsCount=0,this}if("function"==typeof(t=n[e]))this.removeListener(e,t);else if(void 0!==t)for(i=t.length-1;i>=0;i--)this.removeListener(e,t[i]);return this},w.prototype.listeners=function(e){return M(this,e,!0)},w.prototype.rawListeners=function(e){return M(this,e,!1)},w.listenerCount=function(e,t){return"function"==typeof e.listenerCount?e.listenerCount(t):P.call(e,t)},w.prototype.listenerCount=P,w.prototype.eventNames=function(){return this._eventsCount>0?p(this._events):[]},"undefined"!=typeof Symbol&&(L.prototype[Symbol.iterator]=function(){return this}),L.of=function(){var e=arguments,t=e.length,n=0;return new L(function(){return n>=t?{done:!0}:{done:!1,value:e[n++]}})},L.empty=function(){return new L(function(){return{done:!0}})},L.fromSequence=function(e){var t=0,n=e.length;return new L(function(){return t>=n?{done:!0}:{done:!1,value:e[t++]}})},L.is=function(e){return e instanceof L||"object"==typeof e&&null!==e&&"function"==typeof e.next};var x=L,N={};N.ARRAY_BUFFER_SUPPORT="undefined"!=typeof ArrayBuffer,N.SYMBOL_SUPPORT="undefined"!=typeof Symbol;var R=x,$=N,H=$.ARRAY_BUFFER_SUPPORT,O=$.SYMBOL_SUPPORT,D=function(e){var t=function(e){return"string"==typeof e||Array.isArray(e)||H&&ArrayBuffer.isView(e)?R.fromSequence(e):"object"!=typeof e||null===e?null:O&&"function"==typeof e[Symbol.iterator]?e[Symbol.iterator]():"function"==typeof e.next?e:null}(e);if(!t)throw new Error("obliterator: target is not iterable nor a valid iterator.");return t},k=D,F=function(e,t){for(var n,i=arguments.length>1?t:1/0,o=i!==1/0?new Array(i):[],r=0,s=k(e);;){if(r===i)return o;if((n=s.next()).done)return r!==t&&(o.length=r),o;o[r++]=n.value}},G=function(e){function n(t){var n;return(n=e.call(this)||this).name="GraphError",n.message=t,n}return t(n,e),n}(r(Error)),B=function(e){function n(t){var i;return(i=e.call(this,t)||this).name="InvalidArgumentsGraphError","function"==typeof Error.captureStackTrace&&Error.captureStackTrace(s(i),n.prototype.constructor),i}return t(n,e),n}(G),V=function(e){function n(t){var i;return(i=e.call(this,t)||this).name="NotFoundGraphError","function"==typeof Error.captureStackTrace&&Error.captureStackTrace(s(i),n.prototype.constructor),i}return t(n,e),n}(G),U=function(e){function n(t){var i;return(i=e.call(this,t)||this).name="UsageGraphError","function"==typeof Error.captureStackTrace&&Error.captureStackTrace(s(i),n.prototype.constructor),i}return t(n,e),n}(G);function W(e,t){this.key=e,this.attributes=t,this.clear()}function q(e,t){this.key=e,this.attributes=t,this.clear()}function Y(e,t){this.key=e,this.attributes=t,this.clear()}function j(e,t,n,i,o){this.key=t,this.attributes=o,this.undirected=e,this.source=n,this.target=i}function K(e,t,n,i,o,r,s){var a,l,c,u;if(i=""+i,0===n){if(!(a=e._nodes.get(i)))throw new V("Graph.".concat(t,': could not find the "').concat(i,'" node in the graph.'));c=o,u=r}else if(3===n){if(o=""+o,!(l=e._edges.get(o)))throw new V("Graph.".concat(t,': could not find the "').concat(o,'" edge in the graph.'));var h=l.source.key,d=l.target.key;if(i===h)a=l.target;else{if(i!==d)throw new V("Graph.".concat(t,': the "').concat(i,'" node is not attached to the "').concat(o,'" edge (').concat(h,", ").concat(d,")."));a=l.source}c=r,u=s}else{if(!(l=e._edges.get(i)))throw new V("Graph.".concat(t,': could not find the "').concat(i,'" edge in the graph.'));a=1===n?l.source:l.target,c=o,u=r}return[a,c,u]}W.prototype.clear=function(){this.inDegree=0,this.outDegree=0,this.undirectedDegree=0,this.undirectedLoops=0,this.directedLoops=0,this.in={},this.out={},this.undirected={}},q.prototype.clear=function(){this.inDegree=0,this.outDegree=0,this.directedLoops=0,this.in={},this.out={}},Y.prototype.clear=function(){this.undirectedDegree=0,this.undirectedLoops=0,this.undirected={}},j.prototype.attach=function(){var e="out",t="in";this.undirected&&(e=t="undirected");var n=this.source.key,i=this.target.key;this.source[e][i]=this,this.undirected&&n===i||(this.target[t][n]=this)},j.prototype.attachMulti=function(){var e="out",t="in",n=this.source.key,i=this.target.key;this.undirected&&(e=t="undirected");var o=this.source[e],r=o[i];if(void 0===r)return o[i]=this,void(this.undirected&&n===i||(this.target[t][n]=this));r.previous=this,this.next=r,o[i]=this,this.target[t][n]=this},j.prototype.detach=function(){var e=this.source.key,t=this.target.key,n="out",i="in";this.undirected&&(n=i="undirected"),delete this.source[n][t],delete this.target[i][e]},j.prototype.detachMulti=function(){var e=this.source.key,t=this.target.key,n="out",i="in";this.undirected&&(n=i="undirected"),void 0===this.previous?void 0===this.next?(delete this.source[n][t],delete this.target[i][e]):(this.next.previous=void 0,this.source[n][t]=this.next,this.target[i][e]=this.next):(this.previous.next=this.next,void 0!==this.next&&(this.next.previous=this.previous))};var z=[{name:function(e){return"get".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r=K(this,t,n,e,i,o),s=r[0],a=r[1];return s.attributes[a]}}},{name:function(e){return"get".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e,i){return K(this,t,n,e,i)[0].attributes}}},{name:function(e){return"has".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r=K(this,t,n,e,i,o),s=r[0],a=r[1];return s.attributes.hasOwnProperty(a)}}},{name:function(e){return"set".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o,r){var s=K(this,t,n,e,i,o,r),a=s[0],l=s[1],c=s[2];return a.attributes[l]=c,this.emit("nodeAttributesUpdated",{key:a.key,type:"set",attributes:a.attributes,name:l}),this}}},{name:function(e){return"update".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o,r){var s=K(this,t,n,e,i,o,r),a=s[0],l=s[1],c=s[2];if("function"!=typeof c)throw new B("Graph.".concat(t,": updater should be a function."));var u=a.attributes,h=c(u[l]);return u[l]=h,this.emit("nodeAttributesUpdated",{key:a.key,type:"set",attributes:a.attributes,name:l}),this}}},{name:function(e){return"remove".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r=K(this,t,n,e,i,o),s=r[0],a=r[1];return delete s.attributes[a],this.emit("nodeAttributesUpdated",{key:s.key,type:"remove",attributes:s.attributes,name:a}),this}}},{name:function(e){return"replace".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r=K(this,t,n,e,i,o),s=r[0],a=r[1];if(!c(a))throw new B("Graph.".concat(t,": provided attributes are not a plain object."));return s.attributes=a,this.emit("nodeAttributesUpdated",{key:s.key,type:"replace",attributes:s.attributes}),this}}},{name:function(e){return"merge".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r=K(this,t,n,e,i,o),s=r[0],l=r[1];if(!c(l))throw new B("Graph.".concat(t,": provided attributes are not a plain object."));return a(s.attributes,l),this.emit("nodeAttributesUpdated",{key:s.key,type:"merge",attributes:s.attributes,data:l}),this}}},{name:function(e){return"update".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r=K(this,t,n,e,i,o),s=r[0],a=r[1];if("function"!=typeof a)throw new B("Graph.".concat(t,": provided updater is not a function."));return s.attributes=a(s.attributes),this.emit("nodeAttributesUpdated",{key:s.key,type:"update",attributes:s.attributes}),this}}}],Z=[{name:function(e){return"get".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i){var o;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>2){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var r=""+e,s=""+i;if(i=arguments[2],!(o=l(this,r,s,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(r,'" - "').concat(s,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(o=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}return o.attributes[i]}}},{name:function(e){return"get".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e){var i;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>1){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var o=""+e,r=""+arguments[1];if(!(i=l(this,o,r,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(o,'" - "').concat(r,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(i=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}return i.attributes}}},{name:function(e){return"has".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i){var o;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>2){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var r=""+e,s=""+i;if(i=arguments[2],!(o=l(this,r,s,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(r,'" - "').concat(s,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(o=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}return o.attributes.hasOwnProperty(i)}}},{name:function(e){return"set".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>3){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var s=""+e,a=""+i;if(i=arguments[2],o=arguments[3],!(r=l(this,s,a,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(s,'" - "').concat(a,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(r=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}return r.attributes[i]=o,this.emit("edgeAttributesUpdated",{key:r.key,type:"set",attributes:r.attributes,name:i}),this}}},{name:function(e){return"update".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i,o){var r;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>3){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var s=""+e,a=""+i;if(i=arguments[2],o=arguments[3],!(r=l(this,s,a,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(s,'" - "').concat(a,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(r=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}if("function"!=typeof o)throw new B("Graph.".concat(t,": updater should be a function."));return r.attributes[i]=o(r.attributes[i]),this.emit("edgeAttributesUpdated",{key:r.key,type:"set",attributes:r.attributes,name:i}),this}}},{name:function(e){return"remove".concat(e,"Attribute")},attacher:function(e,t,n){e.prototype[t]=function(e,i){var o;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>2){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var r=""+e,s=""+i;if(i=arguments[2],!(o=l(this,r,s,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(r,'" - "').concat(s,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(o=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}return delete o.attributes[i],this.emit("edgeAttributesUpdated",{key:o.key,type:"remove",attributes:o.attributes,name:i}),this}}},{name:function(e){return"replace".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e,i){var o;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>2){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var r=""+e,s=""+i;if(i=arguments[2],!(o=l(this,r,s,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(r,'" - "').concat(s,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(o=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}if(!c(i))throw new B("Graph.".concat(t,": provided attributes are not a plain object."));return o.attributes=i,this.emit("edgeAttributesUpdated",{key:o.key,type:"replace",attributes:o.attributes}),this}}},{name:function(e){return"merge".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e,i){var o;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>2){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var r=""+e,s=""+i;if(i=arguments[2],!(o=l(this,r,s,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(r,'" - "').concat(s,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(o=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}if(!c(i))throw new B("Graph.".concat(t,": provided attributes are not a plain object."));return a(o.attributes,i),this.emit("edgeAttributesUpdated",{key:o.key,type:"merge",attributes:o.attributes,data:i}),this}}},{name:function(e){return"update".concat(e,"Attributes")},attacher:function(e,t,n){e.prototype[t]=function(e,i){var o;if("mixed"!==this.type&&"mixed"!==n&&n!==this.type)throw new U("Graph.".concat(t,": cannot find this type of edges in your ").concat(this.type," graph."));if(arguments.length>2){if(this.multi)throw new U("Graph.".concat(t,": cannot use a {source,target} combo when asking about an edge's attributes in a MultiGraph since we cannot infer the one you want information about."));var r=""+e,s=""+i;if(i=arguments[2],!(o=l(this,r,s,n)))throw new V("Graph.".concat(t,': could not find an edge for the given path ("').concat(r,'" - "').concat(s,'").'))}else{if("mixed"!==n)throw new U("Graph.".concat(t,": calling this method with only a key (vs. a source and target) does not make sense since an edge with this key could have the other type."));if(e=""+e,!(o=this._edges.get(e)))throw new V("Graph.".concat(t,': could not find the "').concat(e,'" edge in the graph.'))}if("function"!=typeof i)throw new B("Graph.".concat(t,": provided updater is not a function."));return o.attributes=i(o.attributes),this.emit("edgeAttributesUpdated",{key:o.key,type:"update",attributes:o.attributes}),this}}}],X=x,J=D,Q=function(){var e=arguments,t=null,n=-1;return new X(function(){for(var i=null;;){if(null===t){if(++n>=e.length)return{done:!0};t=J(e[n])}if(!0!==(i=t.next()).done)break;t=null}return i})},ee=[{name:"edges",type:"mixed"},{name:"inEdges",type:"directed",direction:"in"},{name:"outEdges",type:"directed",direction:"out"},{name:"inboundEdges",type:"mixed",direction:"in"},{name:"outboundEdges",type:"mixed",direction:"out"},{name:"directedEdges",type:"directed"},{name:"undirectedEdges",type:"undirected"}];function te(e,t,n,i){var o=!1;for(var r in t)if(r!==i){var s=t[r];if(o=n(s.key,s.attributes,s.source.key,s.target.key,s.source.attributes,s.target.attributes,s.undirected),e&&o)return s.key}}function ne(e,t,n,i){var o,r,s,a=!1;for(var l in t)if(l!==i){o=t[l];do{if(r=o.source,s=o.target,a=n(o.key,o.attributes,r.key,s.key,r.attributes,s.attributes,o.undirected),e&&a)return o.key;o=o.next}while(void 0!==o)}}function ie(e,t){var n,i=Object.keys(e),o=i.length,r=0;return new x(function(){do{if(n)n=n.next;else{if(r>=o)return{done:!0};var s=i[r++];if(s===t){n=void 0;continue}n=e[s]}}while(!n);return{done:!1,value:{edge:n.key,attributes:n.attributes,source:n.source.key,target:n.target.key,sourceAttributes:n.source.attributes,targetAttributes:n.target.attributes,undirected:n.undirected}}})}function oe(e,t,n,i){var o=t[n];if(o){var r=o.source,s=o.target;return i(o.key,o.attributes,r.key,s.key,r.attributes,s.attributes,o.undirected)&&e?o.key:void 0}}function re(e,t,n,i){var o=t[n];if(o){var r=!1;do{if(r=i(o.key,o.attributes,o.source.key,o.target.key,o.source.attributes,o.target.attributes,o.undirected),e&&r)return o.key;o=o.next}while(void 0!==o)}}function se(e,t){var n=e[t];return void 0!==n.next?new x(function(){if(!n)return{done:!0};var e={edge:n.key,attributes:n.attributes,source:n.source.key,target:n.target.key,sourceAttributes:n.source.attributes,targetAttributes:n.target.attributes,undirected:n.undirected};return n=n.next,{done:!1,value:e}}):x.of({edge:n.key,attributes:n.attributes,source:n.source.key,target:n.target.key,sourceAttributes:n.source.attributes,targetAttributes:n.target.attributes,undirected:n.undirected})}function ae(e,t,n,i){if(0!==t.size)for(var o,r,s="mixed"!==n&&n!==t.type,a="undirected"===n,l=!1,c=t._edges.values();!0!==(o=c.next()).done;)if(r=o.value,!s||r.undirected===a){var u=r,h=u.key,d=u.attributes,m=u.source,p=u.target;if(l=i(h,d,m.key,p.key,m.attributes,p.attributes,r.undirected),e&&l)return h}}function le(e,t,n,i,o,r){var s,a=t?ne:te;if("undirected"!==n){if("out"!==i&&(s=a(e,o.in,r),e&&s))return s;if("in"!==i&&(s=a(e,o.out,r,i?void 0:o.key),e&&s))return s}if("directed"!==n&&(s=a(e,o.undirected,r),e&&s))return s}function ce(e,t,n,i,o,r,s){var a,l=n?re:oe;if("undirected"!==t){if(void 0!==o.in&&"out"!==i&&(a=l(e,o.in,r,s),e&&a))return a;if(void 0!==o.out&&"in"!==i&&(i||o.key!==r)&&(a=l(e,o.out,r,s),e&&a))return a}if("directed"!==t&&void 0!==o.undirected&&(a=l(e,o.undirected,r,s),e&&a))return a}var ue=[{name:"neighbors",type:"mixed"},{name:"inNeighbors",type:"directed",direction:"in"},{name:"outNeighbors",type:"directed",direction:"out"},{name:"inboundNeighbors",type:"mixed",direction:"in"},{name:"outboundNeighbors",type:"mixed",direction:"out"},{name:"directedNeighbors",type:"directed"},{name:"undirectedNeighbors",type:"undirected"}];function he(){this.A=null,this.B=null}function de(e,t,n,i,o){for(var r in i){var s=i[r],a=s.source,l=s.target,c=a===n?l:a;if(!t||!t.has(c.key)){var u=o(c.key,c.attributes);if(e&&u)return c.key}}}function me(e,t,n,i,o){if("mixed"!==t){if("undirected"===t)return de(e,null,i,i.undirected,o);if("string"==typeof n)return de(e,null,i,i[n],o)}var r,s=new he;if("undirected"!==t){if("out"!==n){if(r=de(e,null,i,i.in,o),e&&r)return r;s.wrap(i.in)}if("in"!==n){if(r=de(e,s,i,i.out,o),e&&r)return r;s.wrap(i.out)}}if("directed"!==t&&(r=de(e,s,i,i.undirected,o),e&&r))return r}function pe(e,t,n){var i=Object.keys(n),o=i.length,r=0;return new x(function(){var s=null;do{if(r>=o)return e&&e.wrap(n),{done:!0};var a=n[i[r++]],l=a.source,c=a.target;s=l===t?c:l,e&&e.has(s.key)&&(s=null)}while(null===s);return{done:!1,value:{neighbor:s.key,attributes:s.attributes}}})}function ge(e,t,n,i,o){for(var r,s,a,l,c,u,h,d=i._nodes.values(),m=i.type;!0!==(r=d.next()).done;){var p=!1;if(s=r.value,"undirected"!==m)for(a in l=s.out){c=l[a];do{if(u=c.target,p=!0,h=o(s.key,u.key,s.attributes,u.attributes,c.key,c.attributes,c.undirected),e&&h)return c;c=c.next}while(c)}if("directed"!==m)for(a in l=s.undirected)if(!(t&&s.key>a)){c=l[a];do{if((u=c.target).key!==a&&(u=c.source),p=!0,h=o(s.key,u.key,s.attributes,u.attributes,c.key,c.attributes,c.undirected),e&&h)return c;c=c.next}while(c)}if(n&&!p&&(h=o(s.key,null,s.attributes,null,null,null,null),e&&h))return null}}function fe(e){if(!c(e))throw new B('Graph.import: invalid serialized node. A serialized node should be a plain object with at least a "key" property.');if(!("key"in e))throw new B("Graph.import: serialized node is missing its key.");if("attributes"in e&&(!c(e.attributes)||null===e.attributes))throw new B("Graph.import: invalid attributes. Attributes should be a plain object, null or omitted.")}function ye(e){if(!c(e))throw new B('Graph.import: invalid serialized edge. A serialized edge should be a plain object with at least a "source" & "target" property.');if(!("source"in e))throw new B("Graph.import: serialized edge is missing its source.");if(!("target"in e))throw new B("Graph.import: serialized edge is missing its target.");if("attributes"in e&&(!c(e.attributes)||null===e.attributes))throw new B("Graph.import: invalid attributes. Attributes should be a plain object, null or omitted.");if("undirected"in e&&"boolean"!=typeof e.undirected)throw new B("Graph.import: invalid undirectedness information. Undirected should be boolean or omitted.")}he.prototype.wrap=function(e){null===this.A?this.A=e:null===this.B&&(this.B=e)},he.prototype.has=function(e){return null!==this.A&&e in this.A||null!==this.B&&e in this.B};var be,we=(be=255&Math.floor(256*Math.random()),function(){return be++}),ve=new Set(["directed","undirected","mixed"]),Te=new Set(["domain","_events","_eventsCount","_maxListeners"]),Ce={allowSelfLoops:!0,multi:!1,type:"mixed"};function Ae(e,t,n){var i=new e.NodeDataClass(t,n);return e._nodes.set(t,i),e.emit("nodeAdded",{key:t,attributes:n}),i}function Ee(e,t,n,i,o,r,s,a){if(!i&&"undirected"===e.type)throw new U("Graph.".concat(t,": you cannot add a directed edge to an undirected graph. Use the #.addEdge or #.addUndirectedEdge instead."));if(i&&"directed"===e.type)throw new U("Graph.".concat(t,": you cannot add an undirected edge to a directed graph. Use the #.addEdge or #.addDirectedEdge instead."));if(a&&!c(a))throw new B("Graph.".concat(t,': invalid attributes. Expecting an object but got "').concat(a,'"'));if(r=""+r,s=""+s,a=a||{},!e.allowSelfLoops&&r===s)throw new U("Graph.".concat(t,': source & target are the same ("').concat(r,"\"), thus creating a loop explicitly forbidden by this graph 'allowSelfLoops' option set to false."));var l=e._nodes.get(r),u=e._nodes.get(s);if(!l)throw new V("Graph.".concat(t,': source node "').concat(r,'" not found.'));if(!u)throw new V("Graph.".concat(t,': target node "').concat(s,'" not found.'));var h={key:null,undirected:i,source:r,target:s,attributes:a};if(n)o=e._edgeKeyGenerator();else if(o=""+o,e._edges.has(o))throw new U("Graph.".concat(t,': the "').concat(o,'" edge already exists in the graph.'));if(!e.multi&&(i?void 0!==l.undirected[s]:void 0!==l.out[s]))throw new U("Graph.".concat(t,': an edge linking "').concat(r,'" to "').concat(s,"\" already exists. If you really want to add multiple edges linking those nodes, you should create a multi graph by using the 'multi' option."));var d=new j(i,o,l,u,a);e._edges.set(o,d);var m=r===s;return i?(l.undirectedDegree++,u.undirectedDegree++,m&&(l.undirectedLoops++,e._undirectedSelfLoopCount++)):(l.outDegree++,u.inDegree++,m&&(l.directedLoops++,e._directedSelfLoopCount++)),e.multi?d.attachMulti():d.attach(),i?e._undirectedSize++:e._directedSize++,h.key=o,e.emit("edgeAdded",h),o}function Se(e,t,n,i,o,r,s,l,u){if(!i&&"undirected"===e.type)throw new U("Graph.".concat(t,": you cannot merge/update a directed edge to an undirected graph. Use the #.mergeEdge/#.updateEdge or #.addUndirectedEdge instead."));if(i&&"directed"===e.type)throw new U("Graph.".concat(t,": you cannot merge/update an undirected edge to a directed graph. Use the #.mergeEdge/#.updateEdge or #.addDirectedEdge instead."));if(l)if(u){if("function"!=typeof l)throw new B("Graph.".concat(t,': invalid updater function. Expecting a function but got "').concat(l,'"'))}else if(!c(l))throw new B("Graph.".concat(t,': invalid attributes. Expecting an object but got "').concat(l,'"'));var h;if(r=""+r,s=""+s,u&&(h=l,l=void 0),!e.allowSelfLoops&&r===s)throw new U("Graph.".concat(t,': source & target are the same ("').concat(r,"\"), thus creating a loop explicitly forbidden by this graph 'allowSelfLoops' option set to false."));var d,m,p=e._nodes.get(r),g=e._nodes.get(s);if(!n&&(d=e._edges.get(o))){if(!(d.source.key===r&&d.target.key===s||i&&d.source.key===s&&d.target.key===r))throw new U("Graph.".concat(t,': inconsistency detected when attempting to merge the "').concat(o,'" edge with "').concat(r,'" source & "').concat(s,'" target vs. ("').concat(d.source.key,'", "').concat(d.target.key,'").'));m=d}if(m||e.multi||!p||(m=i?p.undirected[s]:p.out[s]),m){var f=[m.key,!1,!1,!1];if(u?!h:!l)return f;if(u){var y=m.attributes;m.attributes=h(y),e.emit("edgeAttributesUpdated",{type:"replace",key:m.key,attributes:m.attributes})}else a(m.attributes,l),e.emit("edgeAttributesUpdated",{type:"merge",key:m.key,attributes:m.attributes,data:l});return f}l=l||{},u&&h&&(l=h(l));var b={key:null,undirected:i,source:r,target:s,attributes:l};if(n)o=e._edgeKeyGenerator();else if(o=""+o,e._edges.has(o))throw new U("Graph.".concat(t,': the "').concat(o,'" edge already exists in the graph.'));var w=!1,v=!1;p||(p=Ae(e,r,{}),w=!0,r===s&&(g=p,v=!0)),g||(g=Ae(e,s,{}),v=!0),d=new j(i,o,p,g,l),e._edges.set(o,d);var T=r===s;return i?(p.undirectedDegree++,g.undirectedDegree++,T&&(p.undirectedLoops++,e._undirectedSelfLoopCount++)):(p.outDegree++,g.inDegree++,T&&(p.directedLoops++,e._directedSelfLoopCount++)),e.multi?d.attachMulti():d.attach(),i?e._undirectedSize++:e._directedSize++,b.key=o,e.emit("edgeAdded",b),[o,!0,w,v]}function Me(e,t){e._edges.delete(t.key);var n=t.source,i=t.target,o=t.attributes,r=t.undirected,s=n===i;r?(n.undirectedDegree--,i.undirectedDegree--,s&&(n.undirectedLoops--,e._undirectedSelfLoopCount--)):(n.outDegree--,i.inDegree--,s&&(n.directedLoops--,e._directedSelfLoopCount--)),e.multi?t.detachMulti():t.detach(),r?e._undirectedSize--:e._directedSize--,e.emit("edgeDropped",{key:t.key,attributes:o,source:n.key,target:i.key,undirected:r})}var Pe=function(n){function i(e){var t;if(t=n.call(this)||this,"boolean"!=typeof(e=a({},Ce,e)).multi)throw new B("Graph.constructor: invalid 'multi' option. Expecting a boolean but got \"".concat(e.multi,'".'));if(!ve.has(e.type))throw new B('Graph.constructor: invalid \'type\' option. Should be one of "mixed", "directed" or "undirected" but got "'.concat(e.type,'".'));if("boolean"!=typeof e.allowSelfLoops)throw new B("Graph.constructor: invalid 'allowSelfLoops' option. Expecting a boolean but got \"".concat(e.allowSelfLoops,'".'));var i="mixed"===e.type?W:"directed"===e.type?q:Y;h(s(t),"NodeDataClass",i);var o="geid_"+we()+"_",r=0;return h(s(t),"_attributes",{}),h(s(t),"_nodes",new Map),h(s(t),"_edges",new Map),h(s(t),"_directedSize",0),h(s(t),"_undirectedSize",0),h(s(t),"_directedSelfLoopCount",0),h(s(t),"_undirectedSelfLoopCount",0),h(s(t),"_edgeKeyGenerator",function(){var e;do{e=o+r++}while(t._edges.has(e));return e}),h(s(t),"_options",e),Te.forEach(function(e){return h(s(t),e,t[e])}),d(s(t),"order",function(){return t._nodes.size}),d(s(t),"size",function(){return t._edges.size}),d(s(t),"directedSize",function(){return t._directedSize}),d(s(t),"undirectedSize",function(){return t._undirectedSize}),d(s(t),"selfLoopCount",function(){return t._directedSelfLoopCount+t._undirectedSelfLoopCount}),d(s(t),"directedSelfLoopCount",function(){return t._directedSelfLoopCount}),d(s(t),"undirectedSelfLoopCount",function(){return t._undirectedSelfLoopCount}),d(s(t),"multi",t._options.multi),d(s(t),"type",t._options.type),d(s(t),"allowSelfLoops",t._options.allowSelfLoops),d(s(t),"implementation",function(){return"graphology"}),t}t(i,n);var o=i.prototype;return o._resetInstanceCounters=function(){this._directedSize=0,this._undirectedSize=0,this._directedSelfLoopCount=0,this._undirectedSelfLoopCount=0},o.hasNode=function(e){return this._nodes.has(""+e)},o.hasDirectedEdge=function(e,t){if("undirected"===this.type)return!1;if(1===arguments.length){var n=""+e,i=this._edges.get(n);return!!i&&!i.undirected}if(2===arguments.length){e=""+e,t=""+t;var o=this._nodes.get(e);return!!o&&o.out.hasOwnProperty(t)}throw new B("Graph.hasDirectedEdge: invalid arity (".concat(arguments.length,", instead of 1 or 2). You can either ask for an edge id or for the existence of an edge between a source & a target."))},o.hasUndirectedEdge=function(e,t){if("directed"===this.type)return!1;if(1===arguments.length){var n=""+e,i=this._edges.get(n);return!!i&&i.undirected}if(2===arguments.length){e=""+e,t=""+t;var o=this._nodes.get(e);return!!o&&o.undirected.hasOwnProperty(t)}throw new B("Graph.hasDirectedEdge: invalid arity (".concat(arguments.length,", instead of 1 or 2). You can either ask for an edge id or for the existence of an edge between a source & a target."))},o.hasEdge=function(e,t){if(1===arguments.length){var n=""+e;return this._edges.has(n)}if(2===arguments.length){e=""+e,t=""+t;var i=this._nodes.get(e);return!!i&&(void 0!==i.out&&i.out.hasOwnProperty(t)||void 0!==i.undirected&&i.undirected.hasOwnProperty(t))}throw new B("Graph.hasEdge: invalid arity (".concat(arguments.length,", instead of 1 or 2). You can either ask for an edge id or for the existence of an edge between a source & a target."))},o.directedEdge=function(e,t){if("undirected"!==this.type){if(e=""+e,t=""+t,this.multi)throw new U("Graph.directedEdge: this method is irrelevant with multigraphs since there might be multiple edges between source & target. See #.directedEdges instead.");var n=this._nodes.get(e);if(!n)throw new V('Graph.directedEdge: could not find the "'.concat(e,'" source node in the graph.'));if(!this._nodes.has(t))throw new V('Graph.directedEdge: could not find the "'.concat(t,'" target node in the graph.'));var i=n.out&&n.out[t]||void 0;return i?i.key:void 0}},o.undirectedEdge=function(e,t){if("directed"!==this.type){if(e=""+e,t=""+t,this.multi)throw new U("Graph.undirectedEdge: this method is irrelevant with multigraphs since there might be multiple edges between source & target. See #.undirectedEdges instead.");var n=this._nodes.get(e);if(!n)throw new V('Graph.undirectedEdge: could not find the "'.concat(e,'" source node in the graph.'));if(!this._nodes.has(t))throw new V('Graph.undirectedEdge: could not find the "'.concat(t,'" target node in the graph.'));var i=n.undirected&&n.undirected[t]||void 0;return i?i.key:void 0}},o.edge=function(e,t){if(this.multi)throw new U("Graph.edge: this method is irrelevant with multigraphs since there might be multiple edges between source & target. See #.edges instead.");e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.edge: could not find the "'.concat(e,'" source node in the graph.'));if(!this._nodes.has(t))throw new V('Graph.edge: could not find the "'.concat(t,'" target node in the graph.'));var i=n.out&&n.out[t]||n.undirected&&n.undirected[t]||void 0;if(i)return i.key},o.areDirectedNeighbors=function(e,t){e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.areDirectedNeighbors: could not find the "'.concat(e,'" node in the graph.'));return"undirected"!==this.type&&(t in n.in||t in n.out)},o.areOutNeighbors=function(e,t){e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.areOutNeighbors: could not find the "'.concat(e,'" node in the graph.'));return"undirected"!==this.type&&t in n.out},o.areInNeighbors=function(e,t){e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.areInNeighbors: could not find the "'.concat(e,'" node in the graph.'));return"undirected"!==this.type&&t in n.in},o.areUndirectedNeighbors=function(e,t){e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.areUndirectedNeighbors: could not find the "'.concat(e,'" node in the graph.'));return"directed"!==this.type&&t in n.undirected},o.areNeighbors=function(e,t){e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.areNeighbors: could not find the "'.concat(e,'" node in the graph.'));return"undirected"!==this.type&&(t in n.in||t in n.out)||"directed"!==this.type&&t in n.undirected},o.areInboundNeighbors=function(e,t){e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.areInboundNeighbors: could not find the "'.concat(e,'" node in the graph.'));return"undirected"!==this.type&&t in n.in||"directed"!==this.type&&t in n.undirected},o.areOutboundNeighbors=function(e,t){e=""+e,t=""+t;var n=this._nodes.get(e);if(!n)throw new V('Graph.areOutboundNeighbors: could not find the "'.concat(e,'" node in the graph.'));return"undirected"!==this.type&&t in n.out||"directed"!==this.type&&t in n.undirected},o.inDegree=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.inDegree: could not find the "'.concat(e,'" node in the graph.'));return"undirected"===this.type?0:t.inDegree},o.outDegree=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.outDegree: could not find the "'.concat(e,'" node in the graph.'));return"undirected"===this.type?0:t.outDegree},o.directedDegree=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.directedDegree: could not find the "'.concat(e,'" node in the graph.'));return"undirected"===this.type?0:t.inDegree+t.outDegree},o.undirectedDegree=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.undirectedDegree: could not find the "'.concat(e,'" node in the graph.'));return"directed"===this.type?0:t.undirectedDegree},o.inboundDegree=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.inboundDegree: could not find the "'.concat(e,'" node in the graph.'));var n=0;return"directed"!==this.type&&(n+=t.undirectedDegree),"undirected"!==this.type&&(n+=t.inDegree),n},o.outboundDegree=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.outboundDegree: could not find the "'.concat(e,'" node in the graph.'));var n=0;return"directed"!==this.type&&(n+=t.undirectedDegree),"undirected"!==this.type&&(n+=t.outDegree),n},o.degree=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.degree: could not find the "'.concat(e,'" node in the graph.'));var n=0;return"directed"!==this.type&&(n+=t.undirectedDegree),"undirected"!==this.type&&(n+=t.inDegree+t.outDegree),n},o.inDegreeWithoutSelfLoops=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.inDegreeWithoutSelfLoops: could not find the "'.concat(e,'" node in the graph.'));return"undirected"===this.type?0:t.inDegree-t.directedLoops},o.outDegreeWithoutSelfLoops=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.outDegreeWithoutSelfLoops: could not find the "'.concat(e,'" node in the graph.'));return"undirected"===this.type?0:t.outDegree-t.directedLoops},o.directedDegreeWithoutSelfLoops=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.directedDegreeWithoutSelfLoops: could not find the "'.concat(e,'" node in the graph.'));return"undirected"===this.type?0:t.inDegree+t.outDegree-2*t.directedLoops},o.undirectedDegreeWithoutSelfLoops=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.undirectedDegreeWithoutSelfLoops: could not find the "'.concat(e,'" node in the graph.'));return"directed"===this.type?0:t.undirectedDegree-2*t.undirectedLoops},o.inboundDegreeWithoutSelfLoops=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.inboundDegreeWithoutSelfLoops: could not find the "'.concat(e,'" node in the graph.'));var n=0,i=0;return"directed"!==this.type&&(n+=t.undirectedDegree,i+=2*t.undirectedLoops),"undirected"!==this.type&&(n+=t.inDegree,i+=t.directedLoops),n-i},o.outboundDegreeWithoutSelfLoops=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.outboundDegreeWithoutSelfLoops: could not find the "'.concat(e,'" node in the graph.'));var n=0,i=0;return"directed"!==this.type&&(n+=t.undirectedDegree,i+=2*t.undirectedLoops),"undirected"!==this.type&&(n+=t.outDegree,i+=t.directedLoops),n-i},o.degreeWithoutSelfLoops=function(e){e=""+e;var t=this._nodes.get(e);if(!t)throw new V('Graph.degreeWithoutSelfLoops: could not find the "'.concat(e,'" node in the graph.'));var n=0,i=0;return"directed"!==this.type&&(n+=t.undirectedDegree,i+=2*t.undirectedLoops),"undirected"!==this.type&&(n+=t.inDegree+t.outDegree,i+=2*t.directedLoops),n-i},o.source=function(e){e=""+e;var t=this._edges.get(e);if(!t)throw new V('Graph.source: could not find the "'.concat(e,'" edge in the graph.'));return t.source.key},o.target=function(e){e=""+e;var t=this._edges.get(e);if(!t)throw new V('Graph.target: could not find the "'.concat(e,'" edge in the graph.'));return t.target.key},o.extremities=function(e){e=""+e;var t=this._edges.get(e);if(!t)throw new V('Graph.extremities: could not find the "'.concat(e,'" edge in the graph.'));return[t.source.key,t.target.key]},o.opposite=function(e,t){e=""+e,t=""+t;var n=this._edges.get(t);if(!n)throw new V('Graph.opposite: could not find the "'.concat(t,'" edge in the graph.'));var i=n.source.key,o=n.target.key;if(e===i)return o;if(e===o)return i;throw new V('Graph.opposite: the "'.concat(e,'" node is not attached to the "').concat(t,'" edge (').concat(i,", ").concat(o,")."))},o.hasExtremity=function(e,t){e=""+e,t=""+t;var n=this._edges.get(e);if(!n)throw new V('Graph.hasExtremity: could not find the "'.concat(e,'" edge in the graph.'));return n.source.key===t||n.target.key===t},o.isUndirected=function(e){e=""+e;var t=this._edges.get(e);if(!t)throw new V('Graph.isUndirected: could not find the "'.concat(e,'" edge in the graph.'));return t.undirected},o.isDirected=function(e){e=""+e;var t=this._edges.get(e);if(!t)throw new V('Graph.isDirected: could not find the "'.concat(e,'" edge in the graph.'));return!t.undirected},o.isSelfLoop=function(e){e=""+e;var t=this._edges.get(e);if(!t)throw new V('Graph.isSelfLoop: could not find the "'.concat(e,'" edge in the graph.'));return t.source===t.target},o.addNode=function(e,t){var n=function(e,t,n){if(n&&!c(n))throw new B('Graph.addNode: invalid attributes. Expecting an object but got "'.concat(n,'"'));if(t=""+t,n=n||{},e._nodes.has(t))throw new U('Graph.addNode: the "'.concat(t,'" node already exist in the graph.'));var i=new e.NodeDataClass(t,n);return e._nodes.set(t,i),e.emit("nodeAdded",{key:t,attributes:n}),i}(this,e,t);return n.key},o.mergeNode=function(e,t){if(t&&!c(t))throw new B('Graph.mergeNode: invalid attributes. Expecting an object but got "'.concat(t,'"'));e=""+e,t=t||{};var n=this._nodes.get(e);return n?(t&&(a(n.attributes,t),this.emit("nodeAttributesUpdated",{type:"merge",key:e,attributes:n.attributes,data:t})),[e,!1]):(n=new this.NodeDataClass(e,t),this._nodes.set(e,n),this.emit("nodeAdded",{key:e,attributes:t}),[e,!0])},o.updateNode=function(e,t){if(t&&"function"!=typeof t)throw new B('Graph.updateNode: invalid updater function. Expecting a function but got "'.concat(t,'"'));e=""+e;var n=this._nodes.get(e);if(n){if(t){var i=n.attributes;n.attributes=t(i),this.emit("nodeAttributesUpdated",{type:"replace",key:e,attributes:n.attributes})}return[e,!1]}var o=t?t({}):{};return n=new this.NodeDataClass(e,o),this._nodes.set(e,n),this.emit("nodeAdded",{key:e,attributes:o}),[e,!0]},o.dropNode=function(e){e=""+e;var t,n=this._nodes.get(e);if(!n)throw new V('Graph.dropNode: could not find the "'.concat(e,'" node in the graph.'));if("undirected"!==this.type){for(var i in n.out){t=n.out[i];do{Me(this,t),t=t.next}while(t)}for(var o in n.in){t=n.in[o];do{Me(this,t),t=t.next}while(t)}}if("directed"!==this.type)for(var r in n.undirected){t=n.undirected[r];do{Me(this,t),t=t.next}while(t)}this._nodes.delete(e),this.emit("nodeDropped",{key:e,attributes:n.attributes})},o.dropEdge=function(e){var t;if(arguments.length>1){var n=""+arguments[0],i=""+arguments[1];if(!(t=l(this,n,i,this.type)))throw new V('Graph.dropEdge: could not find the "'.concat(n,'" -> "').concat(i,'" edge in the graph.'))}else if(e=""+e,!(t=this._edges.get(e)))throw new V('Graph.dropEdge: could not find the "'.concat(e,'" edge in the graph.'));return Me(this,t),this},o.dropDirectedEdge=function(e,t){if(arguments.length<2)throw new U("Graph.dropDirectedEdge: it does not make sense to try and drop a directed edge by key. What if the edge with this key is undirected? Use #.dropEdge for this purpose instead.");if(this.multi)throw new U("Graph.dropDirectedEdge: cannot use a {source,target} combo when dropping an edge in a MultiGraph since we cannot infer the one you want to delete as there could be multiple ones.");var n=l(this,e=""+e,t=""+t,"directed");if(!n)throw new V('Graph.dropDirectedEdge: could not find a "'.concat(e,'" -> "').concat(t,'" edge in the graph.'));return Me(this,n),this},o.dropUndirectedEdge=function(e,t){if(arguments.length<2)throw new U("Graph.dropUndirectedEdge: it does not make sense to drop a directed edge by key. What if the edge with this key is undirected? Use #.dropEdge for this purpose instead.");if(this.multi)throw new U("Graph.dropUndirectedEdge: cannot use a {source,target} combo when dropping an edge in a MultiGraph since we cannot infer the one you want to delete as there could be multiple ones.");var n=l(this,e,t,"undirected");if(!n)throw new V('Graph.dropUndirectedEdge: could not find a "'.concat(e,'" -> "').concat(t,'" edge in the graph.'));return Me(this,n),this},o.clear=function(){this._edges.clear(),this._nodes.clear(),this._resetInstanceCounters(),this.emit("cleared")},o.clearEdges=function(){for(var e,t=this._nodes.values();!0!==(e=t.next()).done;)e.value.clear();this._edges.clear(),this._resetInstanceCounters(),this.emit("edgesCleared")},o.getAttribute=function(e){return this._attributes[e]},o.getAttributes=function(){return this._attributes},o.hasAttribute=function(e){return this._attributes.hasOwnProperty(e)},o.setAttribute=function(e,t){return this._attributes[e]=t,this.emit("attributesUpdated",{type:"set",attributes:this._attributes,name:e}),this},o.updateAttribute=function(e,t){if("function"!=typeof t)throw new B("Graph.updateAttribute: updater should be a function.");var n=this._attributes[e];return this._attributes[e]=t(n),this.emit("attributesUpdated",{type:"set",attributes:this._attributes,name:e}),this},o.removeAttribute=function(e){return delete this._attributes[e],this.emit("attributesUpdated",{type:"remove",attributes:this._attributes,name:e}),this},o.replaceAttributes=function(e){if(!c(e))throw new B("Graph.replaceAttributes: provided attributes are not a plain object.");return this._attributes=e,this.emit("attributesUpdated",{type:"replace",attributes:this._attributes}),this},o.mergeAttributes=function(e){if(!c(e))throw new B("Graph.mergeAttributes: provided attributes are not a plain object.");return a(this._attributes,e),this.emit("attributesUpdated",{type:"merge",attributes:this._attributes,data:e}),this},o.updateAttributes=function(e){if("function"!=typeof e)throw new B("Graph.updateAttributes: provided updater is not a function.");return this._attributes=e(this._attributes),this.emit("attributesUpdated",{type:"update",attributes:this._attributes}),this},o.updateEachNodeAttributes=function(e,t){if("function"!=typeof e)throw new B("Graph.updateEachNodeAttributes: expecting an updater function.");if(t&&!m(t))throw new B("Graph.updateEachNodeAttributes: invalid hints. Expecting an object having the following shape: {attributes?: [string]}");for(var n,i,o=this._nodes.values();!0!==(n=o.next()).done;)(i=n.value).attributes=e(i.key,i.attributes);this.emit("eachNodeAttributesUpdated",{hints:t||null})},o.updateEachEdgeAttributes=function(e,t){if("function"!=typeof e)throw new B("Graph.updateEachEdgeAttributes: expecting an updater function.");if(t&&!m(t))throw new B("Graph.updateEachEdgeAttributes: invalid hints. Expecting an object having the following shape: {attributes?: [string]}");for(var n,i,o,r,s=this._edges.values();!0!==(n=s.next()).done;)o=(i=n.value).source,r=i.target,i.attributes=e(i.key,i.attributes,o.key,r.key,o.attributes,r.attributes,i.undirected);this.emit("eachEdgeAttributesUpdated",{hints:t||null})},o.forEachAdjacencyEntry=function(e){if("function"!=typeof e)throw new B("Graph.forEachAdjacencyEntry: expecting a callback.");ge(!1,!1,!1,this,e)},o.forEachAdjacencyEntryWithOrphans=function(e){if("function"!=typeof e)throw new B("Graph.forEachAdjacencyEntryWithOrphans: expecting a callback.");ge(!1,!1,!0,this,e)},o.forEachAssymetricAdjacencyEntry=function(e){if("function"!=typeof e)throw new B("Graph.forEachAssymetricAdjacencyEntry: expecting a callback.");ge(!1,!0,!1,this,e)},o.forEachAssymetricAdjacencyEntryWithOrphans=function(e){if("function"!=typeof e)throw new B("Graph.forEachAssymetricAdjacencyEntryWithOrphans: expecting a callback.");ge(!1,!0,!0,this,e)},o.nodes=function(){return"function"==typeof Array.from?Array.from(this._nodes.keys()):F(this._nodes.keys(),this._nodes.size)},o.forEachNode=function(e){if("function"!=typeof e)throw new B("Graph.forEachNode: expecting a callback.");for(var t,n,i=this._nodes.values();!0!==(t=i.next()).done;)e((n=t.value).key,n.attributes)},o.findNode=function(e){if("function"!=typeof e)throw new B("Graph.findNode: expecting a callback.");for(var t,n,i=this._nodes.values();!0!==(t=i.next()).done;)if(e((n=t.value).key,n.attributes))return n.key},o.mapNodes=function(e){if("function"!=typeof e)throw new B("Graph.mapNode: expecting a callback.");for(var t,n,i=this._nodes.values(),o=new Array(this.order),r=0;!0!==(t=i.next()).done;)n=t.value,o[r++]=e(n.key,n.attributes);return o},o.someNode=function(e){if("function"!=typeof e)throw new B("Graph.someNode: expecting a callback.");for(var t,n,i=this._nodes.values();!0!==(t=i.next()).done;)if(e((n=t.value).key,n.attributes))return!0;return!1},o.everyNode=function(e){if("function"!=typeof e)throw new B("Graph.everyNode: expecting a callback.");for(var t,n,i=this._nodes.values();!0!==(t=i.next()).done;)if(!e((n=t.value).key,n.attributes))return!1;return!0},o.filterNodes=function(e){if("function"!=typeof e)throw new B("Graph.filterNodes: expecting a callback.");for(var t,n,i=this._nodes.values(),o=[];!0!==(t=i.next()).done;)e((n=t.value).key,n.attributes)&&o.push(n.key);return o},o.reduceNodes=function(e,t){if("function"!=typeof e)throw new B("Graph.reduceNodes: expecting a callback.");if(arguments.length<2)throw new B("Graph.reduceNodes: missing initial value. You must provide it because the callback takes more than one argument and we cannot infer the initial value from the first iteration, as you could with a simple array.");for(var n,i,o=t,r=this._nodes.values();!0!==(n=r.next()).done;)o=e(o,(i=n.value).key,i.attributes);return o},o.nodeEntries=function(){var e=this._nodes.values();return new x(function(){var t=e.next();if(t.done)return t;var n=t.value;return{value:{node:n.key,attributes:n.attributes},done:!1}})},o.export=function(){var e=this,t=new Array(this._nodes.size),n=0;this._nodes.forEach(function(e,i){t[n++]=function(e,t){var n={key:e};return u(t.attributes)||(n.attributes=a({},t.attributes)),n}(i,e)});var i=new Array(this._edges.size);return n=0,this._edges.forEach(function(t,o){i[n++]=function(e,t,n){var i={key:t,source:n.source.key,target:n.target.key};return u(n.attributes)||(i.attributes=a({},n.attributes)),"mixed"===e&&n.undirected&&(i.undirected=!0),i}(e.type,o,t)}),{options:{type:this.type,multi:this.multi,allowSelfLoops:this.allowSelfLoops},attributes:this.getAttributes(),nodes:t,edges:i}},o.import=function(e){var t,n,o,r,s,a=this,l=arguments.length>1&&void 0!==arguments[1]&&arguments[1];if(e instanceof i)return e.forEachNode(function(e,t){l?a.mergeNode(e,t):a.addNode(e,t)}),e.forEachEdge(function(e,t,n,i,o,r,s){l?s?a.mergeUndirectedEdgeWithKey(e,n,i,t):a.mergeDirectedEdgeWithKey(e,n,i,t):s?a.addUndirectedEdgeWithKey(e,n,i,t):a.addDirectedEdgeWithKey(e,n,i,t)}),this;if(!c(e))throw new B("Graph.import: invalid argument. Expecting a serialized graph or, alternatively, a Graph instance.");if(e.attributes){if(!c(e.attributes))throw new B("Graph.import: invalid attributes. Expecting a plain object.");l?this.mergeAttributes(e.attributes):this.replaceAttributes(e.attributes)}if(e.nodes){if(o=e.nodes,!Array.isArray(o))throw new B("Graph.import: invalid nodes. Expecting an array.");for(t=0,n=o.length;t<n;t++){fe(r=o[t]);var u=r,h=u.key,d=u.attributes;l?this.mergeNode(h,d):this.addNode(h,d)}}if(e.edges){var m=!1;if("undirected"===this.type&&(m=!0),o=e.edges,!Array.isArray(o))throw new B("Graph.import: invalid edges. Expecting an array.");for(t=0,n=o.length;t<n;t++){ye(s=o[t]);var p=s,g=p.source,f=p.target,y=p.attributes,b=p.undirected,w=void 0===b?m:b;"key"in s?(l?w?this.mergeUndirectedEdgeWithKey:this.mergeDirectedEdgeWithKey:w?this.addUndirectedEdgeWithKey:this.addDirectedEdgeWithKey).call(this,s.key,g,f,y):(l?w?this.mergeUndirectedEdge:this.mergeDirectedEdge:w?this.addUndirectedEdge:this.addDirectedEdge).call(this,g,f,y)}}return this},o.nullCopy=function(e){var t=new i(a({},this._options,e));return t.replaceAttributes(a({},this.getAttributes())),t},o.emptyCopy=function(e){var t=this.nullCopy(e);return this._nodes.forEach(function(e,n){var i=a({},e.attributes);e=new t.NodeDataClass(n,i),t._nodes.set(n,e)}),t},o.copy=function(e){if("string"==typeof(e=e||{}).type&&e.type!==this.type&&"mixed"!==e.type)throw new U('Graph.copy: cannot create an incompatible copy from "'.concat(this.type,'" type to "').concat(e.type,'" because this would mean losing information about the current graph.'));if("boolean"==typeof e.multi&&e.multi!==this.multi&&!0!==e.multi)throw new U("Graph.copy: cannot create an incompatible copy by downgrading a multi graph to a simple one because this would mean losing information about the current graph.");if("boolean"==typeof e.allowSelfLoops&&e.allowSelfLoops!==this.allowSelfLoops&&!0!==e.allowSelfLoops)throw new U("Graph.copy: cannot create an incompatible copy from a graph allowing self loops to one that does not because this would mean losing information about the current graph.");for(var t,n,i=this.emptyCopy(e),o=this._edges.values();!0!==(t=o.next()).done;)Ee(i,"copy",!1,(n=t.value).undirected,n.key,n.source.key,n.target.key,a({},n.attributes));return i},o.toJSON=function(){return this.export()},o.toString=function(){return"[object Graph]"},o.inspect=function(){var t=this,n={};this._nodes.forEach(function(e,t){n[t]=e.attributes});var i={},o={};this._edges.forEach(function(e,n){var r,s=e.undirected?"--":"->",a="",l=e.source.key,c=e.target.key;e.undirected&&l>c&&(r=l,l=c,c=r);var u="(".concat(l,")").concat(s,"(").concat(c,")");n.startsWith("geid_")?t.multi&&(void 0===o[u]?o[u]=0:o[u]++,a+="".concat(o[u],". ")):a+="[".concat(n,"]: "),i[a+=u]=e.attributes});var r={};for(var s in this)this.hasOwnProperty(s)&&!Te.has(s)&&"function"!=typeof this[s]&&"symbol"!==e(s)&&(r[s]=this[s]);return r.attributes=this._attributes,r.nodes=n,r.edges=i,h(r,"constructor",this.constructor),r},i}(g.exports.EventEmitter);"undefined"!=typeof Symbol&&(Pe.prototype[Symbol.for("nodejs.util.inspect.custom")]=Pe.prototype.inspect),[{name:function(e){return"".concat(e,"Edge")},generateKey:!0},{name:function(e){return"".concat(e,"DirectedEdge")},generateKey:!0,type:"directed"},{name:function(e){return"".concat(e,"UndirectedEdge")},generateKey:!0,type:"undirected"},{name:function(e){return"".concat(e,"EdgeWithKey")}},{name:function(e){return"".concat(e,"DirectedEdgeWithKey")},type:"directed"},{name:function(e){return"".concat(e,"UndirectedEdgeWithKey")},type:"undirected"}].forEach(function(e){["add","merge","update"].forEach(function(t){var n=e.name(t),i="add"===t?Ee:Se;e.generateKey?Pe.prototype[n]=function(o,r,s){return i(this,n,!0,"undirected"===(e.type||this.type),null,o,r,s,"update"===t)}:Pe.prototype[n]=function(o,r,s,a){return i(this,n,!1,"undirected"===(e.type||this.type),o,r,s,a,"update"===t)}})}),function(e){z.forEach(function(t){var n=t.name,i=t.attacher;i(e,n("Node"),0),i(e,n("Source"),1),i(e,n("Target"),2),i(e,n("Opposite"),3)})}(Pe),function(e){Z.forEach(function(t){var n=t.name,i=t.attacher;i(e,n("Edge"),"mixed"),i(e,n("DirectedEdge"),"directed"),i(e,n("UndirectedEdge"),"undirected")})}(Pe),function(e){ee.forEach(function(t){!function(e,t){var n=t.name,i=t.type,o=t.direction;e.prototype[n]=function(e,t){if("mixed"!==i&&"mixed"!==this.type&&i!==this.type)return[];if(!arguments.length)return function(e,t){if(0===e.size)return[];if("mixed"===t||t===e.type)return"function"==typeof Array.from?Array.from(e._edges.keys()):F(e._edges.keys(),e._edges.size);for(var n,i,o="undirected"===t?e.undirectedSize:e.directedSize,r=new Array(o),s="undirected"===t,a=e._edges.values(),l=0;!0!==(n=a.next()).done;)(i=n.value).undirected===s&&(r[l++]=i.key);return r}(this,i);if(1===arguments.length){e=""+e;var r=this._nodes.get(e);if(void 0===r)throw new V("Graph.".concat(n,': could not find the "').concat(e,'" node in the graph.'));return function(e,t,n,i){var o=[];return le(!1,e,t,n,i,function(e){o.push(e)}),o}(this.multi,"mixed"===i?this.type:i,o,r)}if(2===arguments.length){e=""+e,t=""+t;var s=this._nodes.get(e);if(!s)throw new V("Graph.".concat(n,': could not find the "').concat(e,'" source node in the graph.'));if(!this._nodes.has(t))throw new V("Graph.".concat(n,': could not find the "').concat(t,'" target node in the graph.'));return function(e,t,n,i,o){var r=[];return ce(!1,e,t,n,i,o,function(e){r.push(e)}),r}(i,this.multi,o,s,t)}throw new B("Graph.".concat(n,": too many arguments (expecting 0, 1 or 2 and got ").concat(arguments.length,")."))}}(e,t),function(e,t){var n=t.name,i=t.type,o=t.direction,r="forEach"+n[0].toUpperCase()+n.slice(1,-1);e.prototype[r]=function(e,t,n){if("mixed"===i||"mixed"===this.type||i===this.type){if(1===arguments.length)return ae(!1,this,i,n=e);if(2===arguments.length){e=""+e,n=t;var s=this._nodes.get(e);if(void 0===s)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" node in the graph.'));return le(!1,this.multi,"mixed"===i?this.type:i,o,s,n)}if(3===arguments.length){e=""+e,t=""+t;var a=this._nodes.get(e);if(!a)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" source node in the graph.'));if(!this._nodes.has(t))throw new V("Graph.".concat(r,': could not find the "').concat(t,'" target node in the graph.'));return ce(!1,i,this.multi,o,a,t,n)}throw new B("Graph.".concat(r,": too many arguments (expecting 1, 2 or 3 and got ").concat(arguments.length,")."))}};var s="map"+n[0].toUpperCase()+n.slice(1);e.prototype[s]=function(){var e,t=Array.prototype.slice.call(arguments),n=t.pop();if(0===t.length){var o=0;"directed"!==i&&(o+=this.undirectedSize),"undirected"!==i&&(o+=this.directedSize),e=new Array(o);var s=0;t.push(function(t,i,o,r,a,l,c){e[s++]=n(t,i,o,r,a,l,c)})}else e=[],t.push(function(t,i,o,r,s,a,l){e.push(n(t,i,o,r,s,a,l))});return this[r].apply(this,t),e};var a="filter"+n[0].toUpperCase()+n.slice(1);e.prototype[a]=function(){var e=Array.prototype.slice.call(arguments),t=e.pop(),n=[];return e.push(function(e,i,o,r,s,a,l){t(e,i,o,r,s,a,l)&&n.push(e)}),this[r].apply(this,e),n};var l="reduce"+n[0].toUpperCase()+n.slice(1);e.prototype[l]=function(){var e,t,n=Array.prototype.slice.call(arguments);if(n.length<2||n.length>4)throw new B("Graph.".concat(l,": invalid number of arguments (expecting 2, 3 or 4 and got ").concat(n.length,")."));if("function"==typeof n[n.length-1]&&"function"!=typeof n[n.length-2])throw new B("Graph.".concat(l,": missing initial value. You must provide it because the callback takes more than one argument and we cannot infer the initial value from the first iteration, as you could with a simple array."));2===n.length?(e=n[0],t=n[1],n=[]):3===n.length?(e=n[1],t=n[2],n=[n[0]]):4===n.length&&(e=n[2],t=n[3],n=[n[0],n[1]]);var i=t;return n.push(function(t,n,o,r,s,a,l){i=e(i,t,n,o,r,s,a,l)}),this[r].apply(this,n),i}}(e,t),function(e,t){var n=t.name,i=t.type,o=t.direction,r="find"+n[0].toUpperCase()+n.slice(1,-1);e.prototype[r]=function(e,t,n){if("mixed"!==i&&"mixed"!==this.type&&i!==this.type)return!1;if(1===arguments.length)return ae(!0,this,i,n=e);if(2===arguments.length){e=""+e,n=t;var s=this._nodes.get(e);if(void 0===s)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" node in the graph.'));return le(!0,this.multi,"mixed"===i?this.type:i,o,s,n)}if(3===arguments.length){e=""+e,t=""+t;var a=this._nodes.get(e);if(!a)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" source node in the graph.'));if(!this._nodes.has(t))throw new V("Graph.".concat(r,': could not find the "').concat(t,'" target node in the graph.'));return ce(!0,i,this.multi,o,a,t,n)}throw new B("Graph.".concat(r,": too many arguments (expecting 1, 2 or 3 and got ").concat(arguments.length,")."))};var s="some"+n[0].toUpperCase()+n.slice(1,-1);e.prototype[s]=function(){var e=Array.prototype.slice.call(arguments),t=e.pop();return e.push(function(e,n,i,o,r,s,a){return t(e,n,i,o,r,s,a)}),!!this[r].apply(this,e)};var a="every"+n[0].toUpperCase()+n.slice(1,-1);e.prototype[a]=function(){var e=Array.prototype.slice.call(arguments),t=e.pop();return e.push(function(e,n,i,o,r,s,a){return!t(e,n,i,o,r,s,a)}),!this[r].apply(this,e)}}(e,t),function(e,t){var n=t.name,i=t.type,o=t.direction,r=n.slice(0,-1)+"Entries";e.prototype[r]=function(e,t){if("mixed"!==i&&"mixed"!==this.type&&i!==this.type)return x.empty();if(!arguments.length)return function(e,t){if(0===e.size)return x.empty();var n="mixed"!==t&&t!==e.type,i="undirected"===t,o=e._edges.values();return new x(function(){for(var e,t;;){if((e=o.next()).done)return e;if(t=e.value,!n||t.undirected===i)break}return{value:{edge:t.key,attributes:t.attributes,source:t.source.key,target:t.target.key,sourceAttributes:t.source.attributes,targetAttributes:t.target.attributes,undirected:t.undirected},done:!1}})}(this,i);if(1===arguments.length){e=""+e;var n=this._nodes.get(e);if(!n)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" node in the graph.'));return function(e,t,n){var i=x.empty();return"undirected"!==e&&("out"!==t&&void 0!==n.in&&(i=Q(i,ie(n.in))),"in"!==t&&void 0!==n.out&&(i=Q(i,ie(n.out,t?void 0:n.key)))),"directed"!==e&&void 0!==n.undirected&&(i=Q(i,ie(n.undirected))),i}(i,o,n)}if(2===arguments.length){e=""+e,t=""+t;var s=this._nodes.get(e);if(!s)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" source node in the graph.'));if(!this._nodes.has(t))throw new V("Graph.".concat(r,': could not find the "').concat(t,'" target node in the graph.'));return function(e,t,n,i){var o=x.empty();return"undirected"!==e&&(void 0!==n.in&&"out"!==t&&i in n.in&&(o=Q(o,se(n.in,i))),void 0!==n.out&&"in"!==t&&i in n.out&&(t||n.key!==i)&&(o=Q(o,se(n.out,i)))),"directed"!==e&&void 0!==n.undirected&&i in n.undirected&&(o=Q(o,se(n.undirected,i))),o}(i,o,s,t)}throw new B("Graph.".concat(r,": too many arguments (expecting 0, 1 or 2 and got ").concat(arguments.length,")."))}}(e,t)})}(Pe),function(e){ue.forEach(function(t){(function(e,t){var n=t.name,i=t.type,o=t.direction;e.prototype[n]=function(e){if("mixed"!==i&&"mixed"!==this.type&&i!==this.type)return[];e=""+e;var t=this._nodes.get(e);if(void 0===t)throw new V("Graph.".concat(n,': could not find the "').concat(e,'" node in the graph.'));return function(e,t,n){if("mixed"!==e){if("undirected"===e)return Object.keys(n.undirected);if("string"==typeof t)return Object.keys(n[t])}var i=[];return me(!1,e,t,n,function(e){i.push(e)}),i}("mixed"===i?this.type:i,o,t)}})(e,t),function(e,t){var n=t.name,i=t.type,o=t.direction,r="forEach"+n[0].toUpperCase()+n.slice(1,-1);e.prototype[r]=function(e,t){if("mixed"===i||"mixed"===this.type||i===this.type){e=""+e;var n=this._nodes.get(e);if(void 0===n)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" node in the graph.'));me(!1,"mixed"===i?this.type:i,o,n,t)}};var s="map"+n[0].toUpperCase()+n.slice(1);e.prototype[s]=function(e,t){var n=[];return this[r](e,function(e,i){n.push(t(e,i))}),n};var a="filter"+n[0].toUpperCase()+n.slice(1);e.prototype[a]=function(e,t){var n=[];return this[r](e,function(e,i){t(e,i)&&n.push(e)}),n};var l="reduce"+n[0].toUpperCase()+n.slice(1);e.prototype[l]=function(e,t,n){if(arguments.length<3)throw new B("Graph.".concat(l,": missing initial value. You must provide it because the callback takes more than one argument and we cannot infer the initial value from the first iteration, as you could with a simple array."));var i=n;return this[r](e,function(e,n){i=t(i,e,n)}),i}}(e,t),function(e,t){var n=t.name,i=t.type,o=t.direction,r=n[0].toUpperCase()+n.slice(1,-1),s="find"+r;e.prototype[s]=function(e,t){if("mixed"===i||"mixed"===this.type||i===this.type){e=""+e;var n=this._nodes.get(e);if(void 0===n)throw new V("Graph.".concat(s,': could not find the "').concat(e,'" node in the graph.'));return me(!0,"mixed"===i?this.type:i,o,n,t)}};var a="some"+r;e.prototype[a]=function(e,t){return!!this[s](e,t)};var l="every"+r;e.prototype[l]=function(e,t){return!this[s](e,function(e,n){return!t(e,n)})}}(e,t),function(e,t){var n=t.name,i=t.type,o=t.direction,r=n.slice(0,-1)+"Entries";e.prototype[r]=function(e){if("mixed"!==i&&"mixed"!==this.type&&i!==this.type)return x.empty();e=""+e;var t=this._nodes.get(e);if(void 0===t)throw new V("Graph.".concat(r,': could not find the "').concat(e,'" node in the graph.'));return function(e,t,n){if("mixed"!==e){if("undirected"===e)return pe(null,n,n.undirected);if("string"==typeof t)return pe(null,n,n[t])}var i=x.empty(),o=new he;return"undirected"!==e&&("out"!==t&&(i=Q(i,pe(o,n,n.in))),"in"!==t&&(i=Q(i,pe(o,n,n.out)))),"directed"!==e&&(i=Q(i,pe(o,n,n.undirected))),i}("mixed"===i?this.type:i,o,t)}}(e,t)})}(Pe);var _e=function(e){function n(t){var n=a({type:"directed"},t);if("multi"in n&&!1!==n.multi)throw new B("DirectedGraph.from: inconsistent indication that the graph should be multi in given options!");if("directed"!==n.type)throw new B('DirectedGraph.from: inconsistent "'+n.type+'" type in given options!');return e.call(this,n)||this}return t(n,e),n}(Pe),Ie=function(e){function n(t){var n=a({type:"undirected"},t);if("multi"in n&&!1!==n.multi)throw new B("UndirectedGraph.from: inconsistent indication that the graph should be multi in given options!");if("undirected"!==n.type)throw new B('UndirectedGraph.from: inconsistent "'+n.type+'" type in given options!');return e.call(this,n)||this}return t(n,e),n}(Pe),Le=function(e){function n(t){var n=a({multi:!0},t);if("multi"in n&&!0!==n.multi)throw new B("MultiGraph.from: inconsistent indication that the graph should be simple in given options!");return e.call(this,n)||this}return t(n,e),n}(Pe),xe=function(e){function n(t){var n=a({type:"directed",multi:!0},t);if("multi"in n&&!0!==n.multi)throw new B("MultiDirectedGraph.from: inconsistent indication that the graph should be simple in given options!");if("directed"!==n.type)throw new B('MultiDirectedGraph.from: inconsistent "'+n.type+'" type in given options!');return e.call(this,n)||this}return t(n,e),n}(Pe),Ne=function(e){function n(t){var n=a({type:"undirected",multi:!0},t);if("multi"in n&&!0!==n.multi)throw new B("MultiUndirectedGraph.from: inconsistent indication that the graph should be simple in given options!");if("undirected"!==n.type)throw new B('MultiUndirectedGraph.from: inconsistent "'+n.type+'" type in given options!');return e.call(this,n)||this}return t(n,e),n}(Pe);function Re(e){e.from=function(t,n){var i=a({},t.options,n),o=new e(i);return o.import(t),o}}return Re(Pe),Re(_e),Re(Ie),Re(Le),Re(xe),Re(Ne),Pe.Graph=Pe,Pe.DirectedGraph=_e,Pe.UndirectedGraph=Ie,Pe.MultiGraph=Le,Pe.MultiDirectedGraph=xe,Pe.MultiUndirectedGraph=Ne,Pe.InvalidArgumentsGraphError=B,Pe.NotFoundGraphError=V,Pe.UsageGraphError=U,Pe}()},944:(e,t)=>{"use strict";t.Vb=void 0,t.Vb=function(e,t,n){var i=function(e,t,n){if(0===e.length||0===t.length)return 0;if(n&&!n.caseSensitive&&(e=e.toUpperCase(),t=t.toUpperCase()),e===t)return 1;for(var i=0,o=e.length,r=t.length,s=Math.floor(Math.max(o,r)/2)-1,a=new Array(o),l=new Array(r),c=0;c<o;c++)for(var u=Math.max(0,c-s);u<=Math.min(r,c+s+1);u++)if(!a[c]&&!l[u]&&e[c]===t[u]){++i,a[c]=l[u]=!0;break}if(0===i)return 0;var h=0,d=0;for(c=0;c<o;c++)if(a[c]){for(;!l[d];)d++;e.charAt(c)!==t.charAt(d++)&&h++}return(i/o+i/r+(i-(h/=2))/i)/3}(e,t,n),o=0;if(i>.7){for(var r=Math.min(e.length,t.length),s=0;e[s]===t[s]&&s<4&&s<r;)++o,s++;i+=.1*o*(1-i)}return i}},966:(e,t,n)=>{"use strict";n.d(t,{V:()=>s,l:()=>a});var i=n(4328),o=n(6082),r=n(7150);function s(e,t,n=[],o=[],s=!0){const l=r._package.seqHelper,[c,u]=a(e,t,l,n,o);return s&&!c&&i.shell.warning(u),c}function a(e,t,n,r=[],s=[]){let a=!0,l="";if(e.semType!==o.SEMTYPE.MACROMOLECULE)i.shell.warning(t+" analysis is allowed for Macromolecules semantic type"),a=!1;else{const i=n.getSeqHandler(e),o=i.notation;if(r.length>0&&!r.some(e=>o.toUpperCase()==e.toUpperCase()))l=`${t} + ' analysis is allowed for Macromolecules with notation ${0==r.length?"any notation":`notation${r.length>1?"s":""} ${r.map(e=>`"${e}"`).join(", ")} `}.`,a=!1;else if(!i.isHelm()){const e=i.alphabet;s.length>0&&!s.some(t=>e.toUpperCase()==t.toUpperCase())&&(l=`${t} + ' analysis is allowed for Macromolecules with alphabet ${0==s.length?"any alphabet":`alphabet${s.length>1?"s":""} ${s.map(e=>`"${e}"`).join(", ")}.`}.`,a=!1)}}return[a,l]}},1093:(e,t,n)=>{"use strict";n.d(t,{A:()=>o,Q:()=>r});var i=n(7362);class o extends i.e{static get Chromatogram(){return void 0===this.chromatogram&&(this.chromatogram=new o({A:"green",C:"blue",G:"black",T:"red",U:"red",others:"gray"})),this.chromatogram}}class r{}r.SemType="Nucleotides",r.SemTypeMultipleAlignment="NucleotidesMultipleAlignment",r.Names={A:"Adenine",C:"Cytosine",G:"Guanine",T:"Thymine",U:"Uracil"}},1113:e=>{"use strict";e.exports=function(e,t){if(t.styleSheet)t.styleSheet.cssText=e;else{for(;t.firstChild;)t.removeChild(t.firstChild);t.appendChild(document.createTextNode(e))}}},1163:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={keyword:["maxItems","minItems"],type:"array",schemaType:"number",$data:!0,error:{message({keyword:e,schemaCode:t}){const n="maxItems"===e?"more":"fewer";return i.str`must NOT have ${n} than ${t} items`},params:({schemaCode:e})=>i._`{limit: ${e}}`},code(e){const{keyword:t,data:n,schemaCode:o}=e,r="maxItems"===t?i.operators.GT:i.operators.LT;e.fail$data(i._`${n}.length ${r} ${o}`)}};t.default=o},1239:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r={keyword:"if",schemaType:["object","boolean"],trackErrors:!0,error:{message:({params:e})=>i.str`must match "${e.ifClause}" schema`,params:({params:e})=>i._`{failingKeyword: ${e.ifClause}}`},code(e){const{gen:t,parentSchema:n,it:r}=e;void 0===n.then&&void 0===n.else&&(0,o.checkStrictMode)(r,'"if" without "then" and "else" is ignored');const a=s(r,"then"),l=s(r,"else");if(!a&&!l)return;const c=t.let("valid",!0),u=t.name("_valid");if(function(){const t=e.subschema({keyword:"if",compositeRule:!0,createErrors:!1,allErrors:!1},u);e.mergeEvaluated(t)}(),e.reset(),a&&l){const n=t.let("ifClause");e.setParams({ifClause:n}),t.if(u,h("then",n),h("else",n))}else a?t.if(u,h("then")):t.if((0,i.not)(u),h("else"));function h(n,o){return()=>{const r=e.subschema({keyword:n},u);t.assign(c,u),e.mergeValidEvaluated(r,c),o?t.assign(o,i._`${n}`):e.setParams({ifClause:n})}}e.pass(c,()=>e.error(!0))}};function s(e,t){const n=e.schema[t];return void 0!==n&&!(0,o.alwaysValidSchema)(e,n)}t.default=r},1354:e=>{"use strict";e.exports=function(e){var t=e[1],n=e[3];if(!n)return t;if("function"==typeof btoa){var i=btoa(unescape(encodeURIComponent(JSON.stringify(n)))),o="sourceMappingURL=data:application/json;charset=utf-8;base64,".concat(i),r="/*# ".concat(o," */");return[t].concat([r]).join("\n")}return[t].join("\n")}},1520:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.regexpCode=t.getEsmExportName=t.getProperty=t.safeStringify=t.stringify=t.strConcat=t.addCodeArg=t.str=t._=t.nil=t._Code=t.Name=t.IDENTIFIER=t._CodeOrName=void 0;class n{}t._CodeOrName=n,t.IDENTIFIER=/^[a-z$_][a-z$_0-9]*$/i;class i extends n{constructor(e){if(super(),!t.IDENTIFIER.test(e))throw new Error("CodeGen: name must be a valid identifier");this.str=e}toString(){return this.str}emptyStr(){return!1}get names(){return{[this.str]:1}}}t.Name=i;class o extends n{constructor(e){super(),this._items="string"==typeof e?[e]:e}toString(){return this.str}emptyStr(){if(this._items.length>1)return!1;const e=this._items[0];return""===e||'""'===e}get str(){var e;return null!==(e=this._str)&&void 0!==e?e:this._str=this._items.reduce((e,t)=>`${e}${t}`,"")}get names(){var e;return null!==(e=this._names)&&void 0!==e?e:this._names=this._items.reduce((e,t)=>(t instanceof i&&(e[t.str]=(e[t.str]||0)+1),e),{})}}function r(e,...t){const n=[e[0]];let i=0;for(;i<t.length;)l(n,t[i]),n.push(e[++i]);return new o(n)}t._Code=o,t.nil=new o(""),t._=r;const s=new o("+");function a(e,...t){const n=[u(e[0])];let i=0;for(;i<t.length;)n.push(s),l(n,t[i]),n.push(s,u(e[++i]));return function(e){let t=1;for(;t<e.length-1;){if(e[t]===s){const n=c(e[t-1],e[t+1]);if(void 0!==n){e.splice(t-1,3,n);continue}e[t++]="+"}t++}}(n),new o(n)}function l(e,t){var n;t instanceof o?e.push(...t._items):t instanceof i?e.push(t):e.push("number"==typeof(n=t)||"boolean"==typeof n||null===n?n:u(Array.isArray(n)?n.join(","):n))}function c(e,t){if('""'===t)return e;if('""'===e)return t;if("string"==typeof e){if(t instanceof i||'"'!==e[e.length-1])return;return"string"!=typeof t?`${e.slice(0,-1)}${t}"`:'"'===t[0]?e.slice(0,-1)+t.slice(1):void 0}return"string"!=typeof t||'"'!==t[0]||e instanceof i?void 0:`"${e}${t.slice(1)}`}function u(e){return JSON.stringify(e).replace(/\u2028/g,"\\u2028").replace(/\u2029/g,"\\u2029")}t.str=a,t.addCodeArg=l,t.strConcat=function(e,t){return t.emptyStr()?e:e.emptyStr()?t:a`${e}${t}`},t.stringify=function(e){return new o(u(e))},t.safeStringify=u,t.getProperty=function(e){return"string"==typeof e&&t.IDENTIFIER.test(e)?new o(`.${e}`):r`[${e}]`},t.getEsmExportName=function(e){if("string"==typeof e&&t.IDENTIFIER.test(e))return new o(`${e}`);throw new Error(`CodeGen: invalid export name: ${e}, use explicit $id name mapping`)},t.regexpCode=function(e){return new o(e.toString())}},1619:(e,t,n)=>{"use strict";n.d(t,{D:()=>P});var i=n(4328),o=n(6082),r=n(7389),s=n(8070),a=n(2003),l=n(608),c=n(8152),u=n(966),h=n(4139),d=n(5072),m=n.n(d),p=n(7825),g=n.n(p),f=n(7659),y=n.n(f),b=n(5056),w=n.n(b),v=n(540),T=n.n(v),C=n(1113),A=n.n(C),E=n(6369),S={};S.styleTagTransform=A(),S.setAttributes=w(),S.insert=y().bind(null,"head"),S.domAPI=g(),S.insertStyleElement=T(),m()(E.A,S),E.A&&E.A.locals&&E.A.locals;var M=n(7150);async function P(e,t){return new Promise(async(n,a)=>{e.clustersCol??=null,e.pepsea??={},e.pepsea.method??=h.HX.pepsea.method,e.pepsea.gapOpen??=h.HX.pepsea.gapOpen,e.pepsea.gapExtend??=h.HX.pepsea.gapExtend;const u=e.col?.dataFrame??i.shell.t;if(!u){const e="Multiple Sequence Alignment analysis requires a dataset with a macromolecule column.";return void a(new l.Ap(r.divText(e)))}const d=e.col??u.columns.bySemType(o.SEMTYPE.MACROMOLECULE);if(null==d){const e="Multiple Sequence Alignment analysis requires a dataset with a macromolecule column.";return void a(new l.Ap(r.divText(e)))}const m=r.input.choice("Method",{value:e.pepsea.method,items:c.ZY});m.setTooltip("Alignment method");const p=r.input.float("Terminal gap",{value:e?.kalign?.terminalGap});p.setTooltip("Penalty for opening a gap at the beginning or end of the sequence");const g=r.p(`Kalign version: ${h.b9}`,"kalign-version"),f=r.input.float("Gap open",{value:e.pepsea.gapOpen});f.setTooltip("Gap opening penalty at group-to-group alignment");const y=r.input.float("Gap extend",{value:e.pepsea.gapExtend});y.setTooltip("Gap extension penalty to skip the alignment");const b=r.input.bool("Selected Rows Only",{value:!1}),w=r.inputs([f,y,p]),v=r.button("Alignment parameters",()=>{w.hidden=!w.hidden,[f,y,p].forEach(e=>{e.root.style.removeProperty("max-width"),e.captionLabel.style.removeProperty("max-width")})},"Adjust alignment parameters such as penalties for opening and extending gaps");v.classList.add("msa-params-button"),w.hidden=!0,v.prepend(r.icons.settings(()=>null));const T=[m.root.style],C=[p.root.style,g.style];let A,E=d;const S=r.input.column("Sequence",{table:u,value:d,onValueChanged:async e=>{if(!e||e.semType!==o.SEMTYPE.MACROMOLECULE)return L.disabled=!0,await(0,s.cb)(0),void(S.value=E);E=e,L.disabled=!1,A=await I(S.value,u,t,T,C,m,M,f,y,p,b)},filter:e=>e.semType===o.SEMTYPE.MACROMOLECULE});S.setTooltip("Sequences column to use for alignment");const M=r.input.column("Clusters",{table:u,value:e.clustersCol});M.nullable=!0;const P=r.dialog("MSA").add(S).add(M).add(m).add(w).add(v).add(b).add(g).onOK(async()=>{await _(S,u,A,n,a)}),L=P.getButton("OK");if(S.fireChanged(),e.col)return A=await I(e.col,u,t,T,C,m,M,f,y,p,b),void await _(S,u,A,n,a);P.show()})}async function _(e,t,n,r,s){let a=null;const l=o.TaskBarProgressIndicator.create("Analyze for MSA ...");try{if(e.fireChanged(),e.value.semType!==o.SEMTYPE.MACROMOLECULE)throw new Error("Chosen column has to be of Macromolecule semantic type");if(null==n)throw new Error("Invalid column format");if(a=await n(),null==a)return s("PepSeA container has not started");t.columns.add(a),await i.data.detectSemanticTypes(t),r(a)}catch(e){s(e)}finally{l.close()}}async function I(e,t,n,r,s,d,m,p,g,f,y){try{if(e.semType!==o.SEMTYPE.MACROMOLECULE)return;const i=t.columns.getUnusedName(`msa(${e.name})`);if((0,u.l)(e,e.name,n,[a.Hi.FASTA,a.Hi.SEPARATOR],[a.YI.DNA,a.YI.RNA,a.YI.PT])[0]){L(r,s,"kalign"),p.value=null,g.value=null,f.value=null;const o=n.getSeqHandler(e),c=o.isFasta()?e:o.convert(a.Hi.FASTA);return async()=>await(0,l.eE)(t,c,!1,i,m.value,void 0,void 0,void 0,y.value)}if((0,u.l)(e,e.name,n,[a.Hi.HELM],[])[0])return L(r,s,"pepsea"),p.value??=h.HX.pepsea.gapOpen,g.value??=h.HX.pepsea.gapExtend,async()=>(0,c.GD)(t,e,i,d.value,p.value,g.value,m.value,void 0,y.value);if((0,u.l)(e,e.name,n,[a.Hi.SEPARATOR],[a.YI.UN])[0]){const o=n.getSeqHandler(e).convert(a.Hi.HELM);return L(r,s,"pepsea"),p.value??=h.HX.pepsea.gapOpen,g.value??=h.HX.pepsea.gapExtend,async()=>(0,c.GD)(t,o,i,d.value,p.value,g.value,m.value,void 0,y.value)}return p.value=null,g.value=null,f.value=null,void L(r,s,"kalign")}catch(e){const t=e instanceof Error?e.message:e.toString();i.shell.error(t),M._package.logger.error(t)}}function L(e,t,n){if("kalign"===n){for(const t of e)t.display="none";for(const e of t)e.removeProperty("display")}else{for(const e of t)e.display="none";for(const t of e)t.removeProperty("display")}}},1678:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/schema","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/core":true,"https://json-schema.org/draft/2020-12/vocab/applicator":true,"https://json-schema.org/draft/2020-12/vocab/unevaluated":true,"https://json-schema.org/draft/2020-12/vocab/validation":true,"https://json-schema.org/draft/2020-12/vocab/meta-data":true,"https://json-schema.org/draft/2020-12/vocab/format-annotation":true,"https://json-schema.org/draft/2020-12/vocab/content":true},"$dynamicAnchor":"meta","title":"Core and Validation specifications meta-schema","allOf":[{"$ref":"meta/core"},{"$ref":"meta/applicator"},{"$ref":"meta/unevaluated"},{"$ref":"meta/validation"},{"$ref":"meta/meta-data"},{"$ref":"meta/format-annotation"},{"$ref":"meta/content"}],"type":["object","boolean"],"$comment":"This meta-schema also defines keywords that have appeared in previous drafts in order to prevent incompatible extensions as they remain in common use.","properties":{"definitions":{"$comment":"\\"definitions\\" has been replaced by \\"$defs\\".","type":"object","additionalProperties":{"$dynamicRef":"#meta"},"deprecated":true,"default":{}},"dependencies":{"$comment":"\\"dependencies\\" has been split and replaced by \\"dependentSchemas\\" and \\"dependentRequired\\" in order to serve their differing semantics.","type":"object","additionalProperties":{"anyOf":[{"$dynamicRef":"#meta"},{"$ref":"meta/validation#/$defs/stringArray"}]},"deprecated":true,"default":{}},"$recursiveAnchor":{"$comment":"\\"$recursiveAnchor\\" has been replaced by \\"$dynamicAnchor\\".","$ref":"meta/core#/$defs/anchorString","deprecated":true},"$recursiveRef":{"$comment":"\\"$recursiveRef\\" has been replaced by \\"$dynamicRef\\".","$ref":"meta/core#/$defs/uriReferenceString","deprecated":true}}}')},1687:(e,t,n)=>{"use strict";n.d(t,{_i:()=>E,AR:()=>A});var i=n(7389),o=n(6082),r=n(4328),s=n(1991),a=n.n(s),l=n(1858),c=n(2003),u=n(8070),h=n(7602),d=n(4954),m=n(4574),p=n(1757),g=n.n(p),f=n(9124),y=n(9192),b=n(4870),w=n(7150);class v extends m.O{seqHelper;emptyProps=new m.n("",void 0,w._package.logger);helmEditor;_filterPanel=i.div("",{style:{cursor:"pointer"}});logger;static viewerCounter=-1;viewerId=++v.viewerCounter;viewerToLog(){return`HelmBioFilter<${this.viewerId}>`}get type(){return"HelmBioFilter"}constructor(e){super(),this.seqHelper=e,this.logger=w._package.logger}viewSubs=[];async detach(){await super.detach();for(const e of this.viewSubs)e.unsubscribe()}async attach(){this.viewerToLog();try{const e=await(0,f.b2)();let t,n;this.helmEditor=e.createHelmWebEditor(),this.logger.warning("TEST: HelmBioFilter.init().sync() waitForElementInDom waiting..."),await i.tools.waitForElementInDom(this._filterPanel),this.logger.warning("TEST: HelmBioFilter.init().sync() waitForElementInDom ready"),this.updateFilterPanel(),this.viewSubs.push((0,l.fromEvent)(this._filterPanel,"click").subscribe(()=>{t=i.div(),n=e.createWebEditorApp(t,this.props.substructure),i.dialog({showHeader:!1,showFooter:!0}).add(t).onOK(()=>{try{const e=n.canvas.getHelm(!0).replace(/<\/span>/g,"").replace(/<span style='background:#bbf;'>/g,"");this.props=new m.n(e,void 0,w._package.logger)}catch(e){this.logger.error(e)}finally{g()(t).empty(),t=null,n=null}}).onCancel(()=>{g()(t).empty(),t=null,n=null}).show({modal:!0,fullScreen:!0})})),this.viewSubs.push(i.onSizeChanged(this._filterPanel).subscribe(e=>{try{if(n){const e=n.canvas.getHelm(!0).replace(/<\/span>/g,"").replace(/<span style='background:#bbf;'>/g,"");this.updateFilterPanel(e)}}catch(e){const[t,n]=(0,y.AP)(e);this.logger.error(t,void 0,n)}}))}catch(e){const[t,n]=(0,y.AP)(e),o=this._filterPanel;o.innerText="error",o.classList.add("d4-error"),i.tooltip.bind(o,t)}}applyProps(){this.helmEditor&&this.updateFilterPanel(this.props.substructure)}get filterPanel(){return this._filterPanel}updateFilterPanel(e){if(!this.helmEditor)throw new Error("helmEditor is not created, the filter is not in dom yet");const t=this._filterPanel.parentElement.clientWidth<100?100:this._filterPanel.parentElement.clientWidth,n=t/2;if(e)(0,b.Ku)(this._filterPanel,this.helmEditor.host),this.helmEditor.editor.setHelm(e),this.helmEditor.resizeEditor(t,n);else{const e=i.divText("Click to edit","helm-substructure-filter");(0,b.Ku)(this._filterPanel,e)}}async substructureSearch(e){const t=`${this.viewerToLog()}.substructureSearch( column = <${e.name}> )`;w._package.logger.debug(`${t}, start`);try{return await(0,u.cb)(10),await(0,d.if)(this.props.substructure,e,this.seqHelper)}finally{w._package.logger.debug(`${t}, end`)}}}const T="bio-substructure-filter";class C{props;filterId;dataFrameId;columnName;bitset;constructor(e,t,n,i,o){this.props=e,this.filterId=t,this.dataFrameId=n,this.columnName=i,this.bitset=o}}class A extends m.n{separator;constructor(e,t,n){super(e,!1,n),this.separator=t,this.readOnly=!0}}class E extends o.Filter{seqHelper;logger;bioFilter=null;bitset=null;loader;notation=void 0;filterSyncer;get calculating(){return"initial"==this.loader.style.display}set calculating(e){this.loader.style.display=e?"initial":"none"}get filterSummary(){return this.bioFilter.filterSummary}get isFiltering(){return super.isFiltering&&(this.bioFilter?.isFiltering??!1)}get isReadyToApplyFilter(){return!this.calculating&&null!=this.bitset}get debounceTime(){if(null==this.column)return 1e3;const e=this.column.length;return e<500?0:e>1e4?1e3:Math.floor((e-500)/9500*1e3)}constructor(e,t){super(),this.seqHelper=e,this.logger=t,this.root=i.divV([]),this.loader=i.loader(),this.calculating=!1,this.filterSyncer=new h.g(this.logger)}static filterCounter=-1;filterId=++E.filterCounter;filterToLog(){return`BioSubstructureFilter<${this.filterId}>`}viewSubs=[];attach(e){const t=super.attach.bind(this),n=`${this.filterToLog()}.attach()`;this.filterSyncer.sync(n,async()=>{t(e),this.column||(this.columnName?this.column=this.dataFrame.getCol(this.columnName):this.column=e.columns.bySemType(o.SEMTYPE.MACROMOLECULE)),this.seqHelper.getSeqHandler(this.column),this.columnName??=this.column?.name,this.notation??=this.column?.meta.units,this.bioFilter=this.notation===c.Hi.FASTA?new S:this.notation===c.Hi.SEPARATOR?new M(this.column.getTag(c.gp.separator)):new v(this.seqHelper),this.root.appendChild(this.bioFilter.filterPanel),this.root.appendChild(this.loader),await this.bioFilter.attach(),this.viewSubs.push(o.debounce(this.bioFilter.onChanged,this.debounceTime).subscribe(this.bioFilterOnChangedDebounced.bind(this))),this.viewSubs.push(r.events.onResetFilterRequest.subscribe(this.grokEventsOnResetFilterRequest.bind(this))),this.viewSubs.push(r.events.onCustomEvent(T).subscribe(this.filterOnSync.bind(this)))})}detach(){const e=super.detach.bind(this),t=`${this.filterToLog()}.detach()`;this.filterSyncer.sync(t,async()=>{for(const e of this.viewSubs)e.unsubscribe();this.viewSubs=[],e(),this.bioFilter&&this.bioFilter.detach(),this.bioFilter=null})}filterOnSync(e){e.filterId!==this.filterId&&e.dataFrameId===this.dataFrame.id&&e.columnName===this.columnName&&(this.bioFilter.props=e.props)}applyFilter(){const e=`${this.filterToLog()}.applyFilter()`;this.logger.debug(`${e}, IN`),this.bitset&&!this.isDetached&&this.dataFrame?.filter.and(this.bitset)}saveState(){const e=`${this.filterToLog()}.saveState()`,t=super.saveState();return this.logger.debug(`${e}, super.state = ${JSON.stringify(t)}`),t.props=this.bioFilter.saveProps(),t}applyState(e){const t=`${this.filterToLog()}.applyState()`;super.applyState(e),this.filterSyncer.sync(t,async()=>{e.props&&this.bioFilter&&(this.bioFilter.props=o.toJs(e.props??{}))})}fireFilterSync(){const e=`${this.filterToLog()}.fireFilterSync()`;this.logger.debug(`${e}, bioFilter = ${this.bioFilter?this.bioFilter.constructor.name:"null"}`+(this.bioFilter?`, props = ${JSON.stringify(this.bioFilter.saveProps())}`:"")),r.events.fireCustomEvent(T,new C(this.bioFilter.props,this.filterId,this.dataFrame.id,this.columnName,this.bitset))}bioFilterOnChangedDebounced(){if(!this.dataFrame)return;const e=`${this.filterToLog()}.bioFilterOnChangedDebounced()`;if(this.logger.debug(`${e}, start, isFiltering = ${this.isFiltering}, props = ${JSON.stringify(this.bioFilter.saveProps())}`),!this.isFiltering)return this.bitset=null,void this.dataFrame.rows.requestFilter();a()(this.dataFrame.rows.filters).has(`${this.columnName}: ${this.filterSummary}`)||this.filterSyncer.sync(e,async()=>{this.calculating=!0;try{this.logger.debug(`${e}, before substructureSearch`),this.bitset=await(this.bioFilter?.substructureSearch(this.column)),this.logger.debug(`${e}, after substructureSearch`),this.calculating=!1,this.fireFilterSync(),this.dataFrame?.rows.requestFilter()}finally{this.calculating=!1,this.logger.debug(`${e}, end`)}})}grokEventsOnResetFilterRequest(){const e=`${this.filterToLog()}.grokEventsOnResetFilterRequest()`;this.logger.debug(`${e}`),this.bioFilter?.resetFilter()}_onRendered=new l.Subject;get onRendered(){return this._onRendered}invalidate(e){const t=`${this.filterToLog()}.invalidate(${e?` <- ${e} `:""})`;this.filterSyncer.sync(t,async()=>{this._onRendered.next()})}async awaitRendered(e=1e4){const t=`awaitRendered( ${e} )`,n=`${this.filterToLog()}.${t}`;await(0,u.cb)(10),await(0,u.PE)(this.onRendered,()=>{this.logger.debug(`${n}, _onRendered event caught`)},()=>{this.invalidate(t)},e,`${n} timeout`);const i=this.filterSyncer.resetErrors();if(i.length>0)throw i[0]}}class S extends m.O{emptyProps=new m.n("",void 0,w._package.logger);substructureInput;get type(){return"FastaBioFilter"}constructor(){super(),this.substructureInput=i.input.string("",{value:"",onValueChanged:e=>{window.setTimeout(()=>{this.props=new m.n(e,void 0,w._package.logger),this._propsChanging||this.onChanged.next()},0)},placeholder:"Substructure"})}applyProps(){this.substructureInput.value!==this.props.substructure&&(this.substructureInput.value=this.props.substructure)}get filterPanel(){return this.substructureInput.root}get isFiltering(){return""!==this.substructureInput.value}async substructureSearch(e){return(0,d.nI)(this.props.substructure,e)}async attach(){}async detach(){await super.detach()}}class M extends m.O{emptyProps=new A("",void 0,w._package.logger);substructureInput;separatorInput;colSeparator="";get type(){return"SeparatorBioFilter"}constructor(e){super(),this.substructureInput=i.input.string("",{value:"",onValueChanged:e=>{this.props=new A(e,this.props.separator,w._package.logger),setTimeout(()=>{this._propsChanging||this.onChanged.next()})},placeholder:"Substructure"}),this.separatorInput=i.input.string("",{value:this.colSeparator=e,onValueChanged:e=>{const t=e||"";this.props=new A(this.props.substructure,t,w._package.logger),setTimeout(()=>{this._propsChanging||this.onChanged.next()})},placeholder:"Separator"})}applyProps(){this.substructureInput.value!==this.props.substructure&&(this.substructureInput.value=this.props.substructure);const e=this.props.separator??this.colSeparator;this.separatorInput.value!==e&&(this.separatorInput.value=e)}get filterSummary(){return this.props.separator?this.props.separator:this.colSeparator,`${this.props.substructure}, {sep}`}get isFiltering(){return""!==this.props.substructure}resetFilter(){this.props=new A("",void 0,w._package.logger)}get filterPanel(){return i.divV([this.substructureInput.root,this.separatorInput.root])}get substructure(){return this.separatorInput.value&&this.separatorInput.value!==this.colSeparator?this.substructureInput.value.replaceAll(this.separatorInput.value,this.colSeparator):this.substructureInput.value}set substructure(e){this.substructureInput.value=e}async substructureSearch(e){return(0,d.nI)(this.substructure,e,this.colSeparator)}async attach(){}async detach(){await super.detach()}}},1736:e=>{e.exports=function(e){return null!==e&&"object"==typeof e&&"function"==typeof e.addUndirectedEdgeWithKey&&"function"==typeof e.dropNode&&"boolean"==typeof e.multi}},1757:e=>{"use strict";e.exports=$},1782:(e,t)=>{t.assign=function(e){e=e||{};var t,n,i,o=Array.prototype.slice.call(arguments).slice(1);for(t=0,i=o.length;t<i;t++)if(o[t])for(n in o[t])e[n]=o[t][n];return e},t.validateSettings=function(e){return"linLogMode"in e&&"boolean"!=typeof e.linLogMode?{message:"the `linLogMode` setting should be a boolean."}:"outboundAttractionDistribution"in e&&"boolean"!=typeof e.outboundAttractionDistribution?{message:"the `outboundAttractionDistribution` setting should be a boolean."}:"adjustSizes"in e&&"boolean"!=typeof e.adjustSizes?{message:"the `adjustSizes` setting should be a boolean."}:"edgeWeightInfluence"in e&&"number"!=typeof e.edgeWeightInfluence?{message:"the `edgeWeightInfluence` setting should be a number."}:!("scalingRatio"in e)||"number"==typeof e.scalingRatio&&e.scalingRatio>=0?"strongGravityMode"in e&&"boolean"!=typeof e.strongGravityMode?{message:"the `strongGravityMode` setting should be a boolean."}:!("gravity"in e)||"number"==typeof e.gravity&&e.gravity>=0?"slowDown"in e&&!("number"==typeof e.slowDown||e.slowDown>=0)?{message:"the `slowDown` setting should be a number >= 0."}:"barnesHutOptimize"in e&&"boolean"!=typeof e.barnesHutOptimize?{message:"the `barnesHutOptimize` setting should be a boolean."}:!("barnesHutTheta"in e)||"number"==typeof e.barnesHutTheta&&e.barnesHutTheta>=0?null:{message:"the `barnesHutTheta` setting should be a number >= 0."}:{message:"the `gravity` setting should be a number >= 0."}:{message:"the `scalingRatio` setting should be a number >= 0."}},t.graphToByteArrays=function(e,t){var n,i=e.order,o=e.size,r={},s=new Float32Array(10*i),a=new Float32Array(3*o);return n=0,e.forEachNode(function(e,t){r[e]=n,s[n]=t.x,s[n+1]=t.y,s[n+2]=0,s[n+3]=0,s[n+4]=0,s[n+5]=0,s[n+6]=1,s[n+7]=1,s[n+8]=t.size||1,s[n+9]=t.fixed?1:0,n+=10}),n=0,e.forEachEdge(function(e,i,o,l,c,u,h){var d=r[o],m=r[l],p=t(e,i,o,l,c,u,h);s[d+6]+=p,s[m+6]+=p,a[n]=d,a[n+1]=m,a[n+2]=p,n+=3}),{nodes:s,edges:a}},t.assignLayoutChanges=function(e,t,n){var i=0;e.updateEachNodeAttributes(function(e,o){return o.x=t[i],o.y=t[i+1],i+=10,n?n(e,o):o})},t.readGraphPositions=function(e,t){var n=0;e.forEachNode(function(e,i){t[n]=i.x,t[n+1]=i.y,n+=10})},t.collectLayoutChanges=function(e,t,n){for(var i=e.nodes(),o={},r=0,s=0,a=t.length;r<a;r+=10){if(n){var l=Object.assign({},e.getNodeAttributes(i[s]));l.x=t[r],l.y=t[r+1],l=n(i[s],l),o[i[s]]={x:l.x,y:l.y}}else o[i[s]]={x:t[r],y:t[r+1]};s++}return o},t.createWorker=function(e){var t=window.URL||window.webkitURL,n=e.toString(),i=t.createObjectURL(new Blob(["("+n+").call(this);"],{type:"text/javascript"})),o=new Worker(i);return t.revokeObjectURL(i),o}},1846:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(3025),o={keyword:"dependentRequired",type:"object",schemaType:"object",error:i.error,code:e=>(0,i.validatePropertyDeps)(e)};t.default=o},1858:e=>{"use strict";e.exports=rxjs},1913:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(3282),o=n(9029),r=n(1520),s=n(2586),a=n(8708),l=n(2023),c="errorMessage",u=new i.Name("emUsed"),h={required:"missingProperty",dependencies:"property",dependentRequired:"property"},d=/\$\{[^}]+\}/,m=/\$\{([^}]+)\}/g,p=/^""\s*\+\s*|\s*\+\s*""$/g;const g=(e,t={})=>{if(!e.opts.allErrors)throw new Error("ajv-errors: Ajv option allErrors must be true");if(e.opts.jsPropertySyntax)throw new Error("ajv-errors: ajv option jsPropertySyntax is not supported");return e.addKeyword(function(e){return{keyword:c,schemaType:["string","object"],post:!0,code(t){const{gen:n,data:g,schema:f,schemaValue:y,it:b}=t;if(!1===b.createErrors)return;const w=f,v=o.strConcat(l.default.instancePath,b.errorPath);function T(e,t){return o.and(i._`${e}.keyword !== ${c}`,i._`!${e}.${u}`,i._`${e}.instancePath === ${v}`,i._`${e}.keyword in ${t}`,i._`${e}.schemaPath.indexOf(${b.errSchemaPath}) === 0`,i._`/^\\/[^\\/]*$/.test(${e}.schemaPath.slice(${b.errSchemaPath.length}))`)}function C(e,t){const i=[];for(const n in e){const e=t[n];d.test(e)&&i.push([n,E(e)])}return n.object(...i)}function A(e){return d.test(e)?new r._Code(r.safeStringify(e).replace(m,(e,t)=>`" + JSON.stringify(${s.getData(t,b)}) + "`).replace(p,"")):i.stringify(e)}function E(e){return i._`function(){return ${A(e)}}`}n.if(i._`${l.default.errors} > 0`,()=>{if("object"==typeof w){const[r,s]=function(e){let t,n;for(const i in e){if("properties"===i||"items"===i)continue;const o=e[i];if("object"==typeof o){t||(t={});const e=t[i]={};for(const t in o)e[t]=[]}else n||(n={}),n[i]=[]}return[t,n]}(w);s&&function(o){const r=n.const("emErrors",i.stringify(o)),s=n.const("templates",C(o,f));n.forOf("err",l.default.vErrors,e=>n.if(T(e,r),()=>n.code(i._`${r}[${e}.keyword].push(${e})`).assign(i._`${e}.${u}`,!0)));const{singleError:c}=e;if(c){const e=n.let("message",i._`""`),o=n.let("paramsErrors",i._`[]`);h(t=>{n.if(e,()=>n.code(i._`${e} += ${"string"==typeof c?c:";"}`)),n.code(i._`${e} += ${d(t)}`),n.assign(o,i._`${o}.concat(${r}[${t}])`)}),a.reportError(t,{message:e,params:i._`{errors: ${o}}`})}else h(e=>a.reportError(t,{message:d(e),params:i._`{errors: ${r}[${e}]}`}));function h(e){n.forIn("key",r,t=>n.if(i._`${r}[${t}].length`,()=>e(t)))}function d(e){return i._`${e} in ${s} ? ${s}[${e}]() : ${y}[${e}]`}}(s),r&&function(e){const o=n.const("emErrors",i.stringify(e)),r=[];for(const t in e)r.push([t,C(e[t],f[t])]);const s=n.const("templates",n.object(...r)),c=n.scopeValue("obj",{ref:h,code:i.stringify(h)}),d=n.let("emPropParams"),m=n.let("emParamsErrors");n.forOf("err",l.default.vErrors,e=>n.if(T(e,o),()=>{n.assign(d,i._`${c}[${e}.keyword]`),n.assign(m,i._`${o}[${e}.keyword][${e}.params[${d}]]`),n.if(m,()=>n.code(i._`${m}.push(${e})`).assign(i._`${e}.${u}`,!0))})),n.forIn("key",o,e=>n.forIn("keyProp",i._`${o}[${e}]`,r=>{n.assign(m,i._`${o}[${e}][${r}]`),n.if(i._`${m}.length`,()=>{const o=n.const("tmpl",i._`${s}[${e}] && ${s}[${e}][${r}]`);a.reportError(t,{message:i._`${o} ? ${o}() : ${y}[${e}][${r}]`,params:i._`{errors: ${m}}`})})}))}(r),function(e){const{props:r,items:s}=e;if(!r&&!s)return;const h=i._`typeof ${g} == "object"`,d=i._`Array.isArray(${g})`,m=n.let("emErrors");let p,b;const w=n.let("templates");function T(e,t){n.assign(m,i.stringify(e)),n.assign(w,C(e,t))}r&&s?(p=n.let("emChildKwd"),n.if(h),n.if(d,()=>{T(s,f.items),n.assign(p,i.str`items`)},()=>{T(r,f.properties),n.assign(p,i.str`properties`)}),b=i._`[${p}]`):s?(n.if(d),T(s,f.items),b=i._`.items`):r&&(n.if(o.and(h,o.not(d))),T(r,f.properties),b=i._`.properties`),n.forOf("err",l.default.vErrors,e=>function(e,t,r){n.if(o.and(i._`${e}.keyword !== ${c}`,i._`!${e}.${u}`,i._`${e}.instancePath.indexOf(${v}) === 0`),()=>{const o=n.scopeValue("pattern",{ref:/^\/([^/]*)(?:\/|$)/,code:i._`new RegExp("^\\\/([^/]*)(?:\\\/|$)")`}),s=n.const("emMatches",i._`${o}.exec(${e}.instancePath.slice(${v}.length))`),a=n.const("emChild",i._`${s} && ${s}[1].replace(/~1/g, "/").replace(/~0/g, "~")`);n.if(i._`${a} !== undefined && ${a} in ${t}`,()=>r(a))})}(e,m,t=>n.code(i._`${m}[${t}].push(${e})`).assign(i._`${e}.${u}`,!0))),n.forIn("key",m,e=>n.if(i._`${m}[${e}].length`,()=>{a.reportError(t,{message:i._`${e} in ${w} ? ${w}[${e}]() : ${y}${b}[${e}]`,params:i._`{errors: ${m}[${e}]}`}),n.assign(i._`${l.default.vErrors}[${l.default.errors}-1].instancePath`,i._`${v} + "/" + ${e}.replace(/~/g, "~0").replace(/\\//g, "~1")`)})),n.endIf()}(function({properties:e,items:t}){const n={};if(e){n.props={};for(const t in e)n.props[t]=[]}if(t){n.items={};for(let e=0;e<t.length;e++)n.items[e]=[]}return n}(w))}const r="string"==typeof w?w:w._;r&&function(e){const r=n.const("emErrs",i._`[]`);n.forOf("err",l.default.vErrors,e=>n.if(function(e){return o.and(i._`${e}.keyword !== ${c}`,i._`!${e}.${u}`,o.or(i._`${e}.instancePath === ${v}`,o.and(i._`${e}.instancePath.indexOf(${v}) === 0`,i._`${e}.instancePath[${v}.length] === "/"`)),i._`${e}.schemaPath.indexOf(${b.errSchemaPath}) === 0`,i._`${e}.schemaPath[${b.errSchemaPath}.length] === "/"`)}(e),()=>n.code(i._`${r}.push(${e})`).assign(i._`${e}.${u}`,!0))),n.if(i._`${r}.length`,()=>a.reportError(t,{message:A(e),params:i._`{errors: ${r}}`}))}(r),e.keepErrors||function(){const e=n.const("emErrs",i._`[]`);n.forOf("err",l.default.vErrors,t=>n.if(i._`!${t}.${u}`,()=>n.code(i._`${e}.push(${t})`))),n.assign(l.default.vErrors,e).assign(l.default.errors,i._`${e}.length`)}()})},metaSchema:{anyOf:[{type:"string"},{type:"object",properties:{properties:{$ref:"#/$defs/stringMap"},items:{$ref:"#/$defs/stringList"},required:{$ref:"#/$defs/stringOrMap"},dependencies:{$ref:"#/$defs/stringOrMap"}},additionalProperties:{type:"string"}}],$defs:{stringMap:{type:"object",additionalProperties:{type:"string"}},stringOrMap:{anyOf:[{type:"string"},{$ref:"#/$defs/stringMap"}]},stringList:{type:"array",items:{type:"string"}}}}}}(t))};t.default=g,e.exports=g,e.exports.default=g},1991:e=>{"use strict";e.exports=wu},2003:(e,t,n)=>{"use strict";n.d(t,{Hi:()=>i.Hi,J9:()=>o.J9,Qf:()=>o.Qf,SM:()=>o.SM,YI:()=>i.YI,dh:()=>o.dh,gp:()=>i.gp,mn:()=>o.mn,nq:()=>o.nq,q7:()=>i.q7,qp:()=>o.qp,z1:()=>i.z1,zS:()=>o.zS});var i=n(439),o=n(7278)},2017:e=>{"use strict";e.exports=function e(t,n){if(t===n)return!0;if(t&&n&&"object"==typeof t&&"object"==typeof n){if(t.constructor!==n.constructor)return!1;var i,o,r;if(Array.isArray(t)){if((i=t.length)!=n.length)return!1;for(o=i;0!==o--;)if(!e(t[o],n[o]))return!1;return!0}if(t.constructor===RegExp)return t.source===n.source&&t.flags===n.flags;if(t.valueOf!==Object.prototype.valueOf)return t.valueOf()===n.valueOf();if(t.toString!==Object.prototype.toString)return t.toString()===n.toString();if((i=(r=Object.keys(t)).length)!==Object.keys(n).length)return!1;for(o=i;0!==o--;)if(!Object.prototype.hasOwnProperty.call(n,r[o]))return!1;for(o=i;0!==o--;){var s=r[o];if(!e(t[s],n[s]))return!1}return!0}return t!=t&&n!=n}},2023:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={data:new i.Name("data"),valCxt:new i.Name("valCxt"),instancePath:new i.Name("instancePath"),parentData:new i.Name("parentData"),parentDataProperty:new i.Name("parentDataProperty"),rootData:new i.Name("rootData"),dynamicAnchors:new i.Name("dynamicAnchors"),vErrors:new i.Name("vErrors"),errors:new i.Name("errors"),this:new i.Name("this"),self:new i.Name("self"),scope:new i.Name("scope"),json:new i.Name("json"),jsonPos:new i.Name("jsonPos"),jsonLen:new i.Name("jsonLen"),jsonPart:new i.Name("jsonPart")};t.default=o},2079:e=>{"use strict";e.exports=JSON.parse('{"$schema":"http://json-schema.org/draft-07/schema#","$id":"http://json-schema.org/draft-07/schema#","title":"Core schema meta-schema","definitions":{"schemaArray":{"type":"array","minItems":1,"items":{"$ref":"#"}},"nonNegativeInteger":{"type":"integer","minimum":0},"nonNegativeIntegerDefault0":{"allOf":[{"$ref":"#/definitions/nonNegativeInteger"},{"default":0}]},"simpleTypes":{"enum":["array","boolean","integer","null","number","object","string"]},"stringArray":{"type":"array","items":{"type":"string"},"uniqueItems":true,"default":[]}},"type":["object","boolean"],"properties":{"$id":{"type":"string","format":"uri-reference"},"$schema":{"type":"string","format":"uri"},"$ref":{"type":"string","format":"uri-reference"},"$comment":{"type":"string"},"title":{"type":"string"},"description":{"type":"string"},"default":true,"readOnly":{"type":"boolean","default":false},"examples":{"type":"array","items":true},"multipleOf":{"type":"number","exclusiveMinimum":0},"maximum":{"type":"number"},"exclusiveMaximum":{"type":"number"},"minimum":{"type":"number"},"exclusiveMinimum":{"type":"number"},"maxLength":{"$ref":"#/definitions/nonNegativeInteger"},"minLength":{"$ref":"#/definitions/nonNegativeIntegerDefault0"},"pattern":{"type":"string","format":"regex"},"additionalItems":{"$ref":"#"},"items":{"anyOf":[{"$ref":"#"},{"$ref":"#/definitions/schemaArray"}],"default":true},"maxItems":{"$ref":"#/definitions/nonNegativeInteger"},"minItems":{"$ref":"#/definitions/nonNegativeIntegerDefault0"},"uniqueItems":{"type":"boolean","default":false},"contains":{"$ref":"#"},"maxProperties":{"$ref":"#/definitions/nonNegativeInteger"},"minProperties":{"$ref":"#/definitions/nonNegativeIntegerDefault0"},"required":{"$ref":"#/definitions/stringArray"},"additionalProperties":{"$ref":"#"},"definitions":{"type":"object","additionalProperties":{"$ref":"#"},"default":{}},"properties":{"type":"object","additionalProperties":{"$ref":"#"},"default":{}},"patternProperties":{"type":"object","additionalProperties":{"$ref":"#"},"propertyNames":{"format":"regex"},"default":{}},"dependencies":{"type":"object","additionalProperties":{"anyOf":[{"$ref":"#"},{"$ref":"#/definitions/stringArray"}]}},"propertyNames":{"$ref":"#"},"const":true,"enum":{"type":"array","items":true,"minItems":1,"uniqueItems":true},"type":{"anyOf":[{"$ref":"#/definitions/simpleTypes"},{"type":"array","items":{"$ref":"#/definitions/simpleTypes"},"minItems":1,"uniqueItems":true}]},"format":{"type":"string"},"contentMediaType":{"type":"string"},"contentEncoding":{"type":"string"},"if":{"$ref":"#"},"then":{"$ref":"#"},"else":{"$ref":"#"},"allOf":{"$ref":"#/definitions/schemaArray"},"anyOf":{"$ref":"#/definitions/schemaArray"},"oneOf":{"$ref":"#/definitions/schemaArray"},"not":{"$ref":"#"}},"default":true}')},2094:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r={keyword:"propertyNames",type:"object",schemaType:["object","boolean"],error:{message:"property name must be valid",params:({params:e})=>i._`{propertyName: ${e.propertyName}}`},code(e){const{gen:t,schema:n,data:r,it:s}=e;if((0,o.alwaysValidSchema)(s,n))return;const a=t.name("valid");t.forIn("key",r,n=>{e.setParams({propertyName:n}),e.subschema({keyword:"propertyNames",data:n,dataTypes:["string"],propertyName:n,compositeRule:!0},a),t.if((0,i.not)(a),()=>{e.error(!0),s.allErrors||t.break()})}),e.ok(a)}};t.default=r},2128:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(3463),o=n(3693),r=["$schema","$id","$defs","$vocabulary",{keyword:"$comment"},"definitions",i.default,o.default];t.default=r},2476:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.dynamicAnchor=void 0;const i=n(9029),o=n(2023),r=n(3835),s=n(3693),a={keyword:"$dynamicAnchor",schemaType:"string",code:e=>l(e,e.schema)};function l(e,t){const{gen:n,it:a}=e;a.schemaEnv.root.dynamicAnchors[t]=!0;const l=i._`${o.default.dynamicAnchors}${(0,i.getProperty)(t)}`,c="#"===a.errSchemaPath?a.validateName:function(e){const{schemaEnv:t,schema:n,self:i}=e.it,{root:o,baseId:a,localRefs:l,meta:c}=t.root,{schemaId:u}=i.opts,h=new r.SchemaEnv({schema:n,schemaId:u,root:o,baseId:a,localRefs:l,meta:c});return r.compileSchema.call(i,h),(0,s.getValidate)(e,h)}(e);n.if(i._`!${l}`,()=>n.assign(l,c))}t.dynamicAnchor=l,t.default=a},2561:e=>{var t=10;e.exports=function(e,n,i){var o,r,s,a,l,c,u,h,d,m,p,g,f,y,b,w,v,T,C,A,E,S,M,P=n.length,_=i.length,I=e.adjustSizes,L=e.barnesHutTheta*e.barnesHutTheta,x=[];for(s=0;s<P;s+=t)n[s+4]=n[s+2],n[s+5]=n[s+3],n[s+2]=0,n[s+3]=0;if(e.outboundAttractionDistribution){for(p=0,s=0;s<P;s+=t)p+=n[s+6];p/=P/t}if(e.barnesHutOptimize){var N,R,$,H=1/0,O=-1/0,D=1/0,k=-1/0;for(s=0;s<P;s+=t)H=Math.min(H,n[s+0]),O=Math.max(O,n[s+0]),D=Math.min(D,n[s+1]),k=Math.max(k,n[s+1]);var F=O-H,G=k-D;for(F>G?k=(D-=(F-G)/2)+F:O=(H-=(G-F)/2)+G,x[0]=-1,x[1]=(H+O)/2,x[2]=(D+k)/2,x[3]=Math.max(O-H,k-D),x[4]=-1,x[5]=-1,x[6]=0,x[7]=0,x[8]=0,o=1,s=0;s<P;s+=t)for(r=0,$=3;;){if(!(x[r+5]>=0)){if(x[r+0]<0){x[r+0]=s;break}if(x[r+5]=9*o,h=x[r+3]/2,x[(d=x[r+5])+0]=-1,x[d+1]=x[r+1]-h,x[d+2]=x[r+2]-h,x[d+3]=h,x[d+4]=d+9,x[d+5]=-1,x[d+6]=0,x[d+7]=0,x[d+8]=0,x[(d+=9)+0]=-1,x[d+1]=x[r+1]-h,x[d+2]=x[r+2]+h,x[d+3]=h,x[d+4]=d+9,x[d+5]=-1,x[d+6]=0,x[d+7]=0,x[d+8]=0,x[(d+=9)+0]=-1,x[d+1]=x[r+1]+h,x[d+2]=x[r+2]-h,x[d+3]=h,x[d+4]=d+9,x[d+5]=-1,x[d+6]=0,x[d+7]=0,x[d+8]=0,x[(d+=9)+0]=-1,x[d+1]=x[r+1]+h,x[d+2]=x[r+2]+h,x[d+3]=h,x[d+4]=x[r+4],x[d+5]=-1,x[d+6]=0,x[d+7]=0,x[d+8]=0,o+=4,N=n[x[r+0]+0]<x[r+1]?n[x[r+0]+1]<x[r+2]?x[r+5]:x[r+5]+9:n[x[r+0]+1]<x[r+2]?x[r+5]+18:x[r+5]+27,x[r+6]=n[x[r+0]+6],x[r+7]=n[x[r+0]+0],x[r+8]=n[x[r+0]+1],x[N+0]=x[r+0],x[r+0]=-1,N===(R=n[s+0]<x[r+1]?n[s+1]<x[r+2]?x[r+5]:x[r+5]+9:n[s+1]<x[r+2]?x[r+5]+18:x[r+5]+27)){if($--){r=N;continue}$=3;break}x[R+0]=s;break}N=n[s+0]<x[r+1]?n[s+1]<x[r+2]?x[r+5]:x[r+5]+9:n[s+1]<x[r+2]?x[r+5]+18:x[r+5]+27,x[r+7]=(x[r+7]*x[r+6]+n[s+0]*n[s+6])/(x[r+6]+n[s+6]),x[r+8]=(x[r+8]*x[r+6]+n[s+1]*n[s+6])/(x[r+6]+n[s+6]),x[r+6]+=n[s+6],r=N}}if(e.barnesHutOptimize){for(g=e.scalingRatio,s=0;s<P;s+=t)for(r=0;;)if(x[r+5]>=0){if(w=Math.pow(n[s+0]-x[r+7],2)+Math.pow(n[s+1]-x[r+8],2),4*(m=x[r+3])*m/w<L){if(f=n[s+0]-x[r+7],y=n[s+1]-x[r+8],!0===I?w>0?(v=g*n[s+6]*x[r+6]/w,n[s+2]+=f*v,n[s+3]+=y*v):w<0&&(v=-g*n[s+6]*x[r+6]/Math.sqrt(w),n[s+2]+=f*v,n[s+3]+=y*v):w>0&&(v=g*n[s+6]*x[r+6]/w,n[s+2]+=f*v,n[s+3]+=y*v),(r=x[r+4])<0)break;continue}r=x[r+5]}else if((c=x[r+0])>=0&&c!==s&&(w=(f=n[s+0]-n[c+0])*f+(y=n[s+1]-n[c+1])*y,!0===I?w>0?(v=g*n[s+6]*n[c+6]/w,n[s+2]+=f*v,n[s+3]+=y*v):w<0&&(v=-g*n[s+6]*n[c+6]/Math.sqrt(w),n[s+2]+=f*v,n[s+3]+=y*v):w>0&&(v=g*n[s+6]*n[c+6]/w,n[s+2]+=f*v,n[s+3]+=y*v)),(r=x[r+4])<0)break}else for(g=e.scalingRatio,a=0;a<P;a+=t)for(l=0;l<a;l+=t)f=n[a+0]-n[l+0],y=n[a+1]-n[l+1],!0===I?(w=Math.sqrt(f*f+y*y)-n[a+8]-n[l+8])>0?(v=g*n[a+6]*n[l+6]/w/w,n[a+2]+=f*v,n[a+3]+=y*v,n[l+2]-=f*v,n[l+3]-=y*v):w<0&&(v=100*g*n[a+6]*n[l+6],n[a+2]+=f*v,n[a+3]+=y*v,n[l+2]-=f*v,n[l+3]-=y*v):(w=Math.sqrt(f*f+y*y))>0&&(v=g*n[a+6]*n[l+6]/w/w,n[a+2]+=f*v,n[a+3]+=y*v,n[l+2]-=f*v,n[l+3]-=y*v);for(d=e.gravity/e.scalingRatio,g=e.scalingRatio,s=0;s<P;s+=t)v=0,f=n[s+0],y=n[s+1],w=Math.sqrt(Math.pow(f,2)+Math.pow(y,2)),e.strongGravityMode?w>0&&(v=g*n[s+6]*d):w>0&&(v=g*n[s+6]*d/w),n[s+2]-=f*v,n[s+3]-=y*v;for(g=1*(e.outboundAttractionDistribution?p:1),u=0;u<_;u+=3)a=i[u+0],l=i[u+1],h=i[u+2],b=Math.pow(h,e.edgeWeightInfluence),f=n[a+0]-n[l+0],y=n[a+1]-n[l+1],!0===I?(w=Math.sqrt(f*f+y*y)-n[a+8]-n[l+8],e.linLogMode?e.outboundAttractionDistribution?w>0&&(v=-g*b*Math.log(1+w)/w/n[a+6]):w>0&&(v=-g*b*Math.log(1+w)/w):e.outboundAttractionDistribution?w>0&&(v=-g*b/n[a+6]):w>0&&(v=-g*b)):(w=Math.sqrt(Math.pow(f,2)+Math.pow(y,2)),e.linLogMode?e.outboundAttractionDistribution?w>0&&(v=-g*b*Math.log(1+w)/w/n[a+6]):w>0&&(v=-g*b*Math.log(1+w)/w):e.outboundAttractionDistribution?(w=1,v=-g*b/n[a+6]):(w=1,v=-g*b)),w>0&&(n[a+2]+=f*v,n[a+3]+=y*v,n[l+2]-=f*v,n[l+3]-=y*v);if(!0===I)for(s=0;s<P;s+=t)1!==n[s+9]&&((T=Math.sqrt(Math.pow(n[s+2],2)+Math.pow(n[s+3],2)))>10&&(n[s+2]=10*n[s+2]/T,n[s+3]=10*n[s+3]/T),C=n[s+6]*Math.sqrt((n[s+4]-n[s+2])*(n[s+4]-n[s+2])+(n[s+5]-n[s+3])*(n[s+5]-n[s+3])),A=Math.sqrt((n[s+4]+n[s+2])*(n[s+4]+n[s+2])+(n[s+5]+n[s+3])*(n[s+5]+n[s+3]))/2,E=.1*Math.log(1+A)/(1+Math.sqrt(C)),S=n[s+0]+n[s+2]*(E/e.slowDown),n[s+0]=S,M=n[s+1]+n[s+3]*(E/e.slowDown),n[s+1]=M);else for(s=0;s<P;s+=t)1!==n[s+9]&&(C=n[s+6]*Math.sqrt((n[s+4]-n[s+2])*(n[s+4]-n[s+2])+(n[s+5]-n[s+3])*(n[s+5]-n[s+3])),A=Math.sqrt((n[s+4]+n[s+2])*(n[s+4]+n[s+2])+(n[s+5]+n[s+3])*(n[s+5]+n[s+3]))/2,E=n[s+7]*Math.log(1+A)/(1+Math.sqrt(C)),n[s+7]=Math.min(1,Math.sqrt(E*(Math.pow(n[s+2],2)+Math.pow(n[s+3],2))/(1+Math.sqrt(C)))),S=n[s+0]+n[s+2]*(E/e.slowDown),n[s+0]=S,M=n[s+1]+n[s+3]*(E/e.slowDown),n[s+1]=M);return{}}},2582:(e,t,n)=>{"use strict";n.d(t,{f:()=>a});var i=n(6956);class o{constructor(e){const t=e.split(i.x).filter(e=>e);t.forEach(e=>this.validateConnectionItem(e)),this.connectionItems=t}connectionItems;validateConnectionItem(e){const t="(PEPTIDE|RNA|CHEM|BLOB)",n=new RegExp(`${t}[0-9]+,${t}[0-9]+,[0-9]+:R[0-9]+-[0-9]+:R[0-9]+`,"g");if(!e.match(n))throw new Error(`Cannot parse connection item from ${e}`)}getConnectionData(){const e=[];return this.connectionItems.forEach(t=>{const n=[],i=t.split(",");i[2].split("-").forEach((e,t)=>{const o=i[t],r=e.split(":"),s={monomerIdx:parseInt(r[0])-1,rGroupId:parseInt(r[1].slice(1))};n.push({polymerId:o,bond:s})}),e.push(n)}),e}}var r=n(8438);class s{simplePolymer;isNucleotideSequence=!1;constructor(e){this.simplePolymer=e,this.polymerType=this.getPolymerType(),this.isNucleotideSequence="RNA"===this.polymerType,this.idx=this.getIdx();const{monomers:t,monomerTypes:n}=this.getMonomerSymbolsAndTypes();this.monomers=t,this.monomerTypes=n}polymerType;monomers;idx;monomerTypes;get id(){return this.polymerType+this.idx.toString()}getPolymerType(){const e=new RegExp("(PEPTIDE|RNA|CHEM|BLOB)[0-9]+{"),t=this.simplePolymer.match(e);if(!t)throw new Error(`Unsupported polymer type in ${this.simplePolymer}`);return t[1]}getIdx(){const e=new RegExp(`${this.polymerType}([0-9]+){`),t=this.simplePolymer.match(e);if(!t)throw new Error(`Cannot parse simple polymer id from ${this.simplePolymer}`);return parseInt(t[1])}getMonomerSymbolsAndTypes(){const e=new RegExp(`${this.polymerType}${this.idx}{|}`,"g"),t=this.simplePolymer.replace(e,"").split("."),n=[],i=[];return t.forEach(e=>{if(this.isNucleotideSequence){const t=e.split(/\(|\)/).filter(e=>!!e).map(e=>(0,r.D)(e));n.push(...t),t.forEach((e,t)=>i.push(t%3==1?"Branch":"Backbone"))}else n.push((0,r.D)(e)),i.push("Backbone")}),{monomers:n,monomerTypes:i}}getBondData(){const e=[],t=this.monomerTypes.map((e,t)=>{if("Backbone"===e)return t}).filter(e=>void 0!==e),n=this.monomerTypes.map((e,t)=>{if("Branch"===e)return t}).filter(e=>void 0!==e);for(let n=0;n<t.length-1;n++){const i=t[n],o=t[n+1];e.push([{monomerIdx:i,rGroupId:2},{monomerIdx:o,rGroupId:1}])}for(let t=0;t<n.length;t++){const i=n[t],o=i-1;e.push([{monomerIdx:o,rGroupId:3},{monomerIdx:i,rGroupId:1}])}return e}}class a{helmString;constructor(e){this.helmString=e;const t=e.indexOf("}$"),n=e.substring(0,t+1),i=e.indexOf("$",t+2),r=e.substring(t+2,i),a=n.split("}|");for(let e=0;e<a.length-1;e++)a[e]=a[e]+"}";this.simplePolymers=a.map(e=>new s(e)),this.connectionList=new o(r),this.bondData=this.getBondData(),this.bondedRGroupsMap=this.getBondedRGroupsMap()}bondData;simplePolymers;connectionList;bondedRGroupsMap;getBondedRGroupsMap(){const e=this.simplePolymers.map(e=>e.monomers.length).reduce((e,t)=>e+t,0),t=Array.from({length:e},()=>[]);return this.bondData.forEach(e=>{e.forEach(e=>{const n=e.monomerIdx,i=e.rGroupId;t[n].push(i)})}),t}toString(){return this.helmString}getPolymerTypeByMonomerIdx(e){return this.getSimplePolymerByMonomerIdx(e).polymerType}getSimplePolymerByMonomerIdx(e){const t=this.getMonomerIdxShifts(),n=Object.values(t).sort((e,t)=>t-e).find(t=>e>=t);if(null==n)throw new Error(`Cannot find simple polymer for monomer ${e}`);const i=Object.keys(t).find(e=>t[e]===n);return this.simplePolymers.find(e=>e.id===i)}shiftBondMonomerIds(e,t){t.forEach(t=>{t.forEach(t=>{t.monomerIdx+=e})})}getMonomerIdxShifts(){const e={};let t=0;return this.simplePolymers.forEach(n=>{e[n.id]=t,t+=n.monomers.length}),e}getBondData(){const e=this.getMonomerIdxShifts(),t=[];return this.simplePolymers.forEach(n=>{const i=n.getBondData(),o=e[n.id];this.shiftBondMonomerIds(o,i),t.push(...i)}),this.connectionList.getConnectionData().forEach(n=>{const i=[];n.forEach(t=>{const n=e[t.polymerId],o=t.bond;o.monomerIdx+=n,i.push(o)}),t.push(i)}),t}}},2586:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.getData=t.KeywordCxt=t.validateFunctionCode=void 0;const i=n(8727),o=n(208),r=n(7887),s=n(208),a=n(7870),l=n(3673),c=n(4495),u=n(9029),h=n(2023),d=n(6939),m=n(4227),p=n(8708);function g({gen:e,validateName:t,schema:n,schemaEnv:i,opts:o},r){o.code.es5?e.func(t,u._`${h.default.data}, ${h.default.valCxt}`,i.$async,()=>{e.code(u._`"use strict"; ${f(n,o)}`),function(e,t){e.if(h.default.valCxt,()=>{e.var(h.default.instancePath,u._`${h.default.valCxt}.${h.default.instancePath}`),e.var(h.default.parentData,u._`${h.default.valCxt}.${h.default.parentData}`),e.var(h.default.parentDataProperty,u._`${h.default.valCxt}.${h.default.parentDataProperty}`),e.var(h.default.rootData,u._`${h.default.valCxt}.${h.default.rootData}`),t.dynamicRef&&e.var(h.default.dynamicAnchors,u._`${h.default.valCxt}.${h.default.dynamicAnchors}`)},()=>{e.var(h.default.instancePath,u._`""`),e.var(h.default.parentData,u._`undefined`),e.var(h.default.parentDataProperty,u._`undefined`),e.var(h.default.rootData,h.default.data),t.dynamicRef&&e.var(h.default.dynamicAnchors,u._`{}`)})}(e,o),e.code(r)}):e.func(t,u._`${h.default.data}, ${function(e){return u._`{${h.default.instancePath}="", ${h.default.parentData}, ${h.default.parentDataProperty}, ${h.default.rootData}=${h.default.data}${e.dynamicRef?u._`, ${h.default.dynamicAnchors}={}`:u.nil}}={}`}(o)}`,i.$async,()=>e.code(f(n,o)).code(r))}function f(e,t){const n="object"==typeof e&&e[t.schemaId];return n&&(t.code.source||t.code.process)?u._`/*# sourceURL=${n} */`:u.nil}function y({schema:e,self:t}){if("boolean"==typeof e)return!e;for(const n in e)if(t.RULES.all[n])return!0;return!1}function b(e){return"boolean"!=typeof e.schema}function w(e){(0,m.checkUnknownRules)(e),function(e){const{schema:t,errSchemaPath:n,opts:i,self:o}=e;t.$ref&&i.ignoreKeywordsWithRef&&(0,m.schemaHasRulesButRef)(t,o.RULES)&&o.logger.warn(`$ref: keywords ignored in schema at path "${n}"`)}(e)}function v(e,t){if(e.opts.jtd)return C(e,[],!1,t);const n=(0,o.getSchemaTypes)(e.schema);C(e,n,!(0,o.coerceAndCheckDataType)(e,n),t)}function T({gen:e,schemaEnv:t,schema:n,errSchemaPath:i,opts:o}){const r=n.$comment;if(!0===o.$comment)e.code(u._`${h.default.self}.logger.log(${r})`);else if("function"==typeof o.$comment){const n=u.str`${i}/$comment`,o=e.scopeValue("root",{ref:t.root});e.code(u._`${h.default.self}.opts.$comment(${r}, ${n}, ${o}.schema)`)}}function C(e,t,n,i){const{gen:o,schema:a,data:l,allErrors:c,opts:d,self:p}=e,{RULES:g}=p;function f(m){(0,r.shouldUseGroup)(a,m)&&(m.type?(o.if((0,s.checkDataType)(m.type,l,d.strictNumbers)),A(e,m),1===t.length&&t[0]===m.type&&n&&(o.else(),(0,s.reportTypeError)(e)),o.endIf()):A(e,m),c||o.if(u._`${h.default.errors} === ${i||0}`))}!a.$ref||!d.ignoreKeywordsWithRef&&(0,m.schemaHasRulesButRef)(a,g)?(d.jtd||function(e,t){!e.schemaEnv.meta&&e.opts.strictTypes&&(function(e,t){t.length&&(e.dataTypes.length?(t.forEach(t=>{E(e.dataTypes,t)||S(e,`type "${t}" not allowed by context "${e.dataTypes.join(",")}"`)}),function(e,t){const n=[];for(const i of e.dataTypes)E(t,i)?n.push(i):t.includes("integer")&&"number"===i&&n.push("integer");e.dataTypes=n}(e,t)):e.dataTypes=t)}(e,t),e.opts.allowUnionTypes||function(e,t){t.length>1&&(2!==t.length||!t.includes("null"))&&S(e,"use allowUnionTypes to allow union type keyword")}(e,t),function(e,t){const n=e.self.RULES.all;for(const i in n){const o=n[i];if("object"==typeof o&&(0,r.shouldUseRule)(e.schema,o)){const{type:n}=o.definition;n.length&&!n.some(e=>{return i=e,(n=t).includes(i)||"number"===i&&n.includes("integer");var n,i})&&S(e,`missing type "${n.join(",")}" for keyword "${i}"`)}}}(e,e.dataTypes))}(e,t),o.block(()=>{for(const e of g.rules)f(e);f(g.post)})):o.block(()=>P(e,"$ref",g.all.$ref.definition))}function A(e,t){const{gen:n,schema:i,opts:{useDefaults:o}}=e;o&&(0,a.assignDefaults)(e,t.type),n.block(()=>{for(const n of t.rules)(0,r.shouldUseRule)(i,n)&&P(e,n.keyword,n.definition,t.type)})}function E(e,t){return e.includes(t)||"integer"===t&&e.includes("number")}function S(e,t){t+=` at "${e.schemaEnv.baseId+e.errSchemaPath}" (strictTypes)`,(0,m.checkStrictMode)(e,t,e.opts.strictTypes)}t.validateFunctionCode=function(e){b(e)&&(w(e),y(e))?function(e){const{schema:t,opts:n,gen:i}=e;g(e,()=>{n.$comment&&t.$comment&&T(e),function(e){const{schema:t,opts:n}=e;void 0!==t.default&&n.useDefaults&&n.strictSchema&&(0,m.checkStrictMode)(e,"default is ignored in the schema root")}(e),i.let(h.default.vErrors,null),i.let(h.default.errors,0),n.unevaluated&&function(e){const{gen:t,validateName:n}=e;e.evaluated=t.const("evaluated",u._`${n}.evaluated`),t.if(u._`${e.evaluated}.dynamicProps`,()=>t.assign(u._`${e.evaluated}.props`,u._`undefined`)),t.if(u._`${e.evaluated}.dynamicItems`,()=>t.assign(u._`${e.evaluated}.items`,u._`undefined`))}(e),v(e),function(e){const{gen:t,schemaEnv:n,validateName:i,ValidationError:o,opts:r}=e;n.$async?t.if(u._`${h.default.errors} === 0`,()=>t.return(h.default.data),()=>t.throw(u._`new ${o}(${h.default.vErrors})`)):(t.assign(u._`${i}.errors`,h.default.vErrors),r.unevaluated&&function({gen:e,evaluated:t,props:n,items:i}){n instanceof u.Name&&e.assign(u._`${t}.props`,n),i instanceof u.Name&&e.assign(u._`${t}.items`,i)}(e),t.return(u._`${h.default.errors} === 0`))}(e)})}(e):g(e,()=>(0,i.topBoolOrEmptySchema)(e))};class M{constructor(e,t,n){if((0,l.validateKeywordUsage)(e,t,n),this.gen=e.gen,this.allErrors=e.allErrors,this.keyword=n,this.data=e.data,this.schema=e.schema[n],this.$data=t.$data&&e.opts.$data&&this.schema&&this.schema.$data,this.schemaValue=(0,m.schemaRefOrVal)(e,this.schema,n,this.$data),this.schemaType=t.schemaType,this.parentSchema=e.schema,this.params={},this.it=e,this.def=t,this.$data)this.schemaCode=e.gen.const("vSchema",L(this.$data,e));else if(this.schemaCode=this.schemaValue,!(0,l.validSchemaType)(this.schema,t.schemaType,t.allowUndefined))throw new Error(`${n} value must be ${JSON.stringify(t.schemaType)}`);("code"in t?t.trackErrors:!1!==t.errors)&&(this.errsCount=e.gen.const("_errs",h.default.errors))}result(e,t,n){this.failResult((0,u.not)(e),t,n)}failResult(e,t,n){this.gen.if(e),n?n():this.error(),t?(this.gen.else(),t(),this.allErrors&&this.gen.endIf()):this.allErrors?this.gen.endIf():this.gen.else()}pass(e,t){this.failResult((0,u.not)(e),void 0,t)}fail(e){if(void 0===e)return this.error(),void(this.allErrors||this.gen.if(!1));this.gen.if(e),this.error(),this.allErrors?this.gen.endIf():this.gen.else()}fail$data(e){if(!this.$data)return this.fail(e);const{schemaCode:t}=this;this.fail(u._`${t} !== undefined && (${(0,u.or)(this.invalid$data(),e)})`)}error(e,t,n){if(t)return this.setParams(t),this._error(e,n),void this.setParams({});this._error(e,n)}_error(e,t){(e?p.reportExtraError:p.reportError)(this,this.def.error,t)}$dataError(){(0,p.reportError)(this,this.def.$dataError||p.keyword$DataError)}reset(){if(void 0===this.errsCount)throw new Error('add "trackErrors" to keyword definition');(0,p.resetErrorsCount)(this.gen,this.errsCount)}ok(e){this.allErrors||this.gen.if(e)}setParams(e,t){t?Object.assign(this.params,e):this.params=e}block$data(e,t,n=u.nil){this.gen.block(()=>{this.check$data(e,n),t()})}check$data(e=u.nil,t=u.nil){if(!this.$data)return;const{gen:n,schemaCode:i,schemaType:o,def:r}=this;n.if((0,u.or)(u._`${i} === undefined`,t)),e!==u.nil&&n.assign(e,!0),(o.length||r.validateSchema)&&(n.elseIf(this.invalid$data()),this.$dataError(),e!==u.nil&&n.assign(e,!1)),n.else()}invalid$data(){const{gen:e,schemaCode:t,schemaType:n,def:i,it:o}=this;return(0,u.or)(function(){if(n.length){if(!(t instanceof u.Name))throw new Error("ajv implementation error");const e=Array.isArray(n)?n:[n];return u._`${(0,s.checkDataTypes)(e,t,o.opts.strictNumbers,s.DataType.Wrong)}`}return u.nil}(),function(){if(i.validateSchema){const n=e.scopeValue("validate$data",{ref:i.validateSchema});return u._`!${n}(${t})`}return u.nil}())}subschema(e,t){const n=(0,c.getSubschema)(this.it,e);(0,c.extendSubschemaData)(n,this.it,e),(0,c.extendSubschemaMode)(n,e);const o={...this.it,...n,items:void 0,props:void 0};return function(e,t){b(e)&&(w(e),y(e))?function(e,t){const{schema:n,gen:i,opts:o}=e;o.$comment&&n.$comment&&T(e),function(e){const t=e.schema[e.opts.schemaId];t&&(e.baseId=(0,d.resolveUrl)(e.opts.uriResolver,e.baseId,t))}(e),function(e){if(e.schema.$async&&!e.schemaEnv.$async)throw new Error("async schema in sync schema")}(e);const r=i.const("_errs",h.default.errors);v(e,r),i.var(t,u._`${r} === ${h.default.errors}`)}(e,t):(0,i.boolOrEmptySchema)(e,t)}(o,t),o}mergeEvaluated(e,t){const{it:n,gen:i}=this;n.opts.unevaluated&&(!0!==n.props&&void 0!==e.props&&(n.props=m.mergeEvaluated.props(i,e.props,n.props,t)),!0!==n.items&&void 0!==e.items&&(n.items=m.mergeEvaluated.items(i,e.items,n.items,t)))}mergeValidEvaluated(e,t){const{it:n,gen:i}=this;if(n.opts.unevaluated&&(!0!==n.props||!0!==n.items))return i.if(t,()=>this.mergeEvaluated(e,u.Name)),!0}}function P(e,t,n,i){const o=new M(e,n,t);"code"in n?n.code(o,i):o.$data&&n.validate?(0,l.funcKeywordCode)(o,n):"macro"in n?(0,l.macroKeywordCode)(o,n):(n.compile||n.validate)&&(0,l.funcKeywordCode)(o,n)}t.KeywordCxt=M;const _=/^\/(?:[^~]|~0|~1)*$/,I=/^([0-9]+)(#|\/(?:[^~]|~0|~1)*)?$/;function L(e,{dataLevel:t,dataNames:n,dataPathArr:i}){let o,r;if(""===e)return h.default.rootData;if("/"===e[0]){if(!_.test(e))throw new Error(`Invalid JSON-pointer: ${e}`);o=e,r=h.default.rootData}else{const s=I.exec(e);if(!s)throw new Error(`Invalid JSON-pointer: ${e}`);const a=+s[1];if(o=s[2],"#"===o){if(a>=t)throw new Error(l("property/index",a));return i[t-a]}if(a>t)throw new Error(l("data",a));if(r=n[t-a],!o)return r}let s=r;const a=o.split("/");for(const e of a)e&&(r=u._`${r}${(0,u.getProperty)((0,m.unescapeJsonPointer)(e))}`,s=u._`${s} && ${r}`);return s;function l(e,n){return`Cannot access ${e} ${n} levels up, current level is ${t}`}}t.getData=L},2626:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(4227),o={keyword:["maxContains","minContains"],type:"array",schemaType:"number",code({keyword:e,parentSchema:t,it:n}){void 0===t.contains&&(0,i.checkStrictMode)(n,`"${e}" without "contains" is ignored`)}};t.default=o},2661:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r={keyword:"contains",type:"array",schemaType:["object","boolean"],before:"uniqueItems",trackErrors:!0,error:{message:({params:{min:e,max:t}})=>void 0===t?i.str`must contain at least ${e} valid item(s)`:i.str`must contain at least ${e} and no more than ${t} valid item(s)`,params:({params:{min:e,max:t}})=>void 0===t?i._`{minContains: ${e}}`:i._`{minContains: ${e}, maxContains: ${t}}`},code(e){const{gen:t,schema:n,parentSchema:r,data:s,it:a}=e;let l,c;const{minContains:u,maxContains:h}=r;a.opts.next?(l=void 0===u?1:u,c=h):l=1;const d=t.const("len",i._`${s}.length`);if(e.setParams({min:l,max:c}),void 0===c&&0===l)return void(0,o.checkStrictMode)(a,'"minContains" == 0 without "maxContains": "contains" keyword ignored');if(void 0!==c&&l>c)return(0,o.checkStrictMode)(a,'"minContains" > "maxContains" is always invalid'),void e.fail();if((0,o.alwaysValidSchema)(a,n)){let t=i._`${d} >= ${l}`;return void 0!==c&&(t=i._`${t} && ${d} <= ${c}`),void e.pass(t)}a.items=!0;const m=t.name("valid");function p(){const e=t.name("_valid"),n=t.let("count",0);g(e,()=>t.if(e,()=>function(e){t.code(i._`${e}++`),void 0===c?t.if(i._`${e} >= ${l}`,()=>t.assign(m,!0).break()):(t.if(i._`${e} > ${c}`,()=>t.assign(m,!1).break()),1===l?t.assign(m,!0):t.if(i._`${e} >= ${l}`,()=>t.assign(m,!0)))}(n)))}function g(n,i){t.forRange("i",0,d,t=>{e.subschema({keyword:"contains",dataProp:t,dataPropType:o.Type.Num,compositeRule:!0},n),i()})}void 0===c&&1===l?g(m,()=>t.if(m,()=>t.break())):0===l?(t.let(m,!0),void 0!==c&&t.if(i._`${s}.length > 0`,p)):(t.let(m,!1),p()),e.result(m,()=>e.reset())}};t.default=r},2721:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2476),o=n(4227),r={keyword:"$recursiveAnchor",schemaType:"boolean",code(e){e.schema?(0,i.dynamicAnchor)(e,""):(0,o.checkStrictMode)(e.it,"$recursiveAnchor: false is ignored")}};t.default=r},2738:(e,t,n)=>{"use strict";n.d(t,{X:()=>o,a:()=>i});class i{constructor(e,t,n){this.name=e,this.alphabet=t,this.cutoff=n}}class o extends i{constructor(e,t,n){super(e.name,e.alphabet,e.cutoff),this.freq=t,this.similarity=n}}},2780:(e,t,n)=>{"use strict";n.d(t,{aT:()=>i.aT});var i=n(8498);n(9336)},2787:(e,t,n)=>{"use strict";n.d(t,{I:()=>o});const i=new Uint32Array(65536),o=(e,t)=>{if(e.length<t.length){const n=t;t=e,e=n}return 0===t.length?e.length:e.length<=32?((e,t)=>{const n=e.length,o=t.length,r=1<<n-1;let s=-1,a=0,l=n,c=n;for(;c--;)i[e.charCodeAt(c)]|=1<<c;for(c=0;c<o;c++){let e=i[t.charCodeAt(c)];const n=e|a;e|=(e&s)+s^s,a|=~(e|s),s&=e,a&r&&l++,s&r&&l--,a=a<<1|1,s=s<<1|~(n|a),a&=n}for(c=n;c--;)i[e.charCodeAt(c)]=0;return l})(e,t):((e,t)=>{const n=t.length,o=e.length,r=[],s=[],a=Math.ceil(n/32),l=Math.ceil(o/32);for(let e=0;e<a;e++)s[e]=-1,r[e]=0;let c=0;for(;c<l-1;c++){let a=0,l=-1;const u=32*c,h=Math.min(32,o)+u;for(let t=u;t<h;t++)i[e.charCodeAt(t)]|=1<<t;for(let e=0;e<n;e++){const n=i[t.charCodeAt(e)],o=s[e/32|0]>>>e&1,c=r[e/32|0]>>>e&1,u=n|a,h=((n|c)&l)+l^l|n|c;let d=a|~(h|l),m=l&h;d>>>31^o&&(s[e/32|0]^=1<<e),m>>>31^c&&(r[e/32|0]^=1<<e),d=d<<1|o,m=m<<1|c,l=m|~(u|d),a=d&u}for(let t=u;t<h;t++)i[e.charCodeAt(t)]=0}let u=0,h=-1;const d=32*c,m=Math.min(32,o-d)+d;for(let t=d;t<m;t++)i[e.charCodeAt(t)]|=1<<t;let p=o;for(let e=0;e<n;e++){const n=i[t.charCodeAt(e)],a=s[e/32|0]>>>e&1,l=r[e/32|0]>>>e&1,c=n|u,d=((n|l)&h)+h^h|n|l;let m=u|~(d|h),g=h&d;p+=m>>>o-1&1,p-=g>>>o-1&1,m>>>31^a&&(s[e/32|0]^=1<<e),g>>>31^l&&(r[e/32|0]^=1<<e),m=m<<1|a,g=g<<1|l,h=g|~(c|m),u=m&c}for(let t=d;t<m;t++)i[e.charCodeAt(t)]=0;return p})(e,t)}},3017:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".monomer-lib-controls-form {\n margin-left: auto;\n margin-right: auto;\n display: flex;\n flex-direction: column;\n align-items: center;\n min-width: 220px;\n width: 100%;\n\n}\n","",{version:3,sources:["webpack://./src/utils/monomer-lib/library-file-manager/style.css"],names:[],mappings:"AAAA;EACE,iBAAiB;EACjB,kBAAkB;EAClB,aAAa;EACb,sBAAsB;EACtB,mBAAmB;EACnB,gBAAgB;EAChB,WAAW;;AAEb",sourcesContent:[".monomer-lib-controls-form {\n margin-left: auto;\n margin-right: auto;\n display: flex;\n flex-direction: column;\n align-items: center;\n min-width: 220px;\n width: 100%;\n\n}\n"],sourceRoot:""}]);const a=s},3025:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateSchemaDeps=t.validatePropertyDeps=t.error=void 0;const i=n(9029),o=n(4227),r=n(5765);t.error={message:({params:{property:e,depsCount:t,deps:n}})=>{const o=1===t?"property":"properties";return i.str`must have ${o} ${n} when property ${e} is present`},params:({params:{property:e,depsCount:t,deps:n,missingProperty:o}})=>i._`{property: ${e},
5
5
  missingProperty: ${o},
6
6
  depsCount: ${t},
7
- deps: ${n}}`};const s={keyword:"dependencies",type:"object",schemaType:"object",error:t.error,code(e){const[t,n]=function({schema:e}){const t={},n={};for(const i in e)"__proto__"!==i&&((Array.isArray(e[i])?t:n)[i]=e[i]);return[t,n]}(e);a(e,t),l(e,n)}};function a(e,t=e.schema){const{gen:n,data:o,it:s}=e;if(0===Object.keys(t).length)return;const a=n.let("missing");for(const l in t){const c=t[l];if(0===c.length)continue;const u=(0,r.propertyInData)(n,o,l,s.opts.ownProperties);e.setParams({property:l,depsCount:c.length,deps:c.join(", ")}),s.allErrors?n.if(u,()=>{for(const t of c)(0,r.checkReportMissingProp)(e,t)}):(n.if(i._`${u} && (${(0,r.checkMissingProp)(e,c,a)})`),(0,r.reportMissingProp)(e,a),n.else())}}function l(e,t=e.schema){const{gen:n,data:i,keyword:s,it:a}=e,l=n.name("valid");for(const c in t)(0,o.alwaysValidSchema)(a,t[c])||(n.if((0,r.propertyInData)(n,i,c,a.opts.ownProperties),()=>{const t=e.subschema({keyword:s,schemaProp:c},l);e.mergeValidEvaluated(t,l)},()=>n.var(l,!0)),e.ok(l))}t.validatePropertyDeps=a,t.validateSchemaDeps=l,t.default=s},3151:(e,t,n)=>{"use strict";n.d(t,{EK:()=>l,Ec:()=>r,f6:()=>i,pe:()=>s,q7:()=>a,yw:()=>o});const i=["symbol","molfile","rgroups","name"],o="MonomerName",r={monomerType:null,smiles:null,name:"Name",author:null,molfile:"molecule",naturalAnalog:"MonomerNaturalAnalogCode",rgroups:"MonomerCaps",createDate:null,id:null,polymerType:"MonomerType",symbol:"MonomerName"},s={monomerType:"Backbone",smiles:"",name:"",author:"Datagrok",molfile:"",naturalAnalog:"",rgroups:[],createDate:null,id:0,polymerType:"PEPTIDE",symbol:""},a="p",l=new RegExp(`[rd]\\((\\w)\\)${a}?`,"g")},3252:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.dynamicRef=void 0;const i=n(9029),o=n(2023),r=n(3693),s={keyword:"$dynamicRef",schemaType:"string",code:e=>a(e,e.schema)};function a(e,t){const{gen:n,keyword:s,it:a}=e;if("#"!==t[0])throw new Error(`"${s}" only supports hash fragment reference`);const l=t.slice(1);if(a.allErrors)c();else{const t=n.let("valid",!1);c(t),e.ok(t)}function c(e){if(a.schemaEnv.root.dynamicAnchors[l]){const t=n.let("_v",i._`${o.default.dynamicAnchors}${(0,i.getProperty)(l)}`);n.if(t,u(t,e),u(a.validateName,e))}else u(a.validateName,e)()}function u(t,i){return i?()=>n.block(()=>{(0,r.callRef)(e,t),n.let(i,!0)}):()=>(0,r.callRef)(e,t)}}t.dynamicRef=a,t.default=s},3265:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(392),o=n(3445),r=[i.default,o.default];t.default=r},3282:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.MissingRefError=t.ValidationError=t.CodeGen=t.Name=t.nil=t.stringify=t.str=t._=t.KeywordCxt=t.Ajv=void 0;const i=n(4042),o=n(6144),r=n(6653),s=n(2079),a=["/properties"],l="http://json-schema.org/draft-07/schema";class c extends i.default{_addVocabularies(){super._addVocabularies(),o.default.forEach(e=>this.addVocabulary(e)),this.opts.discriminator&&this.addKeyword(r.default)}_addDefaultMetaSchema(){if(super._addDefaultMetaSchema(),!this.opts.meta)return;const e=this.opts.$data?this.$dataMetaSchema(s,a):s;this.addMetaSchema(e,l,!1),this.refs["http://json-schema.org/schema"]=l}defaultMeta(){return this.opts.defaultMeta=super.defaultMeta()||(this.getSchema(l)?l:void 0)}}t.Ajv=c,e.exports=t=c,e.exports.Ajv=c,Object.defineProperty(t,"__esModule",{value:!0}),t.default=c;var u=n(2586);Object.defineProperty(t,"KeywordCxt",{enumerable:!0,get:function(){return u.KeywordCxt}});var h=n(9029);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return h._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return h.str}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return h.stringify}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return h.nil}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return h.Name}}),Object.defineProperty(t,"CodeGen",{enumerable:!0,get:function(){return h.CodeGen}});var d=n(3558);Object.defineProperty(t,"ValidationError",{enumerable:!0,get:function(){return d.default}});var m=n(4551);Object.defineProperty(t,"MissingRefError",{enumerable:!0,get:function(){return m.default}})},3439:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={keyword:"multipleOf",type:"number",schemaType:"number",$data:!0,error:{message:({schemaCode:e})=>i.str`must be multiple of ${e}`,params:({schemaCode:e})=>i._`{multipleOf: ${e}}`},code(e){const{gen:t,data:n,schemaCode:o,it:r}=e,s=r.opts.multipleOfPrecision,a=t.let("res"),l=s?i._`Math.abs(Math.round(${a}) - ${a}) > 1e-${s}`:i._`${a} !== parseInt(${a})`;e.fail$data(i._`(${o} === 0 || (${a} = ${n}/${o}, ${l}))`)}};t.default=o},3445:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r={keyword:"unevaluatedItems",type:"array",schemaType:["boolean","object"],error:{message:({params:{len:e}})=>i.str`must NOT have more than ${e} items`,params:({params:{len:e}})=>i._`{limit: ${e}}`},code(e){const{gen:t,schema:n,data:r,it:s}=e,a=s.items||0;if(!0===a)return;const l=t.const("len",i._`${r}.length`);if(!1===n)e.setParams({len:a}),e.fail(i._`${l} > ${a}`);else if("object"==typeof n&&!(0,o.alwaysValidSchema)(s,n)){const n=t.var("valid",i._`${l} <= ${a}`);t.if((0,i.not)(n),()=>function(n,r){t.forRange("i",r,l,r=>{e.subschema({keyword:"unevaluatedItems",dataProp:r,dataPropType:o.Type.Num},n),s.allErrors||t.if((0,i.not)(n),()=>t.break())})}(n,a)),e.ok(n)}s.items=!0}};t.default=r},3463:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const n={keyword:"id",code(){throw new Error('NOT SUPPORTED: keyword "id", use "$id" for schema ID')}};t.default=n},3516:(e,t,n)=>{"use strict";n.d(t,{m:()=>r});var i=n(6082),o=n(439);class r{get descriptionsArray(){return this._descriptionsArray}get sequencesArray(){return this._sequencesArray}parseMacromolecule(e,t){return this._fileContent.slice(e,t).split(/\s/).join("")}parseColumns(){const e=/^>(.*)$/gm;let t,n=0;for(;t=e.exec(this._fileContent);){const i=this._fileContent.substring(t.index+1,e.lastIndex);this._descriptionsArray.push(i),0!==n&&this._sequencesArray.push(this.parseMacromolecule(n,t.index)),n=e.lastIndex+1}this._sequencesArray.push(this.parseMacromolecule(n,-1))}importFasta(){const e=i.Column.fromStrings("description",this.descriptionsArray),t=i.Column.fromStrings("sequence",this.sequencesArray);return t.semType=i.SEMTYPE.MACROMOLECULE,t.meta.units=o.Hi.FASTA,[i.DataFrame.fromColumns([e,t])]}constructor(e){this._descriptionsArray=[],this._sequencesArray=[],this._fileContent=e,this.parseColumns()}}},3527:(e,t,n)=>{"use strict";n.d(t,{Mi:()=>i});class i extends Float32Array{}},3558:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});class n extends Error{constructor(e){super("validation failed"),this.errors=e,this.ajv=this.validation=!0}}t.default=n},3561:(e,t,n)=>{"use strict";n.d(t,{Hb:()=>l,YN:()=>g,gU:()=>c});var i=n(8123),o=n(294),r=n(3151),s=n(439),a=n(6197);function l(e,t,n){const o=new Map;for(const a of e.getMonomerSymbolsByType(t)){const l=e.getMonomer(t,a);if("RNA"===t&&("Branch"===l.monomerType||n===s.YI.DNA&&l.symbol===i.u.DEOXYRIBOSE.symbol||n===s.YI.RNA&&l.symbol===i.u.RIBOSE.symbol||l.symbol===i.u.PHOSPHATE.symbol)||"PEPTIDE"===t&&"Branch"!==l.monomerType){const e={};r.f6.forEach(t=>{e[t]=l[t]}),o.set(a,e)}}return o}function c(e,t,n,r){if(0===e.length)return o.vF.createEmpty();const l=p,{atomCount:c,bondCount:h,needsCapping:m}=l(e,t,n,r),f=new Array(c),y=new Array(h);let b,w=null,v=null;"PEPTIDE"===r?b=u:(b=d,w=n===s.YI.DNA?(0,o.xb)(t,i.u.DEOXYRIBOSE):(0,o.xb)(t,i.u.RIBOSE),v=(0,o.xb)(t,i.u.PHOSPHATE));const T={i:0,nodeShift:0,bondShift:0,backbonePositionShift:new Array(2).fill(0),branchPositionShift:new Array(2).fill(0),backboneAttachNode:0,branchAttachNode:0,flipFactor:1},C={sugar:w,phosphate:v,seqLength:e.length,atomCount:c,bondCount:h},A=new o.Cg,E=[];let S,M=0;for(T.i=0;T.i<C.seqLength;++T.i){const n=e[T.i];if(n.symbol===s._S)continue;const i=(0,o.xb)(t,{symbol:n.symbol,polymerType:(0,a.Y)(n.biotype)});S=i.terminalR2Atom;const r=T.nodeShift,l=T.bondShift;b(i,f,y,T,C),i.stereoAtoms?.forEach(e=>E.push(e+M)),M+=i.atoms.x.length;const c=T.nodeShift-r,u=new Array(c);for(let e=0;e<c;++e)u[e]=r+e;const h=T.bondShift-l,d=new Array(h);for(let e=0;e<h;++e)d[e]=l+e;A.set(T.i,{biotype:n.biotype,symbol:n.symbol,atoms:u,bonds:d})}m&&function(e,t,n,o,r=i.u.OXYGEN){const s=n.nodeShift+1;e[o.atomCount]=i.u.V3K_BEGIN_DATA_LINE+s+" "+(r??i.u.OXYGEN)+" "+g(n.backbonePositionShift[0])+" "+n.flipFactor*g(n.backbonePositionShift[1])+" 0.000000 0\n";const a=n.backboneAttachNode,l=s;t[o.bondCount]=i.u.V3K_BEGIN_DATA_LINE+n.bondShift+" 1 "+a+" "+l+"\n"}(f,y,T,C,S??i.u.OXYGEN);const P=i.u.V3K_BEGIN_COUNTS_LINE+c+" "+h+i.u.V3K_COUNTS_LINE_ENDING;let _="";return _+=i.u.V3K_HEADER_FIRST_LINE,_+=i.u.V3K_HEADER_SECOND_LINE,_+=i.u.V3K_BEGIN_CTAB_BLOCK,_+=P,_+=i.u.V3K_BEGIN_ATOM_BLOCK,_+=f.join(""),_+=i.u.V3K_END_ATOM_BLOCK,_+=i.u.V3K_BEGIN_BOND_BLOCK,_+=y.join(""),_+=i.u.V3K_END_BOND_BLOCK,E.length>0&&(_+=function(e){const t=[];let n=`M V30 MDLV30/STEABS ATOMS=(${e.length}`;for(let i=0;i<e.length;i++){const o=`${n} ${e[i]}`;o.length>76?(t.push(`${n} -\n`),n=`M V30 ${e[i]}`):n=o,i===e.length-1&&t.push(`${n})\n`)}return`M V30 BEGIN COLLECTION\n${t.join("")}M V30 END COLLECTION\n`}(E)),_+=i.u.V3K_END_CTAB_BLOCK,_+=i.u.V3K_END,{molfile:_,monomers:A}}function u(e,t,n,i){i.flipFactor=(-1)**(i.i%2),h(e,t,n,i)}function h(e,t,n,o){!function(e,t,n){for(let o=0;o<e.atoms.atomTypes.length;++o){const r=n.nodeShift+o+1;t[n.nodeShift+o]=i.u.V3K_BEGIN_DATA_LINE+r+" "+e.atoms.atomTypes[o]+" "+g(n.backbonePositionShift[0]+e.atoms.x[o])+" "+g(n.backbonePositionShift[1]+n.flipFactor*e.atoms.y[o])+" "+e.atoms.kwargs[o]}}(e,t,o),m(e,n,o),function(e,t,n){if(0!==n.backboneAttachNode){const o=n.bondShift,r=n.backboneAttachNode,s=e.meta.terminalNodes[0]+n.nodeShift;t[n.bondShift-1]=i.u.V3K_BEGIN_DATA_LINE+o+" 1 "+r+" "+s+"\n"}}(e,n,o),null!==e.meta.branchShift&&e.meta.terminalNodes.length>2&&function(e,t){t.branchAttachNode=t.nodeShift+e.meta.terminalNodes[2];for(let n=0;n<2;++n)t.branchPositionShift[n]=t.backbonePositionShift[n]+e.meta.branchShift[n]}(e,o),function(e,t){t.backboneAttachNode=t.nodeShift+e.meta.terminalNodes[1],t.bondShift+=e.bonds.atomPairs.length+1,t.nodeShift+=e.atoms.atomTypes.length,t.backbonePositionShift[0]+=e.meta.backboneShift?.[0]??0,t.backbonePositionShift[1]+=t.flipFactor*(e.meta.backboneShift?.[1]??0)}(e,o)}function d(e,t,n,o,r){if(0===o.i)h(r.sugar,t,n,o);else for(const e of[r.phosphate,r.sugar])h(e,t,n,o);!function(e,t,n,o){(function(e,t,n){for(let o=0;o<e.atoms.atomTypes.length;++o){const r=n.nodeShift+o+1;t[n.nodeShift+o]=i.u.V3K_BEGIN_DATA_LINE+r+" "+e.atoms.atomTypes[o]+" "+g(n.branchPositionShift[0]+e.atoms.x[o])+" "+g(n.branchPositionShift[1]+n.flipFactor*e.atoms.y[o])+" "+e.atoms.kwargs[o]}})(e,t,o),m(e,n,o),function(e,t,n){const o=n.bondShift,r=n.branchAttachNode,s=e.meta.terminalNodes[0]+n.nodeShift;t[o-1]=i.u.V3K_BEGIN_DATA_LINE+o+" 1 "+r+" "+s+"\n"}(e,n,o);const r=o.bondShift,s=o.branchAttachNode,a=e.meta.terminalNodes[0]+o.nodeShift;n[r-1]=i.u.V3K_BEGIN_DATA_LINE+r+" 1 "+s+" "+a+"\n",o.bondShift+=e.bonds.atomPairs.length+1,o.nodeShift+=e.atoms.atomTypes.length}(e,t,n,o)}function m(e,t,n){for(let o=0;o<e.bonds.atomPairs.length;++o){const r=n.bondShift+o+1,s=e.bonds.atomPairs[o][0]+n.nodeShift,a=e.bonds.atomPairs[o][1]+n.nodeShift;let l="";if(e.bonds.bondConfiguration.has(o)){let t=e.bonds.bondConfiguration.get(o);n.flipFactor<0&&(t=1===t?3:1),l=" CFG="+t}const c=e.bonds.kwargs.has(o)?" "+e.bonds.kwargs.get(o):"";t[n.bondShift+o]=i.u.V3K_BEGIN_DATA_LINE+r+" "+e.bonds.bondTypes[o]+" "+s+" "+a+l+c+"\n"}}function p(e,t,n,r){let l=0,c=0,u=0,h=!0,d=null;for(const n of e)if(n.symbol!==s._S){if("*"==n.symbol)throw new Error("Gap canonical symbol is '', not '*");d=(0,o.xb)(t,{symbol:n.symbol,polymerType:(0,a.Y)(n.biotype)}),l+=d.atoms.x.length,c+=d.bonds.bondTypes.length,u++}if("PEPTIDE"===r)l+=1,c+=u,u>0&&((d?.meta?.rNodes?.length??0)<2||d?.terminalR2Atom?.toLowerCase()===i.u.HYDROGEN.toLowerCase())&&(h=!1,l-=1,c-=1);else{const r=n===s.YI.DNA?(0,o.xb)(t,i.u.DEOXYRIBOSE):(0,o.xb)(t,i.u.RIBOSE),a=(0,o.xb)(t,i.u.PHOSPHATE);l+=(e.length-1)*a.atoms.x.length,l+=e.length*r.atoms.x.length,l+=1,c+=(e.length-1)*a.bonds.bondTypes.length,c+=e.length*r.bonds.bondTypes.length,c-=1,c+=3*e.length}return{atomCount:l,bondCount:c,needsCapping:h}}function g(e){return Math.round(i.u.PRECISION_FACTOR*e)/i.u.PRECISION_FACTOR}},3599:(e,t,n)=>{"use strict";n.d(t,{o:()=>i.o});var i=n(6869)},3629:(e,t,n)=>{"use strict";n.d(t,{KE:()=>a,S8:()=>l,dC:()=>r,vA:()=>o,wQ:()=>s});var i=n(3527);function o(e=!1,t="Assertion error."){if(!e)throw new Error(t)}function r(e,t,n=1){const r=e.length;o(r==t.length,"Vector lengths do not match.");const s=new i.Mi(r);for(let i=0;i<e.length;++i)s[i]=e[i]+n*t[i];return s}function s(e){let t=0;for(let n=0;n<e.length;n++)t+=e[n]*e[n];return Math.sqrt(t)}function a(e,t){if(e.length!=t.length)throw new Error("The dimensionality of the vectors must match");let n=0;for(let i=0;i<e.length;i++)n+=e[i]*t[i];return n}function l(e){const t=e.length;let n=0,i=0;for(let o=0;o<t;++o)n+=e[o],i+=Math.pow(e[o],2);const o=n/t,r=1/Math.sqrt(i/t-Math.pow(o,2));for(let n=0;n<t;++n)e[n]=(e[n]-o)*r;return e}},3673:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateKeywordUsage=t.validSchemaType=t.funcKeywordCode=t.macroKeywordCode=void 0;const i=n(9029),o=n(2023),r=n(5765),s=n(8708);function a(e){const{gen:t,data:n,it:o}=e;t.if(o.parentData,()=>t.assign(n,i._`${o.parentData}[${o.parentDataProperty}]`))}function l(e,t,n){if(void 0===n)throw new Error(`keyword "${t}" failed to compile`);return e.scopeValue("keyword","function"==typeof n?{ref:n}:{ref:n,code:(0,i.stringify)(n)})}t.macroKeywordCode=function(e,t){const{gen:n,keyword:o,schema:r,parentSchema:s,it:a}=e,c=t.macro.call(a.self,r,s,a),u=l(n,o,c);!1!==a.opts.validateSchema&&a.self.validateSchema(c,!0);const h=n.name("valid");e.subschema({schema:c,schemaPath:i.nil,errSchemaPath:`${a.errSchemaPath}/${o}`,topSchemaRef:u,compositeRule:!0},h),e.pass(h,()=>e.error(!0))},t.funcKeywordCode=function(e,t){var n;const{gen:c,keyword:u,schema:h,parentSchema:d,$data:m,it:p}=e;!function({schemaEnv:e},t){if(t.async&&!e.$async)throw new Error("async keyword in sync schema")}(p,t);const g=!m&&t.compile?t.compile.call(p.self,h,d,p):t.validate,f=l(c,u,g),y=c.let("valid");function b(n=(t.async?i._`await `:i.nil)){const s=p.opts.passContext?o.default.this:o.default.self,a=!("compile"in t&&!m||!1===t.schema);c.assign(y,i._`${n}${(0,r.callValidateCode)(e,f,s,a)}`,t.modifying)}function w(e){var n;c.if((0,i.not)(null!==(n=t.valid)&&void 0!==n?n:y),e)}e.block$data(y,function(){if(!1===t.errors)b(),t.modifying&&a(e),w(()=>e.error());else{const n=t.async?function(){const e=c.let("ruleErrs",null);return c.try(()=>b(i._`await `),t=>c.assign(y,!1).if(i._`${t} instanceof ${p.ValidationError}`,()=>c.assign(e,i._`${t}.errors`),()=>c.throw(t))),e}():function(){const e=i._`${f}.errors`;return c.assign(e,null),b(i.nil),e}();t.modifying&&a(e),w(()=>function(e,t){const{gen:n}=e;n.if(i._`Array.isArray(${t})`,()=>{n.assign(o.default.vErrors,i._`${o.default.vErrors} === null ? ${t} : ${o.default.vErrors}.concat(${t})`).assign(o.default.errors,i._`${o.default.vErrors}.length`),(0,s.extendErrors)(e)},()=>e.error())}(e,n))}}),e.ok(null!==(n=t.valid)&&void 0!==n?n:y)},t.validSchemaType=function(e,t,n=!1){return!t.length||t.some(t=>"array"===t?Array.isArray(e):"object"===t?e&&"object"==typeof e&&!Array.isArray(e):typeof e==t||n&&void 0===e)},t.validateKeywordUsage=function({schema:e,opts:t,self:n,errSchemaPath:i},o,r){if(Array.isArray(o.keyword)?!o.keyword.includes(r):o.keyword!==r)throw new Error("ajv implementation error");const s=o.dependencies;if(null==s?void 0:s.some(t=>!Object.prototype.hasOwnProperty.call(e,t)))throw new Error(`parent schema must have dependencies of ${r}: ${s.join(",")}`);if(o.validateSchema&&!o.validateSchema(e[r])){const e=`keyword "${r}" value is invalid at path "${i}": `+n.errorsText(o.validateSchema.errors);if("log"!==t.validateSchema)throw new Error(e);n.logger.error(e)}}},3693:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.callRef=t.getValidate=void 0;const i=n(4551),o=n(5765),r=n(9029),s=n(2023),a=n(3835),l=n(4227),c={keyword:"$ref",schemaType:"string",code(e){const{gen:t,schema:n,it:o}=e,{baseId:s,schemaEnv:l,validateName:c,opts:d,self:m}=o,{root:p}=l;if(("#"===n||"#/"===n)&&s===p.baseId)return function(){if(l===p)return h(e,c,l,l.$async);const n=t.scopeValue("root",{ref:p});return h(e,r._`${n}.validate`,p,p.$async)}();const g=a.resolveRef.call(m,p,s,n);if(void 0===g)throw new i.default(o.opts.uriResolver,s,n);return g instanceof a.SchemaEnv?function(t){const n=u(e,t);h(e,n,t,t.$async)}(g):function(i){const o=t.scopeValue("schema",!0===d.code.source?{ref:i,code:(0,r.stringify)(i)}:{ref:i}),s=t.name("valid"),a=e.subschema({schema:i,dataTypes:[],schemaPath:r.nil,topSchemaRef:o,errSchemaPath:n},s);e.mergeEvaluated(a),e.ok(s)}(g)}};function u(e,t){const{gen:n}=e;return t.validate?n.scopeValue("validate",{ref:t.validate}):r._`${n.scopeValue("wrapper",{ref:t})}.validate`}function h(e,t,n,i){const{gen:a,it:c}=e,{allErrors:u,schemaEnv:h,opts:d}=c,m=d.passContext?s.default.this:r.nil;function p(e){const t=r._`${e}.errors`;a.assign(s.default.vErrors,r._`${s.default.vErrors} === null ? ${t} : ${s.default.vErrors}.concat(${t})`),a.assign(s.default.errors,r._`${s.default.vErrors}.length`)}function g(e){var t;if(!c.opts.unevaluated)return;const i=null===(t=null==n?void 0:n.validate)||void 0===t?void 0:t.evaluated;if(!0!==c.props)if(i&&!i.dynamicProps)void 0!==i.props&&(c.props=l.mergeEvaluated.props(a,i.props,c.props));else{const t=a.var("props",r._`${e}.evaluated.props`);c.props=l.mergeEvaluated.props(a,t,c.props,r.Name)}if(!0!==c.items)if(i&&!i.dynamicItems)void 0!==i.items&&(c.items=l.mergeEvaluated.items(a,i.items,c.items));else{const t=a.var("items",r._`${e}.evaluated.items`);c.items=l.mergeEvaluated.items(a,t,c.items,r.Name)}}i?function(){if(!h.$async)throw new Error("async schema referenced by sync schema");const n=a.let("valid");a.try(()=>{a.code(r._`await ${(0,o.callValidateCode)(e,t,m)}`),g(t),u||a.assign(n,!0)},e=>{a.if(r._`!(${e} instanceof ${c.ValidationError})`,()=>a.throw(e)),p(e),u||a.assign(n,!1)}),e.ok(n)}():e.result((0,o.callValidateCode)(e,t,m),()=>g(t),()=>p(t))}t.getValidate=u,t.callRef=h,t.default=c},3799:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(3252),o={keyword:"$recursiveRef",schemaType:"string",code:e=>(0,i.dynamicRef)(e,e.schema)};t.default=o},3835:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.resolveSchema=t.getCompilingSchema=t.resolveRef=t.compileSchema=t.SchemaEnv=void 0;const i=n(9029),o=n(3558),r=n(2023),s=n(6939),a=n(4227),l=n(2586);class c{constructor(e){var t;let n;this.refs={},this.dynamicAnchors={},"object"==typeof e.schema&&(n=e.schema),this.schema=e.schema,this.schemaId=e.schemaId,this.root=e.root||this,this.baseId=null!==(t=e.baseId)&&void 0!==t?t:(0,s.normalizeId)(null==n?void 0:n[e.schemaId||"$id"]),this.schemaPath=e.schemaPath,this.localRefs=e.localRefs,this.meta=e.meta,this.$async=null==n?void 0:n.$async,this.refs={}}}function u(e){const t=d.call(this,e);if(t)return t;const n=(0,s.getFullPath)(this.opts.uriResolver,e.root.baseId),{es5:a,lines:c}=this.opts.code,{ownProperties:u}=this.opts,h=new i.CodeGen(this.scope,{es5:a,lines:c,ownProperties:u});let m;e.$async&&(m=h.scopeValue("Error",{ref:o.default,code:i._`require("ajv/dist/runtime/validation_error").default`}));const p=h.scopeName("validate");e.validateName=p;const g={gen:h,allErrors:this.opts.allErrors,data:r.default.data,parentData:r.default.parentData,parentDataProperty:r.default.parentDataProperty,dataNames:[r.default.data],dataPathArr:[i.nil],dataLevel:0,dataTypes:[],definedProperties:new Set,topSchemaRef:h.scopeValue("schema",!0===this.opts.code.source?{ref:e.schema,code:(0,i.stringify)(e.schema)}:{ref:e.schema}),validateName:p,ValidationError:m,schema:e.schema,schemaEnv:e,rootId:n,baseId:e.baseId||n,schemaPath:i.nil,errSchemaPath:e.schemaPath||(this.opts.jtd?"":"#"),errorPath:i._`""`,opts:this.opts,self:this};let f;try{this._compilations.add(e),(0,l.validateFunctionCode)(g),h.optimize(this.opts.code.optimize);const t=h.toString();f=`${h.scopeRefs(r.default.scope)}return ${t}`,this.opts.code.process&&(f=this.opts.code.process(f,e));const n=new Function(`${r.default.self}`,`${r.default.scope}`,f)(this,this.scope.get());if(this.scope.value(p,{ref:n}),n.errors=null,n.schema=e.schema,n.schemaEnv=e,e.$async&&(n.$async=!0),!0===this.opts.code.source&&(n.source={validateName:p,validateCode:t,scopeValues:h._values}),this.opts.unevaluated){const{props:e,items:t}=g;n.evaluated={props:e instanceof i.Name?void 0:e,items:t instanceof i.Name?void 0:t,dynamicProps:e instanceof i.Name,dynamicItems:t instanceof i.Name},n.source&&(n.source.evaluated=(0,i.stringify)(n.evaluated))}return e.validate=n,e}catch(t){throw delete e.validate,delete e.validateName,f&&this.logger.error("Error compiling schema, function code:",f),t}finally{this._compilations.delete(e)}}function h(e){return(0,s.inlineRef)(e.schema,this.opts.inlineRefs)?e.schema:e.validate?e:u.call(this,e)}function d(e){for(const t of this._compilations)if(m(t,e))return t}function m(e,t){return e.schema===t.schema&&e.root===t.root&&e.baseId===t.baseId}function p(e,t){let n;for(;"string"==typeof(n=this.refs[t]);)t=n;return n||this.schemas[t]||g.call(this,e,t)}function g(e,t){const n=this.opts.uriResolver.parse(t),i=(0,s._getFullPath)(this.opts.uriResolver,n);let o=(0,s.getFullPath)(this.opts.uriResolver,e.baseId,void 0);if(Object.keys(e.schema).length>0&&i===o)return y.call(this,n,e);const r=(0,s.normalizeId)(i),a=this.refs[r]||this.schemas[r];if("string"==typeof a){const t=g.call(this,e,a);if("object"!=typeof(null==t?void 0:t.schema))return;return y.call(this,n,t)}if("object"==typeof(null==a?void 0:a.schema)){if(a.validate||u.call(this,a),r===(0,s.normalizeId)(t)){const{schema:t}=a,{schemaId:n}=this.opts,i=t[n];return i&&(o=(0,s.resolveUrl)(this.opts.uriResolver,o,i)),new c({schema:t,schemaId:n,root:e,baseId:o})}return y.call(this,n,a)}}t.SchemaEnv=c,t.compileSchema=u,t.resolveRef=function(e,t,n){var i;n=(0,s.resolveUrl)(this.opts.uriResolver,t,n);const o=e.refs[n];if(o)return o;let r=p.call(this,e,n);if(void 0===r){const o=null===(i=e.localRefs)||void 0===i?void 0:i[n],{schemaId:s}=this.opts;o&&(r=new c({schema:o,schemaId:s,root:e,baseId:t}))}return void 0!==r?e.refs[n]=h.call(this,r):void 0},t.getCompilingSchema=d,t.resolveSchema=g;const f=new Set(["properties","patternProperties","enum","dependencies","definitions"]);function y(e,{baseId:t,schema:n,root:i}){var o;if("/"!==(null===(o=e.fragment)||void 0===o?void 0:o[0]))return;for(const i of e.fragment.slice(1).split("/")){if("boolean"==typeof n)return;const e=n[(0,a.unescapeFragment)(i)];if(void 0===e)return;const o="object"==typeof(n=e)&&n[this.opts.schemaId];!f.has(i)&&o&&(t=(0,s.resolveUrl)(this.opts.uriResolver,t,o))}let r;if("boolean"!=typeof n&&n.$ref&&!(0,a.schemaHasRulesButRef)(n,this.RULES)){const e=(0,s.resolveUrl)(this.opts.uriResolver,t,n.$ref);r=g.call(this,i,e)}const{schemaId:l}=this.opts;return r=r||new c({schema:n,schemaId:l,root:i,baseId:t}),r.schema!==r.root.schema?r:void 0}},3837:e=>{"use strict";e.exports=JSON.parse('{"$id":"https://raw.githubusercontent.com/ajv-validator/ajv/master/lib/refs/data.json#","description":"Meta-schema for $data reference (JSON AnySchema extension proposal)","type":"object","required":["$data"],"properties":{"$data":{"type":"string","anyOf":[{"format":"relative-json-pointer"},{"format":"json-pointer"}]}},"additionalProperties":false}')},3853:(e,t)=>{"use strict";function n(e){const t=e.length;let n,i=0,o=0;for(;o<t;)i++,n=e.charCodeAt(o++),n>=55296&&n<=56319&&o<t&&(n=e.charCodeAt(o),56320==(64512&n)&&o++);return i}Object.defineProperty(t,"__esModule",{value:!0}),t.default=n,n.code='require("ajv/dist/runtime/ucs2length").default'},3856:(e,t,n)=>{"use strict";n.d(t,{Mn:()=>u,gp:()=>c,oZ:()=>m,yg:()=>h});var i=n(6082),o=n(7278);const r="rgb(100,100,100)",s="#808080",a="rgb(0,0,0)",l=o.zS;var c,u,h;!function(e){e.maxMonomerLength=".mm.cellRenderer.maxMonomerLength"}(c||(c={})),function(e){e.applyToBackground=".m.cellRenderer.applyToBackground"}(u||(u={})),function(e){e.MSA="MSA",e.classic="classic"}(h||(h={}));const d=new class{constructor(){this.color=r,this.pivot=0,this.left=!1,this.transparencyRate=0,this.separator="",this.last=!1,this.drawStyle=h.classic,this.maxWord=[],this.wordIdx=0,this.gridCell=null,this.referenceSequence=null,this.maxLengthOfMonomer=null,this.monomerTextSizeMap={},this.logger=void 0,this.selectedPosition=void 0,this.isMultiLineContext=!1,this.lineNumber=0}};function m(e,t,n,o,c,u,m){var p,g,f;const y={...d,...m};if(y.isMultiLineContext){e.textBaseline="middle",e.textAlign="center";let i=t;null!=y.maxLengthOfMonomer&&(i=l(i,y.maxLengthOfMonomer));const s=Math.max(.1,1-(y.transparencyRate??0));e.globalAlpha=s;const h=e.measureText(i),d=h.fontBoundingBoxAscent+h.fontBoundingBoxDescent,m=o+(u-d)/2+h.fontBoundingBoxAscent;let p=y.color??r;return p&&p!==r||(p=a),e.fillStyle=p,y.selectedPosition===y.wordIdx+1&&(e.save(),e.fillStyle="rgba(60, 177, 115, 0.2)",e.fillRect(n,o,c,u),e.restore(),e.fillStyle=p),e.fillText(i,n+c/2,m),e.globalAlpha=1,e.textBaseline="top",e.textAlign="start",n+c}m.logger?.debug("Bio: printLeftOrCentered(), start"),e.textAlign="start";let b=t.substring(0),w=y.last?"":y.separator;y.drawStyle===h.MSA&&(w="");let v=!0,T=!0,C="difference";if(null!=y.gridCell&&null!=y.gridCell.cell.column&&(v=y.gridCell.cell.column.temp["color-code"]??!0,T=y.gridCell.cell.column.temp["compare-with-current"]??!0,C=y.gridCell.cell.column.temp["highlight-difference"]??"difference"),y.referenceSequence){const e=y.referenceSequence[y.wordIdx];T&&y.referenceSequence.length>0&&"difference"===C&&(y.transparencyRate=b==e?.7:y.transparencyRate),T&&y.referenceSequence.length>0&&"equal"===C&&(y.transparencyRate=b!=e?.7:y.transparencyRate)}null!=y.maxLengthOfMonomer&&(b=l(b,y.maxLengthOfMonomer));const A=b+w;(p=y.monomerTextSizeMap)[A]??(p[A]=e.measureText(A));let E=y.monomerTextSizeMap[A];(g=y.monomerTextSizeMap)[b]??(g[b]=e.measureText(b));let S=y.monomerTextSizeMap[b].width;const M=u/2-(E.fontBoundingBoxAscent+E.fontBoundingBoxDescent)/2+1;(f=y.monomerTextSizeMap)[w]??(f[w]=e.measureText(w));const P=y.monomerTextSizeMap[w].width;function _(t,r){let l=v?y.color:a;y.selectedPosition===y.wordIdx+1&&(e.fillStyle="rgba(60, 177, 115, 0.2)",e.fillRect(n+t-4,o-5,y.monomerTextSizeMap[b].width+8,u+10),l=i.Color.toHtml(i.Color.setAlpha(i.Color.fromHtml(l),255))),e.fillStyle=l,e.globalAlpha=1-y.transparencyRate,y.drawStyle===h.classic&&(e.fillText(b,n+t,o+M),e.fillStyle=s,e.fillText(w,n+r,o+M)),y.drawStyle===h.MSA&&e.fillText(b,n+t,o+M),e.globalAlpha=1}E=E.width,y.drawStyle===h.MSA&&(S=y.maxWord[y.wordIdx],E=y.maxWord[y.wordIdx]);const I=(y.maxWord[y.wordIdx]??0)-(y.maxWord[0]??0);if(y.left||E>c)return _(I,I+S),n+I+S+P;{const e=(c-E)/2;return _(e,e+S),n+I+e+S}}},3890:(e,t,n)=>{"use strict";n.d(t,{TE:()=>u,aS:()=>d,wz:()=>h});var i=n(6082),o=n(7389),r=n(4328),s=n(1991),a=n.n(s),l=n(7150);const c=60;function u(){const e=r.shell.tv.grid,t=e.dataFrame,n=a().count(0).take(t.columns.length).map(e=>t.columns.byIndex(e)).filter(e=>e.semType!==i.SEMTYPE.MACROMOLECULE).toArray().find(e=>-1!==e.name.toLowerCase().indexOf("id")),s=n?[n]:[],u=o.input.columns("Seq id columns",{table:t,value:s,filter:e=>e.semType!==i.SEMTYPE.MACROMOLECULE}),d=a().count(0).take(t.columns.length).map(e=>t.columns.byIndex(e)).filter(e=>!(!e||e.semType!==i.SEMTYPE.MACROMOLECULE)&&l._package.seqHelper.getSeqHandler(e).isFasta()).toArray(),m=d.length>0?d[0]:null,p=o.input.column("Seq column",{table:t,value:m,filter:e=>!(!e||e.semType!==i.SEMTYPE.MACROMOLECULE)&&l._package.seqHelper.getSeqHandler(e).isFasta()}),g=o.input.int("FASTA line width",{value:c});o.dialog({title:"Save as FASTA"}).add(o.inputs([u,p,g])).onOK(()=>{const t=u.value??[],n=p.value??null,i=g.value??c;n||r.shell.warning("Seq column is mandatory to save as FASTA.");const o=h(t,l._package.seqHelper.getSeqHandler(n),i),s=document.createElement("a");s.setAttribute("href",`data:text/plain;charset=utf-8,${encodeURIComponent(o)}`),s.setAttribute("download",`${e.dataFrame.name}.fasta`),s.click()}).show()}function h(e,t,n=c,i="\n"){const o=[];for(let r=0;r<t.length;r++){const s=e.map(e=>e.get(r).toString()).join("|"),a=d(t.getSplitted(r),n);o.push(`>${s}${i}`);for(const e of a)o.push(`${e}${i}`)}return"".concat(...o)}function d(e,t=c){let n=0;const i=e.length,o=[];for(;n<i;){const i=a().count(n).take(Math.min(e.length-n,t)).map(t=>e.getOriginal(t)).toArray(),r=i.map(e=>e.length>1?`[${e}]`:e).reduce((e,t)=>e+t,"");o.push(r),n+=i.length}return o}},3966:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(5765),s=n(5457),a={keyword:"items",type:"array",schemaType:["object","boolean"],before:"uniqueItems",error:{message:({params:{len:e}})=>i.str`must NOT have more than ${e} items`,params:({params:{len:e}})=>i._`{limit: ${e}}`},code(e){const{schema:t,parentSchema:n,it:i}=e,{prefixItems:a}=n;i.items=!0,(0,o.alwaysValidSchema)(i,t)||(a?(0,s.validateAdditionalItems)(e,a):e.ok((0,r.validateArray)(e)))}};t.default=a},4003:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5765),o=n(9029),r=n(4227),s={keyword:"required",type:"object",schemaType:"array",$data:!0,error:{message:({params:{missingProperty:e}})=>o.str`must have required property '${e}'`,params:({params:{missingProperty:e}})=>o._`{missingProperty: ${e}}`},code(e){const{gen:t,schema:n,schemaCode:s,data:a,$data:l,it:c}=e,{opts:u}=c;if(!l&&0===n.length)return;const h=n.length>=u.loopRequired;if(c.allErrors?function(){if(h||l)e.block$data(o.nil,d);else for(const t of n)(0,i.checkReportMissingProp)(e,t)}():function(){const r=t.let("missing");if(h||l){const n=t.let("valid",!0);e.block$data(n,()=>function(n,r){e.setParams({missingProperty:n}),t.forOf(n,s,()=>{t.assign(r,(0,i.propertyInData)(t,a,n,u.ownProperties)),t.if((0,o.not)(r),()=>{e.error(),t.break()})},o.nil)}(r,n)),e.ok(n)}else t.if((0,i.checkMissingProp)(e,n,r)),(0,i.reportMissingProp)(e,r),t.else()}(),u.strictRequired){const t=e.parentSchema.properties,{definedProperties:i}=e.it;for(const e of n)if(void 0===(null==t?void 0:t[e])&&!i.has(e)){const t=`required property "${e}" is not defined at "${c.schemaEnv.baseId+c.errSchemaPath}" (strictRequired)`;(0,r.checkStrictMode)(c,t,c.opts.strictRequired)}}function d(){t.forOf("prop",s,n=>{e.setParams({missingProperty:n}),t.if((0,i.noPropertyInData)(t,a,n,u.ownProperties),()=>e.error())})}}};t.default=s},4025:(e,t,n)=>{"use strict";n.d(t,{C:()=>a,j:()=>s});var i=n(6082),o=n(439),r=n(7278);const s=new class{constructor(){this.seqHandler="seq-handler",this.notationProvider="seq-handler.notation-provider"}};class a extends i.SemanticValue{get value(){return this.seqHandler.column.get(this.rowIdx)}set value(e){this.seqHandler.column.set(this.rowIdx,e)}get helm(){return this.seqHandler.getHelm(this.rowIdx)}isDna(){return this.seqHandler.alphabet===o.YI.DNA}isRna(){return this.seqHandler.alphabet===o.YI.RNA}isNaturalPeptide(){return this.seqHandler.alphabet===o.YI.PT}isHelm(){return this.seqHandler.isHelm()}constructor(e,t){if(null==t.column.dataFrame)throw new Error("Attribute .dataFrame is required for SeqValueBase from cell");const n=t.column.dataFrame.cell(e,t.column.name);super(i.SemanticValue.fromTableCell(n).dart),this.rowIdx=e,this.seqHandler=t}getSplitted(){return this.seqHandler.getSplitted(this.rowIdx)}getSplittedWithSugarsAndPhosphates(){if(!this.isDna()&&!this.isRna())return this.getSplitted();const e=(0,r.qp)(this.helm),t=[],n=/\(|\)/;for(let i=0;i<e.length;i++){const o=e.getOriginal(i),r=o.split(n).filter(e=>!!e);3===r.length?(t.push(r[0]),t.push(r[1]),t.push(r[2])):t.push(o)}return new r.Mu(t,this.seqHandler.defaultGapOriginal)}}},4042:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.CodeGen=t.Name=t.nil=t.stringify=t.str=t._=t.KeywordCxt=void 0;var i=n(2586);Object.defineProperty(t,"KeywordCxt",{enumerable:!0,get:function(){return i.KeywordCxt}});var o=n(9029);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return o._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return o.str}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return o.stringify}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return o.nil}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return o.Name}}),Object.defineProperty(t,"CodeGen",{enumerable:!0,get:function(){return o.CodeGen}});const r=n(3558),s=n(4551),a=n(396),l=n(3835),c=n(9029),u=n(6939),h=n(208),d=n(4227),m=n(3837),p=n(5944),g=(e,t)=>new RegExp(e,t);g.code="new RegExp";const f=["removeAdditional","useDefaults","coerceTypes"],y=new Set(["validate","serialize","parse","wrapper","root","schema","keyword","pattern","formats","validate$data","func","obj","Error"]),b={errorDataPath:"",format:"`validateFormats: false` can be used instead.",nullable:'"nullable" keyword is supported by default.',jsonPointers:"Deprecated jsPropertySyntax can be used instead.",extendRefs:"Deprecated ignoreKeywordsWithRef can be used instead.",missingRefs:"Pass empty schema with $id that should be ignored to ajv.addSchema.",processCode:"Use option `code: {process: (code, schemaEnv: object) => string}`",sourceCode:"Use option `code: {source: true}`",strictDefaults:"It is default now, see option `strict`.",strictKeywords:"It is default now, see option `strict`.",uniqueItems:'"uniqueItems" keyword is always validated.',unknownFormats:"Disable strict mode or pass `true` to `ajv.addFormat` (or `formats` option).",cache:"Map is used as cache, schema object as key.",serialize:"Map is used as cache, schema object as key.",ajvErrors:"It is default now."},w={ignoreKeywordsWithRef:"",jsPropertySyntax:"",unicode:'"minLength"/"maxLength" account for unicode characters by default.'};function v(e){var t,n,i,o,r,s,a,l,c,u,h,d,m,f,y,b,w,v,T,C,A,E,S,M,P;const _=e.strict,I=null===(t=e.code)||void 0===t?void 0:t.optimize,L=!0===I||void 0===I?1:I||0,x=null!==(i=null===(n=e.code)||void 0===n?void 0:n.regExp)&&void 0!==i?i:g,N=null!==(o=e.uriResolver)&&void 0!==o?o:p.default;return{strictSchema:null===(s=null!==(r=e.strictSchema)&&void 0!==r?r:_)||void 0===s||s,strictNumbers:null===(l=null!==(a=e.strictNumbers)&&void 0!==a?a:_)||void 0===l||l,strictTypes:null!==(u=null!==(c=e.strictTypes)&&void 0!==c?c:_)&&void 0!==u?u:"log",strictTuples:null!==(d=null!==(h=e.strictTuples)&&void 0!==h?h:_)&&void 0!==d?d:"log",strictRequired:null!==(f=null!==(m=e.strictRequired)&&void 0!==m?m:_)&&void 0!==f&&f,code:e.code?{...e.code,optimize:L,regExp:x}:{optimize:L,regExp:x},loopRequired:null!==(y=e.loopRequired)&&void 0!==y?y:200,loopEnum:null!==(b=e.loopEnum)&&void 0!==b?b:200,meta:null===(w=e.meta)||void 0===w||w,messages:null===(v=e.messages)||void 0===v||v,inlineRefs:null===(T=e.inlineRefs)||void 0===T||T,schemaId:null!==(C=e.schemaId)&&void 0!==C?C:"$id",addUsedSchema:null===(A=e.addUsedSchema)||void 0===A||A,validateSchema:null===(E=e.validateSchema)||void 0===E||E,validateFormats:null===(S=e.validateFormats)||void 0===S||S,unicodeRegExp:null===(M=e.unicodeRegExp)||void 0===M||M,int32range:null===(P=e.int32range)||void 0===P||P,uriResolver:N}}class T{constructor(e={}){this.schemas={},this.refs={},this.formats={},this._compilations=new Set,this._loading={},this._cache=new Map,e=this.opts={...e,...v(e)};const{es5:t,lines:n}=this.opts.code;this.scope=new c.ValueScope({scope:{},prefixes:y,es5:t,lines:n}),this.logger=function(e){if(!1===e)return _;if(void 0===e)return console;if(e.log&&e.warn&&e.error)return e;throw new Error("logger must implement log, warn and error methods")}(e.logger);const i=e.validateFormats;e.validateFormats=!1,this.RULES=(0,a.getRules)(),C.call(this,b,e,"NOT SUPPORTED"),C.call(this,w,e,"DEPRECATED","warn"),this._metaOpts=P.call(this),e.formats&&S.call(this),this._addVocabularies(),this._addDefaultMetaSchema(),e.keywords&&M.call(this,e.keywords),"object"==typeof e.meta&&this.addMetaSchema(e.meta),E.call(this),e.validateFormats=i}_addVocabularies(){this.addKeyword("$async")}_addDefaultMetaSchema(){const{$data:e,meta:t,schemaId:n}=this.opts;let i=m;"id"===n&&(i={...m},i.id=i.$id,delete i.$id),t&&e&&this.addMetaSchema(i,i[n],!1)}defaultMeta(){const{meta:e,schemaId:t}=this.opts;return this.opts.defaultMeta="object"==typeof e?e[t]||e:void 0}validate(e,t){let n;if("string"==typeof e){if(n=this.getSchema(e),!n)throw new Error(`no schema with key or ref "${e}"`)}else n=this.compile(e);const i=n(t);return"$async"in n||(this.errors=n.errors),i}compile(e,t){const n=this._addSchema(e,t);return n.validate||this._compileSchemaEnv(n)}compileAsync(e,t){if("function"!=typeof this.opts.loadSchema)throw new Error("options.loadSchema should be a function");const{loadSchema:n}=this.opts;return i.call(this,e,t);async function i(e,t){await o.call(this,e.$schema);const n=this._addSchema(e,t);return n.validate||r.call(this,n)}async function o(e){e&&!this.getSchema(e)&&await i.call(this,{$ref:e},!0)}async function r(e){try{return this._compileSchemaEnv(e)}catch(t){if(!(t instanceof s.default))throw t;return a.call(this,t),await l.call(this,t.missingSchema),r.call(this,e)}}function a({missingSchema:e,missingRef:t}){if(this.refs[e])throw new Error(`AnySchema ${e} is loaded but ${t} cannot be resolved`)}async function l(e){const n=await c.call(this,e);this.refs[e]||await o.call(this,n.$schema),this.refs[e]||this.addSchema(n,e,t)}async function c(e){const t=this._loading[e];if(t)return t;try{return await(this._loading[e]=n(e))}finally{delete this._loading[e]}}}addSchema(e,t,n,i=this.opts.validateSchema){if(Array.isArray(e)){for(const t of e)this.addSchema(t,void 0,n,i);return this}let o;if("object"==typeof e){const{schemaId:t}=this.opts;if(o=e[t],void 0!==o&&"string"!=typeof o)throw new Error(`schema ${t} must be string`)}return t=(0,u.normalizeId)(t||o),this._checkUnique(t),this.schemas[t]=this._addSchema(e,n,t,i,!0),this}addMetaSchema(e,t,n=this.opts.validateSchema){return this.addSchema(e,t,!0,n),this}validateSchema(e,t){if("boolean"==typeof e)return!0;let n;if(n=e.$schema,void 0!==n&&"string"!=typeof n)throw new Error("$schema must be a string");if(n=n||this.opts.defaultMeta||this.defaultMeta(),!n)return this.logger.warn("meta-schema not available"),this.errors=null,!0;const i=this.validate(n,e);if(!i&&t){const e="schema is invalid: "+this.errorsText();if("log"!==this.opts.validateSchema)throw new Error(e);this.logger.error(e)}return i}getSchema(e){let t;for(;"string"==typeof(t=A.call(this,e));)e=t;if(void 0===t){const{schemaId:n}=this.opts,i=new l.SchemaEnv({schema:{},schemaId:n});if(t=l.resolveSchema.call(this,i,e),!t)return;this.refs[e]=t}return t.validate||this._compileSchemaEnv(t)}removeSchema(e){if(e instanceof RegExp)return this._removeAllSchemas(this.schemas,e),this._removeAllSchemas(this.refs,e),this;switch(typeof e){case"undefined":return this._removeAllSchemas(this.schemas),this._removeAllSchemas(this.refs),this._cache.clear(),this;case"string":{const t=A.call(this,e);return"object"==typeof t&&this._cache.delete(t.schema),delete this.schemas[e],delete this.refs[e],this}case"object":{const t=e;this._cache.delete(t);let n=e[this.opts.schemaId];return n&&(n=(0,u.normalizeId)(n),delete this.schemas[n],delete this.refs[n]),this}default:throw new Error("ajv.removeSchema: invalid parameter")}}addVocabulary(e){for(const t of e)this.addKeyword(t);return this}addKeyword(e,t){let n;if("string"==typeof e)n=e,"object"==typeof t&&(this.logger.warn("these parameters are deprecated, see docs for addKeyword"),t.keyword=n);else{if("object"!=typeof e||void 0!==t)throw new Error("invalid addKeywords parameters");if(n=(t=e).keyword,Array.isArray(n)&&!n.length)throw new Error("addKeywords: keyword must be string or non-empty array")}if(L.call(this,n,t),!t)return(0,d.eachItem)(n,e=>x.call(this,e)),this;R.call(this,t);const i={...t,type:(0,h.getJSONTypes)(t.type),schemaType:(0,h.getJSONTypes)(t.schemaType)};return(0,d.eachItem)(n,0===i.type.length?e=>x.call(this,e,i):e=>i.type.forEach(t=>x.call(this,e,i,t))),this}getKeyword(e){const t=this.RULES.all[e];return"object"==typeof t?t.definition:!!t}removeKeyword(e){const{RULES:t}=this;delete t.keywords[e],delete t.all[e];for(const n of t.rules){const t=n.rules.findIndex(t=>t.keyword===e);t>=0&&n.rules.splice(t,1)}return this}addFormat(e,t){return"string"==typeof t&&(t=new RegExp(t)),this.formats[e]=t,this}errorsText(e=this.errors,{separator:t=", ",dataVar:n="data"}={}){return e&&0!==e.length?e.map(e=>`${n}${e.instancePath} ${e.message}`).reduce((e,n)=>e+t+n):"No errors"}$dataMetaSchema(e,t){const n=this.RULES.all;e=JSON.parse(JSON.stringify(e));for(const i of t){const t=i.split("/").slice(1);let o=e;for(const e of t)o=o[e];for(const e in n){const t=n[e];if("object"!=typeof t)continue;const{$data:i}=t.definition,r=o[e];i&&r&&(o[e]=H(r))}}return e}_removeAllSchemas(e,t){for(const n in e){const i=e[n];t&&!t.test(n)||("string"==typeof i?delete e[n]:i&&!i.meta&&(this._cache.delete(i.schema),delete e[n]))}}_addSchema(e,t,n,i=this.opts.validateSchema,o=this.opts.addUsedSchema){let r;const{schemaId:s}=this.opts;if("object"==typeof e)r=e[s];else{if(this.opts.jtd)throw new Error("schema must be object");if("boolean"!=typeof e)throw new Error("schema must be object or boolean")}let a=this._cache.get(e);if(void 0!==a)return a;n=(0,u.normalizeId)(r||n);const c=u.getSchemaRefs.call(this,e,n);return a=new l.SchemaEnv({schema:e,schemaId:s,meta:t,baseId:n,localRefs:c}),this._cache.set(a.schema,a),o&&!n.startsWith("#")&&(n&&this._checkUnique(n),this.refs[n]=a),i&&this.validateSchema(e,!0),a}_checkUnique(e){if(this.schemas[e]||this.refs[e])throw new Error(`schema with key or id "${e}" already exists`)}_compileSchemaEnv(e){if(e.meta?this._compileMetaSchema(e):l.compileSchema.call(this,e),!e.validate)throw new Error("ajv implementation error");return e.validate}_compileMetaSchema(e){const t=this.opts;this.opts=this._metaOpts;try{l.compileSchema.call(this,e)}finally{this.opts=t}}}function C(e,t,n,i="error"){for(const o in e){const r=o;r in t&&this.logger[i](`${n}: option ${o}. ${e[r]}`)}}function A(e){return e=(0,u.normalizeId)(e),this.schemas[e]||this.refs[e]}function E(){const e=this.opts.schemas;if(e)if(Array.isArray(e))this.addSchema(e);else for(const t in e)this.addSchema(e[t],t)}function S(){for(const e in this.opts.formats){const t=this.opts.formats[e];t&&this.addFormat(e,t)}}function M(e){if(Array.isArray(e))this.addVocabulary(e);else{this.logger.warn("keywords option as map is deprecated, pass array");for(const t in e){const n=e[t];n.keyword||(n.keyword=t),this.addKeyword(n)}}}function P(){const e={...this.opts};for(const t of f)delete e[t];return e}T.ValidationError=r.default,T.MissingRefError=s.default,t.default=T;const _={log(){},warn(){},error(){}},I=/^[a-z_$][a-z0-9_$:-]*$/i;function L(e,t){const{RULES:n}=this;if((0,d.eachItem)(e,e=>{if(n.keywords[e])throw new Error(`Keyword ${e} is already defined`);if(!I.test(e))throw new Error(`Keyword ${e} has invalid name`)}),t&&t.$data&&!("code"in t)&&!("validate"in t))throw new Error('$data keyword must have "code" or "validate" function')}function x(e,t,n){var i;const o=null==t?void 0:t.post;if(n&&o)throw new Error('keyword with "post" flag cannot have "type"');const{RULES:r}=this;let s=o?r.post:r.rules.find(({type:e})=>e===n);if(s||(s={type:n,rules:[]},r.rules.push(s)),r.keywords[e]=!0,!t)return;const a={keyword:e,definition:{...t,type:(0,h.getJSONTypes)(t.type),schemaType:(0,h.getJSONTypes)(t.schemaType)}};t.before?N.call(this,s,a,t.before):s.rules.push(a),r.all[e]=a,null===(i=t.implements)||void 0===i||i.forEach(e=>this.addKeyword(e))}function N(e,t,n){const i=e.rules.findIndex(e=>e.keyword===n);i>=0?e.rules.splice(i,0,t):(e.rules.push(t),this.logger.warn(`rule ${n} is not defined`))}function R(e){let{metaSchema:t}=e;void 0!==t&&(e.$data&&this.opts.$data&&(t=H(t)),e.validateSchema=this.compile(t,!0))}const $={$ref:"https://raw.githubusercontent.com/ajv-validator/ajv/master/lib/refs/data.json#"};function H(e){return{anyOf:[e,$]}}},4139:(e,t,n)=>{"use strict";n.d(t,{HX:()=>h,J:()=>c,b9:()=>u,gN:()=>a,uF:()=>r});var i,o,r,s=n(8152);!function(e){e.SPLIT_COL="~split",e.ACTIVITY="~activity",e.ACTIVITY_SCALED="activity_scaled",e.ALIGNED_SEQUENCE="~aligned_sequence",e.AMINO_ACID_RESIDUE="AAR",e.POSITION="Pos",e.P_VALUE="pValue",e.MEAN_DIFFERENCE="Mean difference"}(i||(i={})),function(e){e.AAR="AAR",e.POSITION="Pos",e.SELECTION="selection"}(o||(o={})),function(e){e.MONOMER="Monomer",e.MACROMOLECULE_DIFFERENCE="MacromoleculeDifference",e.ACTIVITY="activity",e.ACTIVITY_SCALED="activityScaled"}(r||(r={}));const a="MSA";var l,c;!function(e){e.CELL_CHANGING="isCellChanging"}(l||(l={})),function(e){e.SEPARATOR="."}(c||(c={}));const u="3.3.1",h={pepsea:{gapOpen:1.53,gapExtend:0,method:s.ZY[0]},kalign:{gapOpen:-1,gapExtend:-1,terminalGap:-1}}},4152:(e,t,n)=>{"use strict";n.d(t,{$u:()=>l,oT:()=>h});var i=n(6082),o=n(7362),r=n(4971);function s(e,t=!0){if(null==e)return"rgb(100,100,100)";const n=i.Color.fromHtml(e);if(t){const e=i.Color.g(n),t=i.Color.r(n),o=i.Color.b(n),r=Math.sqrt(Math.pow(0-t,2)+Math.pow(0-e,2)+Math.pow(0-o,2));if(r>210)return`rgb(${t/r*210},${e/r*210},${o/r*210})`}return i.Color.toRgb(n)}class a{static hashCode(e){let t=0;if(0===e.length)return t;for(let n=0;n<e.length;n++)t=(t<<5)-t+e.charCodeAt(n),t|=0;return t}}class l{}class c extends l{get(e,t){return"#666666"}}class u extends l{static get palette(){return u._pallete||(u._pallete=u.buildPalette()),u._pallete}static buildPalette(){return(0,r.pj)().then(e=>{e.awaitLoaded(1/0).then(()=>{const t=e.getMonomerLib();t.onChanged.subscribe(()=>{u.customMonomerColors={},u.polymerTypes=t.getPolymerTypes();for(const e of this.polymerTypes){const n=t.getMonomerSymbolsByType(e);for(const i of n){const n=t.getMonomer(e,i);n?.meta?.colors?.default?.background&&(this.customMonomerColors[i]||(this.customMonomerColors[i]={}),this.customMonomerColors[i][e]=s(n.meta.colors.default.background))}}})})}),[].concat(...Object.values(o.e.colourPalette))}get(e,t){const n=u.palette.length,i=u.customMonomerColors[e],o=t??"PEPTIDE";if(i&&i[o])return i[o];const r=a.hashCode(e)%n;return s(u.palette[r])}}u._pallete=null,u.customMonomerColors={},u.polymerTypes=[];class h extends o.e{static get Gray(){return void 0===this.gray&&(this.gray=new c),this.gray}static get Color(){return void 0===this.color&&(this.color=new u),this.color}}},4227:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.checkStrictMode=t.getErrorPath=t.Type=t.useFunc=t.setEvaluated=t.evaluatedPropsToName=t.mergeEvaluated=t.eachItem=t.unescapeJsonPointer=t.escapeJsonPointer=t.escapeFragment=t.unescapeFragment=t.schemaRefOrVal=t.schemaHasRulesButRef=t.schemaHasRules=t.checkUnknownRules=t.alwaysValidSchema=t.toHash=void 0;const i=n(9029),o=n(1520);function r(e,t=e.schema){const{opts:n,self:i}=e;if(!n.strictSchema)return;if("boolean"==typeof t)return;const o=i.RULES.keywords;for(const n in t)o[n]||p(e,`unknown keyword: "${n}"`)}function s(e,t){if("boolean"==typeof e)return!e;for(const n in e)if(t[n])return!0;return!1}function a(e){return"number"==typeof e?`${e}`:e.replace(/~/g,"~0").replace(/\//g,"~1")}function l(e){return e.replace(/~1/g,"/").replace(/~0/g,"~")}function c({mergeNames:e,mergeToName:t,mergeValues:n,resultToName:o}){return(r,s,a,l)=>{const c=void 0===a?s:a instanceof i.Name?(s instanceof i.Name?e(r,s,a):t(r,s,a),a):s instanceof i.Name?(t(r,a,s),s):n(s,a);return l!==i.Name||c instanceof i.Name?c:o(r,c)}}function u(e,t){if(!0===t)return e.var("props",!0);const n=e.var("props",i._`{}`);return void 0!==t&&h(e,n,t),n}function h(e,t,n){Object.keys(n).forEach(n=>e.assign(i._`${t}${(0,i.getProperty)(n)}`,!0))}t.toHash=function(e){const t={};for(const n of e)t[n]=!0;return t},t.alwaysValidSchema=function(e,t){return"boolean"==typeof t?t:0===Object.keys(t).length||(r(e,t),!s(t,e.self.RULES.all))},t.checkUnknownRules=r,t.schemaHasRules=s,t.schemaHasRulesButRef=function(e,t){if("boolean"==typeof e)return!e;for(const n in e)if("$ref"!==n&&t.all[n])return!0;return!1},t.schemaRefOrVal=function({topSchemaRef:e,schemaPath:t},n,o,r){if(!r){if("number"==typeof n||"boolean"==typeof n)return n;if("string"==typeof n)return i._`${n}`}return i._`${e}${t}${(0,i.getProperty)(o)}`},t.unescapeFragment=function(e){return l(decodeURIComponent(e))},t.escapeFragment=function(e){return encodeURIComponent(a(e))},t.escapeJsonPointer=a,t.unescapeJsonPointer=l,t.eachItem=function(e,t){if(Array.isArray(e))for(const n of e)t(n);else t(e)},t.mergeEvaluated={props:c({mergeNames:(e,t,n)=>e.if(i._`${n} !== true && ${t} !== undefined`,()=>{e.if(i._`${t} === true`,()=>e.assign(n,!0),()=>e.assign(n,i._`${n} || {}`).code(i._`Object.assign(${n}, ${t})`))}),mergeToName:(e,t,n)=>e.if(i._`${n} !== true`,()=>{!0===t?e.assign(n,!0):(e.assign(n,i._`${n} || {}`),h(e,n,t))}),mergeValues:(e,t)=>!0===e||{...e,...t},resultToName:u}),items:c({mergeNames:(e,t,n)=>e.if(i._`${n} !== true && ${t} !== undefined`,()=>e.assign(n,i._`${t} === true ? true : ${n} > ${t} ? ${n} : ${t}`)),mergeToName:(e,t,n)=>e.if(i._`${n} !== true`,()=>e.assign(n,!0===t||i._`${n} > ${t} ? ${n} : ${t}`)),mergeValues:(e,t)=>!0===e||Math.max(e,t),resultToName:(e,t)=>e.var("items",t)})},t.evaluatedPropsToName=u,t.setEvaluated=h;const d={};var m;function p(e,t,n=e.opts.strictSchema){if(n){if(t=`strict mode: ${t}`,!0===n)throw new Error(t);e.self.logger.warn(t)}}t.useFunc=function(e,t){return e.scopeValue("func",{ref:t,code:d[t.code]||(d[t.code]=new o._Code(t.code))})},function(e){e[e.Num=0]="Num",e[e.Str=1]="Str"}(m||(t.Type=m={})),t.getErrorPath=function(e,t,n){if(e instanceof i.Name){const o=t===m.Num;return n?o?i._`"[" + ${e} + "]"`:i._`"['" + ${e} + "']"`:o?i._`"/" + ${e}`:i._`"/" + ${e}.replace(/~/g, "~0").replace(/\\//g, "~1")`}return n?(0,i.getProperty)(e).toString():"/"+a(e)},t.checkStrictMode=p},4326:(e,t,n)=>{"use strict";n.d(t,{Fo:()=>u,Lp:()=>r,P4:()=>s,fH:()=>o,gp:()=>i,lT:()=>l,mH:()=>a});var i,o,r,s,a,l,c=n(6082);!function(e){e.tooltipWebLogo=".tooltipWebLogo"}(i||(i={})),function(e){e.Entropy="Entropy",e.full="100%"}(o||(o={})),function(e){e.TOP="top",e.MIDDLE="middle",e.BOTTOM="bottom"}(r||(r={})),function(e){e.LEFT="left",e.CENTER="center",e.RIGHT="right"}(s||(s={})),function(e){e.AUTO="auto",e.ON="on",e.OFF="off"}(a||(a={})),function(e){e.Filtered="Filtered",e.Selected="Selected"}(l||(l={}));const u=new class{constructor(){this.sequenceColumnName=null,this.valueAggrType=c.AGG.TOTAL_COUNT,this.valueColumnName="Activity",this.startPositionName=null,this.endPositionName=null,this.skipEmptySequences=!0,this.skipEmptyPositions=!1,this.shrinkEmptyTail=!0,this.backgroundColor=4294967295,this.positionHeight=o.Entropy,this.positionWidth=20,this.verticalAlignment=r.MIDDLE,this.horizontalAlignment=s.CENTER,this.fixWidth=!1,this.fitArea=!0,this.minHeight=25,this.maxHeight=300,this.maxMonomerLetters=5,this.showPositionLabels=!0,this.positionMarginState=a.AUTO,this.positionMargin=0,this.filterSource=l.Filtered}}},4328:e=>{"use strict";e.exports=grok},4356:(e,t,n)=>{"use strict";n.d(t,{E:()=>h,u:()=>u});var i=n(4328);const o="Libraries",r="Settings",s="DuplicateMonomerPreferences",a=4e3,l="nextChunk";let c=Promise.resolve();async function u(){let e;return c=c.then(async()=>{const t=await i.userSettings.getValue(o,r,!0);e=t?JSON.parse(t):{exclude:[],explicit:[],duplicateMonomerPreferences:{}};const n=await async function(){let e=await i.userSettings.getValue(o,s,!0)??"";if(!e)return{};for(;e.endsWith(l);){const t=`${s}${e.charAt(e.length-l.length-1)}`,n=await i.userSettings.getValue(o,t,!0)??"";e=e.slice(0,e.length-l.length-1)+n}return JSON.parse(e)}();e.exclude=e.exclude instanceof Array?e.exclude:[],e.explicit=e.explicit instanceof Array?e.explicit:[],e.duplicateMonomerPreferences=e.duplicateMonomerPreferences instanceof Object?e.duplicateMonomerPreferences:{};for(const t in n){e.duplicateMonomerPreferences[t]=e.duplicateMonomerPreferences[t]??{};for(const i in n[t])for(const o of n[t][i])e.duplicateMonomerPreferences[t][o]=i}}),await c,e}async function h(e){c=c.then(async()=>{e.duplicateMonomerPreferences=e.duplicateMonomerPreferences??{};const t={};for(const n in e.duplicateMonomerPreferences){t[n]={};for(const i in e.duplicateMonomerPreferences[n]){const o=e.duplicateMonomerPreferences[n][i];t[n][o]=t[n][o]??[],t[n][o].push(i)}}await async function(e){const t=JSON.stringify(e),n=Math.ceil(t.length/a);for(let e=0;e<n;e++){const r=0===e?s:`${s}${e}`,c=e<n-1?`${e+1}`:"",u=t.slice(e*a,(e+1)*a),h=c?u+c+l:u;await i.userSettings.add(o,r,h,!0)}}(t),e.duplicateMonomerPreferences={},await i.userSettings.add(o,r,JSON.stringify(e),!0)}),await c}},4426:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(4227),o={keyword:["then","else"],schemaType:["object","boolean"],code({keyword:e,parentSchema:t,it:n}){void 0===t.if&&(0,i.checkStrictMode)(n,`"${e}" without "if" is ignored`)}};t.default=o},4486:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={keyword:["maxProperties","minProperties"],type:"object",schemaType:"number",$data:!0,error:{message({keyword:e,schemaCode:t}){const n="maxProperties"===e?"more":"fewer";return i.str`must NOT have ${n} than ${t} properties`},params:({schemaCode:e})=>i._`{limit: ${e}}`},code(e){const{keyword:t,data:n,schemaCode:o}=e,r="maxProperties"===t?i.operators.GT:i.operators.LT;e.fail$data(i._`Object.keys(${n}).length ${r} ${o}`)}};t.default=o},4495:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.extendSubschemaMode=t.extendSubschemaData=t.getSubschema=void 0;const i=n(9029),o=n(4227);t.getSubschema=function(e,{keyword:t,schemaProp:n,schema:r,schemaPath:s,errSchemaPath:a,topSchemaRef:l}){if(void 0!==t&&void 0!==r)throw new Error('both "keyword" and "schema" passed, only one allowed');if(void 0!==t){const r=e.schema[t];return void 0===n?{schema:r,schemaPath:i._`${e.schemaPath}${(0,i.getProperty)(t)}`,errSchemaPath:`${e.errSchemaPath}/${t}`}:{schema:r[n],schemaPath:i._`${e.schemaPath}${(0,i.getProperty)(t)}${(0,i.getProperty)(n)}`,errSchemaPath:`${e.errSchemaPath}/${t}/${(0,o.escapeFragment)(n)}`}}if(void 0!==r){if(void 0===s||void 0===a||void 0===l)throw new Error('"schemaPath", "errSchemaPath" and "topSchemaRef" are required with "schema"');return{schema:r,schemaPath:s,topSchemaRef:l,errSchemaPath:a}}throw new Error('either "keyword" or "schema" must be passed')},t.extendSubschemaData=function(e,t,{dataProp:n,dataPropType:r,data:s,dataTypes:a,propertyName:l}){if(void 0!==s&&void 0!==n)throw new Error('both "data" and "dataProp" passed, only one allowed');const{gen:c}=t;if(void 0!==n){const{errorPath:s,dataPathArr:a,opts:l}=t;u(c.let("data",i._`${t.data}${(0,i.getProperty)(n)}`,!0)),e.errorPath=i.str`${s}${(0,o.getErrorPath)(n,r,l.jsPropertySyntax)}`,e.parentDataProperty=i._`${n}`,e.dataPathArr=[...a,e.parentDataProperty]}function u(n){e.data=n,e.dataLevel=t.dataLevel+1,e.dataTypes=[],t.definedProperties=new Set,e.parentData=t.data,e.dataNames=[...t.dataNames,n]}void 0!==s&&(u(s instanceof i.Name?s:c.let("data",s,!0)),void 0!==l&&(e.propertyName=l)),a&&(e.dataTypes=a)},t.extendSubschemaMode=function(e,{jtdDiscriminator:t,jtdMetadata:n,compositeRule:i,createErrors:o,allErrors:r}){void 0!==i&&(e.compositeRule=i),void 0!==o&&(e.createErrors=o),void 0!==r&&(e.allErrors=r),e.jtdDiscriminator=t,e.jtdMetadata=n}},4551:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(6939);class o extends Error{constructor(e,t,n,o){super(o||`can't resolve reference ${n} from id ${t}`),this.missingRef=(0,i.resolveUrl)(e,t,n),this.missingSchema=(0,i.normalizeId)((0,i.getFullPath)(e,this.missingRef))}}t.default=o},4574:(e,t,n)=>{"use strict";n.d(t,{O:()=>r,n:()=>o});var i=n(1858);class o{constructor(e,t=!0,n){return this.substructure=e,this.readOnly=t,this.logger=n,new Proxy(this,{set:(e,t,n)=>{if(this.logger?.debug(`BioFilterProps.set ${t.toString()}( '${n}' )`),this.readOnly)throw new Error("Properties are immutable.");return e[t]=n,!0}})}}class r{constructor(){this.onChanged=new i.Subject,this._props=null,this._propsChanging=!1}get props(){return this._props||(this._props=this.emptyProps),this._props}set props(e){this._propsChanging=!0;try{this._props=e,this.applyProps(),this.onChanged.next()}finally{this._propsChanging=!1}}saveProps(){const e={};for(const[t,n]of Object.entries(this.props))"_onChanged"!==t&&"logger"!==t&&(e[t]=this.props[t]);return e}async detach(){}get filterSummary(){return this.props.substructure}get isFiltering(){return""!==this.props.substructure}resetFilter(){this.props=this.emptyProps,this.onChanged.next()}}},4588:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/format-annotation","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/format-annotation":true},"$dynamicAnchor":"meta","title":"Format vocabulary meta-schema for annotation results","type":["object","boolean"],"properties":{"format":{"type":"string"}}}')},4737:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={keyword:"format",type:["number","string"],schemaType:"string",$data:!0,error:{message:({schemaCode:e})=>i.str`must match format "${e}"`,params:({schemaCode:e})=>i._`{format: ${e}}`},code(e,t){const{gen:n,data:o,$data:r,schema:s,schemaCode:a,it:l}=e,{opts:c,errSchemaPath:u,schemaEnv:h,self:d}=l;c.validateFormats&&(r?function(){const r=n.scopeValue("formats",{ref:d.formats,code:c.code.formats}),s=n.const("fDef",i._`${r}[${a}]`),l=n.let("fType"),u=n.let("format");n.if(i._`typeof ${s} == "object" && !(${s} instanceof RegExp)`,()=>n.assign(l,i._`${s}.type || "string"`).assign(u,i._`${s}.validate`),()=>n.assign(l,i._`"string"`).assign(u,s)),e.fail$data((0,i.or)(!1===c.strictSchema?i.nil:i._`${a} && !${u}`,function(){const e=h.$async?i._`(${s}.async ? await ${u}(${o}) : ${u}(${o}))`:i._`${u}(${o})`,n=i._`(typeof ${u} == "function" ? ${e} : ${u}.test(${o}))`;return i._`${u} && ${u} !== true && ${l} === ${t} && !${n}`}()))}():function(){const r=d.formats[s];if(!r)return void function(){if(!1!==c.strictSchema)throw new Error(e());function e(){return`unknown format "${s}" ignored in schema at path "${u}"`}d.logger.warn(e())}();if(!0===r)return;const[a,l,m]=function(e){const t=e instanceof RegExp?(0,i.regexpCode)(e):c.code.formats?i._`${c.code.formats}${(0,i.getProperty)(s)}`:void 0,o=n.scopeValue("formats",{key:s,ref:e,code:t});return"object"!=typeof e||e instanceof RegExp?["string",e,o]:[e.type||"string",e.validate,i._`${o}.validate`]}(r);a===t&&e.pass(function(){if("object"==typeof r&&!(r instanceof RegExp)&&r.async){if(!h.$async)throw new Error("async format in sync schema");return i._`await ${m}(${o})`}return"function"==typeof l?i._`${m}(${o})`:i._`${m}.test(${o})`}())}())}};t.default=o},4834:(e,t,n)=>{"use strict";const{HEX:i}=n(4914),o=/^(?:(?:25[0-5]|2[0-4]\d|1\d{2}|[1-9]\d|\d)\.){3}(?:25[0-5]|2[0-4]\d|1\d{2}|[1-9]\d|\d)$/u;function r(e){if(c(e,".")<3)return{host:e,isIPV4:!1};const t=e.match(o)||[],[n]=t;return n?{host:l(n,"."),isIPV4:!0}:{host:e,isIPV4:!1}}function s(e,t=!1){let n="",o=!0;for(const t of e){if(void 0===i[t])return;"0"!==t&&!0===o&&(o=!1),o||(n+=t)}return t&&0===n.length&&(n="0"),n}function a(e){if(c(e,":")<2)return{host:e,isIPV6:!1};const t=function(e){let t=0;const n={error:!1,address:"",zone:""},i=[],o=[];let r=!1,a=!1,l=!1;function c(){if(o.length){if(!1===r){const e=s(o);if(void 0===e)return n.error=!0,!1;i.push(e)}o.length=0}return!0}for(let s=0;s<e.length;s++){const u=e[s];if("["!==u&&"]"!==u)if(":"!==u)if("%"===u){if(!c())break;r=!0}else o.push(u);else{if(!0===a&&(l=!0),!c())break;if(t++,i.push(":"),t>7){n.error=!0;break}s-1>=0&&":"===e[s-1]&&(a=!0)}}return o.length&&(r?n.zone=o.join(""):l?i.push(o.join("")):i.push(s(o))),n.address=i.join(""),n}(e);if(t.error)return{host:e,isIPV6:!1};{let e=t.address,n=t.address;return t.zone&&(e+="%"+t.zone,n+="%25"+t.zone),{host:e,escapedHost:n,isIPV6:!0}}}function l(e,t){let n="",i=!0;const o=e.length;for(let r=0;r<o;r++){const s=e[r];"0"===s&&i?(r+1<=o&&e[r+1]===t||r+1===o)&&(n+=s,i=!1):(i=s===t,n+=s)}return n}function c(e,t){let n=0;for(let i=0;i<e.length;i++)e[i]===t&&n++;return n}const u=/^\.\.?\//u,h=/^\/\.(?:\/|$)/u,d=/^\/\.\.(?:\/|$)/u,m=/^\/?(?:.|\n)*?(?=\/|$)/u;e.exports={recomposeAuthority:function(e){const t=[];if(void 0!==e.userinfo&&(t.push(e.userinfo),t.push("@")),void 0!==e.host){let n=unescape(e.host);const i=r(n);if(i.isIPV4)n=i.host;else{const t=a(i.host);n=!0===t.isIPV6?`[${t.escapedHost}]`:e.host}t.push(n)}return"number"!=typeof e.port&&"string"!=typeof e.port||(t.push(":"),t.push(String(e.port))),t.length?t.join(""):void 0},normalizeComponentEncoding:function(e,t){const n=!0!==t?escape:unescape;return void 0!==e.scheme&&(e.scheme=n(e.scheme)),void 0!==e.userinfo&&(e.userinfo=n(e.userinfo)),void 0!==e.host&&(e.host=n(e.host)),void 0!==e.path&&(e.path=n(e.path)),void 0!==e.query&&(e.query=n(e.query)),void 0!==e.fragment&&(e.fragment=n(e.fragment)),e},removeDotSegments:function(e){const t=[];for(;e.length;)if(e.match(u))e=e.replace(u,"");else if(e.match(h))e=e.replace(h,"/");else if(e.match(d))e=e.replace(d,"/"),t.pop();else if("."===e||".."===e)e="";else{const n=e.match(m);if(!n)throw new Error("Unexpected dot segment condition");{const i=n[0];e=e.slice(i.length),t.push(i)}}return t.join("")},normalizeIPv4:r,normalizeIPv6:a,stringArrayToHexStripped:s}},4845:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(3025),o={keyword:"dependentSchemas",type:"object",schemaType:"object",code:e=>(0,i.validateSchemaDeps)(e)};t.default=o},4870:(e,t,n)=>{"use strict";n.d(t,{Kd:()=>a,Ku:()=>s,me:()=>r});var i=n(4328),o=n(6082);function r(){const e=i.shell.t.columns.bySemTypeAll(o.SEMTYPE.MACROMOLECULE);return null==e?(i.shell.error("Current table does not contain macromolecules"),[]):e}function s(e,t){e.innerHTML="",e.append(t)}function a(e,t,n,i,o){const r=()=>{const o=e.col(t);o&&(o.width=n),i&&(e.props.rowHeight=i)};if(o)return void r();const s=e.onAfterDrawOverlay.subscribe(()=>{s.unsubscribe(),setTimeout(()=>{r()})})}},4914:e=>{"use strict";e.exports={HEX:{0:0,1:1,2:2,3:3,4:4,5:5,6:6,7:7,8:8,9:9,a:10,A:10,b:11,B:11,c:12,C:12,d:13,D:13,e:14,E:14,f:15,F:15}}},4954:(e,t,n)=>{"use strict";n.d(t,{a7:()=>p,if:()=>f,BQ:()=>y,nI:()=>g});var i=n(4328),o=n(7389),r=n(6082),s=n(8070),a=n(2003),l=n(439);const c=31;async function u(e,t,n=!1,o){const s=t.getSeqHandler(e);let a;o??=new Map;const l=s.isHelm()?t.getSeqMonomers(e):Object.keys(s.stats.freq).filter(e=>""!==e);for(let e=0;e<l.length;e++)o.has(l[e])||o.set(l[e],`${o.size+1}`);if(s.isHelm())a=await i.functions.call("HELM:getMolFiles",{col:e}),a=function(e,t,n=!1){const i=new Array(e.length);for(let o=0;o<e.length;o++){let r=0,s=0,a="\n Datagrok macromolecule handler\n\n 0 0 0 0 0 0 999 V3000\nM V30 BEGIN CTAB\n";const l=e.get(o);r=l.indexOf("\n",r)+1,r=l.indexOf("\n",r)+1,r=l.indexOf("\n",r)+1;const u=parseInt(l.substring(r,r+3)),h=parseInt(l.substring(r+3,r+6));a+=`M V30 COUNTS ${u} ${h} 0 0 0\n`,a+="M V30 BEGIN ATOM\n";for(let e=0;e<u;e++){r=l.indexOf("\n",r)+1+c,s=l.indexOf(" ",r);const i=l.substring(r,s);a+=n?`M V30 ${e+1} R${t.get(i)} 0.000 0.000 0 0\n`:`M V30 ${e+1} At 0.000 0.000 0 0 MASS=${t.get(i)}\n`}a+="M V30 END ATOM\n",a+="M V30 BEGIN BOND\n";for(let e=0;e<h;e++){r=l.indexOf("\n",r)+1;const t=parseInt(l.substring(r,r+3).trim()),n=parseInt(l.substring(r+3,r+6).trim());a+=`M V30 ${e+1} ${parseInt(l.substring(r+6,r+9).trim())} ${t} ${n}\n`}a+="M V30 END BOND\n",a+="M V30 END CTAB\n",a+="M END",i[o]=a}return i}(a,o,n);else{a=new Array(e.length);for(let t=0;t<e.length;t++){const e=h(s.getSplitted(t),o,n);a[t]=e}}return r.Column.fromStrings("monomericMols",a)}function h(e,t,n=!1){let i="\n Datagrok macromolecule handler\n\n 0 0 0 0 0 0 999 V3000\nM V30 BEGIN CTAB\n";i+=`M V30 COUNTS ${e.length} ${e.length?e.length-1:0} 0 0 0\n`,i+="M V30 BEGIN ATOM\n";for(let o=0;o<e.length;o++){const r=e.getCanonical(o);r!==l._S&&(i+=n?`M V30 ${o+1} R${t.get(r)} 0.000 0.000 0 0\n`:`M V30 ${o+1} At 0.000 0.000 0 0 MASS=${t.get(r)}\n`)}i+="M V30 END ATOM\n",i+="M V30 BEGIN BOND\n";for(let t=0;t<e.length-1;t++)i+=`M V30 ${t+1} 1 ${t+1} ${t+2}\n`;return i+="M V30 END BOND\n",i+="M V30 END CTAB\n",i+="M END",i}var d=n(4870);const m="substr_helm";class p{seqHelper;units;separator;inputsDiv;substructureInput;separatorInput;editHelmLink;columnsInput;grid;col;dialog;constructor(e,t){this.seqHelper=t,this.col=e[0],this.createUI()}editHelmLinkAction(){(0,d.Ku)(this.inputsDiv,this.grid.root),o.tools.waitForElementInDom(this.grid.root).then(()=>{setTimeout(()=>{this.grid.cell(m,0).element.children[0].dispatchEvent(new KeyboardEvent("keydown",{key:"Enter"}))},100)})}updateInputs(){const e=this.units===a.Hi.HELM?o.divV([this.columnsInput,this.editHelmLink]):this.units===a.Hi.SEPARATOR?o.inputs([this.columnsInput,this.substructureInput,this.separatorInput]):o.inputs([this.columnsInput,this.substructureInput]);(0,d.Ku)(this.inputsDiv,e)}updateNotationDiv(){this.units=this.col.meta.units,this.separator=this.col.getTag(a.gp.separator);const e=this.dialog.root.getElementsByClassName("notation-text")[0];e&&(e.textContent=`Notation: ${this.units}`)}createUI(){const e=i.shell.tv.dataFrame;this.columnsInput=o.input.column("Column",{table:e,value:this.col,onValueChanged:e=>{this.col=e,this.updateNotationDiv(),this.updateInputs()},filter:e=>e.semType===r.SEMTYPE.MACROMOLECULE}),this.substructureInput=o.input.string("Substructure",{value:""}),this.editHelmLink=o.link("Edit helm",()=>this.editHelmLinkAction(),void 0,{style:{position:"relative",left:"95px"}});const t=r.DataFrame.create(1);t.columns.addNewString(m).init(e=>""),t.col(m).semType=this.col.semType,t.col(m).meta.units=a.Hi.HELM,this.grid=t.plot.grid(),this.separatorInput=o.input.string("Separator",{value:this.separator}),this.inputsDiv=o.div(),this.units=this.col.meta.units,this.separator=this.col.getTag(a.gp.separator),this.updateInputs(),this.dialog=o.dialog("Substructure Search").add(o.divV([o.divText(`Notation: ${this.units}`,"notation-text"),this.inputsDiv])).onOK(async()=>{let e,n=this.units===a.Hi.HELM?t.get(m,0):this.substructureInput.value;this.units===a.Hi.SEPARATOR&&this.separatorInput.value!==this.separator&&this.separatorInput.value&&(n=n.replaceAll(this.separatorInput.value,this.separator)),e=this.units===a.Hi.HELM?await f(n,this.col,this.seqHelper):g(n,this.col),this.col.dataFrame.filter.and(e)}).show()}}function g(e,t,n){const i=n?function(e,t){const n=`${t}`.replace(/[\-\[\]\/\{\}\(\)\*\+\?\.\\\^\$\|]/g,"\\$&"),i=e.charAt(0)===t,o=e.charAt(e.length-1)===t,r=e.replace(new RegExp(`^${n}|${n}$`,"g"),"");return i?o?`${n}${r}${n}`:`${n}${r}${n}|${n}${r}$`:o?`^${r}${n}|${n}${r}${n}`:`^${r}${n}|${n}${r}${n}|${n}${r}$`}(e,n):e,o=r.BitSet.create(t.length);for(let n=0;n<t.length;n++){const r=t.get(n);(r.match(i)||r===e)&&o.set(n,!0,!1)}return o}async function f(e,t,n){t.version!==t.temp["last-invalidated-version"]&&await y(t,n,!0);const o=r.Column.string("helm",1).init(t=>e);o.semType=r.SEMTYPE.MACROMOLECULE,o.meta.units=a.Hi.HELM;const s=await u(o,n,!0,t.temp["monomers-dict"]);return(await i.functions.call("Chem:searchSubstructure",{molStringsColumn:t.temp["monomeric-mols"],molString:s.get(0),molBlockFailover:""})).get(0)}async function y(e,t,n){const i=r.TaskBarProgressIndicator.create(`Invalidating molfiles for ${e.name}`);try{await(0,s.cb)(10);const i=new Map,o=await u(e,t,n,i);e.temp["monomeric-mols"]=o,e.temp["monomers-dict"]=i,e.temp["last-invalidated-version"]=e.version}finally{i.close()}}},4971:(e,t,n)=>{"use strict";n.d(t,{YS:()=>c,ic:()=>r,lH:()=>l,pY:()=>s,pj:()=>a});var i=n(6082),o=n(9192);const r="Files";async function s(e,t){for(const n of e){const e=await n.listLibraries();if(e.includes(t)||e.includes(`${t}.json`))return n}return null}async function a(){const e=i.Func.find({package:"Bio",name:"getMonomerLibHelper"});if(0===e.length)throw new Error('Package "Bio" must be installed for MonomerLibHelper.');return(await e[0].prepare().call()).getOutputParamValue()}class l{constructor(e,t,n,i,r){this.monomerLib=e,this.symbol=t,this.polymerType=n,this.monomerType=i,this.monomerLinks=r,this.error=null;try{this.monomers=this.monomerLinks.map(e=>{const n=this.monomerLib.getMonomer(this.polymerType,e.symbol);if(!n)throw new Error("Monomer not found: ");if(n.lib?.source!=e.source)throw new Error(`Monomer '${t}' found in different library.`);return n})}catch(e){const[t,n]=(0,o.AP)(e);this.error=t,this.monomers=[]}}}class c{constructor(e,t,n=void 0,i=void 0){this.description=e,this.placeholders=t,this.source=n,this.error=i}updateSets(e,t=!1){t&&(this.placeholders=[]);for(const t of e)t.error||this._updateSetInt(t)}_updateSetInt(e){for(const t of e.placeholders)this.placeholders.push(t)}}},5056:(e,t,n)=>{"use strict";e.exports=function(e){var t=n.nc;t&&e.setAttribute("nonce",t)}},5072:e=>{"use strict";var t=[];function n(e){for(var n=-1,i=0;i<t.length;i++)if(t[i].identifier===e){n=i;break}return n}function i(e,i){for(var r={},s=[],a=0;a<e.length;a++){var l=e[a],c=i.base?l[0]+i.base:l[0],u=r[c]||0,h="".concat(c," ").concat(u);r[c]=u+1;var d=n(h),m={css:l[1],media:l[2],sourceMap:l[3],supports:l[4],layer:l[5]};if(-1!==d)t[d].references++,t[d].updater(m);else{var p=o(m,i);i.byIndex=a,t.splice(a,0,{identifier:h,updater:p,references:1})}s.push(h)}return s}function o(e,t){var n=t.domAPI(t);return n.update(e),function(t){if(t){if(t.css===e.css&&t.media===e.media&&t.sourceMap===e.sourceMap&&t.supports===e.supports&&t.layer===e.layer)return;n.update(e=t)}else n.remove()}}e.exports=function(e,o){var r=i(e=e||[],o=o||{});return function(e){e=e||[];for(var s=0;s<r.length;s++){var a=n(r[s]);t[a].references--}for(var l=i(e,o),c=0;c<r.length;c++){var u=n(r[c]);0===t[u].references&&(t[u].updater(),t.splice(u,1))}r=l}}},5333:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5765),o=n(9029),r=n(4227),s=n(4227),a={keyword:"patternProperties",type:"object",schemaType:"object",code(e){const{gen:t,schema:n,data:a,parentSchema:l,it:c}=e,{opts:u}=c,h=(0,i.allSchemaProperties)(n),d=h.filter(e=>(0,r.alwaysValidSchema)(c,n[e]));if(0===h.length||d.length===h.length&&(!c.opts.unevaluated||!0===c.props))return;const m=u.strictSchema&&!u.allowMatchingProperties&&l.properties,p=t.name("valid");!0===c.props||c.props instanceof o.Name||(c.props=(0,s.evaluatedPropsToName)(t,c.props));const{props:g}=c;function f(e){for(const t in m)new RegExp(e).test(t)&&(0,r.checkStrictMode)(c,`property ${t} matches pattern ${e} (use allowMatchingProperties)`)}function y(n){t.forIn("key",a,r=>{t.if(o._`${(0,i.usePattern)(e,n)}.test(${r})`,()=>{const i=d.includes(n);i||e.subschema({keyword:"patternProperties",schemaProp:n,dataProp:r,dataPropType:s.Type.Str},p),c.opts.unevaluated&&!0!==g?t.assign(o._`${g}[${r}]`,!0):i||c.allErrors||t.if((0,o.not)(p),()=>t.break())})})}!function(){for(const e of h)m&&f(e),c.allErrors?y(e):(t.var(p,!0),y(e),t.if(p))}()}};t.default=a},5354:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(494),o={keyword:"prefixItems",type:"array",schemaType:["array"],before:"uniqueItems",code:e=>(0,i.validateTuple)(e,"items")};t.default=o},5413:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(1846),o=n(4845),r=n(2626),s=[i.default,o.default,r.default];t.default=s},5433:(e,t,n)=>{"use strict";n.d(t,{C:()=>h,r:()=>d});var i=n(6082),o=n(7389),r=n(4328),s=n(1757),a=n.n(s),l=n(2003);let c=null,u=[];function h(e,t){let n=e??r.shell.t.columns.bySemType("Macromolecule");if(!n)throw new Error("No column with Macromolecule semantic type found");let s=t.getSeqHandler(n),h=s.notation;const m=o.divText("Current notation: "+h,{style:{"text-align":"center","font-weight":"bold","font-size":"14px",padding:"5px"}}),p=[l.Hi.FASTA,l.Hi.SEPARATOR,l.Hi.HELM,l.Hi.BILN],g=o.input.column("Column",{table:r.shell.t,value:n,filter:e=>e.semType===i.SEMTYPE.MACROMOLECULE,nullable:!1,onValueChanged:e=>(n=e,s=t.getSeqHandler(n),h=s.notation,h===l.Hi.HELM&&(b.value="/"),m.textContent="Current notation: "+h,y=p.filter(e=>e!==h),v=o.input.choice("Convert to",{value:y[0],items:y,onValueChanged:w}),w(),c?.clear(),void c?.add(o.div([m,g.root,v.root,b.root])))}),f=["-",".","/"];let y=p.filter(e=>e!==h);const b=o.input.choice("Separator",{value:f[0],items:f}),w=()=>{v.value!==l.Hi.SEPARATOR?a()(b.root).hide():a()(b.root).show()};let v=o.input.choice("Convert to",{value:y[0],items:y,onValueChanged:w});w(),v.onChanged.subscribe(()=>{w()}),null==c&&(c=o.dialog("Convert Sequence Notation").add(o.div([m,g.root,v.root,b.root])).onOK(async()=>{const e=v.value,i=e===l.Hi.SEPARATOR?b.value:void 0;await d(n,t,e,i)}).show({x:350,y:100}),u.push(c.onClose.subscribe(e=>{u.forEach(e=>{e.unsubscribe()}),u=[],c=null})))}async function d(e,t,n,i){const o=t.getSeqHandler(e).convert(n,i);e.dataFrame.columns.add(o);const s=await r.functions.call("Bio:detectMacromolecule",{col:o});return s&&(o.semType=s),await r.data.detectSemanticTypes(e.dataFrame),o}},5457:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateAdditionalItems=void 0;const i=n(9029),o=n(4227),r={keyword:"additionalItems",type:"array",schemaType:["boolean","object"],before:"uniqueItems",error:{message:({params:{len:e}})=>i.str`must NOT have more than ${e} items`,params:({params:{len:e}})=>i._`{limit: ${e}}`},code(e){const{parentSchema:t,it:n}=e,{items:i}=t;Array.isArray(i)?s(e,i):(0,o.checkStrictMode)(n,'"additionalItems" is ignored when "items" is not an array of schemas')}};function s(e,t){const{gen:n,schema:r,data:s,keyword:a,it:l}=e;l.items=!0;const c=n.const("len",i._`${s}.length`);if(!1===r)e.setParams({len:t.length}),e.pass(i._`${c} <= ${t.length}`);else if("object"==typeof r&&!(0,o.alwaysValidSchema)(l,r)){const r=n.var("valid",i._`${c} <= ${t.length}`);n.if((0,i.not)(r),()=>function(r){n.forRange("i",t.length,c,t=>{e.subschema({keyword:a,dataProp:t,dataPropType:o.Type.Num},r),l.allErrors||n.if((0,i.not)(r),()=>n.break())})}(r)),e.ok(r)}}t.validateAdditionalItems=s,t.default=r},5488:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,"\n.ui-form.ui-tooltip .ui-input-root > label.ui-input-label:not(:empty) {\n /* min-width: 30px; /* Breaks right margin /**/\n}\n\n.ui-form.ui-tooltip .ui-input-root > div.ui-input-text:not(:empty) {\n margin-top: 6px;\n}","",{version:3,sources:["webpack://./css/cell-renderer.css"],names:[],mappings:";AACA;IACI,8CAA8C;AAClD;;AAEA;IACI,eAAe;AACnB",sourcesContent:["\n.ui-form.ui-tooltip .ui-input-root > label.ui-input-label:not(:empty) {\n /* min-width: 30px; /* Breaks right margin /**/\n}\n\n.ui-form.ui-tooltip .ui-input-root > div.ui-input-text:not(:empty) {\n margin-top: 6px;\n}"],sourceRoot:""}]);const a=s},5520:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2476),o=n(3252),r=n(2721),s=n(3799),a=[i.default,o.default,r.default,s.default];t.default=a},5540:(e,t,n)=>{"use strict";e=n.hmd(e);var i,o=(i="undefined"!=typeof document&&document.currentScript?document.currentScript.src:void 0,function(e={}){var t,n,o=void 0!==e?e:{};o.ready=new Promise(function(e,i){t=e,n=i});var r,s=Object.assign({},o),a="object"==typeof window,l="function"==typeof importScripts,c=("object"==typeof process&&"object"==typeof process.versions&&process.versions.node,"");(a||l)&&(l?c=self.location.href:"undefined"!=typeof document&&document.currentScript&&(c=document.currentScript.src),i&&(c=i),c=0!==c.indexOf("blob:")?c.substr(0,c.replace(/[?#].*/,"").lastIndexOf("/")+1):"",l&&(r=e=>{var t=new XMLHttpRequest;return t.open("GET",e,!1),t.responseType="arraybuffer",t.send(null),new Uint8Array(t.response)})),o.print||console.log.bind(console);var u,h,d=o.printErr||console.warn.bind(console);Object.assign(o,s),s=null,o.arguments&&o.arguments,o.thisProgram&&o.thisProgram,o.quit&&o.quit,o.wasmBinary&&(u=o.wasmBinary),o.noExitRuntime,"object"!=typeof WebAssembly&&_("no native wasm support detected");var m,p,g,f=!1;function y(){var e=h.buffer;o.HEAP8=m=new Int8Array(e),o.HEAP16=new Int16Array(e),o.HEAP32=new Int32Array(e),o.HEAPU8=p=new Uint8Array(e),o.HEAPU16=new Uint16Array(e),o.HEAPU32=g=new Uint32Array(e),o.HEAPF32=new Float32Array(e),o.HEAPF64=new Float64Array(e)}var b=[],w=[],v=[];function T(e){b.unshift(e)}function C(e){v.unshift(e)}var A,E,S=0,M=null,P=null;function _(e){o.onAbort&&o.onAbort(e),d(e="Aborted("+e+")"),f=!0,e+=". Build with -sASSERTIONS for more info.";var t=new WebAssembly.RuntimeError(e);throw n(t),t}function I(e){return e.startsWith("data:application/octet-stream;base64,")}function L(e){try{if(e==A&&u)return new Uint8Array(u);if(r)return r(e);throw"both async and sync fetching of the wasm failed"}catch(e){_(e)}}function x(e,t,n){return function(e){return u||!a&&!l||"function"!=typeof fetch?Promise.resolve().then(function(){return L(e)}):fetch(e,{credentials:"same-origin"}).then(function(t){if(!t.ok)throw"failed to load wasm binary file at '"+e+"'";return t.arrayBuffer()}).catch(function(){return L(e)})}(e).then(function(e){return WebAssembly.instantiate(e,t)}).then(function(e){return e}).then(n,function(e){d("failed to asynchronously prepare wasm: "+e),_(e)})}function N(e){for(;e.length>0;)e.shift()(o)}function R(e){this.excPtr=e,this.ptr=e-24,this.set_type=function(e){g[this.ptr+4>>2]=e},this.get_type=function(){return g[this.ptr+4>>2]},this.set_destructor=function(e){g[this.ptr+8>>2]=e},this.get_destructor=function(){return g[this.ptr+8>>2]},this.set_caught=function(e){e=e?1:0,m[this.ptr+12|0]=e},this.get_caught=function(){return 0!=m[this.ptr+12|0]},this.set_rethrown=function(e){e=e?1:0,m[this.ptr+13|0]=e},this.get_rethrown=function(){return 0!=m[this.ptr+13|0]},this.init=function(e,t){this.set_adjusted_ptr(0),this.set_type(e),this.set_destructor(t)},this.set_adjusted_ptr=function(e){g[this.ptr+16>>2]=e},this.get_adjusted_ptr=function(){return g[this.ptr+16>>2]},this.get_exception_ptr=function(){if(U(this.get_type()))return g[this.excPtr>>2];var e=this.get_adjusted_ptr();return 0!==e?e:this.excPtr}}function $(e){var t=h.buffer;try{return h.grow(e-t.byteLength+65535>>>16),y(),1}catch(e){}}function H(e){return o["_"+e]}I(A="wasmDbscan.wasm")||(E=A,A=o.locateFile?o.locateFile(E,c):c+E);var O="undefined"!=typeof TextDecoder?new TextDecoder("utf8"):void 0;function D(e,t,n,i,o){var r={string:e=>{var t=0;return null!=e&&0!==e&&(t=function(e){var t=function(e){for(var t=0,n=0;n<e.length;++n){var i=e.charCodeAt(n);i<=127?t++:i<=2047?t+=2:i>=55296&&i<=57343?(t+=4,++n):t+=3}return t}(e)+1,n=V(t);return function(e,t,n){!function(e,t,n,i){if(!(i>0))return 0;for(var o=n+i-1,r=0;r<e.length;++r){var s=e.charCodeAt(r);if(s>=55296&&s<=57343&&(s=65536+((1023&s)<<10)|1023&e.charCodeAt(++r)),s<=127){if(n>=o)break;t[n++]=s}else if(s<=2047){if(n+1>=o)break;t[n++]=192|s>>6,t[n++]=128|63&s}else if(s<=65535){if(n+2>=o)break;t[n++]=224|s>>12,t[n++]=128|s>>6&63,t[n++]=128|63&s}else{if(n+3>=o)break;t[n++]=240|s>>18,t[n++]=128|s>>12&63,t[n++]=128|s>>6&63,t[n++]=128|63&s}}t[n]=0}(e,p,t,n)}(e,n,t),n}(e)),t},array:e=>{var t,n,i=V(e.length);return t=e,n=i,m.set(t,n),i}},s=H(e),a=[],l=0;if(i)for(var c=0;c<i.length;c++){var u=r[n[c]];u?(0===l&&(l=G()),a[c]=u(i[c])):a[c]=i[c]}var h=s.apply(null,a);return function(e){return 0!==l&&B(l),function(e){return"string"===t?(n=e)?function(e,t,n){for(var i=t+n,o=t;e[o]&&!(o>=i);)++o;if(o-t>16&&e.buffer&&O)return O.decode(e.subarray(t,o));for(var r="";t<o;){var s=e[t++];if(128&s){var a=63&e[t++];if(192!=(224&s)){var l=63&e[t++];if((s=224==(240&s)?(15&s)<<12|a<<6|l:(7&s)<<18|a<<12|l<<6|63&e[t++])<65536)r+=String.fromCharCode(s);else{var c=s-65536;r+=String.fromCharCode(55296|c>>10,56320|1023&c)}}else r+=String.fromCharCode((31&s)<<6|a)}else r+=String.fromCharCode(s)}return r}(p,n,i):"":"boolean"===t?Boolean(e):e;var n,i}(e)}(h)}var k,F={__cxa_throw:function(e,t,n){throw new R(e).init(t,n),e},abort:function(){_("")},emscripten_memcpy_big:function(e,t,n){p.copyWithin(e,t,t+n)},emscripten_resize_heap:function(e){var t=p.length,n=2147483648;if((e>>>=0)>n)return!1;let i=(e,t)=>e+(t-e%t)%t;for(var o=1;o<=4;o*=2){var r=t*(1+.2/o);if(r=Math.min(r,e+100663296),$(Math.min(n,i(Math.max(e,r),65536))))return!0}return!1}},G=(function(){var e,t,i,r,s={env:F,wasi_snapshot_preview1:F};function a(e,t){var n,i=e.exports;return o.asm=i,h=o.asm.memory,y(),o.asm.__indirect_function_table,n=o.asm.__wasm_call_ctors,w.unshift(n),function(){if(S--,o.monitorRunDependencies&&o.monitorRunDependencies(S),0==S&&(null!==M&&(clearInterval(M),M=null),P)){var e=P;P=null,e()}}(),i}if(S++,o.monitorRunDependencies&&o.monitorRunDependencies(S),o.instantiateWasm)try{return o.instantiateWasm(s,a)}catch(e){d("Module.instantiateWasm callback failed with error: "+e),n(e)}(e=u,t=A,i=s,r=function(e){a(e.instance)},e||"function"!=typeof WebAssembly.instantiateStreaming||I(t)||"function"!=typeof fetch?x(t,i,r):fetch(t,{credentials:"same-origin"}).then(function(e){return WebAssembly.instantiateStreaming(e,i).then(r,function(e){return d("wasm streaming compile failed: "+e),d("falling back to ArrayBuffer instantiation"),x(t,i,r)})})).catch(n)}(),o._dbscan=function(){return(o._dbscan=o.asm.dbscan).apply(null,arguments)},o._malloc=function(){return(o._malloc=o.asm.malloc).apply(null,arguments)},o._free=function(){return(o._free=o.asm.free).apply(null,arguments)},function(){return(G=o.asm.stackSave).apply(null,arguments)}),B=function(){return(B=o.asm.stackRestore).apply(null,arguments)},V=function(){return(V=o.asm.stackAlloc).apply(null,arguments)},U=function(){return(U=o.asm.__cxa_is_pointer_type).apply(null,arguments)};function W(){function e(){k||(k=!0,o.calledRun=!0,f||(N(w),t(o),o.onRuntimeInitialized&&o.onRuntimeInitialized(),function(){if(o.postRun)for("function"==typeof o.postRun&&(o.postRun=[o.postRun]);o.postRun.length;)C(o.postRun.shift());N(v)}()))}S>0||(function(){if(o.preRun)for("function"==typeof o.preRun&&(o.preRun=[o.preRun]);o.preRun.length;)T(o.preRun.shift());N(b)}(),S>0||(o.setStatus?(o.setStatus("Running..."),setTimeout(function(){setTimeout(function(){o.setStatus("")},1),e()},1)):e()))}if(o.ccall=D,o.cwrap=function(e,t,n,i){var o=!n||n.every(e=>"number"===e||"boolean"===e);return"string"!==t&&o&&!i?H(e):function(){return D(e,t,n,arguments)}},P=function e(){k||W(),k||(P=e)},o.preInit)for("function"==typeof o.preInit&&(o.preInit=[o.preInit]);o.preInit.length>0;)o.preInit.pop()();return W(),e.ready});"object"==typeof exports?e.exports=o:"function"==typeof define&&n.amdO?define([],function(){return o}):"object"==typeof exports&&(exports.exportCppDbscanLib=o)},5553:(e,t,n)=>{"use strict";n.d(t,{Qc:()=>C,WN:()=>A});var i=n(1991),o=n.n(i);const r="object"==typeof performance&&performance&&"function"==typeof performance.now?performance:Date,s=new Set,a="object"==typeof process&&process?process:{},l=(e,t,n,i)=>{"function"==typeof a.emitWarning?a.emitWarning(e,t,n,i):console.error(`[${n}] ${t}: ${e}`)};let c=globalThis.AbortController,u=globalThis.AbortSignal;if(void 0===c){u=class{onabort;_onabort=[];reason;aborted=!1;addEventListener(e,t){this._onabort.push(t)}},c=class{constructor(){t()}signal=new u;abort(e){if(!this.signal.aborted){this.signal.reason=e,this.signal.aborted=!0;for(const t of this.signal._onabort)t(e);this.signal.onabort?.(e)}}};let e="1"!==a.env?.LRU_CACHE_IGNORE_AC_WARNING;const t=()=>{e&&(e=!1,l("AbortController is not defined. If using lru-cache in node 14, load an AbortController polyfill from the `node-abort-controller` package. A minimal polyfill is provided for use by LRUCache.fetch(), but it should not be relied upon in other contexts (eg, passing it to other APIs that use AbortController/AbortSignal might have undesirable effects). You may disable this with LRU_CACHE_IGNORE_AC_WARNING=1 in the env.","NO_ABORT_CONTROLLER","ENOTSUP",t))}}Symbol("type");const h=e=>e&&e===Math.floor(e)&&e>0&&isFinite(e),d=e=>h(e)?e<=Math.pow(2,8)?Uint8Array:e<=Math.pow(2,16)?Uint16Array:e<=Math.pow(2,32)?Uint32Array:e<=Number.MAX_SAFE_INTEGER?m:null:null;class m extends Array{constructor(e){super(e),this.fill(0)}}class p{heap;length;static#e=!1;static create(e){const t=d(e);if(!t)return[];p.#e=!0;const n=new p(e,t);return p.#e=!1,n}constructor(e,t){if(!p.#e)throw new TypeError("instantiate Stack using Stack.create(n)");this.heap=new t(e),this.length=0}push(e){this.heap[this.length++]=e}pop(){return this.heap[--this.length]}}class g{#t;#n;#i;#o;#r;#s;ttl;ttlResolution;ttlAutopurge;updateAgeOnGet;updateAgeOnHas;allowStale;noDisposeOnSet;noUpdateTTL;maxEntrySize;sizeCalculation;noDeleteOnFetchRejection;noDeleteOnStaleGet;allowStaleOnFetchAbort;allowStaleOnFetchRejection;ignoreFetchAbort;#a;#l;#c;#u;#h;#d;#m;#p;#g;#f;#y;#b;#w;#v;#T;#C;#A;static unsafeExposeInternals(e){return{starts:e.#w,ttls:e.#v,sizes:e.#b,keyMap:e.#c,keyList:e.#u,valList:e.#h,next:e.#d,prev:e.#m,get head(){return e.#p},get tail(){return e.#g},free:e.#f,isBackgroundFetch:t=>e.#E(t),backgroundFetch:(t,n,i,o)=>e.#S(t,n,i,o),moveToTail:t=>e.#M(t),indexes:t=>e.#P(t),rindexes:t=>e.#_(t),isStale:t=>e.#I(t)}}get max(){return this.#t}get maxSize(){return this.#n}get calculatedSize(){return this.#l}get size(){return this.#a}get fetchMethod(){return this.#r}get memoMethod(){return this.#s}get dispose(){return this.#i}get disposeAfter(){return this.#o}constructor(e){const{max:t=0,ttl:n,ttlResolution:i=1,ttlAutopurge:o,updateAgeOnGet:r,updateAgeOnHas:a,allowStale:c,dispose:u,disposeAfter:m,noDisposeOnSet:f,noUpdateTTL:y,maxSize:b=0,maxEntrySize:w=0,sizeCalculation:v,fetchMethod:T,memoMethod:C,noDeleteOnFetchRejection:A,noDeleteOnStaleGet:E,allowStaleOnFetchRejection:S,allowStaleOnFetchAbort:M,ignoreFetchAbort:P}=e;if(0!==t&&!h(t))throw new TypeError("max option must be a nonnegative integer");const _=t?d(t):Array;if(!_)throw new Error("invalid max value: "+t);if(this.#t=t,this.#n=b,this.maxEntrySize=w||this.#n,this.sizeCalculation=v,this.sizeCalculation){if(!this.#n&&!this.maxEntrySize)throw new TypeError("cannot set sizeCalculation without setting maxSize or maxEntrySize");if("function"!=typeof this.sizeCalculation)throw new TypeError("sizeCalculation set to non-function")}if(void 0!==C&&"function"!=typeof C)throw new TypeError("memoMethod must be a function if defined");if(this.#s=C,void 0!==T&&"function"!=typeof T)throw new TypeError("fetchMethod must be a function if specified");if(this.#r=T,this.#C=!!T,this.#c=new Map,this.#u=new Array(t).fill(void 0),this.#h=new Array(t).fill(void 0),this.#d=new _(t),this.#m=new _(t),this.#p=0,this.#g=0,this.#f=p.create(t),this.#a=0,this.#l=0,"function"==typeof u&&(this.#i=u),"function"==typeof m?(this.#o=m,this.#y=[]):(this.#o=void 0,this.#y=void 0),this.#T=!!this.#i,this.#A=!!this.#o,this.noDisposeOnSet=!!f,this.noUpdateTTL=!!y,this.noDeleteOnFetchRejection=!!A,this.allowStaleOnFetchRejection=!!S,this.allowStaleOnFetchAbort=!!M,this.ignoreFetchAbort=!!P,0!==this.maxEntrySize){if(0!==this.#n&&!h(this.#n))throw new TypeError("maxSize must be a positive integer if specified");if(!h(this.maxEntrySize))throw new TypeError("maxEntrySize must be a positive integer if specified");this.#L()}if(this.allowStale=!!c,this.noDeleteOnStaleGet=!!E,this.updateAgeOnGet=!!r,this.updateAgeOnHas=!!a,this.ttlResolution=h(i)||0===i?i:1,this.ttlAutopurge=!!o,this.ttl=n||0,this.ttl){if(!h(this.ttl))throw new TypeError("ttl must be a positive integer if specified");this.#x()}if(0===this.#t&&0===this.ttl&&0===this.#n)throw new TypeError("At least one of max, maxSize, or ttl is required");if(!this.ttlAutopurge&&!this.#t&&!this.#n){const e="LRU_CACHE_UNBOUNDED";(e=>!s.has(e))(e)&&(s.add(e),l("TTL caching without ttlAutopurge, max, or maxSize can result in unbounded memory consumption.","UnboundedCacheWarning",e,g))}}getRemainingTTL(e){return this.#c.has(e)?1/0:0}#x(){const e=new m(this.#t),t=new m(this.#t);this.#v=e,this.#w=t,this.#N=(n,i,o=r.now())=>{if(t[n]=0!==i?o:0,e[n]=i,0!==i&&this.ttlAutopurge){const e=setTimeout(()=>{this.#I(n)&&this.#R(this.#u[n],"expire")},i+1);e.unref&&e.unref()}},this.#$=n=>{t[n]=0!==e[n]?r.now():0},this.#H=(o,r)=>{if(e[r]){const s=e[r],a=t[r];if(!s||!a)return;o.ttl=s,o.start=a,o.now=n||i();const l=o.now-a;o.remainingTTL=s-l}};let n=0;const i=()=>{const e=r.now();if(this.ttlResolution>0){n=e;const t=setTimeout(()=>n=0,this.ttlResolution);t.unref&&t.unref()}return e};this.getRemainingTTL=o=>{const r=this.#c.get(o);if(void 0===r)return 0;const s=e[r],a=t[r];return s&&a?s-((n||i())-a):1/0},this.#I=o=>{const r=t[o],s=e[o];return!!s&&!!r&&(n||i())-r>s}}#$=()=>{};#H=()=>{};#N=()=>{};#I=()=>!1;#L(){const e=new m(this.#t);this.#l=0,this.#b=e,this.#O=t=>{this.#l-=e[t],e[t]=0},this.#D=(e,t,n,i)=>{if(this.#E(t))return 0;if(!h(n)){if(!i)throw new TypeError("invalid size value (must be positive integer). When maxSize or maxEntrySize is used, sizeCalculation or size must be set.");if("function"!=typeof i)throw new TypeError("sizeCalculation must be a function");if(n=i(t,e),!h(n))throw new TypeError("sizeCalculation return invalid (expect positive integer)")}return n},this.#k=(t,n,i)=>{if(e[t]=n,this.#n){const n=this.#n-e[t];for(;this.#l>n;)this.#F(!0)}this.#l+=e[t],i&&(i.entrySize=n,i.totalCalculatedSize=this.#l)}}#O=e=>{};#k=(e,t,n)=>{};#D=(e,t,n,i)=>{if(n||i)throw new TypeError("cannot set size without setting maxSize or maxEntrySize on cache");return 0};*#P({allowStale:e=this.allowStale}={}){if(this.#a)for(let t=this.#g;this.#G(t)&&(!e&&this.#I(t)||(yield t),t!==this.#p);)t=this.#m[t]}*#_({allowStale:e=this.allowStale}={}){if(this.#a)for(let t=this.#p;this.#G(t)&&(!e&&this.#I(t)||(yield t),t!==this.#g);)t=this.#d[t]}#G(e){return void 0!==e&&this.#c.get(this.#u[e])===e}*entries(){for(const e of this.#P())void 0===this.#h[e]||void 0===this.#u[e]||this.#E(this.#h[e])||(yield[this.#u[e],this.#h[e]])}*rentries(){for(const e of this.#_())void 0===this.#h[e]||void 0===this.#u[e]||this.#E(this.#h[e])||(yield[this.#u[e],this.#h[e]])}*keys(){for(const e of this.#P()){const t=this.#u[e];void 0===t||this.#E(this.#h[e])||(yield t)}}*rkeys(){for(const e of this.#_()){const t=this.#u[e];void 0===t||this.#E(this.#h[e])||(yield t)}}*values(){for(const e of this.#P())void 0===this.#h[e]||this.#E(this.#h[e])||(yield this.#h[e])}*rvalues(){for(const e of this.#_())void 0===this.#h[e]||this.#E(this.#h[e])||(yield this.#h[e])}[Symbol.iterator](){return this.entries()}[Symbol.toStringTag]="LRUCache";find(e,t={}){for(const n of this.#P()){const i=this.#h[n],o=this.#E(i)?i.__staleWhileFetching:i;if(void 0!==o&&e(o,this.#u[n],this))return this.get(this.#u[n],t)}}forEach(e,t=this){for(const n of this.#P()){const i=this.#h[n],o=this.#E(i)?i.__staleWhileFetching:i;void 0!==o&&e.call(t,o,this.#u[n],this)}}rforEach(e,t=this){for(const n of this.#_()){const i=this.#h[n],o=this.#E(i)?i.__staleWhileFetching:i;void 0!==o&&e.call(t,o,this.#u[n],this)}}purgeStale(){let e=!1;for(const t of this.#_({allowStale:!0}))this.#I(t)&&(this.#R(this.#u[t],"expire"),e=!0);return e}info(e){const t=this.#c.get(e);if(void 0===t)return;const n=this.#h[t],i=this.#E(n)?n.__staleWhileFetching:n;if(void 0===i)return;const o={value:i};if(this.#v&&this.#w){const e=this.#v[t],n=this.#w[t];if(e&&n){const t=e-(r.now()-n);o.ttl=t,o.start=Date.now()}}return this.#b&&(o.size=this.#b[t]),o}dump(){const e=[];for(const t of this.#P({allowStale:!0})){const n=this.#u[t],i=this.#h[t],o=this.#E(i)?i.__staleWhileFetching:i;if(void 0===o||void 0===n)continue;const s={value:o};if(this.#v&&this.#w){s.ttl=this.#v[t];const e=r.now()-this.#w[t];s.start=Math.floor(Date.now()-e)}this.#b&&(s.size=this.#b[t]),e.unshift([n,s])}return e}load(e){this.clear();for(const[t,n]of e){if(n.start){const e=Date.now()-n.start;n.start=r.now()-e}this.set(t,n.value,n)}}set(e,t,n={}){if(void 0===t)return this.delete(e),this;const{ttl:i=this.ttl,start:o,noDisposeOnSet:r=this.noDisposeOnSet,sizeCalculation:s=this.sizeCalculation,status:a}=n;let{noUpdateTTL:l=this.noUpdateTTL}=n;const c=this.#D(e,t,n.size||0,s);if(this.maxEntrySize&&c>this.maxEntrySize)return a&&(a.set="miss",a.maxEntrySizeExceeded=!0),this.#R(e,"set"),this;let u=0===this.#a?void 0:this.#c.get(e);if(void 0===u)u=0===this.#a?this.#g:0!==this.#f.length?this.#f.pop():this.#a===this.#t?this.#F(!1):this.#a,this.#u[u]=e,this.#h[u]=t,this.#c.set(e,u),this.#d[this.#g]=u,this.#m[u]=this.#g,this.#g=u,this.#a++,this.#k(u,c,a),a&&(a.set="add"),l=!1;else{this.#M(u);const n=this.#h[u];if(t!==n){if(this.#C&&this.#E(n)){n.__abortController.abort(new Error("replaced"));const{__staleWhileFetching:t}=n;void 0===t||r||(this.#T&&this.#i?.(t,e,"set"),this.#A&&this.#y?.push([t,e,"set"]))}else r||(this.#T&&this.#i?.(n,e,"set"),this.#A&&this.#y?.push([n,e,"set"]));if(this.#O(u),this.#k(u,c,a),this.#h[u]=t,a){a.set="replace";const e=n&&this.#E(n)?n.__staleWhileFetching:n;void 0!==e&&(a.oldValue=e)}}else a&&(a.set="update")}if(0===i||this.#v||this.#x(),this.#v&&(l||this.#N(u,i,o),a&&this.#H(a,u)),!r&&this.#A&&this.#y){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}return this}pop(){try{for(;this.#a;){const e=this.#h[this.#p];if(this.#F(!0),this.#E(e)){if(e.__staleWhileFetching)return e.__staleWhileFetching}else if(void 0!==e)return e}}finally{if(this.#A&&this.#y){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}}}#F(e){const t=this.#p,n=this.#u[t],i=this.#h[t];return this.#C&&this.#E(i)?i.__abortController.abort(new Error("evicted")):(this.#T||this.#A)&&(this.#T&&this.#i?.(i,n,"evict"),this.#A&&this.#y?.push([i,n,"evict"])),this.#O(t),e&&(this.#u[t]=void 0,this.#h[t]=void 0,this.#f.push(t)),1===this.#a?(this.#p=this.#g=0,this.#f.length=0):this.#p=this.#d[t],this.#c.delete(n),this.#a--,t}has(e,t={}){const{updateAgeOnHas:n=this.updateAgeOnHas,status:i}=t,o=this.#c.get(e);if(void 0!==o){const e=this.#h[o];if(this.#E(e)&&void 0===e.__staleWhileFetching)return!1;if(!this.#I(o))return n&&this.#$(o),i&&(i.has="hit",this.#H(i,o)),!0;i&&(i.has="stale",this.#H(i,o))}else i&&(i.has="miss");return!1}peek(e,t={}){const{allowStale:n=this.allowStale}=t,i=this.#c.get(e);if(void 0===i||!n&&this.#I(i))return;const o=this.#h[i];return this.#E(o)?o.__staleWhileFetching:o}#S(e,t,n,i){const o=void 0===t?void 0:this.#h[t];if(this.#E(o))return o;const r=new c,{signal:s}=n;s?.addEventListener("abort",()=>r.abort(s.reason),{signal:r.signal});const a={signal:r.signal,options:n,context:i},l=(i,o=!1)=>{const{aborted:s}=r.signal,l=n.ignoreFetchAbort&&void 0!==i;if(n.status&&(s&&!o?(n.status.fetchAborted=!0,n.status.fetchError=r.signal.reason,l&&(n.status.fetchAbortIgnored=!0)):n.status.fetchResolved=!0),s&&!l&&!o)return u(r.signal.reason);const c=h;return this.#h[t]===h&&(void 0===i?c.__staleWhileFetching?this.#h[t]=c.__staleWhileFetching:this.#R(e,"fetch"):(n.status&&(n.status.fetchUpdated=!0),this.set(e,i,a.options))),i},u=i=>{const{aborted:o}=r.signal,s=o&&n.allowStaleOnFetchAbort,a=s||n.allowStaleOnFetchRejection,l=a||n.noDeleteOnFetchRejection,c=h;if(this.#h[t]===h&&(l&&void 0!==c.__staleWhileFetching?s||(this.#h[t]=c.__staleWhileFetching):this.#R(e,"fetch")),a)return n.status&&void 0!==c.__staleWhileFetching&&(n.status.returnedStale=!0),c.__staleWhileFetching;if(c.__returned===c)throw i};n.status&&(n.status.fetchDispatched=!0);const h=new Promise((t,i)=>{const s=this.#r?.(e,o,a);s&&s instanceof Promise&&s.then(e=>t(void 0===e?void 0:e),i),r.signal.addEventListener("abort",()=>{n.ignoreFetchAbort&&!n.allowStaleOnFetchAbort||(t(void 0),n.allowStaleOnFetchAbort&&(t=e=>l(e,!0)))})}).then(l,e=>(n.status&&(n.status.fetchRejected=!0,n.status.fetchError=e),u(e))),d=Object.assign(h,{__abortController:r,__staleWhileFetching:o,__returned:void 0});return void 0===t?(this.set(e,d,{...a.options,status:void 0}),t=this.#c.get(e)):this.#h[t]=d,d}#E(e){if(!this.#C)return!1;const t=e;return!!t&&t instanceof Promise&&t.hasOwnProperty("__staleWhileFetching")&&t.__abortController instanceof c}async fetch(e,t={}){const{allowStale:n=this.allowStale,updateAgeOnGet:i=this.updateAgeOnGet,noDeleteOnStaleGet:o=this.noDeleteOnStaleGet,ttl:r=this.ttl,noDisposeOnSet:s=this.noDisposeOnSet,size:a=0,sizeCalculation:l=this.sizeCalculation,noUpdateTTL:c=this.noUpdateTTL,noDeleteOnFetchRejection:u=this.noDeleteOnFetchRejection,allowStaleOnFetchRejection:h=this.allowStaleOnFetchRejection,ignoreFetchAbort:d=this.ignoreFetchAbort,allowStaleOnFetchAbort:m=this.allowStaleOnFetchAbort,context:p,forceRefresh:g=!1,status:f,signal:y}=t;if(!this.#C)return f&&(f.fetch="get"),this.get(e,{allowStale:n,updateAgeOnGet:i,noDeleteOnStaleGet:o,status:f});const b={allowStale:n,updateAgeOnGet:i,noDeleteOnStaleGet:o,ttl:r,noDisposeOnSet:s,size:a,sizeCalculation:l,noUpdateTTL:c,noDeleteOnFetchRejection:u,allowStaleOnFetchRejection:h,allowStaleOnFetchAbort:m,ignoreFetchAbort:d,status:f,signal:y};let w=this.#c.get(e);if(void 0===w){f&&(f.fetch="miss");const t=this.#S(e,w,b,p);return t.__returned=t}{const t=this.#h[w];if(this.#E(t)){const e=n&&void 0!==t.__staleWhileFetching;return f&&(f.fetch="inflight",e&&(f.returnedStale=!0)),e?t.__staleWhileFetching:t.__returned=t}const o=this.#I(w);if(!g&&!o)return f&&(f.fetch="hit"),this.#M(w),i&&this.#$(w),f&&this.#H(f,w),t;const r=this.#S(e,w,b,p),s=void 0!==r.__staleWhileFetching&&n;return f&&(f.fetch=o?"stale":"refresh",s&&o&&(f.returnedStale=!0)),s?r.__staleWhileFetching:r.__returned=r}}async forceFetch(e,t={}){const n=await this.fetch(e,t);if(void 0===n)throw new Error("fetch() returned undefined");return n}memo(e,t={}){const n=this.#s;if(!n)throw new Error("no memoMethod provided to constructor");const{context:i,forceRefresh:o,...r}=t,s=this.get(e,r);if(!o&&void 0!==s)return s;const a=n(e,s,{options:r,context:i});return this.set(e,a,r),a}get(e,t={}){const{allowStale:n=this.allowStale,updateAgeOnGet:i=this.updateAgeOnGet,noDeleteOnStaleGet:o=this.noDeleteOnStaleGet,status:r}=t,s=this.#c.get(e);if(void 0!==s){const t=this.#h[s],a=this.#E(t);return r&&this.#H(r,s),this.#I(s)?(r&&(r.get="stale"),a?(r&&n&&void 0!==t.__staleWhileFetching&&(r.returnedStale=!0),n?t.__staleWhileFetching:void 0):(o||this.#R(e,"expire"),r&&n&&(r.returnedStale=!0),n?t:void 0)):(r&&(r.get="hit"),a?t.__staleWhileFetching:(this.#M(s),i&&this.#$(s),t))}r&&(r.get="miss")}#B(e,t){this.#m[t]=e,this.#d[e]=t}#M(e){e!==this.#g&&(e===this.#p?this.#p=this.#d[e]:this.#B(this.#m[e],this.#d[e]),this.#B(this.#g,e),this.#g=e)}delete(e){return this.#R(e,"delete")}#R(e,t){let n=!1;if(0!==this.#a){const i=this.#c.get(e);if(void 0!==i)if(n=!0,1===this.#a)this.#V(t);else{this.#O(i);const n=this.#h[i];if(this.#E(n)?n.__abortController.abort(new Error("deleted")):(this.#T||this.#A)&&(this.#T&&this.#i?.(n,e,t),this.#A&&this.#y?.push([n,e,t])),this.#c.delete(e),this.#u[i]=void 0,this.#h[i]=void 0,i===this.#g)this.#g=this.#m[i];else if(i===this.#p)this.#p=this.#d[i];else{const e=this.#m[i];this.#d[e]=this.#d[i];const t=this.#d[i];this.#m[t]=this.#m[i]}this.#a--,this.#f.push(i)}}if(this.#A&&this.#y?.length){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}return n}clear(){return this.#V("delete")}#V(e){for(const t of this.#_({allowStale:!0})){const n=this.#h[t];if(this.#E(n))n.__abortController.abort(new Error("deleted"));else{const i=this.#u[t];this.#T&&this.#i?.(n,i,e),this.#A&&this.#y?.push([n,i,e])}}if(this.#c.clear(),this.#h.fill(void 0),this.#u.fill(void 0),this.#v&&this.#w&&(this.#v.fill(0),this.#w.fill(0)),this.#b&&this.#b.fill(0),this.#p=0,this.#g=0,this.#f.length=0,this.#l=0,this.#a=0,this.#A&&this.#y){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}}}function f(e){window.$monomerHover=e}var y=n(2003),b=n(6077),w=n(3561),v=n(9235);const T="MonomerHoverLinks";async function C(e,t,n,i,r,s=!1){const a=i.getSeqHandler(e),l=a.alphabet==y.YI.RNA||a.alphabet==y.YI.DNA,c=a.isHelm()&&l,u=!a.isHelm()&&l,h=e=>null==e?null:c?s?e:Math.floor(e/3):u&&s?3*e+1:e,d=s?await i.getHelmToMolfileConverter(n):null,m=new g({max:100});function p(e,t){const a=e.get(t);if(null==a)return null;let l=m.get(a);return l||m.set(a,l=function(e,t){const a=i.getSeqHandler(e);if(s){const e=a.getHelm(t);return i.helmToAtomicLevelSingle(e,d,!1,!1).monomers}{const e=a.getSplitted(t),i=a.defaultBiotype,s=o().count(0).take(e.length).map(t=>({position:t,symbol:e.getCanonical(t),biotype:i})).toArray(),l=a.alphabet,c=l==y.YI.RNA||l==y.YI.DNA?"RNA":"PEPTIDE",u=(0,b.eM)([s],c,l,n,r);return(0,w.gU)(s,u,l,c).monomers}}(e,t)),l}const C={targetCol:t,handler:(t,i,o)=>{const r=o.grid,s=t.tableRowIndex,a=t.gridRow,l=r.cell(o.name,a),c=null!==(u=window.$monomerHover)&&void 0!==u?u:null;var u;if(!c||c&&(c.dataFrameId!=e.dataFrame.id||c.gridRowIdx!=a||c.seqColName!=e.name||c.seqPosition!=i?.position)){if(c&&(f(null),c.gridCell.render()),!i)return f(null),!0;f({gridCell:l,dataFrameId:e.dataFrame.id,gridRowIdx:a,seqColName:e.name,seqPosition:h(i?.position)??-1,getSubstruct:()=>{if(!i||"*"===i.symbol)return;const t=p(e,s);if(!t)return;const o=t.get(h(i?.position));return o?(0,v.H)([o],n):{atoms:[],bonds:[],highlightAtomColors:[],highlightBondColors:[]}}}),l.render()}return!0},getSubstruct:i=>{if("true"!=t.getTag(".sequence-src-highlight-monomers"))return;if(null==i)return;if(!e.get(i))return;const o=p(e,i);return o?(0,v.H)(o.values(),n):void 0}};return function(e,t){let n=e[T];n||(n=e[T]=[]),n.push(t),e[T]=n}(e.temp,C),function(e,t){let n=e["substruct-providers"];n||(n=e["substruct-providers"]=[]),n.push(t),e["substruct-providers"]=n}(t.temp,C),C}function A(e,t){try{const n=e.tableColumn;if(!n)return;const i=function(e){return e.temp[T]??[]}(n);for(let n=i.length-1;n>=0;--n){const o=i[n],r=e.grid.col(o.targetCol.name);if(r&&!o.handler(e,t,r))break}}catch(e){console.error(e)}}},5707:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/meta-data","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/meta-data":true},"$dynamicAnchor":"meta","title":"Meta-data vocabulary meta-schema","type":["object","boolean"],"properties":{"title":{"type":"string"},"description":{"type":"string"},"default":true,"deprecated":{"type":"boolean","default":false},"readOnly":{"type":"boolean","default":false},"writeOnly":{"type":"boolean","default":false},"examples":{"type":"array","items":true}}}')},5765:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateUnion=t.validateArray=t.usePattern=t.callValidateCode=t.schemaProperties=t.allSchemaProperties=t.noPropertyInData=t.propertyInData=t.isOwnProperty=t.hasPropFunc=t.reportMissingProp=t.checkMissingProp=t.checkReportMissingProp=void 0;const i=n(9029),o=n(4227),r=n(2023),s=n(4227);function a(e){return e.scopeValue("func",{ref:Object.prototype.hasOwnProperty,code:i._`Object.prototype.hasOwnProperty`})}function l(e,t,n){return i._`${a(e)}.call(${t}, ${n})`}function c(e,t,n,o){const r=i._`${t}${(0,i.getProperty)(n)} === undefined`;return o?(0,i.or)(r,(0,i.not)(l(e,t,n))):r}function u(e){return e?Object.keys(e).filter(e=>"__proto__"!==e):[]}t.checkReportMissingProp=function(e,t){const{gen:n,data:o,it:r}=e;n.if(c(n,o,t,r.opts.ownProperties),()=>{e.setParams({missingProperty:i._`${t}`},!0),e.error()})},t.checkMissingProp=function({gen:e,data:t,it:{opts:n}},o,r){return(0,i.or)(...o.map(o=>(0,i.and)(c(e,t,o,n.ownProperties),i._`${r} = ${o}`)))},t.reportMissingProp=function(e,t){e.setParams({missingProperty:t},!0),e.error()},t.hasPropFunc=a,t.isOwnProperty=l,t.propertyInData=function(e,t,n,o){const r=i._`${t}${(0,i.getProperty)(n)} !== undefined`;return o?i._`${r} && ${l(e,t,n)}`:r},t.noPropertyInData=c,t.allSchemaProperties=u,t.schemaProperties=function(e,t){return u(t).filter(n=>!(0,o.alwaysValidSchema)(e,t[n]))},t.callValidateCode=function({schemaCode:e,data:t,it:{gen:n,topSchemaRef:o,schemaPath:s,errorPath:a},it:l},c,u,h){const d=h?i._`${e}, ${t}, ${o}${s}`:t,m=[[r.default.instancePath,(0,i.strConcat)(r.default.instancePath,a)],[r.default.parentData,l.parentData],[r.default.parentDataProperty,l.parentDataProperty],[r.default.rootData,r.default.rootData]];l.opts.dynamicRef&&m.push([r.default.dynamicAnchors,r.default.dynamicAnchors]);const p=i._`${d}, ${n.object(...m)}`;return u!==i.nil?i._`${c}.call(${u}, ${p})`:i._`${c}(${p})`};const h=i._`new RegExp`;t.usePattern=function({gen:e,it:{opts:t}},n){const o=t.unicodeRegExp?"u":"",{regExp:r}=t.code,a=r(n,o);return e.scopeValue("pattern",{key:a.toString(),ref:a,code:i._`${"new RegExp"===r.code?h:(0,s.useFunc)(e,r)}(${n}, ${o})`})},t.validateArray=function(e){const{gen:t,data:n,keyword:r,it:s}=e,a=t.name("valid");if(s.allErrors){const e=t.let("valid",!0);return l(()=>t.assign(e,!1)),e}return t.var(a,!0),l(()=>t.break()),a;function l(s){const l=t.const("len",i._`${n}.length`);t.forRange("i",0,l,n=>{e.subschema({keyword:r,dataProp:n,dataPropType:o.Type.Num},a),t.if((0,i.not)(a),s)})}},t.validateUnion=function(e){const{gen:t,schema:n,keyword:r,it:s}=e;if(!Array.isArray(n))throw new Error("ajv implementation error");if(n.some(e=>(0,o.alwaysValidSchema)(s,e))&&!s.opts.unevaluated)return;const a=t.let("valid",!1),l=t.name("_valid");t.block(()=>n.forEach((n,o)=>{const s=e.subschema({keyword:r,schemaProp:o,compositeRule:!0},l);t.assign(a,i._`${a} || ${l}`),e.mergeValidEvaluated(s,l)||t.if((0,i.not)(a))})),e.result(a,()=>e.reset(),()=>e.error(!0))}},5844:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(4227),o={keyword:"allOf",schemaType:"array",code(e){const{gen:t,schema:n,it:o}=e;if(!Array.isArray(n))throw new Error("ajv implementation error");const r=t.name("valid");n.forEach((t,n)=>{if((0,i.alwaysValidSchema)(o,t))return;const s=e.subschema({keyword:"allOf",schemaProp:n},r);e.ok(r),e.mergeEvaluated(s)})}};t.default=o},5882:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=i.operators,r={maximum:{okStr:"<=",ok:o.LTE,fail:o.GT},minimum:{okStr:">=",ok:o.GTE,fail:o.LT},exclusiveMaximum:{okStr:"<",ok:o.LT,fail:o.GTE},exclusiveMinimum:{okStr:">",ok:o.GT,fail:o.LTE}},s={message:({keyword:e,schemaCode:t})=>i.str`must be ${r[e].okStr} ${t}`,params:({keyword:e,schemaCode:t})=>i._`{comparison: ${r[e].okStr}, limit: ${t}}`},a={keyword:Object.keys(r),type:"number",schemaType:"number",$data:!0,error:s,code(e){const{keyword:t,data:n,schemaCode:o}=e;e.fail$data(i._`${n} ${r[t].fail} ${o} || isNaN(${n})`)}};t.default=a},5944:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(8343);i.code='require("ajv/dist/runtime/uri").default',t.default=i},5999:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".macromolecule-cell-comp-analysis-host{\n max-height: 250px;\n overflow-y: scroll;\n}\n\n.macromolecule-cell-comp-analysis-bar{\n height: inherit;\n display: block;\n margin-top: 1.5px;\n margin-bottom: 1.5px;\n margin-right: 3px;\n}\n\n.macromolecule-cell-comp-analysis-value{\n display: flex;\n}","",{version:3,sources:["webpack://./css/composition-analysis.css"],names:[],mappings:"AAAA;IACI,iBAAiB;IACjB,kBAAkB;AACtB;;AAEA;IACI,eAAe;IACf,cAAc;IACd,iBAAiB;IACjB,oBAAoB;IACpB,iBAAiB;AACrB;;AAEA;IACI,aAAa;AACjB",sourcesContent:[".macromolecule-cell-comp-analysis-host{\n max-height: 250px;\n overflow-y: scroll;\n}\n\n.macromolecule-cell-comp-analysis-bar{\n height: inherit;\n display: block;\n margin-top: 1.5px;\n margin-bottom: 1.5px;\n margin-right: 3px;\n}\n\n.macromolecule-cell-comp-analysis-value{\n display: flex;\n}"],sourceRoot:""}]);const a=s},6077:(e,t,n)=>{"use strict";n.d(t,{C4:()=>p,eM:()=>g});var i=n(4328),o=n(6082),r=n(1991),s=n.n(r),a=n(439),l=n(3561),c=n(9235),u=n(294),h=n(9192),d=n(330),m=n(8123);async function p(e,t,n,r,l){if(t.semType!==o.SEMTYPE.MACROMOLECULE)return{molCol:null,warnings:[`Only the ${o.SEMTYPE.MACROMOLECULE} columns can be converted to atomic level, the chosen column has semType '${t.semType}'`]};let u=t;const m=r.getSeqHandler(t);let p,f;m.notation!==a.Hi.SEPARATOR&&m.notation!==a.Hi.BILN&&(u=m.convert(a.Hi.SEPARATOR,"."),u.name=t.name);try{f=r.getSeqHandler(u).alphabet,p=(0,d.pz)(f)}catch(e){const[t,n]=(0,h.AP)(e);return{molCol:null,warnings:[t]}}const y=function(e,t){const n=e.length,o=new Array(n),r=t.getSeqHandler(e);let a=!1;const l=r.defaultBiotype;for(let e=0;e<n;++e){const t=r.getSplitted(e);a||(a=0===t.length),o[e]=s().count(0).take(t.length).filter(e=>!t.isGap(e)).map(e=>({position:e,biotype:l,symbol:t.getCanonical(e)})).toArray()}return a&&i.shell.warning(`Some values in the "${e.name}" column are empty`),o}(u,r),b=g(y,p,f,n,l),w=u.length,v=await(0,c.R)(u,b,f,p,n,r,l);v.warnings.length>.05*w&&i.shell.warning(`Molfile conversion resulted in ${v.warnings.length} errors`);const T=o.Func.find({name:"convertToV3KViaOCL"})[0];if(T&&v.molCol)try{const e=v.molCol.toList(),t=await T.apply({mols:e});v.molCol.init(n=>t[n]?t[n]:e[n])}catch(e){console.error(e)}return v}function g(e,t,n,i,o){const r=(0,l.Hb)(i,t,n),s={},c={value:null};if("RNA"===t){const e=n===a.YI.RNA?[m.u.RIBOSE,m.u.PHOSPHATE]:[m.u.DEOXYRIBOSE,m.u.PHOSPHATE];for(const n of e)f(s,n.symbol,r,o,t,c)}for(let n=0;n<e.length;++n){const i=e[n];for(const e of i){const n=e.symbol;if(""!==n)try{if("RNA"===t&&3===n.split(/\(|\)/).filter(e=>!!e).length){const e=n.split(/\(|\)/)[1];f(s,e,r,o,t,c),s[t]?.[e]&&(s[t][n]=s[t][e])}else f(s,n,r,o,t,c)}catch(e){const t=e instanceof Error?e.message:e.toString(),i=e instanceof Error?e.stack:void 0;throw console.error(`bio lib: getMonomersDictFromLib() sym='${n}', error:\n${t}\n${i}`),new Error(`Can't get monomer '${n}' from library: ${t}`)}}}return s}function f(e,t,n,i,o,r){const s={polymerType:o,symbol:t};if(!(0,u.bq)(e,s)){const a=function(e,t,n,i,o){if(t.has(e)){const s=t.get(e),a=function(e){const t=[];for(const n of e){let e=n.capGroupSmiles;e||(e=n.capGroupSMILES),e=e.replace(/(\[|\]|\*|:|\d)/g,"").replace("OH","O").replace("Oh","O"),t.push(e)}return t}(s.rgroups),c=(r=s.molfile).includes("V3000")?function(e){const t=new Map,n=/M V30 (\d+) R#.+RGROUPS=\((\d+) (\d+)\).*/gm;let i;for(;null!==(i=n.exec(e));)i.index===n.lastIndex&&n.lastIndex++,t.set(parseInt(i[1]),parseInt(i[3]));return t}(r):function(e){const t=new Map;let n=e.indexOf(m.u.V2K_A_LINE,0),i=n;for(;-1!==n;){i=e.indexOf("\n",n);const o=parseInt(e.substring(n,i).replace(/^A\s+/,""));n=e.indexOf("R",i),i=e.indexOf("\n",n);const r=parseInt(e.substring(n,i).replace(/^R/,""));t.set(o,r),n=e.indexOf(m.u.V2K_A_LINE,i)}for(n=e.indexOf(m.u.V2K_RGP_LINE,0),i=e.indexOf("\n",n);-1!==n;){n+=m.u.V2K_RGP_SHIFT,i=e.indexOf("\n",n);const o=e.substring(n,i).replaceAll(/\s+/g," ").split(" ").map(e=>parseInt(e)).slice(1);for(let e=0;e<o.length;e+=2){if(t.has(o[e])&&t.get(o[e])!==o[e+1])throw new Error(`r-group index ${o[e]} has already been added with a different value`);t.set(o[e],o[e+1])}n=e.indexOf(m.u.V2K_RGP_LINE,i)}return t}(r),u=s.molfile.includes("V3000")?s.molfile:function(e,t){const n=t.get_mol(function(e){return e.split("\n").map(e=>{const t=e.indexOf(" R# "),n=e.indexOf(" R ");if(-1===t&&-1===n)return e;const i=-1!==t?t:n,o=e.split("");for(let e=i+5;e<o.length;e++)" "!==o[e]&&(o[e]="0");return o.join("")}).join("\n")}(e)),i=n.get_v3Kmolblock();return n.delete(),i}(function(e){let t=e.indexOf(m.u.V2K_A_LINE,0);-1===t&&(t=e.indexOf(m.u.V2K_RGP_LINE));const n=e.indexOf(m.u.V3K_END,t);return e.substring(0,t)+e.substring(n)}(s.molfile),n),h=function(e){let t=(e=e.replaceAll("\r","")).indexOf(m.u.V3K_BEGIN_COUNTS_LINE)+m.u.V3K_COUNTS_SHIFT,n=e.indexOf(" ",t+1);const i=parseInt(e.substring(t,n));return t=n+1,n=e.indexOf(" ",t+1),{atomCount:i,bondCount:parseInt(e.substring(t,n))}}(u),d=function(e,t){const n=new Array(t),i=new Float32Array(t),o=new Float32Array(t),r=new Array(t);let s=e.indexOf(m.u.V3K_BEGIN_ATOM_BLOCK);s=e.indexOf("\n",s);let a=s;for(let l=0;l<t;l++){s=e.indexOf(m.u.V3K_BEGIN_DATA_LINE,s)+m.u.V3K_IDX_SHIFT,a=e.indexOf(" ",s),s=a+1,a=e.indexOf(" ",s),n[l]=e.substring(s,a);const t=new Array(2);for(let n=0;n<2;++n)s=a+1,a=e.indexOf(" ",s),t[n]=parseFloat(e.substring(s,a));i[l]=t[0],o[l]=t[1],s=a,a=e.indexOf("\n",s)+1,r[l]=e.slice(s,a),s=a}return{atomTypes:n,x:i,y:o,kwargs:r}}(u,h.atomCount),p=function(e,t){const n=new Uint32Array(t),i=new Array(t),o=new Map,r=new Map;let s=e.indexOf(m.u.V3K_BEGIN_BOND_BLOCK);s=e.indexOf("\n",s);let a=s;for(let l=0;l<t;++l){const t=new Array(3);s=e.indexOf(m.u.V3K_BEGIN_DATA_LINE,a)+m.u.V3K_IDX_SHIFT,a=e.indexOf(" ",s);for(let n=0;n<3;++n)s=a+1,a=Math.min(e.indexOf("\n",s),e.indexOf(" ",s)),t[n]=parseInt(e.slice(s,a));n[l]=t[0],i[l]=t.slice(1);const c=e.indexOf("\n",s);let u=e.slice(a,c),h=u.indexOf(m.u.V3K_BOND_CONFIG);if(-1!==h){h=u.indexOf("=",h)+1;let e=u.indexOf(" ",h);-1===e&&(e=u.length);const t=parseInt(u.slice(h,e));o.set(l,t);const n=m.u.V3K_BOND_CONFIG+t.toString();u=u.replace(n,"")}u||r.set(l,u)}return{bondTypes:n,atomPairs:i,bondConfiguration:o,kwargs:r}}(u,h.bondCount),g=function(e,t,n,i){const o={backboneShift:null,branchShift:null,terminalNodes:[],rNodes:[]};if(n&&i&&[1,2].some(e=>!Array.from(i.values()).find(t=>t==e))){const o=[1,2].find(e=>!Array.from(i.values()).find(t=>t==e)),r=[1,2].find(e=>Array.from(i.values()).find(t=>t==e)),s=Array.from(i.keys()).find(e=>i.get(e)===r)-1,a=e.x[s],l=e.y[s],c=t.atomPairs.find(e=>e.includes(s+1)).find(e=>e!==s+1)-1;let u=e.x.reduce((t,n,i)=>{if(i===s)return t;if(i===c)return t;const o=e.y[i];return Math.sqrt((n-a)**2+(o-l)**2)>Math.sqrt((e.x[t]-a)**2+(e.y[t]-l)**2)?i:t},-1);if(-1===u&&(u=e.x.length,e.x=new Float32Array([...e.x,-a]),e.y=new Float32Array([...e.y,-l]),e.atomTypes=[...e.atomTypes,"H"],e.kwargs=[...e.kwargs,""],t.atomPairs.push([c+1,u+1]),t.bondTypes=new Uint32Array([...t.bondTypes,1]),t.kwargs.set(t.atomPairs.length-1,"")),i.set(u+1,o),1===o)n.unshift(e.atomTypes[u]);else{if(2!==o)throw new Error(`Unexpected missing R-group: ${o}`);n.splice(1,0,e.atomTypes[u])}}return function(e,t,n){for(const[i,o]of n)e.atomTypes[i-1]=t[o-1]}(e,n,i),function(e,t){t.rNodes=Array.from(e.keys());for(let n=0;n<t.rNodes.length;n++)for(const i of[1,2])if(e.get(t.rNodes[n])===i){const e=t.rNodes[i-1];t.rNodes[i-1]=t.rNodes[n],t.rNodes[n]=e}}(i,o),y(t,o),o}(d,p,a,c),f=function(e){let t=[],n=e.indexOf("M V30 MDLV30/STEABS ATOMS=(");for(;-1!==n;){n+=28;const i=e.indexOf(")",n);t=t.concat(e.substring(n,i).split(" ").slice(1).map(e=>parseInt(e))),n=i,n=e.indexOf("M V30 MDLV30/STEABS ATOMS=(",n)}return t}(u),w={atoms:d,bonds:p,meta:g,stereoAtoms:f};return"PEPTIDE"===i?function(e){const t=e.meta.terminalNodes[0]-1,n=e.meta.rNodes[0]-1,i=e.atoms.x,o=e.atoms.y;M(e,-i[t],-o[t]);const r=C(i[n],o[n]);A(e.atoms,-r),i[e.meta.rNodes[1]-1]<0&&E(e);const s=function(e){const t=function(e){const t=new Map;for(const n of e.bonds.atomPairs)for(let e=0;e<2;e++){const i=n[e],o=n[(e+1)%2];t.has(i)?t.get(i)?.push(o):t.set(i,new Array(1).fill(o))}return t}(e);let n=0;const i=e.atoms.atomTypes.length;let o=0;if(e.meta.terminalNodes.length<2)return null;for(;0===n;){const r=t.get(e.meta.terminalNodes[1])[o];if(e.atoms.atomTypes[r-1]===m.u.OXYGEN&&r!==e.meta.rNodes[1]&&(n=r),o++,o>i)return null}return n}(e);null!=s&&(function(e,t){e.atoms.y[e.meta.rNodes[1]-1]<0&&e.atoms.y[t-1]<0&&(function(e){S(e,!0)}(e),A(e.atoms,-function(e,t){return C(e,t)+Math.PI/2}(e.atoms.x[e.meta.terminalNodes[1]-1],e.atoms.y[e.meta.terminalNodes[1]-1])))}(e,s),function(e,t){const n=e.atoms.x;n[e.meta.rNodes[1]-1]>n[t-1]&&function(e,t,n){const i=t-1,o=n-1,r=e.atoms.x,s=e.atoms.y,a=r[i],l=s[i];r[i]=r[o],s[i]=s[o],r[o]=a,s[o]=l}(e,t,e.meta.rNodes[1])}(e,s))}(w):e===m.u.RIBOSE.symbol||e===m.u.DEOXYRIBOSE.symbol?function(e,t){const n=e.atoms.x,i=e.atoms.y;let o=e.meta.terminalNodes[0]-1;const r=e.meta.rNodes[1]-1;M(e,-n[o],-i[o]);const s=C(n[e.meta.rNodes[2]-1],i[e.meta.rNodes[2]-1]);A(e.atoms,-s),n[e.meta.rNodes[0]-1]>n[e.meta.rNodes[1]-1]&&E(e);const a=C(n[r],i[r]);A(e.atoms,3*Math.PI/2-a),t.value=function(e){const t=e.atoms.x,n=e.atoms.y,i=e.meta.rNodes[2]-1,o=e.meta.terminalNodes[2]-1,r=t[i]-t[o],s=n[i]-n[o];return Math.atan2(r,s)}(e),o=e.meta.terminalNodes[0]-1,M(e,-n[o],-i[o])}(w,o):e===m.u.PHOSPHATE.symbol?function(e){const t=e.meta.rNodes[1]-1,n=e.meta.rNodes[0]-1,i=e.atoms.x,o=e.atoms.y;M(e,-i[t],-o[t]);const r=C(i[n],o[n]);A(e.atoms,Math.PI/2-r)}(w):function(e,t){const n=e.atoms.x,i=e.atoms.y,o=e.meta.terminalNodes[0]-1,r=e.meta.rNodes[0]-1;M(e,-n[o],-i[o]);const s=C(n[r],i[r]),a=t.value;if(!a)throw new Error("The value of sugarBranchToOYAngle is null");A(e.atoms,Math.PI-s+a);const c=function(e,t){return(0,l.YN)(Math.sqrt((e.x-t.x)**2+(e.y-t.y)**2))}({x:n[e.meta.rNodes[0]-1],y:i[e.meta.rNodes[0]-1]},{x:n[e.meta.terminalNodes[0]-1],y:i[e.meta.terminalNodes[0]-1]});if(1!=c)for(let e=0;e<n.length;++e)n[e]=(0,l.YN)(n[e]/c),i[e]=(0,l.YN)(i[e]/c)}(w,o),function(e,t,n){if("PEPTIDE"===e){b(t,e);const n=v(t,t.meta.rNodes[1]);n?.removedAtom&&(t.terminalR2Atom=n.removedAtom)}else n===m.u.RIBOSE.symbol||n===m.u.DEOXYRIBOSE.symbol?(v(t,t.meta.rNodes[1]),t.meta.rNodes[1]=t.meta.terminalNodes[1],y(t.bonds,t.meta),b(t,e),v(t,t.meta.rNodes[1]),v(t,t.meta.rNodes[0]),v(t,t.meta.rNodes[2])):n===m.u.PHOSPHATE.symbol&&(t.meta.terminalNodes[0]=t.meta.rNodes[0],M(t,-t.atoms.x[t.meta.terminalNodes[0]-1],-t.atoms.y[t.meta.terminalNodes[0]-1]),b(t,e),v(t,t.meta.rNodes[1]))}(i,w,e),function(e){let t=0;for(;t<e.atoms.atomTypes.length;)e.atoms.atomTypes[t]===m.u.HYDROGEN&&(v(e,t+1),--t),++t}(w),function(e){let t=0;for(;t<e.atoms.atomTypes.length;)"oh"===e.atoms.atomTypes[t]?.toLowerCase()&&(e.atoms.atomTypes[t]="O"),"?"===e.atoms.atomTypes[t]&&(e.atoms.atomTypes[t]="H"),++t}(w),function(e){const t=" RGROUPS=(1 1)";for(let n=0;n<(e.atoms.kwargs?.length??0);n++){const i=e.atoms.kwargs[n];i&&i.includes(t)&&(e.atoms.kwargs[n]=i.replace(t,""))}}(w),w}var r;return null}(t,n,i,o,r);if(!a)throw new Error(`Monomer with symbol '${t}' is absent the monomer library`);(0,u.LQ)(e,s,a)}}function y(e,t){const n=t.rNodes;t.terminalNodes=new Array(n.length).fill(0);const i=t.terminalNodes,o=e.atomPairs;let r=0,s=0;for(;r<o.length&&s<i.length;){for(let e=0;e<i.length;++e)for(let t=0;t<2;++t)o[r][t]===n[e]&&(i[e]=o[r][(t+1)%2],n.length,++s);++r}}function b(e,t){e.meta.rNodes.length>1&&(e.meta.backboneShift=w(e,e.meta.rNodes[1]-1,e.meta.terminalNodes[0]-1)),"RNA"===t&&e.meta.rNodes.length>2&&(e.meta.branchShift=w(e,e.meta.rNodes[2]-1,e.meta.terminalNodes[0]-1))}function w(e,t,n){return[(0,l.YN)(e.atoms.x[t]-e.atoms.x[n]),(0,l.YN)(e.atoms.y[t]-e.atoms.y[n])]}function v(e,t){if(void 0!==t){const n=t-1,i=e.atoms,o=e.bonds,r=e.meta,s=i.atomTypes.splice(n,1)[0];i.x=T(Float32Array,i.x,n,1),i.y=T(Float32Array,i.y,n,1),i.kwargs.splice(n,1);for(let e=0;e<r.terminalNodes.length;++e)r.terminalNodes[e]>t?--r.terminalNodes[e]:r.terminalNodes[e]===t&&(r.terminalNodes[e]=-1);for(let e=0;e<r.rNodes.length;++e)r.rNodes[e]>t?--r.rNodes[e]:r.rNodes[e]===t&&(r.rNodes[e]=-1);let a=0;for(;a<o.atomPairs.length;){const e=o.atomPairs[a][0],n=o.atomPairs[a][1];e===t||n===t?(o.atomPairs.splice(a,1),o.bondTypes=T(Uint32Array,o.bondTypes,a,1),o.bondConfiguration.has(a)&&o.bondConfiguration.delete(a),o.kwargs.has(a)&&o.kwargs.delete(a),--a):(o.atomPairs[a][0]=e>t?e-1:e,o.atomPairs[a][1]=n>t?n-1:n),++a}let l=Array.from(o.bondConfiguration.keys());return l.forEach(e=>{if(o.bondConfiguration.has(e)&&e>n){const t=o.bondConfiguration.get(e);o.bondConfiguration.delete(e),o.bondConfiguration.set(e-1,t)}}),l=Array.from(o.kwargs.keys()),l.forEach(e=>{if(o.kwargs.has(e)&&e>n){const t=o.kwargs.get(e);o.kwargs.delete(e),o.kwargs.set(e-1,t)}}),s?{removedAtom:s}:void 0}}function T(e,t,n,i){const o=new e(t.length-i);let r=0,s=0;for(;r<t.length;)r===n&&(r+=i),o[s]=t[r],++s,++r;return o}function C(e,t){let n;if(0===e)n=t>0?0:Math.PI;else if(0===t)n=e>0?-Math.PI/2:Math.PI/2;else{const i=t/e,o=Math.atan(i);n=e<0?Math.PI/2+o:-Math.PI/2+o}return n}function A(e,t){if(0!==t){const n=e.x,i=e.y,o=Math.cos(t),r=Math.sin(t);for(let e=0;e<n.length;++e){const t=n[e];n[e]=(0,l.YN)(t*o-i[e]*r),i[e]=(0,l.YN)(t*r+i[e]*o)}}}function E(e){S(e,!1)}function S(e,t){if(t){const t=e.atoms.y;for(let e=0;e<t.length;e++)t[e]=-t[e]}else{const t=e.atoms.x;for(let e=0;e<t.length;e++)t[e]=-t[e]}const n=e.bonds.bondConfiguration;for(const[e,t]of n){const i=1===t?3:1;n.set(e,i)}}function M(e,t,n){const i=e.atoms.x,o=e.atoms.y;for(let e=0;e<i.length;++e)i[e]=(0,l.YN)(i[e]+t),void 0!==n&&(o[e]=(0,l.YN)(o[e]+n))}},6082:e=>{"use strict";e.exports=DG},6105:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2128),o=n(7060),r=n(6378),s=n(5520),a=n(5413),l=n(3265),c=n(7532),u=n(9857),h=[s.default,i.default,o.default,(0,r.default)(!0),c.default,u.metadataVocabulary,u.contentVocabulary,a.default,l.default];t.default=h},6144:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2128),o=n(7060),r=n(6378),s=n(7532),a=n(9857),l=[i.default,o.default,(0,r.default)(),s.default,a.metadataVocabulary,a.contentVocabulary];t.default=l},6163:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r={keyword:"oneOf",schemaType:"array",trackErrors:!0,error:{message:"must match exactly one schema in oneOf",params:({params:e})=>i._`{passingSchemas: ${e.passing}}`},code(e){const{gen:t,schema:n,parentSchema:r,it:s}=e;if(!Array.isArray(n))throw new Error("ajv implementation error");if(s.opts.discriminator&&r.discriminator)return;const a=n,l=t.let("valid",!1),c=t.let("passing",null),u=t.name("_valid");e.setParams({passing:c}),t.block(function(){a.forEach((n,r)=>{let a;(0,o.alwaysValidSchema)(s,n)?t.var(u,!0):a=e.subschema({keyword:"oneOf",schemaProp:r,compositeRule:!0},u),r>0&&t.if(i._`${u} && ${l}`).assign(l,!1).assign(c,i._`[${c}, ${r}]`).else(),t.if(u,()=>{t.assign(l,!0),t.assign(c,r),a&&e.mergeEvaluated(a,i.Name)})})}),e.result(l,()=>e.reset(),()=>e.error(!0))}};t.default=r},6197:(e,t,n)=>{"use strict";n.d(t,{Y:()=>o});var i=n(3599);function o(e){let t;switch(e){case i.o.BASE:case i.o.SUGAR:case i.o.LINKER:case i.o.NUCLEOTIDE:case"nucleotide":t="RNA";break;case i.o.AA:t="PEPTIDE";break;case i.o.CHEM:t="CHEM";break;case i.o.BLOB:t="BLOB";break;default:t="PEPTIDE",console.warn(`Unexpected HelmType '${e}'`)}return t}},6250:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2017);i.code='require("ajv/dist/runtime/equal").default',t.default=i},6295:(e,t,n)=>{"use strict";n.d(t,{$1:()=>s,Hf:()=>u,Hr:()=>S,Ii:()=>f,Qj:()=>p,T6:()=>E,TK:()=>C,be:()=>g,gt:()=>w,ij:()=>v,jL:()=>c,lO:()=>m,lP:()=>b,rR:()=>y,tO:()=>a,v_:()=>l,w_:()=>h,yK:()=>T,zn:()=>d});var i=n(8774),o=n(8498),r=n(6863);function s(e,t){const n=e.trueCount()+t.trueCount();if(0==n)return 1;const i=e.andWithCountBits(t,!0);return i/(n-i)}function a(e,t){return 1-s(e,t)}function l(e,t){return A(s(new i.A(e,32*e.length),new i.A(t,32*t.length)))}function c(e,t){let n=0;for(let i=0;i<e.length;i++)n+=Math.pow(e[i]-t[i],2);return Math.sqrt(n)}function u(e,t){let n=0;for(let i=0;i<e.length;i++)n+=Math.abs(e[i]-t[i]);return n}function h(e,t){let n=0,i=0,o=0;for(let r=0;r<e.length;r++)n+=e[r]*t[r],i+=e[r]*e[r],o+=t[r]*t[r];return(1-n/(Math.sqrt(i)*Math.sqrt(o)))/2}function d(e,t){return 1-function(e,t){const n=e.trueCount()+t.trueCount();return 0==n?0:2*e.andWithCountBits(t,!0)/n}(e,t)}function m(e,t){return 1-function(e,t){const n=e.trueCount()*t.trueCount();return 0==n?0:e.andWithCountBits(t,!0)/Math.sqrt(n)}(e,t)}function p(e,t){return Math.sqrt(e.trueCount()+t.trueCount()-2*e.andWithCountBits(t,!0))}function g(e,t){return e.trueCount()+t.trueCount()-2*e.andWithCountBits(t,!0)}function f(e,t){return 1-function(e,t){const n=e.trueCount()+t.trueCount(),i=e.andWithCountBits(t,!0);return i/(2*n-3*i)}(e,t)}function y(e,t){return A(function(e,t){const n=e.trueCount()+t.trueCount(),i=e.trueCount()*t.trueCount();return 0==i?0:e.andWithCountBits(t,!0)*n/(2*i)}(e,t))}function b(e,t){return A(function(e,t){const n=e.trueCount()+t.trueCount(),i=e.trueCount()*t.trueCount();return 0==i?0:(e.andWithCountBits(t,!0)*n-i)/i}(e,t))}function w(e,t){return 1-function(e,t){const n=Math.min(e.trueCount(),t.trueCount());return 0==n?0:e.andWithCountBits(t,!0)/n}(e,t)}function v(e,t){return A(function(e,t){const n=Math.max(e.trueCount(),t.trueCount());return 0==n?0:e.andWithCountBits(t,!0)/n}(e,t))}function T(e,t){return A(function(e,t){return 0==e.length?0:e.andWithCountBits(t,!0)/e.length}(e,t))}function C(e,t){return A(function(e,t){const n=e.andWithCountBits(t,!0),i=e.countBits(!0)+t.countBits(!0),o=e.length,r=o-i+n;return n==o||r==o?1:n/i+r/(2*o-i)}(e,t))}function A(e){return e<=0?3402823e32:1/e-1}function E(e){if(e&&null!=e.range&&e.range>0){const t=e.range;return(e,n)=>Math.abs(e-n)/t}return(e,t)=>Math.abs(e-t)}function S(e){const t=function(e){const t=e?.mostCommon??new Set;return(e,n)=>{const i=e.length,o=n.length;let r=0,s=0,a=0;for(;s<i&&a<o;)e[s]===n[a]?(t?.has(e[s])||++r,++s,++a):e[s]<n[a]?++s:++a;return r}}(e);return(e,n)=>0===n.length||0===e.length?1e4:Math.min(e.length,n.length)/(t(e,n)+1e-4)}o.aT.Tanimoto,o.aT.Dice,o.aT.Asymmetric,o.aT.BraunBlanquet,o.aT.Cosine,o.aT.Kulczynski,o.aT.McConnaughey,o.aT.RogotGoldberg,o.aT.Russel,o.aT.Sokal,o.aT.Hamming,o.aT.Euclidean,o.aT.Tanimoto,o.aT.Dice,o.aT.Asymmetric,o.aT.BraunBlanquet,o.aT.Cosine,o.aT.Kulczynski,o.aT.McConnaughey,o.aT.RogotGoldberg,o.aT.Russel,o.aT.Sokal,o.aT.Hamming,o.aT.Euclidean,o.aT.Tanimoto,o.aT.Dice,o.aT.Cosine,o.aT.Tanimoto,o.aT.Asymmetric,o.aT.Cosine,o.aT.Sokal,r.Z.HAMMING,r.Z.LEVENSHTEIN,r.Z.MONOMER_CHEMICAL_DISTANCE,r.Z.NEEDLEMANN_WUNSCH},6307:(e,t,n)=>{"use strict";n.d(t,{F:()=>a});var i=n(7389),o=n(6082),r=n(439),s=n(6197);function a(e,t,n,a){let l=0,c=null;for(const t of Object.values(e))l+=t,c=null===c?t:Math.max(c,t);const u=c/l,h=Object.assign({},...Array.from(Object.entries(e)).sort((e,t)=>t[1]-e[1]).map(([e,c])=>{const h=c/l;let d;const m=a&&a[e]||t;try{const t=n.getMonomerColors(m,e);d=t?.backgroundcolor||"#CCCCCC"}catch(t){console.warn(`Failed to get colors for monomer ${e}:`,t),d="#CCCCCC"}const p=i.div("",{classes:"macromolecule-cell-comp-analysis-bar"});p.style.width=50*h/u+"px",p.style.backgroundColor=d,r._S===e&&(p.style.borderWidth="1px",p.style.borderStyle="solid",p.style.borderColor=o.Color.toHtml(o.Color.lightGray));let g=e;if(e!==r._S){const t=n.getMonomer((0,s.Y)(m),e);t&&t.symbol!==e&&(g=t.symbol)}else g="-";const f=i.div(`${(100*h).toFixed(2)}%`),y=i.div([p,f],{classes:"macromolecule-cell-comp-analysis-value"});return{[g]:y}})),d=i.tableFromMap(h);return Array.from(d.rows).forEach(e=>{const t=e.getElementsByClassName("macromolecule-cell-comp-analysis-bar")[0].style.backgroundColor;e.cells[0].style.color=t}),d}},6314:e=>{"use strict";e.exports=function(e){var t=[];return t.toString=function(){return this.map(function(t){var n="",i=void 0!==t[5];return t[4]&&(n+="@supports (".concat(t[4],") {")),t[2]&&(n+="@media ".concat(t[2]," {")),i&&(n+="@layer".concat(t[5].length>0?" ".concat(t[5]):""," {")),n+=e(t),i&&(n+="}"),t[2]&&(n+="}"),t[4]&&(n+="}"),n}).join("")},t.i=function(e,n,i,o,r){"string"==typeof e&&(e=[[null,e,void 0]]);var s={};if(i)for(var a=0;a<this.length;a++){var l=this[a][0];null!=l&&(s[l]=!0)}for(var c=0;c<e.length;c++){var u=[].concat(e[c]);i&&s[u[0]]||(void 0!==r&&(void 0===u[5]||(u[1]="@layer".concat(u[5].length>0?" ".concat(u[5]):""," {").concat(u[1],"}")),u[5]=r),n&&(u[2]?(u[1]="@media ".concat(u[2]," {").concat(u[1],"}"),u[2]=n):u[2]=n),o&&(u[4]?(u[1]="@supports (".concat(u[4],") {").concat(u[1],"}"),u[4]=o):u[4]="".concat(o)),t.push(u))}},t}},6369:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".kalign-version {\n margin-bottom: 0;\n text-align: end;\n font-size: 12px;\n opacity: 0.8;\n}\nbutton.msa-params-button.ui-btn {\n justify-content: end;\n}","",{version:3,sources:["webpack://./css/msa.css"],names:[],mappings:"AAAA;IACI,gBAAgB;IAChB,eAAe;IACf,eAAe;IACf,YAAY;AAChB;AACA;IACI,oBAAoB;AACxB",sourcesContent:[".kalign-version {\n margin-bottom: 0;\n text-align: end;\n font-size: 12px;\n opacity: 0.8;\n}\nbutton.msa-params-button.ui-btn {\n justify-content: end;\n}"],sourceRoot:""}]);const a=s},6378:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5457),o=n(5354),r=n(494),s=n(3966),a=n(2661),l=n(3025),c=n(2094),u=n(8660),h=n(117),d=n(5333),m=n(7923),p=n(6505),g=n(6163),f=n(5844),y=n(1239),b=n(4426);t.default=function(e=!1){const t=[m.default,p.default,g.default,f.default,y.default,b.default,c.default,u.default,l.default,h.default,d.default];return e?t.push(o.default,s.default):t.push(i.default,r.default),t.push(a.default),t}},6505:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i={keyword:"anyOf",schemaType:"array",trackErrors:!0,code:n(5765).validateUnion,error:{message:"must match a schema in anyOf"}};t.default=i},6642:(e,t,n)=>{"use strict";n.d(t,{BG:()=>s,sD:()=>l});var i=n(4328),o=n(1858),r=n(8070);function s(e){let t=null,n=null;try{n=e.dart?e.gridColumn:null,t=n?n.temp:null}catch{[n,t]=[null,null]}const i=e.cell.column;if(t=t??(i?i.temp:null),!t)throw new Error("Grid cell renderer back store (GridColumn or Column) not found.");return[n,i,t]}class a{onKeyDown(e,t){}onKeyPress(e,t){}onMouseEnter(e,t){}onMouseLeave(e,t){}onMouseDown(e,t){}onMouseUp(e,t){}onMouseMove(e,t){}onClick(e,t){}onDoubleClick(e,t){}}class l extends a{constructor(e,t,n){super(),this.gridCol=e,this.tableCol=t,this.logger=n,this.subs=[],this.dirty=!0,this.destroyed=!1,this.viewerId=++l.viewerCounter,this.errors=[],this._onRendered=new o.Subject,this.tableCol&&this.tableCol.dataFrame&&(this.subs.push(this.tableCol.dataFrame.onDataChanged.subscribe(()=>{this.dirty=!0})),this.subs.push(this.tableCol.dataFrame.onColumnsRemoved.subscribe(e=>{try{this.destroyed||!this.tableCol||this.tableCol.dataFrame||this.destroy()}catch(e){this.logger.error(e)}}))),this.tableCol&&this.subs.push(i.events.onTableRemoved.subscribe(e=>{try{const t=e.args.dataFrame;this.tableCol?.dataFrame.id!==t.id||this.destroyed||this.destroy()}catch(e){this.logger.error(e)}})),this.gridCol&&this.subs.push(i.events.onViewRemoving.subscribe(e=>{try{const t=e.args.view;this.gridCol?.dart&&this.gridCol.grid&&this.gridCol?.grid?.dart&&this.gridCol?.grid?.view?.id===t.id&&!this.destroyed&&this.destroy()}catch(e){this.logger.error(e)}}))}toLog(){return`${this.constructor.name}<${this.viewerId}>`}destroy(){for(const e of this.subs)e.unsubscribe();this.destroyed=!0}invalidateGrid(){this.gridCol&&this.gridCol.dart&&this.gridCol.grid?.invalidate()}reset(){this.dirty=!1}get onRendered(){return this._onRendered}invalidate(e){this.invalidateGrid()}async awaitRendered(e=1e4,t=`${e} timeout`){const n=`${this.toLog()}.awaitRendered()`;if(this.logger.debug(`${n}, start, testEvent before`),await(0,r.PE)(this._onRendered,()=>{},()=>{this.invalidate()},e,`${n}, ${t}`),this.errors.length>0){const e=this.errors[0];throw this.errors=[],e}this.logger.debug(`${n}, end`)}}l.viewerCounter=-1},6653:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(7652),r=n(3835),s=n(4551),a=n(4227),l={keyword:"discriminator",type:"object",schemaType:"object",error:{message:({params:{discrError:e,tagName:t}})=>e===o.DiscrError.Tag?`tag "${t}" must be string`:`value of tag "${t}" must be in oneOf`,params:({params:{discrError:e,tag:t,tagName:n}})=>i._`{error: ${e}, tag: ${n}, tagValue: ${t}}`},code(e){const{gen:t,data:n,schema:l,parentSchema:c,it:u}=e,{oneOf:h}=c;if(!u.opts.discriminator)throw new Error("discriminator: requires discriminator option");const d=l.propertyName;if("string"!=typeof d)throw new Error("discriminator: requires propertyName");if(l.mapping)throw new Error("discriminator: mapping is not supported");if(!h)throw new Error("discriminator: requires oneOf keyword");const m=t.let("valid",!1),p=t.const("tag",i._`${n}${(0,i.getProperty)(d)}`);function g(n){const o=t.name("valid"),r=e.subschema({keyword:"oneOf",schemaProp:n},o);return e.mergeEvaluated(r,i.Name),o}t.if(i._`typeof ${p} == "string"`,()=>function(){const n=function(){var e;const t={},n=o(c);let i=!0;for(let t=0;t<h.length;t++){let c=h[t];if((null==c?void 0:c.$ref)&&!(0,a.schemaHasRulesButRef)(c,u.self.RULES)){const e=c.$ref;if(c=r.resolveRef.call(u.self,u.schemaEnv.root,u.baseId,e),c instanceof r.SchemaEnv&&(c=c.schema),void 0===c)throw new s.default(u.opts.uriResolver,u.baseId,e)}const m=null===(e=null==c?void 0:c.properties)||void 0===e?void 0:e[d];if("object"!=typeof m)throw new Error(`discriminator: oneOf subschemas (or referenced schemas) must have "properties/${d}"`);i=i&&(n||o(c)),l(m,t)}if(!i)throw new Error(`discriminator: "${d}" must be required`);return t;function o({required:e}){return Array.isArray(e)&&e.includes(d)}function l(e,t){if(e.const)m(e.const,t);else{if(!e.enum)throw new Error(`discriminator: "properties/${d}" must have "const" or "enum"`);for(const n of e.enum)m(n,t)}}function m(e,n){if("string"!=typeof e||e in t)throw new Error(`discriminator: "${d}" values must be unique strings`);t[e]=n}}();t.if(!1);for(const e in n)t.elseIf(i._`${p} === ${e}`),t.assign(m,g(n[e]));t.else(),e.error(!1,{discrError:o.DiscrError.Mapping,tag:p,tagName:d}),t.endIf()}(),()=>e.error(!1,{discrError:o.DiscrError.Tag,tag:p,tagName:d})),e.ok(m)}};t.default=l},6717:(e,t,n)=>{"use strict";n.d(t,{j:()=>o});var i=n(6082);async function o(){const e=i.Func.find({package:"Chem",name:"getRdKitModule"});if(0===e.length)throw new Error('Package "Chem" must be installed for getRdKitModule.');return(await e[0].prepare().call()).getOutputParamValue()}},6863:(e,t,n)=>{"use strict";function i(e={}){const t=function(){if(!e||!e.scoringMatrix||!e.alphabetIndexes)return(e,t)=>e===t?0:1;if(e.scoringMatrix.length!==Object.keys(e.alphabetIndexes).length)throw new Error("Scoring matrix and alphabet indexes should have the same length");const t=e.alphabetIndexes,n=e.scoringMatrix,i=Math.min(...Object.keys(t).map(e=>e.charCodeAt(0)))+1,o=new Float32Array((n.length+i)*(n.length+i));return Object.entries(t).forEach(([e,i])=>{const r=n[i];Object.entries(t).forEach(([t,i])=>{o[e.charCodeAt(0)*n.length+t.charCodeAt(0)]=r[i]})}),(e,t)=>1-o[e.charCodeAt(0)*n.length+t.charCodeAt(0)]}(),n=e?.threshold??0;return(e,i)=>{let o=0;const r=e.length,s=i.length,a=Math.ceil(Math.max(r,s)*(1-n));r!==s&&(o=Math.abs(r-s));let l=0;for(let n=0;n<Math.min(r,s);n++)if(e[n]!==i[n]&&(l+=t(e[n],i[n]),l>a))return 1;return l+=o,l/=Math.max(r,s),l}}n.d(t,{Z:()=>s,V:()=>a});var o=n(2787);const r={gapOpen:1,gapExtend:.6,scoringMatrix:[[4,-1,-2,-2,0,-1,-1,0,-2,-1,-1,-1,-1,-2,-1,1,0,-3,-2,0,-2,-1,0,-4],[-1,5,0,-2,-3,1,0,-2,0,-3,-2,2,-1,-3,-2,-1,-1,-3,-2,-3,-1,0,-1,-4],[-2,0,6,1,-3,0,0,0,1,-3,-3,0,-2,-3,-2,1,0,-4,-2,-3,3,0,-1,-4],[-2,-2,1,6,-3,0,2,-1,-1,-3,-4,-1,-3,-3,-1,0,-1,-4,-3,-3,4,1,-1,-4],[0,-3,-3,-3,9,-3,-4,-3,-3,-1,-1,-3,-1,-2,-3,-1,-1,-2,-2,-1,-3,-3,-2,-4],[-1,1,0,0,-3,5,2,-2,0,-3,-2,1,0,-3,-1,0,-1,-2,-1,-2,0,3,-1,-4],[-1,0,0,2,-4,2,5,-2,0,-3,-3,1,-2,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-2,0,-1,-3,-2,-2,6,-2,-4,-4,-2,-3,-3,-2,0,-2,-2,-3,-3,-1,-2,-1,-4],[-2,0,1,-1,-3,0,0,-2,8,-3,-3,-1,-2,-1,-2,-1,-2,-2,2,-3,0,0,-1,-4],[-1,-3,-3,-3,-1,-3,-3,-4,-3,4,2,-3,1,0,-3,-2,-1,-3,-1,3,-3,-3,-1,-4],[-1,-2,-3,-4,-1,-2,-3,-4,-3,2,4,-2,2,0,-3,-2,-1,-2,-1,1,-4,-3,-1,-4],[-1,2,0,-1,-3,1,1,-2,-1,-3,-2,5,-1,-3,-1,0,-1,-3,-2,-2,0,1,-1,-4],[-1,-1,-2,-3,-1,0,-2,-3,-2,1,2,-1,5,0,-2,-1,-1,-1,-1,1,-3,-1,-1,-4],[-2,-3,-3,-3,-2,-3,-3,-3,-1,0,0,-3,0,6,-4,-2,-2,1,3,-1,-3,-3,-1,-4],[-1,-2,-2,-1,-3,-1,-1,-2,-2,-3,-3,-1,-2,-4,7,-1,-1,-4,-3,-2,-2,-1,-2,-4],[1,-1,1,0,-1,0,0,0,-1,-2,-2,0,-1,-2,-1,4,1,-3,-2,-2,0,0,0,-4],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-2,-1,1,5,-2,-2,0,-1,-1,0,-4],[-3,-3,-4,-4,-2,-2,-3,-2,-2,-3,-2,-3,-1,1,-4,-3,-2,11,2,-3,-4,-3,-2,-4],[-2,-2,-2,-3,-2,-1,-2,-3,2,-1,-1,-2,-1,3,-3,-2,-2,2,7,-1,-3,-2,-1,-4],[0,-3,-3,-3,-1,-2,-2,-3,-3,3,1,-2,1,-1,-2,-2,0,-3,-1,4,-3,-2,-1,-4],[-2,-1,3,4,-3,0,1,-1,0,-3,-4,0,-3,-3,-2,0,-1,-4,-3,-3,4,1,-1,-4],[-1,0,0,1,-3,3,4,-2,0,-3,-3,1,-1,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-1,-1,-1,-2,-1,-1,-1,-1,-1,-1,-1,-1,-1,-2,0,0,-2,-1,-1,-1,-1,-1,-4],[-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,1]],alphabetIndexes:{A:0,R:1,N:2,D:3,C:4,Q:5,E:6,G:7,H:8,I:9,L:10,K:11,M:12,F:13,P:14,S:15,T:16,W:17,Y:18,V:19,B:20,Z:21,X:22,"*":23}};var s;!function(e){e.HAMMING="Hamming",e.LEVENSHTEIN="Levenshtein",e.NEEDLEMANN_WUNSCH="Needlemann-Wunsch",e.MONOMER_CHEMICAL_DISTANCE="Monomer chemical distance"}(s||(s={}));const a={[s.HAMMING]:i,[s.LEVENSHTEIN]:function(){return(e,t)=>(0,o.I)(e,t)/Math.max(e.length,t.length)},[s.NEEDLEMANN_WUNSCH]:function(e){const t=new Uint16Array(65536),{gapOpen:n,gapExtend:i,scoringMatrix:o,alphabetIndexes:s}={...r,...e};Object.entries(s).forEach(([e,n])=>t[e.charCodeAt(0)]=n);const a=[new Float32Array(1e4),new Float32Array(1e4)];return(e,r)=>{const s=new Array(e.length+1).fill(!1),l=new Array(e.length+1).fill(!1);let c=0,u=1;for(let t=1;t<e.length+1;t++)a[0][t]=-i-(t-1)*i,a[1][t]=0;a[0][0]=0;for(let h=1;h<r.length+1;h++){a[u][0]=-i-(h-1)*i;for(let d=1;d<e.length+1;d++){const m=a[c][d-1]+o[t[e.charCodeAt(d-1)]][t[r.charCodeAt(h-1)]],p=a[c][d]-(s[d]||1===h||h===r.length?i:n),g=a[u][d-1]-(l[d-1]||1===d||d===e.length?i:n);a[u][d]=Math.max(m,g,p),a[u][d]===m?(s[d]=!1,l[d]=!1):a[u][d]===g?(s[d]=!1,l[d]=!0):(s[d]=!0,l[d]=!1)}c=u,u=(u+1)%2}const h=Math.min(e.length,r.length);return(h-a[c][e.length])/h}},[s.MONOMER_CHEMICAL_DISTANCE]:i}},6869:(e,t,n)=>{"use strict";var i;n.d(t,{o:()=>i}),function(e){e.BASE="HELM_BASE",e.SUGAR="HELM_SUGAR",e.LINKER="HELM_LINKER",e.AA="HELM_AA",e.CHEM="HELM_CHEM",e.BLOB="HELM_BLOB",e.NUCLEOTIDE="HELM_NUCLETIDE"}(i||(i={}))},6873:(e,t,n)=>{"use strict";n.d(t,{Hx:()=>h,dW:()=>u,fD:()=>c});var i=n(6082),o=n(1991),r=n.n(o),s=n(2003),a=n(7278),l=n(439);function c(){const e=[];return e.push(i.Column.fromList("string","MSA",new Array(10**6).fill("meI/hHis/Aca/N/T/dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe/dV/E/N/D-Orn/D-aThr//Phe_4Me"))),e.push(i.Column.fromList(i.COLUMN_TYPE.FLOAT,"Activity",new Array(10**6).fill(5.30751))),e}function u(e=1e4){const t="meI/hHis/Aca/N//dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe".repeat(Math.ceil(e/10)).slice(0,-1),n=i.Column.fromList(i.COLUMN_TYPE.STRING,"MSA",new Array(100).fill(t));n.semType=i.SEMTYPE.MACROMOLECULE,n.meta.units=s.Hi.SEPARATOR,n.setTag(s.gp.separator,"/"),n.setTag(s.gp.alphabet,s.YI.UN),n.setTag(s.gp.alphabetIsMultichar,"true");const o=[];return o.push(n),o.push(i.Column.fromList(i.COLUMN_TYPE.FLOAT,"Activity",new Array(100).fill(7.30751))),o}function h(e,t=s.Hi.SEPARATOR,n=s.YI.PT,o=(t===s.Hi.SEPARATOR?"-":void 0),c=void 0,u="seq",h=100,d=10**6){const m=n===s.YI.UN?c?.getMonomerSymbolsByType("PEPTIDE")??[]:Array.from((0,s.Qf)(n)),p=m.length,g=i.Column.fromType(i.COLUMN_TYPE.STRING,u,h);g.semType=i.SEMTYPE.MACROMOLECULE,g.meta.units=t,g.setTag(s.gp.alphabet,n),t==s.Hi.SEPARATOR&&g.setTag(s.gp.separator,o);const f=e.getSeqHandler(g);for(let e=0;e<h;e++){const n=r().count(0).take(d).map(e=>m[Math.floor(Math.random()*p)]).toArray(),i=f.joiner(new a.Mu(n,l.b9[t]));g.set(e,i)}return g}},6882:(e,t,n)=>{"use strict";n.d(t,{Bb:()=>b,Jy:()=>w,S$:()=>y,U0:()=>v});var i=n(7389),o=n(6082),r=n(1991),s=n.n(r),a=n(8312),l=n(2003),c=n(6642),u=n(4971),h=n(9192),d=n(3856),m=n(673),p=n(3599),g=n(5553),f=n(9713);const y="rgb(100,100,100)";function b(e,t,n){if((n??0)>0&&t<(e[0]??0)+n)return-1;t-=n??0;let i,o=100,r=0,s=e.length-1;for(;r<=s;){if(i=Math.floor((s+r)/2),e[i]<=t&&t<e[i+1])return i;if(t<e[i]?s=i-1:r=i+1,--o<=0)throw new Error(`Get position for pointer x = ${t} searching has not converged on ${JSON.stringify(e)}. `)}return null}class w extends c.sD{get separatorWidth(){return this.props?.fontCharWidth?this.props?.fontCharWidth:5}constructor(e,t,n,i,r){if(super(e,t,n),this.monomerLengthLimit=i,this.propsProvider=r,this.colWidth=0,this._monomerLengthList=null,this._processedMaxVisibleSeqLength=0,this._monomerLengthMap={},this._monomerStructureMap={},this._ellipsisBounds=void 0,this._totalLinesNeeded=0,this._lineHeight=20,this._cellBounds=new Map,this.sysMonomerLib=null,this.padding=5,this._leftThreeDotsPadding=0,this.props=this.propsProvider(),this._processedRows=o.BitSet.create(this.tableCol.length),this.gridCol&&this.subs.push(this.gridCol.grid.onAfterDrawContent.subscribe(()=>{this._onRendered.next()})),this.tableCol&&this.gridCol){this.subs.push(this.tableCol.dataFrame.onCurrentRowChanged.subscribe(()=>{-1===this.tableCol.dataFrame.currentRowIdx&&(this.tableCol.temp["reference-sequence"]=null,this.tableCol.temp["current-word"]=null,this.invalidateGrid())}));const e=[l.gp.positionShift,"renderMultiline"];this.subs.push(o.debounce(this.tableCol.dataFrame.onMetadataChanged.pipe(f.filter(t=>t.args.source===this.tableCol&&e.includes(t.args.key))),200).subscribe(e=>{this.reset()})),this.subs.push(o.debounce(this.tableCol.dataFrame.onMetadataChanged.pipe(f.filter(e=>e.args.source===this.tableCol&&e.args.key===l.gp.positionShift)),200).subscribe(e=>{this.reset()}))}}calculateFontBasedSpacing(e){const t=e.measureText("M");let n=12;if(this.tableCol?.temp[".mm.cellRenderer.fontSize"]){const e=this.tableCol.temp[".mm.cellRenderer.fontSize"];"number"!=typeof e||isNaN(e)||(n=Math.max(e,1))}return{lineHeight:Math.max(1.4*n,t.fontBoundingBoxAscent+t.fontBoundingBoxDescent+4),monomerSpacing:Math.max(2,.2*this.props.fontCharWidth)}}shouldUseMultilineRendering(e){return"true"===e.getTag("renderMultiline")}calculateMultiLineLayoutDynamic(e,t,n,i,o,r){if(this.dirty)try{this.reset()}catch(e){const[t,n]=(0,h.AP)(e);this.logger.error(t,void 0,n)}const{lineHeight:s,monomerSpacing:a}=this.calculateFontBasedSpacing(e),l=t-2*this.padding;let c=0;const u=[];if(i.length>0)for(let t=o;t<i.length;t++){const n=i.getOriginal(t),o=this.props.monomerToShort(n,r);u.push({text:o,posIdx:t}),c=Math.max(c,e.measureText(o).width)}if(0===u.length)return{lineLayouts:[],lineHeight:s};const d=c;let m=Math.floor((l+a)/(d+a));m=Math.max(1,m);const p=n-2*this.padding,g=Math.max(0,Math.floor(p/s)),f=[];let y=0;for(let e=0;e<g&&y<u.length;e++){const t=[];for(let e=0;e<m&&y<u.length;e++){const n=u[y],i=this.padding+e*(d+a);t.push({posIdx:n.posIdx,x:i,width:d,om:n.text,isSeparator:!1}),y++}f.push({lineIdx:e,elements:t})}return{lineLayouts:f,lineHeight:s}}async init(){await Promise.all([(async()=>{this.seqHelper=await(0,a.Q)(),this.invalidateGrid()})(),(async()=>{const e=await(0,u.pj)();this.sysMonomerLib=e.getMonomerLib()})()]),this.subs.push(this.sysMonomerLib.onChanged.subscribe(()=>{this.reset()})),this.reset()}static getFontSettings(e){let t=12;return e&&e.temp[".mm.cellRenderer.fontSize"]&&"number"==typeof e.temp[".mm.cellRenderer.fontSize"]&&!isNaN(e.temp[".mm.cellRenderer.fontSize"])&&(t=Math.max(e.temp[".mm.cellRenderer.fontSize"],1)),{font:`${t}px monospace`,fontWidth:.6*t}}toLog(){return`MonomerPlacer<${this.viewerId}>`}getMonomerLib(){return this.tableCol.temp[".mm.cellRenderer.overriddenLibrary"]??this.sysMonomerLib}reset(){this.propsProvider&&(this.props=this.propsProvider()),this._processedRows=o.BitSet.create(this.tableCol.length),this._monomerLengthList=null,this._monomerLengthMap={},this._monomerStructureMap={},this._cellBounds.clear(),super.reset(),this.invalidateGrid()}invalidateGrid(){this.gridCol&&this.gridCol.dart&&this.gridCol.grid?.invalidate()}getCellMonomerLengths(e,t){const n=this.seqHelper.getSeqHandler(this.tableCol);if(this.colWidth<t&&(this.colWidth=t,this.dirty=!0),this.dirty)try{this.reset()}catch(e){const[t,n]=(0,h.AP)(e);this.logger.error(t,void 0,n)}const i=n.isMsa()?this.getCellMonomerLengthsForSeqMsa():this.getCellMonomerLengthsForSeq(e);return[i,this.getSummedMonomerLengths(i)]}getSummedMonomerLengths(e){const t=new Array(e.length+1);t[0]=this.padding;for(let n=1;n<t.length;n++)t[n]=t[n-1]+e[n-1];let n=t[0];for(let e=1;e<t.length;e++)t[e]?n=t[e]:t[e]=n;return t}getCellMonomerLengthsForSeqValue(e,t){const n=this.seqHelper.getSeqHandler(this.tableCol),i=this.props.separatorWidth+1*this.props.fontCharWidth,o=this.positionShift,r=Math.ceil(t/i)+o,s=n.splitter(e),a=Math.min(r,s.length),l=new Array(a-o);let c=0;for(let e=o;e<a;++e){const i=s.getOriginal(e),r=this.props.monomerToShort(i,this.monomerLengthLimit),a=(n.isSeparator()?this.separatorWidth:this.props.separatorWidth)+r.length*this.props.fontCharWidth;if(l[e-o]=a,c+=a,c>t)break}return l}getCellMonomerLengthsForSeq(e){this.toLog(),null===this._monomerLengthList&&(this._monomerLengthList=new Array(this.tableCol.length).fill(null));const t=this.positionShift,n=this.seqHelper.getSeqHandler(this.tableCol),i=this.props.separatorWidth+1*this.props.fontCharWidth,o=Math.ceil(this.colWidth/i)+t,r=n.getSplitted(e),s=Math.min(o,r.length);let a=this._monomerLengthList[e];if(null===a||a.length!=s-t){a=this._monomerLengthList[e]=new Array(r.length);let i=0;for(let e=t;e<s;++e){const o=r.getOriginal(e),s=this.props.monomerToShort(o,this.monomerLengthLimit),l=(n.isSeparator()?this.separatorWidth:this.props.separatorWidth)+s.length*this.props.fontCharWidth;if(a[e-t]=l,i+=l,i>this.colWidth)break}}return a}getCellMonomerLengthsForSeqMsa(){var e;this.toLog(),null===this._monomerLengthList&&(this._monomerLengthList=new Array(1).fill(null)),(e=this._monomerLengthList)[0]??(e[0]=new Array(0));const t=this._monomerLengthList[0],{startIdx:n,endIdx:i}=(()=>{try{const e=this.gridCol&&this.gridCol.dart?this.gridCol.grid:null;return e&&e.dart?{startIdx:Math.max(Math.floor((e?.vertScroll.min??0)-10),0),endIdx:Math.min(Math.ceil((e?.vertScroll.max??0)+10),this.tableCol.length)}:{startIdx:0,endIdx:Math.min(this.tableCol.length,10)}}catch(e){return{startIdx:0,endIdx:Math.min(this.tableCol.length,10)}}})(),o=this.props.separatorWidth+1*this.props.fontCharWidth,r=this.positionShift,s=Math.ceil(this.colWidth/o)+r;for(let e=n;e<i;e++){if(this._processedRows.get(e)&&s<=this._processedMaxVisibleSeqLength)continue;const n=this.seqHelper.getSeqHandler(this.tableCol).getSplitted(e,s),i=Math.min(s,n.length);i-r>t.length&&t.push(...new Array(i-r-t.length).fill(o));let a=0;for(let e=r;e<i;++e){const i=n.getOriginal(e),o=this.props.monomerToShort(i,this.monomerLengthLimit),s=this.props.separatorWidth+o.length*this.props.fontCharWidth;if(t[e-r]=Math.max(t[e-r]??0,s),a+=s,a>=this.colWidth)break}this._processedMaxVisibleSeqLength=Math.max(this._processedMaxVisibleSeqLength,s),this._processedRows.set(e,!0)}return t}getPosition(e,t,n,i){const[o,r]=this.getCellMonomerLengths(e,n);return 0===this.seqHelper.getSeqHandler(this.tableCol).getSplitted(e).length?null:b(r,t,i)}setMonomerLengthLimit(e){this.monomerLengthLimit!=e&&(this.monomerLengthLimit=e,this.dirty=!0)}setSeparatorWidth(e){this.separatorWidth!=e&&(this.props.separatorWidth=e,this.dirty=!0)}get positionShift(){const e=Number.parseInt(this.tableCol?.tags[l.gp.positionShift]??"0")??0;return isNaN(e)?0:Math.max(e,0)}render(e,t,n,i,r,a,c){const u=a.grid?.dart&&a.grid?.canvas===e.canvas;if(!this.seqHelper)return;const p=this.tableCol,g=this.positionShift;e.save();try{const c=this.seqHelper.getSeqHandler(p);let h=this.monomerLengthLimit;if(d.gp.maxMonomerLength in p.tags){const e=parseInt(p.getTag(d.gp.maxMonomerLength));h=!isNaN(e)&&e?e:50}if(".mm.cellRenderer.maxMonomerLength"in p.temp){const e=p.temp[".mm.cellRenderer.maxMonomerLength"],t="number"==typeof e?e:parseInt(e);h=!isNaN(t)&&t?t:50}if(p.temp[".mm.cellRenderer.settingsChanged"]===m.s.true||this.monomerLengthLimit!=h){let e=0;const t=8;e=p.temp[".mm.cellRenderer.gapLength"]??e,this.setMonomerLengthLimit(h),this.setSeparatorWidth(c.isMsa()?t:e),p.temp[".mm.cellRenderer.settingsChanged"]=m.s.false,this.dirty=!0}const f=a.cell.rowIndex,b=a.cell.value;u&&(i=v(a.grid,e,t,i,window.devicePixelRatio)),e.beginPath(),e.rect(t,n,i,r),e.clip(),e.font=this.props?.font??"12px monospace",e.textBaseline="top";const w=p.meta.units,T=p.getTag(l.gp.aligned),C=p.getTag(l.gp.separator)??"",A=u?c.getSplitted(f):c.splitter(b);let E=d.yg.classic;T?.includes("MSA")&&w===l.Hi.SEPARATOR&&(E=d.yg.MSA);const S=p.temp["reference-sequence"],M=this.tableCol.temp["current-word"],P=(()=>{const e=(0,c.splitter)(null!=S&&""!==S?S:M??"");return s().count(0).take(e.length).slice(g).map(t=>e.getCanonical(t)).toArray()})(),_=Number.parseInt(p.getTag(l.gp.selectedPosition)??"-200");if(this.shouldUseMultilineRendering(p)){const s=[],l=this.calculateMultiLineLayoutDynamic(e,i,r,A,g,h);let u=n+this.padding;1===l.lineLayouts.length&&(u=n+(r-l.lineHeight)/2);for(const i of l.lineLayouts){const r=u+i.lineIdx*l.lineHeight;for(const u of i.elements){const h=t+u.x,m=u,f=m.posIdx,b=A.getCanonical(f);let w=y;const v=this.getMonomerLib();v&&(w=v.getMonomerTextColor(c.defaultBiotype,b));let T=0;if(a.tableRowIndex!==p.dataFrame.currentRowIdx&&P.length>0){const e=f-g;e>=0&&e<P.length&&b===P[e]&&(T=.7)}s.push({lineIdx:i.lineIdx,monomerIdx:f-g,bounds:new o.Rect(u.x,r-n,u.width,l.lineHeight),sequencePosition:f}),(0,d.oZ)(e,m.om,h,r,u.width,l.lineHeight,{color:w,isMultiLineContext:!0,transparencyRate:T,selectedPosition:isNaN(_)||_<1?void 0:_,wordIdx:f})}}null!==a.tableRowIndex&&this._cellBounds.set(a.tableRowIndex,s)}else{this._leftThreeDotsPadding=this.shouldRenderShiftedThreeDots(g)?e.measureText("...").width:0;let[,o]=this.getCellMonomerLengths(a.tableRowIndex,i);u||(o=this.getSummedMonomerLengths(this.getCellMonomerLengthsForSeqValue(b,i)));const s=this.props.separatorWidth+1*this.props.fontCharWidth,l=Math.min(A.length,Math.ceil(i/s)+g);for(let s=g;s<l;++s){const l=s<A.length?A.getOriginal(s):c.defaultGapOriginal,u=s<A.length?A.getCanonical(s):c.defaultGapOriginal;let m=y;this.getMonomerLib()&&(m=this.getMonomerLib().getMonomerTextColor(c.defaultBiotype,u));const p=s===A.length-1,f={color:m,pivot:0,left:!0,transparencyRate:0,separator:(A?.graphInfo?.disjointSeqStarts?.indexOf(s+1)??0)>0?"|":C,last:p,drawStyle:E,maxWord:o,wordIdx:s-g,gridCell:a,referenceSequence:P,maxLengthOfMonomer:h,monomerTextSizeMap:this._monomerLengthMap,logger:this.logger,selectedPosition:isNaN(_)||_<1?void 0:_-g};(0,d.oZ)(e,l,t+this.padding+this._leftThreeDotsPadding,n,i,r,f)}if(this.shouldRenderShiftedThreeDots(g)){const s={color:y,pivot:0,left:!0,transparencyRate:0,separator:C,last:!1,drawStyle:E,maxWord:o,wordIdx:0,gridCell:a,maxLengthOfMonomer:h,monomerTextSizeMap:this._monomerLengthMap,logger:this.logger};(0,d.oZ)(e,"...",t+this.padding,n,i,r,s)}}}catch(e){const[t,n]=(0,h.AP)(e);this.logger.error(t,void 0,n),this.errors.push(e)}finally{e.restore()}}shouldRenderShiftedThreeDots(e){return e>0&&(!this.gridCol||!this.gridCol.dart||!this.gridCol.grid||!this.gridCol.grid.dart||(this.gridCol.grid.props.colHeaderHeight??0)<=50)}onMouseMove(e,t){const n=`${this.toLog()}.onMouseMove()`;if(!this.seqHelper||null==e.tableRowIndex)return;const o=this.positionShift,r=e.bounds,s=t.offsetX-e.gridColumn.left+(e.gridColumn.left-r.x),a=t.offsetY-r.y;this.gridCol?.grid?.canvas&&(this.gridCol.grid.canvas.style.cursor="default");let c=null;const u=this._cellBounds.get(e.tableRowIndex);if(u){for(const e of u)if(e.bounds.contains(s,a)){c=e.monomerIdx;break}}else{const t=this.shouldRenderShiftedThreeDots(o)&&(this._leftThreeDotsPadding??0)>0?this._leftThreeDotsPadding:0;c=this.getPosition(e.tableRowIndex,s,r.width,t)}this.logger.debug(`${n}, argsX: ${s}, argsY: ${a}, left: ${c}`);const h=this.seqHelper.getSeqHandler(this.tableCol),d=h.getSplitted(e.tableRowIndex);if(null!==c&&c>=0&&c+o<d.length){const n=h.alphabet??l.YI.UN,r={position:c,biotype:n===l.YI.RNA||n===l.YI.DNA?p.o.NUCLEOTIDE:p.o.AA,symbol:d.getCanonical(c+o)},s=[];let a=this._monomerStructureMap[r.symbol];if(!a){const e=this.getMonomerLib();a=this._monomerStructureMap[r.symbol]=e?e.getTooltip(r.biotype,r.symbol):i.divText("Monomer library is not available")}s.push(a),i.tooltip.show(i.divV(s),t.x+16,t.y+16),(0,g.WN)(e,r)}else-1===c?i.tooltip.show(i.divText(`${Math.min(o,d.length)} hidden monomers`),t.x+16,t.y+16):i.tooltip.hide(),(0,g.WN)(e,null)}}function v(e,t,n,i,o){return e?Math.max(Math.min(e.canvas.width/o-n,i)):Math.max(t.canvas.width/o-n,0)}},6939:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.getSchemaRefs=t.resolveUrl=t.normalizeId=t._getFullPath=t.getFullPath=t.inlineRef=void 0;const i=n(4227),o=n(2017),r=n(7106),s=new Set(["type","format","pattern","maxLength","minLength","maxProperties","minProperties","maxItems","minItems","maximum","minimum","uniqueItems","multipleOf","required","enum","const"]);t.inlineRef=function(e,t=!0){return"boolean"==typeof e||(!0===t?!l(e):!!t&&c(e)<=t)};const a=new Set(["$ref","$recursiveRef","$recursiveAnchor","$dynamicRef","$dynamicAnchor"]);function l(e){for(const t in e){if(a.has(t))return!0;const n=e[t];if(Array.isArray(n)&&n.some(l))return!0;if("object"==typeof n&&l(n))return!0}return!1}function c(e){let t=0;for(const n in e){if("$ref"===n)return 1/0;if(t++,!s.has(n)&&("object"==typeof e[n]&&(0,i.eachItem)(e[n],e=>t+=c(e)),t===1/0))return 1/0}return t}function u(e,t="",n){!1!==n&&(t=m(t));const i=e.parse(t);return h(e,i)}function h(e,t){return e.serialize(t).split("#")[0]+"#"}t.getFullPath=u,t._getFullPath=h;const d=/#\/?$/;function m(e){return e?e.replace(d,""):""}t.normalizeId=m,t.resolveUrl=function(e,t,n){return n=m(n),e.resolve(t,n)};const p=/^[a-z_][-a-z0-9._]*$/i;t.getSchemaRefs=function(e,t){if("boolean"==typeof e)return{};const{schemaId:n,uriResolver:i}=this.opts,s=m(e[n]||t),a={"":s},l=u(i,s,!1),c={},h=new Set;return r(e,{allKeys:!0},(e,t,i,o)=>{if(void 0===o)return;const r=l+t;let s=a[o];function u(t){const n=this.opts.uriResolver.resolve;if(t=m(s?n(s,t):t),h.has(t))throw g(t);h.add(t);let i=this.refs[t];return"string"==typeof i&&(i=this.refs[i]),"object"==typeof i?d(e,i.schema,t):t!==m(r)&&("#"===t[0]?(d(e,c[t],t),c[t]=e):this.refs[t]=r),t}function f(e){if("string"==typeof e){if(!p.test(e))throw new Error(`invalid anchor "${e}"`);u.call(this,`#${e}`)}}"string"==typeof e[n]&&(s=u.call(this,e[n])),f.call(this,e.$anchor),f.call(this,e.$dynamicAnchor),a[t]=s}),c;function d(e,t,n){if(void 0!==t&&!o(e,t))throw g(n)}function g(e){return new Error(`reference "${e}" resolves to more than one schema`)}}},6956:(e,t,n)=>{"use strict";n.d(t,{m:()=>o,x:()=>i});const i="|",o="H"},7060:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5882),o=n(3439),r=n(7307),s=n(422),a=n(4486),l=n(4003),c=n(1163),u=n(617),h=n(7935),d=n(8643),m=[i.default,o.default,r.default,s.default,a.default,l.default,c.default,u.default,{keyword:"type",schemaType:["string","array"]},{keyword:"nullable",schemaType:"boolean"},h.default,d.default];t.default=m},7082:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/validation","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/validation":true},"$dynamicAnchor":"meta","title":"Validation vocabulary meta-schema","type":["object","boolean"],"properties":{"type":{"anyOf":[{"$ref":"#/$defs/simpleTypes"},{"type":"array","items":{"$ref":"#/$defs/simpleTypes"},"minItems":1,"uniqueItems":true}]},"const":true,"enum":{"type":"array","items":true},"multipleOf":{"type":"number","exclusiveMinimum":0},"maximum":{"type":"number"},"exclusiveMaximum":{"type":"number"},"minimum":{"type":"number"},"exclusiveMinimum":{"type":"number"},"maxLength":{"$ref":"#/$defs/nonNegativeInteger"},"minLength":{"$ref":"#/$defs/nonNegativeIntegerDefault0"},"pattern":{"type":"string","format":"regex"},"maxItems":{"$ref":"#/$defs/nonNegativeInteger"},"minItems":{"$ref":"#/$defs/nonNegativeIntegerDefault0"},"uniqueItems":{"type":"boolean","default":false},"maxContains":{"$ref":"#/$defs/nonNegativeInteger"},"minContains":{"$ref":"#/$defs/nonNegativeInteger","default":1},"maxProperties":{"$ref":"#/$defs/nonNegativeInteger"},"minProperties":{"$ref":"#/$defs/nonNegativeIntegerDefault0"},"required":{"$ref":"#/$defs/stringArray"},"dependentRequired":{"type":"object","additionalProperties":{"$ref":"#/$defs/stringArray"}}},"$defs":{"nonNegativeInteger":{"type":"integer","minimum":0},"nonNegativeIntegerDefault0":{"$ref":"#/$defs/nonNegativeInteger","default":0},"simpleTypes":{"enum":["array","boolean","integer","null","number","object","string"]},"stringArray":{"type":"array","items":{"type":"string"},"uniqueItems":true,"default":[]}}}')},7106:e=>{"use strict";var t=e.exports=function(e,t,i){"function"==typeof t&&(i=t,t={}),n(t,"function"==typeof(i=t.cb||i)?i:i.pre||function(){},i.post||function(){},e,"",e)};function n(e,o,r,s,a,l,c,u,h,d){if(s&&"object"==typeof s&&!Array.isArray(s)){for(var m in o(s,a,l,c,u,h,d),s){var p=s[m];if(Array.isArray(p)){if(m in t.arrayKeywords)for(var g=0;g<p.length;g++)n(e,o,r,p[g],a+"/"+m+"/"+g,l,a,m,s,g)}else if(m in t.propsKeywords){if(p&&"object"==typeof p)for(var f in p)n(e,o,r,p[f],a+"/"+m+"/"+i(f),l,a,m,s,f)}else(m in t.keywords||e.allKeys&&!(m in t.skipKeywords))&&n(e,o,r,p,a+"/"+m,l,a,m,s)}r(s,a,l,c,u,h,d)}}function i(e){return e.replace(/~/g,"~0").replace(/\//g,"~1")}t.keywords={additionalItems:!0,items:!0,contains:!0,additionalProperties:!0,propertyNames:!0,not:!0,if:!0,then:!0,else:!0},t.arrayKeywords={items:!0,allOf:!0,anyOf:!0,oneOf:!0},t.propsKeywords={$defs:!0,definitions:!0,properties:!0,patternProperties:!0,dependencies:!0},t.skipKeywords={default:!0,enum:!0,const:!0,required:!0,maximum:!0,minimum:!0,exclusiveMaximum:!0,exclusiveMinimum:!0,multipleOf:!0,maxLength:!0,minLength:!0,pattern:!0,format:!0,maxItems:!0,minItems:!0,uniqueItems:!0,maxProperties:!0,minProperties:!0}},7150:(e,t,n)=>{"use strict";n.d(t,{PackageFunctions:()=>Ao,_package:()=>To});var i,o,r=n(4328),s=n(7389),a=n(6082),l=n(684),c=n(9039);(o=i||(i={})).EUCLIDEAN="EUCLIDEAN",o.MANHATTAN="MANHATTAN";var u=n(1858),h=n(5072),d=n.n(h),m=n(7825),p=n.n(m),g=n(7659),f=n.n(g),y=n(5056),b=n.n(y),w=n(540),v=n.n(w),T=n(1113),C=n.n(T),A=n(7939),E={};E.styleTagTransform=C(),E.setAttributes=b(),E.insert=f().bind(null,"head"),E.domAPI=p(),E.insertStyleElement=v(),d()(A.A,E),A.A&&A.A.locals&&A.A.locals;var S=function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})};let M=null,P=null;function _(e,t){return e&&""!=e?e:t}n(2780);class I{constructor(){this.learningRate={uiName:"Learninig Rate",value:1,tooltip:"The initial learning rate for the embedding optimization"},this.nEpochs={uiName:"Epochs",value:0,tooltip:"The number of epochs to optimize embeddings via SGD. Computed automatically if set to 0"},this.nNeighbors={uiName:"Neighbors",value:15,tooltip:"The number of nearest neighbors to construct the fuzzy manifold"},this.spread={uiName:"Spread",value:1,tooltip:"The effective scale of embedded points, used with min distance to control \n the clumped/dispersed nature of the embedding"},this.minDist={uiName:"Min Distance",value:.1,tooltip:"The effective minimum distance between embedded points, \n used with spread to control the clumped/dispersed nature of the embedding"},this.randomSeed={uiName:"Random Seed",value:null,tooltip:"Random seed",type:"string"},this.useWebGPU={uiName:"Use WebGPU",value:!1,tooltip:"Use WebGPU for Distance and UMAP computations",type:"boolean",disableTooltip:"WebGPU is not available"},function(){return S(this,void 0,void 0,function*(){if(!navigator.gpu)return console.error("WebGPU is not supported in this browser"),null;if(!M&&(M=yield navigator.gpu.requestAdapter(),null==M))return null;let e=null;return"info"in M&&(e=M.info),e?_(e.description,_(e.vendor,"No GPU description available")):"No GPU description available"})}().then(e=>{e?(this.useWebGPU.tooltip+=` (${e})`,this.useWebGPU.value=!0):(this.useWebGPU.value=!1,this.useWebGPU.disable=!0)})}}class L{constructor(){this.epsilon={uiName:"Epsilon",value:10,tooltip:"Epsilon is learning rate"},this.perplexity={uiName:"Perplexity",value:30,tooltip:"Roughly how many neighbors each point influences"}}}Promise.resolve(),n(934),n(8903);const x="MCL";a.SEMTYPE.MOLECULE,a.SEMTYPE.MACROMOLECULE;class N{constructor(){this.epsilon={uiName:"Epsilon",value:.01,tooltip:"Minimum distance between cluster points",min:0,max:2,step:.005},this.minPts={uiName:"Minimum points",value:4,tooltip:"Minimum number of points in cluster",min:1,max:1e3,step:1}}}class R{get algorithmOptions(){const e=this.methodsParams[this.methodInput.value],t={};return Object.keys(e).forEach(n=>{null!=e[n].value&&(t[n]=e[n].value)}),t}get dbScanOptions(){return{dbScanEpsilon:this.dbScanParams.epsilon.value??.01,dbScanMinPts:this.dbScanParams.minPts.value??4}}constructor(e={}){this.editorSettings={},this.plotEmbeddingsInput=s.input.bool("Plot embeddings",{value:!0}),this.clusterEmbeddingsInput=s.input.bool("Cluster embeddings",{value:!0}),this.preprocessingFunctionInputRoot=null,this.methods=[c.c.UMAP,c.c.T_SNE],this.columnFunctionsMap={},this.supportedFunctions={},this.availableMetrics=[],this.methodSettingsDiv=s.inputs([]),this.dbScanSettingsDiv=s.inputs([]),this.preprocessingFuncSettingsDiv=s.inputs([]),this.preprocessingFunctionSettings={},this.methodsParams={[c.c.UMAP]:new I,[c.c.T_SNE]:new L},this.dbScanParams=new N,this.editorSettings=e,this.editorSettings.enableMCL&&this.methods.push(x),a.Func.find({tags:[l.GP]}).forEach(e=>{const t=e.options.get(l.n3)??"",n=e.friendlyName??e.name,i=e.options.get(l.C0)??"",o=e.options.get(l._X)??"",r=e.options.get(l.Gi)??"";this.editorSettings.semtype&&!t.includes(this.editorSettings.semtype)||this.editorSettings.type&&!i.includes(this.editorSettings.type)||this.editorSettings.units&&!o.includes(this.editorSettings.units)||(this.supportedFunctions[n]={func:e,semTypes:t?t.split(","):[],types:i?i.split(","):[],units:o?o.split(","):[],distanceFunctions:r?r.split(","):[]})}),this.tableInput=s.input.table("Table",{value:r.shell.tv.dataFrame,items:r.shell.tables,onValueChanged:()=>{this.onTableInputChanged()}}),this.onTableInputChanged(),this.regenerateColInput(),this.onColumnInputChanged();let t=!1,n=!1;this.methodInput=s.input.choice("Method",{value:c.c.UMAP,items:this.methods,onValueChanged:e=>{t&&this.createAlgorithmSettingsDiv(this.methodSettingsDiv,this.methodsParams[e])}}),this.methodSettingsIcon=s.icons.settings(()=>{t=!t,t?this.createAlgorithmSettingsDiv(this.methodSettingsDiv,this.methodsParams[this.methodInput.value]):s.empty(this.methodSettingsDiv)},"Modify methods parameters"),this.dbScanSettingsIcon=s.icons.settings(()=>{n=!n,n?this.createAlgorithmSettingsDiv(this.dbScanSettingsDiv,this.dbScanParams):s.empty(this.dbScanSettingsDiv)},"Modify clustering parameters"),this.clusterEmbeddingsInput.classList.add("ml-dim-reduction-settings-input"),this.clusterEmbeddingsInput.root.prepend(this.dbScanSettingsIcon),this.methodInput.root.classList.add("ml-dim-reduction-settings-input"),this.methodInput.root.prepend(this.methodSettingsIcon),this.methodSettingsDiv=s.inputs([]);const i=this.columnFunctionsMap[this.colInput.value.name];this.preprocessingFunctionInput=s.input.choice("Encoding function",{value:i[0],items:i,onValueChanged:()=>{this.onPreprocessingFunctionChanged()}});let o=!1;this.preprocessingFunctionInputRoot||(this.preprocessingFunctionInputRoot=this.preprocessingFunctionInput.root,o=!0),o||(s.empty(this.preprocessingFunctionInputRoot),Array.from(this.preprocessingFunctionInput.root.children).forEach(e=>this.preprocessingFunctionInputRoot.append(e))),this.preprocessingFunctionInputRoot.classList.add("ml-dim-reduction-settings-input");let u=!1;this.preprocessingFuncSettingsIcon=s.icons.settings(async()=>{u?s.empty(this.preprocessingFuncSettingsDiv):await this.createPreprocessingFuncParamsDiv(this.preprocessingFuncSettingsDiv,this.supportedFunctions[this.preprocessingFunctionInput.value].func),u=!u},"Modify encoding function parameters"),this.preprocessingFunctionInputRoot.prepend(this.preprocessingFuncSettingsIcon),this.similarityMetricInput=s.input.choice("Similarity",{value:"",items:[]}),this.similarityMetricInput.nullable=!1,this.similarityMetricInputRoot||(this.similarityMetricInputRoot=this.similarityMetricInput.root),this.onPreprocessingFunctionChanged()}getColInput(){const e=this.tableInput.value?.columns.toList().find(e=>!!this.columnFunctionsMap[e.name])??null,t=s.input.column("Column",{table:this.tableInput.value,value:e,nullable:!1,onValueChanged:()=>this.onColumnInputChanged(),filter:e=>!!this.columnFunctionsMap[e.name]});return this.colInputRoot||(this.colInputRoot=t.root),t}regenerateColInput(){let e=!1;this.colInputRoot&&(e=!0,s.empty(this.colInputRoot)),this.colInput=this.getColInput(),e&&Array.from(this.colInput.root.children).forEach(e=>this.colInputRoot.append(e)),this.onColumnInputChanged()}onTableInputChanged(){const e=this.tableInput.value;if(!e)return;const t=()=>{this.columnFunctionsMap={},e.columns.toList().forEach(e=>{Object.keys(this.supportedFunctions).forEach(t=>{const n=this.supportedFunctions[t].semTypes,i=this.supportedFunctions[t].types,o=this.supportedFunctions[t].units,r=!n.length||e.semType&&n.includes(e.semType),s=!i.length||i.includes(e.type),a=!o.length||e.meta.units&&o.includes(e.meta.units);r&&s&&a&&(this.columnFunctionsMap[e.name]||(this.columnFunctionsMap[e.name]=[]),this.columnFunctionsMap[e.name].push(t))})}),this.regenerateColInput()};t(),e.columns.toList().some(e=>!!e.getTag(a.Tags.SemanticDetectionDuration))||e.meta.detectSemanticTypes().then(()=>{t()})}onColumnInputChanged(){const e=this.colInput.value;if(!e)return;const t=this.columnFunctionsMap[e.name];this.preprocessingFunctionInput=s.input.choice("Preprocessing function",{value:t[0],items:t,onValueChanged:()=>{this.onPreprocessingFunctionChanged()}});let n=!1;this.preprocessingFunctionInputRoot||(this.preprocessingFunctionInputRoot=this.preprocessingFunctionInput.root,n=!0),n||(s.empty(this.preprocessingFunctionInputRoot),Array.from(this.preprocessingFunctionInput.root.children).forEach(e=>this.preprocessingFunctionInputRoot.append(e))),this.onPreprocessingFunctionChanged()}onPreprocessingFunctionChanged(){s.empty(this.preprocessingFuncSettingsDiv),this.preprocessingFunctionSettings={};const e=this.preprocessingFunctionInput.value,t=this.supportedFunctions[e].distanceFunctions;this.availableMetrics=[...t],this.similarityMetricInput=s.input.choice("Similarity",{value:this.availableMetrics[0],items:this.availableMetrics}),this.similarityMetricInput.nullable=!1,this.similarityMetricInputRoot||(this.similarityMetricInputRoot=this.similarityMetricInput.root),s.empty(this.similarityMetricInputRoot),Array.from(this.similarityMetricInput.root.children).forEach(e=>this.similarityMetricInputRoot.append(e)),this.preprocessingFuncSettingsIcon&&(this.supportedFunctions[e].func.inputs.length<3?this.preprocessingFuncSettingsIcon.style.display="none":this.preprocessingFuncSettingsIcon.style.display="flex")}createAlgorithmSettingsDiv(e,t){return s.empty(e),Object.keys(t).forEach(n=>{const i=t[n],o="string"===i.type?s.input.string(i.uiName,{value:i.value??"",onValueChanged:e=>{i.value=e}}):"boolean"===i.type?s.input.bool(i.uiName,{value:i.value??!1,onValueChanged:e=>{i.value=e}}):s.input.float(i.uiName,{value:i.value,onValueChanged:e=>{i.value=e}});e.append(o.root),i.disable?(o.enabled=!1,s.tooltip.bind(o.input??o.root,i.disableTooltip??"")):s.tooltip.bind(o.input??o.root,i.tooltip)}),e}async createPreprocessingFuncParamsDiv(e,t){if(s.empty(e),t.inputs.length<3)return s.div();const n=t.prepare(),i=await n.buildEditor(s.div());for(let o=2;o<t.inputs.length;o++){const r=t.inputs[o];(this.preprocessingFunctionSettings[r.name]||n.inputParams[t.inputs[o].name].value||r.defaultValue)&&(this.preprocessingFunctionSettings[r.name]=this.preprocessingFunctionSettings[r.name]??n.inputParams[r.name].value??r.defaultValue);const s=i.find(e=>e.property.name===r.name);s&&(null!==this.preprocessingFunctionSettings[r.name]&&void 0!==this.preprocessingFunctionSettings[r.name]&&(s.value=this.preprocessingFunctionSettings[r.name]),s.onChanged.subscribe(e=>{this.preprocessingFunctionSettings[r.name]=e}),e.append(s.root))}return e}getEditor(){return s.div([this.tableInput,this.colInputRoot,this.preprocessingFunctionInputRoot,this.preprocessingFuncSettingsDiv,this.methodInput,this.methodSettingsDiv,this.similarityMetricInputRoot,this.plotEmbeddingsInput,this.clusterEmbeddingsInput,this.dbScanSettingsDiv],{style:{minWidth:"420px"},classes:"ui-form dim-reduction-dialog-form"})}getParams(){return{table:this.tableInput.value,col:this.colInput.value,methodName:this.methodInput.value,preprocessingFunction:this.supportedFunctions[this.preprocessingFunctionInput.value].func,similarityMetric:this.similarityMetricInput.value,plotEmbeddings:this.plotEmbeddingsInput.value,clusterEmbeddings:this.clusterEmbeddingsInput.value,options:{...this.algorithmOptions,...this.dbScanOptions,preprocessingFuncArgs:this.preprocessingFunctionSettings??{}}}}getInput(){return{table:this.tableInput.value.name,col:this.colInput.value.name,methodName:this.methodInput.value,preprocessingFunction:this.preprocessingFunctionInput.value,similarityMetric:this.similarityMetricInput.value,plotEmbeddings:this.plotEmbeddingsInput.value,clusterEmbeddings:this.clusterEmbeddingsInput.value,options:{...this.algorithmOptions,...this.dbScanOptions,preprocessingFuncArgs:this.preprocessingFunctionSettings??{}}}}getStringInput(){return JSON.stringify(this.getInput())}async applyStringInput(e){try{const t=JSON.parse(e);await this.applyInput(t)}catch(e){r.shell.error("Error applying input from history"),console.error(e)}}async applyInput(e){try{const t=this.tableInput.value?.col(e.col);if(!t)throw new Error("Column not found");this.colInput.value=t,this.preprocessingFunctionInput.value=e.preprocessingFunction,this.similarityMetricInput.value=e.similarityMetric,this.plotEmbeddingsInput.value=e.plotEmbeddings,this.clusterEmbeddingsInput.value=e.clusterEmbeddings;const n=this.methodsParams[this.methodInput.value];Object.keys(n).forEach(t=>{null!=e.options[t]&&(this.methodsParams[e.methodName][t].value=e.options[t])}),this.methodInput.value=e.methodName,this.preprocessingFunctionSettings=e.options.preprocessingFuncArgs,await this.createPreprocessingFuncParamsDiv(this.preprocessingFuncSettingsDiv,this.supportedFunctions[this.preprocessingFunctionInput.value].func)}catch(e){r.shell.error("Error applying input from history"),console.error(e)}}}var $=n(9713),H=n(6295);const O=e=>null==e;function D(e,t,n,i){if(n>e[e.length-1])return;const o=e.findIndex(e=>n<e);e.pop(),e.splice(o,0,n),t.pop(),t.splice(o,0,i)}class k{constructor(e=!0,t=!0){const i=navigator.hardwareConcurrency;this._workerCount=e?Math.max(i-2,1):1,this._workers=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(793),n.b))),this._terminateOnComplete=t}async calc(e,t,n=!0,o){return await this.calcMulti([e],[t],n,[o??{}],[1],i.MANHATTAN)}async calcMulti(e,t,n=!0,o=[{}],r=[1],s=i.MANHATTAN){if(e.length<1)throw new Error("values must contain at least one array");if(t.length!==e.length||o.length!==e.length||r.length!==e.length)throw new Error("values, fnNames, weights and opts must have the same length");return new Promise(async(i,a)=>{try{const a=e[0].length,l=new Array(this._workerCount),c=a*(a-1)/2;this._workerCount=Math.min(this._workerCount,c);const u=c/this._workerCount,h=new Float32Array(c);let d=0,m=1,p=0,g=Number.MIN_VALUE;for(let n=0;n<this._workerCount;n++){const i=Math.floor(n*u),f=n===this._workerCount-1?c:Math.floor((n+1)*u),y=d,b=m;n!==this._workerCount-1&&(d=a-2-Math.floor(Math.sqrt(-8*f+4*a*(a-1)-7)/2-.5),m=f-a*d+Math.floor((d+1)*(d+2)/2)),this._workers[n].postMessage({values:e,fnNames:t,startRow:y,startCol:b,chunckSize:f-i,opts:o,weights:r,aggregationMethod:s}),l[n]=new Promise((e,t)=>{this._workers[n].onmessage=({data:{error:o,distanceMatrixData:r,min:s,max:a}})=>{this._terminateOnComplete&&setTimeout(()=>this._workers[n].terminate()),o?t(o):(h.set(r,i),s<p&&(p=s),a>g&&(g=a),e())}})}await Promise.all(l),n&&h.forEach((e,t)=>{h[t]=(e-p)/(g-p)}),i(h)}catch(e){a(e)}})}terminate(){this._workers.forEach(e=>e.terminate())}}class F{constructor(){this._workerCount=Math.max(navigator.hardwareConcurrency-2,1)}static pruneSparseMatrix(e,t=1e6){const n=200,i=new Uint32Array(n),o=e.distance.length,r=e.distance;for(let e=0;e<o;e++)i[Math.floor(r[e]*n)]++;let s=0,a=0;for(let e=0;e<n&&(s+=i[e],a=e,!(s>=t));e++);const l=new Uint32Array(s),c=new Uint32Array(s),u=new Float32Array(s),h=e.i,d=e.j;let m=0;const p=(a+1)/n;for(let e=0;e<o;e++)r[e]<p&&(l[m]=h[e],c[m]=d[e],u[m]=r[e],m++);return{i:l,j:c,distance:u}}async calcMultiColumn(e,t,o,r=[{}],s=[1],a=i.EUCLIDEAN){const l=e[0].length*(e[0].length-1)/2,c=Math.floor(l/this._workerCount),u=e[0].length>2e4?await this.getMinimalThreshold(e,t,r,s,a):0;o<u&&(console.log(`using threshold ${u}`),o=u),r.forEach((e,t)=>r[t].threshold=o);const h=new Array(this._workerCount),d=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(111),n.b)));for(let n=0;n<this._workerCount;n++)h[n]=new Promise((i,u)=>{const h=n*c,m=n===this._workerCount-1?l:(n+1)*c;m<=h&&i({i:new Int32Array(0),j:new Int32Array(0),distance:new Float32Array(0),idx:n}),d[n].postMessage({values:e,startIdx:h,endIdx:m,threshold:o,fnNames:t,opts:r,weights:s,aggregationMethod:a}),d[n].onmessage=({data:{error:e,i:t,j:o,distance:r}})=>{e?(d[n].terminate(),u(e)):(d[n].terminate(),i({i:t,j:o,distance:r,idx:n}))}});const m=await Promise.all(h),p=m.reduce((e,t)=>e+t.i.length,0),g=new Int32Array(p),f=new Int32Array(p),y=new Float32Array(p);let b=0;for(const e of m)g.set(e.i,b),f.set(e.j,b),y.set(e.distance,b),b+=e.i.length;return{i:g,j:f,distance:y}}async calc(e,t,n,i={}){return await this.calcMultiColumn([e],[t],n,[i],[1])}async getKNN(e,t,n=15,i={}){return await this.multiColumnKNN([e],[t],n,[i],[1])}async getThresholdKNN(e,t,n=.8,i={}){return await this.multiColumnThresholdKnn([e],[t],n,[i],[1])}async multiColumnThresholdKnn(e,t,o=.8,r,s,a=i.EUCLIDEAN){if(e.length!==t.length||e.length!==r.length||e.length!==s.length)throw new Error("values, distance functions, options and weights arrays should have the same length");if(e.some(t=>t.length!==e[0].length))throw new Error("all values arrays should have the same length");const l=e[0].length*(e[0].length-1)/2,c=Math.floor(l/this._workerCount),u=new Array(this._workerCount),h=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(603),n.b)));for(let n=0;n<this._workerCount;n++)u[n]=new Promise((i,u)=>{const d=n*c,m=n===this._workerCount-1?l:(n+1)*c;m<=d&&i({knnDistances:new Array(0),knnIndexes:new Array(0)}),h[n].postMessage({values:e,startIdx:d,endIdx:m,fnNames:t,opts:r,threshold:o,weights:s,aggregationMethod:a}),h[n].onmessage=({data:{error:e,knnDistances:t,knnIndexes:o}})=>{e?(h[n].terminate(),u(e)):(h[n].terminate(),i({knnDistances:t,knnIndexes:o}))}});const d=await Promise.all(u),m=new Int32Array(e[0].length);for(const t of d)for(let n=0;n<e[0].length;++n)m[n]+=t.knnIndexes[n]?.length??0;const p={knnDistances:new Array(e[0].length).fill(null).map((e,t)=>new Array(m[t])),knnIndexes:new Array(e[0].length).fill(null).map((e,t)=>new Array(m[t]))};for(const t of d)for(let n=0;n<e[0].length;++n)for(let e=0;e<(t.knnDistances[n]?.length??0);++e)p.knnDistances[n][m[n]-1]=t.knnDistances[n][e],p.knnIndexes[n][m[n]-1]=t.knnIndexes[n][e],m[n]-=1;return p}async multiColumnSingleValueKNN(e,t,o,r=15,s,a,l=i.EUCLIDEAN){if(e.length!==o.length||e.length!==s.length||e.length!==a.length)throw new Error("values, distance functions, options and weights arrays should have the same length");if(e.some(t=>t.length!==e[0].length))throw new Error("all values arrays should have the same length");const c=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(810),n.b))),u=new Array(this._workerCount),h=e[0].length,d=e.map(e=>e[t]),m=Math.ceil(h/this._workerCount);for(let t=0;t<this._workerCount;t++)u[t]=new Promise((n,i)=>{const u=t*m,p=t===this._workerCount-1?h:(t+1)*m;p<=u&&n({knnDistances:new Array(0),knnIndexes:new Array(0)}),c[t].postMessage({values:e.map(e=>e.slice(u,p)),target:d,fnNames:o,opts:s,nNeighbours:r,weights:a,aggregationMethod:l,startIdx:u}),c[t].onmessage=({data:{error:e,knnDistances:o,knnIndexes:r}})=>{e?(c[t].terminate(),i(e)):(c[t].terminate(),n({knnDistances:o,knnIndexes:r}))}});const p=await Promise.all(u),g={knnDistances:new Array(r).fill(99999),knnIndexes:new Array(r).fill(-1)};for(const e of p)for(let t=0;t<(e.knnDistances?.length??0);++t)D(g.knnDistances,g.knnIndexes,e.knnDistances[t],e.knnIndexes[t]);return g}async multiColumnKNN(e,t,o=15,r,s,a=i.EUCLIDEAN){if(e.length!==t.length||e.length!==r.length||e.length!==s.length)throw new Error("values, distance functions, options and weights arrays should have the same length");if(e.some(t=>t.length!==e[0].length))throw new Error("all values arrays should have the same length");const l=e[0].length*(e[0].length-1)/2,c=Math.floor(l/this._workerCount),u=new Array(this._workerCount),h=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(950),n.b)));for(let n=0;n<this._workerCount;n++)u[n]=new Promise((i,u)=>{const d=n*c,m=n===this._workerCount-1?l:(n+1)*c;m<=d&&i({knnDistances:new Array(0),knnIndexes:new Array(0)}),h[n].postMessage({values:e,startIdx:d,endIdx:m,fnNames:t,opts:r,nNeighbours:o,weights:s,aggregationMethod:a}),h[n].onmessage=({data:{error:e,knnDistances:t,knnIndexes:o}})=>{e?(h[n].terminate(),u(e)):(h[n].terminate(),i({knnDistances:t,knnIndexes:o}))}});const d=await Promise.all(u),m={knnDistances:new Array(e[0].length).fill(null).map(()=>new Array(o).fill(99999)),knnIndexes:new Array(e[0].length).fill(null).map(()=>new Array(o).fill(-1))};for(const t of d)for(let n=0;n<e[0].length;++n)for(let e=0;e<(t.knnDistances[n]?.length??0);++e)D(m.knnDistances[n],m.knnIndexes[n],t.knnDistances[n][e],t.knnIndexes[n][e]);return m}async getSampleDistances(e,t,o=[],r,s=i.EUCLIDEAN){const a=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(778),n.b)));try{const n=e[0].length*(e[0].length-1)/2,i=Math.floor(n/this._workerCount),l=1e6,c=Math.max(Math.min(n/1e3,l),Math.min(n,l)),u=Math.floor(c/this._workerCount),h=new Array(this._workerCount);for(let l=0;l<this._workerCount;l++)h[l]=new Promise((c,h)=>{const d=l*i,m=l===this._workerCount-1?n:(l+1)*i;a[l].postMessage({values:e,startIdx:d,endIdx:m,sampleLength:u,fnNames:t,opts:o,weights:r,aggregationMethod:s}),a[l].onmessage=({data:{error:e,distance:t}})=>{a[l].terminate(),e?h(e):c({distance:t})}});const d=await Promise.all(h),m=d.reduce((e,t)=>e+t.distance.length,0),p=new Float32Array(m);let g=0;for(const e of d)p.set(e.distance,g),g+=e.distance.length;return p.sort(),p}catch(e){return a?.forEach(e=>e?.terminate()),console.error(e),new Float32Array(1).fill(.5)}}async getMinimalThreshold(e,t,n=[],o,r=i.EUCLIDEAN){try{const i=e.length*(e.length-1)/2,s=await this.getSampleDistances(e,t,n,o,r);return 1-s[Math.floor(7e7/i*s.length)]}catch(e){return console.error(e),.5}}static calcSync(e,t,n,i){const o=[],r=[],s=[];let a=0,l=0,c=0;const u=e.length*(e.length-1)/2;for(;a<u;){const t=O(e[l])||O(e[c])?1:n(e[l],e[c]);1-t>=i&&(o.push(l),r.push(c),s.push(t)),a++,c++,c===e.length&&(l++,c=l+1)}return{i:new Int32Array(o),j:new Int32Array(r),distance:new Float32Array(s)}}}var G,B,V=n(8774);(B=G||(G={})).none="none",B.bold="bold",B.dashed="dashed";class U{get currentLineId(){return this._currentLineIdx}set currentLineId(e){e!==this._currentLineIdx&&(this._currentLineIdx=e,this.sp.render(this.ctx))}set linesToRender(e){this.updateLines(e),this.sp.render(this.ctx)}set linesVisibility(e){this.visibility=e,this.sp.render(this.ctx)}constructor(e,t,n,i,o=G.none){var r;this._currentLineIdx=-1,this.lineClicked=new u.Subject,this.lineHover=new u.Subject,this.mouseOverLineId=-1,this.arrowWidth=15,this.sp=e,this.xAxisCol=this.sp.dataFrame.columns.byName(t),this.yAxisCol=this.sp.dataFrame.columns.byName(n),this.canvas=this.sp.getInfo().canvas,this.ctx=this.canvas.getContext("2d"),this.currentLineStyle=o,this.updateLines(i),this.visibility=null!==(r=i.visibility)&&void 0!==r?r:new V.A(this.lines.from.length),i.visibility||this.visibility.setAll(!0,!1),i.arrowSize&&(this.arrowWidth=i.arrowSize),this.canvas.onmousedown=e=>{var t;(null===(t=this.lines)||void 0===t?void 0:t.skipMouseOverDetection)&&(this.mouseOverLineId=this.checkCoordsOnLine(e.offsetX,e.offsetY)),-1!==this.mouseOverLineId&&this.lineClicked.next({x:e.clientX,y:e.clientY,id:this.mouseOverLineId,event:e})},this.canvas.onmousemove=e=>{var t;this.mouseOverLineId=(null===(t=this.lines)||void 0===t?void 0:t.skipMouseOverDetection)?-1:this.checkCoordsOnLine(e.offsetX,e.offsetY),-1!==this.mouseOverLineId&&this.lineHover.next({x:e.clientX,y:e.clientY,id:this.mouseOverLineId,event:e})},e.onEvent("d4-before-draw-scene").subscribe(e=>{this.renderLines()})}updateLines(e){this.lines=e,this.multipleLinesCounts=new Uint8Array(this.lines.from.length),e.skipMultiLineCalculation?this.multipleLinesCounts.fill(0):this.createMultiLinesIndices()}renderLines(){var e,t,n,i,o,r,s,a,l,c,u,h,d,m,p,g,f;const y=this.lines.colors||this.lines.widths||this.lines.opacities||this.lines.drawArrowsArr;y||(this.ctx.lineWidth=null!==(e=this.lines.width)&&void 0!==e?e:1,this.ctx.strokeStyle=`rgba(${null!==(t=this.lines.color)&&void 0!==t?t:"0,128,0"},${null!==(n=this.lines.opacity)&&void 0!==n?n:1})`);const b=this.sp.dataFrame.filter,w=Math.pow(null!==(i=this.lines.shortLineThreshold)&&void 0!==i?i:5,2);for(let e=0;e<this.lines.from.length;e++)if(b.get(this.lines.from[e])&&b.get(this.lines.to[e])&&this.visibility.getBit(e)){let t=0;const n=this.sp.getMarkerSize(this.lines.from[e])/2,i=this.sp.getMarkerSize(this.lines.to[e])/2,b=this.sp.pointToScreen(this.lines.from[e]);let v=null==b?void 0:b.x,T=null==b?void 0:b.y;const C=this.sp.pointToScreen(this.lines.to[e]);let A=null==C?void 0:C.x,E=null==C?void 0:C.y;const S=Math.min(this.sp.viewBox.width,this.sp.viewBox.height);if(this.ctx.beginPath(),v&&T&&A&&E&&Math.hypot(A-v,E-T)/S>.01){if(y){const t=(null===(o=this.lines.colors)||void 0===o?void 0:o[e])?null===(r=this.lines.colors)||void 0===r?void 0:r[e]:null!==(s=this.lines.color)&&void 0!==s?s:"0,128,0",n=(null===(a=this.lines.opacities)||void 0===a?void 0:a[e])?null===(l=this.lines.opacities)||void 0===l?void 0:l[e]:null!==(c=this.lines.opacity)&&void 0!==c?c:1;this.ctx.strokeStyle=`rgba(${t},${n})`,this.ctx.lineWidth=(null===(u=this.lines.widths)||void 0===u?void 0:u[e])?null===(h=this.lines.widths)||void 0===h?void 0:h[e]:null!==(d=this.lines.width)&&void 0!==d?d:1}e===this._currentLineIdx&&this.toggleCurrentLineStyle(!0);const b=this.multipleLinesCounts[e];let C=null;if(b){t=this.getLineLength(v,T,A,E);const o=this.getPointOnDistance(v,T,A,E,i,t),r=this.getPointOnDistance(A,E,v,T,n,t);v=o.x,T=o.y,A=r.x,E=r.y,C=this.lines.from[e]>this.lines.to[e]?this.findControlPoint(b,v,T,A,E,e):this.findControlPoint(b,A,E,v,T,e),this.ctx.moveTo(v,T),this.ctx.quadraticCurveTo(C.x,C.y,A,E)}else(!this.lines.skipShortLines||Math.pow(A-v,2)+Math.pow(E-T,2)>w)&&(this.ctx.moveTo(v,T),this.ctx.lineTo(A,E));if((null!==(m=this.lines.drawArrows)&&void 0!==m?m:null===(p=this.lines.drawArrowsArr)||void 0===p?void 0:p.getBit(e))&&(t||(t=this.getLineLength(v,T,A,E)),t>this.arrowWidth)){const e=b?null:this.getPointOnDistance(v,T,A,E,i,t),n=b?C.x:v,o=b?C.y:T;this.canvasArrow(this.ctx,null!==(g=null==e?void 0:e.x)&&void 0!==g?g:v,null!==(f=null==e?void 0:e.y)&&void 0!==f?f:T,n,o)}this.ctx.stroke(),this.ctx.closePath(),e===this._currentLineIdx&&this.toggleCurrentLineStyle(!1)}}this.fillLeftBottomRect()}toggleCurrentLineStyle(e){switch(this.currentLineStyle){case G.bold:e?this.ctx.lineWidth+=2:this.ctx.lineWidth-=2;break;case G.dashed:e?this.ctx.setLineDash([5,5]):this.ctx.setLineDash([]);break;default:return}}fillLeftBottomRect(){const e=new Path2D;e.rect(this.sp.yAxisBox.minX,this.sp.yAxisBox.maxY,this.sp.yAxisBox.width,this.sp.xAxisBox.height),this.ctx.fillStyle="white",this.ctx.beginPath(),this.ctx.fill(e),this.ctx.closePath()}createMultiLinesIndices(){const e={};for(let t=0;t<this.lines.from.length;t++){let n=0,i=0;this.lines.from[t]<this.lines.to[t]?(n=this.lines.from[t],i=this.lines.to[t]):(n=this.lines.to[t],i=this.lines.from[t]),e[`${n}|${i}`]?(1===e[`${n}|${i}`].length&&(this.multipleLinesCounts[e[`${n}|${i}`][0]]=1,e[`${n}|${i}`].push(1)),this.multipleLinesCounts[t]=++e[`${n}|${i}`][1]):e[`${n}|${i}`]=[t]}}checkCoordsOnLine(e,t){let n=-1,i=null,o=null;const r=this.sp.dataFrame.filter;for(let s=0;s<this.lines.from.length;s++)if(r.get(this.lines.from[s])&&r.get(this.lines.to[s])&&this.visibility.getBit(s)){const r=this.sp.getMarkerSize(this.lines.from[s])/2,a=this.sp.getMarkerSize(this.lines.to[s])/2,l=this.sp.worldToScreen(this.xAxisCol.get(this.lines.from[s]),this.yAxisCol.get(this.lines.from[s])),c=this.sp.worldToScreen(this.xAxisCol.get(this.lines.to[s]),this.yAxisCol.get(this.lines.to[s]));if(this.multipleLinesCounts[s]){const n=this.getLineLength(l.x,l.y,c.x,c.y),i=this.getPointOnDistance(l.x,l.y,c.x,c.y,a,n),u=this.getPointOnDistance(c.x,c.y,null==l?void 0:l.x,null==l?void 0:l.y,r,n),h=this.lines.from[s]>this.lines.to[s]?this.findControlPoint(this.multipleLinesCounts[s],i.x,i.y,u.x,u.y,s):this.findControlPoint(this.multipleLinesCounts[s],u.x,u.y,i.x,i.y,s);o=this.calculateDistToCurveLine(s,e,t,i,u,h)}else o=this.calculateDistToStraightLine(e,t,l,c);(!i&&null!==o&&o<5||i&&null!==o&&o<i)&&(i=o,n=s)}return n}calculateDistToStraightLine(e,t,n,i){const o=Math.min(n.x,i.x),r=Math.max(n.x,i.x),s=Math.min(n.y,i.y),a=Math.max(n.y,i.y);return e>=o-2&&e<=r+2&&t>=s-2&&t<=a+2?this.distToStraightLineSegment(e,t,n,i):null}distToStraightLineSegment(e,t,n,i){const o=(e,t,n,i)=>Math.pow(e-n,2)+Math.pow(t-i,2),r=o(n.x,n.y,i.x,i.y);if(0==r)return o(e,t,n.x,n.y);let s=((e-n.x)*(i.x-n.x)+(t-n.y)*(i.y-n.y))/r;return s=Math.max(0,Math.min(1,s)),o(e,t,n.x+s*(i.x-n.x),n.y+s*(i.y-n.y))}calculateDistToCurveLine(e,t,n,i,o,r){const s=Math.min(i.x,o.x,r.x),a=Math.max(i.x,o.x,r.x),l=Math.min(i.y,o.y,r.y),c=Math.max(i.y,o.y,r.y);if(t>=s-2&&t<=a+2&&n>=l-2&&n<=c+2){const e=a-s,u=c-l;return this.calculateDistToCurveInRect(t,n,i,r,o,e,u)}return null}calculateDistToCurveInRect(e,t,n,i,o,r,s){const a=Math.floor((r+s)/3),l=1/a,c=new Uint32Array(a),u=new Uint32Array(a),h=new Uint32Array(a);let d=null;const m=new V.A(a);for(let r=0;r<c.length;r++){const s=r*l,a=Math.pow(1-s,2)*n.x+2*s*(1-s)*i.x+Math.pow(s,2)*o.x,m=Math.pow(1-s,2)*n.y+2*s*(1-s)*i.y+Math.pow(s,2)*o.y,p=Math.abs(e-a),g=Math.abs(t-m),f=p+g;(!d||d>f)&&(d=f),h[r]=Math.max(p,g),c[r]=a,u[r]=m}for(let e=0;e<c.length;e++)h[e]<d&&m.setBit(e,!0,!1);let p=null;for(let n=-1;-1!==(n=m.findNext(n));){const i=Math.hypot(c[n]-e,u[n]-t);(!p||p>i)&&(p=i)}return p}getLineLength(e,t,n,i){return Math.sqrt(Math.pow(n-e,2)+Math.pow(i-t,2))}getPointOnDistance(e,t,n,i,o,r){const s=n-o*((n-e)/r),l=i-o*((i-t)/r);return new a.Point(s,l)}findControlPoint(e,t,n,i,o,r){const s=t+(i-t)/2,l=n+(o-n)/2;let c=s-t,u=l-n;const h=Math.sqrt(c*c+u*u);c/=h,u/=h;const d=50*Math.ceil(e/2);return e%2==0?new a.Point(s+d/2*u,l-d/2*c):new a.Point(s-d/2*u,l+d/2*c)}canvasArrow(e,t,n,i,o){const r=Math.atan2(i-t,o-n)+Math.PI;e.moveTo(t-this.arrowWidth*Math.sin(r-Math.PI/10),n-this.arrowWidth*Math.cos(r-Math.PI/10)),e.lineTo(t,n),e.lineTo(t-this.arrowWidth*Math.sin(r+Math.PI/10),n-this.arrowWidth*Math.cos(r+Math.PI/10))}}const W="dimensionality-reducer-terminate-event";var q,Y,j=n(3629);async function K(e,t,i,o,s,a,l){let c=await async function(e,t,i,o,s,a,l){if(!a.distanceFnArgs)throw new Error("options.distanceFnArgs must be defined");if(e.length!==t.length||e.length!==a.distanceFnArgs.length||e.length!==o.length)throw new Error("data, metrics and options and weights must have the same length");return new Promise(function(c,u){const h=new Worker(new URL(n.p+n.u(234),n.b));h.postMessage({columnsData:e,distanceMetrics:t,method:i,options:a,weights:o,aggregationMethod:s});const d=r.events.onCustomEvent(W).subscribe(()=>{try{h?.terminate()}finally{d.unsubscribe()}});h.onmessage=({data:{error:e,embedding:t,epochNum:n,epochsLength:i}})=>{O(n)||O(i)?(d.unsubscribe(),e?u(e):c(t),setTimeout(()=>h.terminate(),100)):l&&l(n,i,t)}})}(e,i,t,o,s,a,l);return c=c.map(e=>(0,j.S8)(e)),c}(Y=q||(q={})).EUCLIDEAN="EUCLIDEAN",Y.MANHATTAN="MANHATTAN";const z={[q.EUCLIDEAN]:function(e){return`\n var sum = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n sum = sum + distances[i] * distances[i] * computeInfo.weights[i] * computeInfo.weights[i];\n }\n return sqrt(sum);\n `},[q.MANHATTAN]:function(e){return`\n var sum = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n sum = sum + abs(distances[i]) * computeInfo.weights[i];\n }\n return sum;\n `}};var Z,X;(X=Z||(Z={})).HAMMING="Hamming",X.EUCLIDEAN="Euclidean",X.VECTOR_COSINE="Vector Cosine",X.MANHATTAN="Manhattan",X.TANIMOTO="Tanimoto",X.LEVENSTEIN="Levenshtein",X.NEEDLEMAN_WUNSCH="Needlemann-Wunsch",X.MONOMER_CHEMICAL_DISTANCE="Monomer chemical distance",X.SOKAL="Sokal",X.COSINE="Cosine",X.ASYMMETRIC="Asymmetric",X.Difference="Difference",X.OneHot="One-Hot";const J={[Z.HAMMING]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n let sizeDiff: u32 = maxLength - minLength;\n \n let maxIntDistance = ceil(maxDistance * f32(maxLength)) - f32(sizeDiff);\n\n var diff: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n diff = diff + f32(a[i] != b[i]);\n if (diff > maxIntDistance) {\n return 1.0;\n }\n }\n diff += f32(sizeDiff);\n return diff / ${e};\n `},[Z.EUCLIDEAN]:function(e,t){return`\n var dist: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n dist = dist + f32(a[i] - b[i]) * f32(a[i] - b[i]);\n }\n return sqrt(dist);\n `},[Z.MANHATTAN]:function(e,t){return`\n var dist: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n dist = dist + abs(f32(a[i] - b[i]));\n }\n return dist;\n `},[Z.VECTOR_COSINE]:function(e,t){return`\n var dist: f32 = 0.0;\n var productSum: f32 = 0.0;\n var aSquareSum: f32 = 0.0;\n var bSquareSum: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n productSum = productSum + f32(a[i] * b[i]);\n aSquareSum = aSquareSum + f32(a[i] * a[i]);\n bSquareSum = bSquareSum + f32(b[i] * b[i]);\n }\n var sim = productSum / (sqrt(aSquareSum) * sqrt(bSquareSum));\n return (1.0 - sim) / 2.0;\n `},[Z.TANIMOTO]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n\n if (onBitsa == 0u && onBitsb == 0u) {\n return 0.0;\n }\n\n let totalOnBits = onBitsa + onBitsb;\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n\n return 1.0 - f32(commonBits) / f32(totalOnBits - commonBits);\n `},[Z.LEVENSTEIN]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n\n let maxIntDistance = ceil(maxDistance * f32(maxLength));\n\n // we will store two arrays as matrix and swap the working indices per pass.\n // this way we can reduce memory usage per computation to just O(aLength)\n // the grid will have aLength + 1 columns and bLength + 1 rows\n // this will be guaranteed by iteration, but the array sizes must be known at compile time, so we will use a fixed size of maxArraySize\n var dynamicPassMat: array<array<f32, ${e+1}u>, 2>; // initialize to 0\n \n var prevIndex: u32 = 0;\n var curIndex: u32 = 1; // we will swap these indices per pass\n\n // initialize the first row\n for (var i = 0u; i <= aLength; i = i + 1u) {\n dynamicPassMat[prevIndex][i] = f32(i);\n }\n\n // iterate over the rows\n for (var i = 1u; i <= bLength; i = i + 1u) {\n dynamicPassMat[curIndex][0] = f32(i);\n var minEntry: f32 = f32(maxLength);\n let prevRow = &dynamicPassMat[prevIndex];\n let curRow = &dynamicPassMat[curIndex];\n let bMon = u32(b[i - 1]);\n for (var j = 1u; j <= aLength; j = j + 1u) {\n var cost: f32 = f32(a[j - 1] != bMon);\n var res: f32 = min(\n min(\n (*prevRow)[j] + 1.0, // deletion\n (*curRow)[j - 1] + 1.0, // insertion\n ),\n (*prevRow)[j - 1] + cost // substitution\n );\n (*curRow)[j] = res;\n if (res < minEntry) {\n minEntry = res;\n }\n }\n // swap the indices\n let temp: u32 = prevIndex;\n prevIndex = curIndex;\n curIndex = temp;\n if (minEntry > maxIntDistance) {\n return 1.0;\n }\n }\n\n return dynamicPassMat[prevIndex][aLength] / f32(maxLength);\n `},[Z.NEEDLEMAN_WUNSCH]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n \n let maxIntDistance = ceil(maxDistance * f32(maxLength));\n // we will store two arrays as matrix and swap the working indices per pass.\n // this way we can reduce memory usage per computation to just O(aLength)\n // the grid will have aLength + 1 columns and bLength + 1 rows\n // this will be guaranteed by iteration, but the array sizes must be known at compile time, so we will use a fixed size of maxArraySize\n var dynamicPassMat: array<array<f32, ${e+1}u>, 2>; // initialize to 0\n \n // we need to keep track of which operation led to the current cell\n // i.e. whether we came from the left, top or diagonal to assign gap open/gap extend penalty\n var verticalGaps: array<u32, ${e+1}u>;\n var horizontalGaps: array<u32, ${e+1}u>;\n\n let gapOpenPenalty: f32 = suppInfo.gapOpenPenalty${t};\n let gapExtensionPenalty: f32 = suppInfo.gapExtensionPenalty${t};\n var prevIndex: u32 = 0;\n var curIndex: u32 = 1; // we will swap these indices per pass\n // initialize the first row\n for (var i = 0u; i <= aLength; i = i + 1u) {\n dynamicPassMat[prevIndex][i] = gapExtensionPenalty + f32(i - 1) * gapExtensionPenalty; // accounting for the fact that left and right gaps are less costly\n dynamicPassMat[curIndex][i] = 0.0;\n }\n dynamicPassMat[0][0] = 0.0;\n\n let simMatrix = &suppInfo.similarityMatrix${t}; // using pointers make things faster\n // iterate over the rows\n for (var i = 1u; i <= bLength; i = i + 1u) {\n let prevRow = &dynamicPassMat[prevIndex];\n let curRow = &dynamicPassMat[curIndex];\n (*curRow)[0] = gapExtensionPenalty + f32(i - 1) * gapExtensionPenalty;\n var minEntry: f32 = f32(maxLength);\n let monB = u32(b[i - 1]);\n for (var j = 1u; j <= aLength; j = j + 1u) {\n let monA = u32(a[j - 1]);\n \n let cost: f32 = (*prevRow)[j - 1] + 1f - (*simMatrix)[monA][monB];\n var top = (*prevRow)[j]; // deletion\n if (verticalGaps[j] > 0 || i == 1 || i == bLength) {\n top = top + gapExtensionPenalty;\n } else {\n top = top + gapOpenPenalty;\n }\n var left = (*curRow)[j - 1]; // insertion\n if (horizontalGaps[j - 1] > 0 || j == 1 || j == aLength) {\n left = left + gapExtensionPenalty;\n } else {\n left = left + gapOpenPenalty;\n }\n var res: f32 = min(\n min(\n top, // deletion\n left, // insertion\n ),\n cost // substitution\n );\n (*curRow)[j] = res;\n if (res < minEntry) {\n minEntry = res;\n }\n // update the horizontal and vertical gaps\n if (res == cost) {\n verticalGaps[j] = 0;\n horizontalGaps[j] = 0;\n } else if (res == left) {\n verticalGaps[j] = 0;\n horizontalGaps[j] = 1;\n } else {\n verticalGaps[j] = 1;\n horizontalGaps[j] = 0;\n }\n }\n // swap the indices\n let temp: u32 = prevIndex;\n prevIndex = curIndex;\n curIndex = temp;\n if (minEntry > maxIntDistance) {\n return 1.0;\n }\n }\n return dynamicPassMat[prevIndex][aLength] / f32(minLength);\n\n `},[Z.MONOMER_CHEMICAL_DISTANCE]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n let sizeDiff: u32 = maxLength - minLength;\n \n let maxIntDistance = ceil(maxDistance * f32(maxLength)) - f32(sizeDiff);\n\n let simMatrix = &(suppInfo.similarityMatrix${t}); // using pointers make things faster\n var diff: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n diff = diff + 1.0 - (*simMatrix)[u32(a[i])][u32(b[i])];\n if (diff > maxIntDistance) {\n return 1.0;\n }\n }\n diff += f32(sizeDiff);\n return diff / ${e};\n `},[Z.SOKAL]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n let total = onBitsa + onBitsb;\n if (total == 0u) {\n return 1.0;\n }\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n return 1.0 - f32(commonBits) / f32(total * 2 - commonBits * 3);\n `},[Z.COSINE]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n let total = onBitsa * onBitsb; // p.s. here total is taken by multiplying\n if (total == 0u) {\n return 1.0;\n }\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n return 1.0 - f32(commonBits) / sqrt(f32(total));\n `},[Z.ASYMMETRIC]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n let min = min(onBitsa, onBitsb);\n if (min == 0u) {\n return 1.0;\n }\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n return 1.0 - f32(commonBits) / f32(min);\n `},[Z.Difference]:function(e,t){return`\n let range = suppInfo.range${t};\n return f32(abs(f32(a[0]) - f32(b[0])) / range);\n `},[Z.OneHot]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n if (aLength != bLength) {\n return 1.0;\n }\n for (var i = 0u; i < aLength; i = i + 1u) {\n if(a[i] != b[i]) {\n return 1.0;\n }\n }\n return 0.0;\n `}},Q={[Z.HAMMING]:e=>Math.ceil(e/30),[Z.EUCLIDEAN]:e=>Math.ceil(e/30),[Z.MANHATTAN]:e=>Math.ceil(e/30),[Z.TANIMOTO]:e=>Math.ceil(e/30),[Z.SOKAL]:e=>Math.ceil(e/30),[Z.COSINE]:e=>Math.ceil(e/30),[Z.ASYMMETRIC]:e=>Math.ceil(e/30),[Z.LEVENSTEIN]:e=>Math.ceil(e*e/60),[Z.NEEDLEMAN_WUNSCH]:e=>Math.ceil(e*e/60),[Z.MONOMER_CHEMICAL_DISTANCE]:e=>Math.ceil(e/25),[Z.Difference]:e=>1,[Z.OneHot]:e=>Math.ceil(e/40),[Z.VECTOR_COSINE]:e=>Math.ceil(e/30)},ee={STRING:new Set([Z.HAMMING,Z.LEVENSTEIN,Z.NEEDLEMAN_WUNSCH,Z.MONOMER_CHEMICAL_DISTANCE,Z.OneHot]),UINT32ARRAY:new Set([Z.HAMMING,Z.EUCLIDEAN,Z.MANHATTAN,Z.MONOMER_CHEMICAL_DISTANCE,Z.LEVENSTEIN,Z.NEEDLEMAN_WUNSCH,Z.TANIMOTO,Z.COSINE,Z.VECTOR_COSINE,Z.SOKAL,Z.ASYMMETRIC,Z.OneHot,Z.Difference]),INT32ARRAY:new Set([Z.EUCLIDEAN,Z.MANHATTAN,Z.OneHot,Z.Difference,Z.VECTOR_COSINE]),FLOAT32ARRAY:new Set([Z.EUCLIDEAN,Z.MANHATTAN,Z.Difference,Z.VECTOR_COSINE]),NUMBER:new Set([Z.EUCLIDEAN,Z.MANHATTAN,Z.Difference]),BITARRAY:new Set([Z.TANIMOTO,Z.COSINE,Z.SOKAL,Z.ASYMMETRIC])};function te(e,t=.8,n,i,o,r){return function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})}(this,void 0,void 0,function*(){const s=yield function(){return S(this,void 0,void 0,function*(){if(!navigator.gpu)return console.error("WebGPU is not supported in this browser"),null;if(!M&&(M=yield navigator.gpu.requestAdapter({powerPreference:"high-performance"}),null==M))return null;let e=!1;if(P&&(P.lost.then(()=>{e=!0}),yield new Promise(e=>setTimeout(e,10))),!P||e){const e=1e9,t=M.limits,n=t.maxBufferSize,i=t.maxStorageBufferBindingSize;try{return P=yield M.requestDevice({requiredLimits:{maxBufferSize:Math.min(n,e),maxStorageBufferBindingSize:Math.min(i,e)}}),P}catch(e){return console.error("Failed to create device with required limits",e),P=yield M.requestDevice(),P}}return P})}();if(!s)return null;const a=Object.values(Z);if(n.some(e=>!a.includes(e)))throw new Error("Invalid distance metrics provided: "+n.join(", "));if(!Object.values(q).includes(i))throw new Error("Invalid aggregation function provided: "+i);const l=1-t;if(r.length!==e.length||r.length!==n.length||r.length!==o.length)throw new Error("Options, weigths and distance functions must be provided for each column");if(e.some(t=>t.length!==e[0].length))throw new Error("All entry lists must be the same length");const c=e.length,u=e[0].length,h=e.map((e,t)=>function(e,t=Z.HAMMING,n,i={gapOpenPenalty:1,gapExtensionPenalty:.6}){var o,r;let s=null;const a=e.some(e=>"string"==typeof e)?(s="STRING",e.map(e=>new Uint32Array(e.split("").map(e=>e.charCodeAt(0))))):e.some(e=>"number"==typeof e)?(s="NUMBER",e.map(e=>new Float32Array([e]))):"object"==typeof e[0]&&e.some(e=>"_data"in e&&"_length"in e)?(s="BITARRAY",e.map(e=>e._data)):e.some(e=>e instanceof Float32Array)?(s="FLOAT32ARRAY",e):e.some(e=>e instanceof Uint32Array)?(s="UINT32ARRAY",e):e.some(e=>e instanceof Int32Array)?(s="INT32ARRAY",e):void 0;if(!a||!s)throw new Error("Invalid entry type, could not determine entry type from input list");const l=a[0]instanceof Int32Array?"INT32ARRAY":a[0]instanceof Float32Array?"FLOAT32ARRAY":"UINT32ARRAY",c=new Uint32Array(a.map(e=>e.length));if(!ee[s]||!ee[s].has(t))throw new Error(`Distance metric '${t}' not supported for entry type '${s}'`);const u=c.reduce((e,t)=>Math.max(e,t),0),h=Q[t](u),d="INT32ARRAY"===l?Int32Array:"FLOAT32ARRAY"===l?Float32Array:Uint32Array,m=new d(a.length*u);a.forEach((e,t)=>{m.set(e,t*u)});let p="",g=0,f="FLOAT32ARRAY",y=null;if(t===Z.NEEDLEMAN_WUNSCH||t===Z.MONOMER_CHEMICAL_DISTANCE){let e=i.scoringMatrix&&i.alphabetIndexes?Object.keys(i.alphabetIndexes).reduce((e,t)=>Math.max(e,t.charCodeAt(0)),0):-1;if(!i.alphabetIndexes||!i.scoringMatrix){for(let t=0;t<m.length;t++)m[t]>e&&(e=m[t]);i.scoringMatrix=new Array(e+1).fill(null).map(()=>new Array(e+1).fill(0)),i.alphabetIndexes={};for(let e=0;e<i.scoringMatrix.length;e++)i.scoringMatrix[e][e]=1,i.alphabetIndexes[String.fromCharCode(e)]=e}const t=(e+1)*(e+1),s=new Array(e+1).fill(null).map(()=>new Float32Array(e+1));for(let t=0;t<e+1;t++)s[t][t]=1;const a=i.alphabetIndexes;for(const e of Object.keys(a))for(const t of Object.keys(a))e!==t&&(s[e.charCodeAt(0)][t.charCodeAt(0)]=i.scoringMatrix[a[e]][a[t]]);g=2+t,f="FLOAT32ARRAY",y=new Float32Array(g),y[0]=null!==(o=i.gapOpenPenalty)&&void 0!==o?o:1,y[1]=null!==(r=i.gapExtensionPenalty)&&void 0!==r?r:.6;let l=2;for(let e=0;e<s.length;e++)y.set(s[e],l),l+=s[e].length;p=`\n gapOpenPenalty${n}: f32,\n gapExtensionPenalty${n}: f32,\n similarityMatrix${n}: array<array<f32, ${e+1}>, ${e+1}>`}else if(t===Z.Difference){if(!i.range||"number"!=typeof i.range||i.range<=0){const e=m.reduce((e,t)=>Math.min(e,t),m[0]),t=m.reduce((e,t)=>Math.max(e,t),m[0]);i.range=t-e}i.range<=0&&(i.range=1),g=1,f="FLOAT32ARRAY",y=new Float32Array([i.range]),p=`\n range${n}: f32`}const b=m instanceof Int32Array?"i32":m instanceof Float32Array?"f32":"u32",w=`data${n}: array<array<${b}, ${u}>, ${a.length}>`;return{flatSourceArray:m,sourceArraySize:m.length,maxEntryLen:u,arraySizes:c,complexity:h,suppInfoBuffer:y,suppInfoSize:g,suppInfoType:f,suppInfoStructWgsl:p,entryType:s,dataTypeWGSL:b,dataStructWgsl:w,EncodedArrayConstructor:d}}(e,n[t],t,r[t]));if(0===c)throw new Error("No columns provided. Please provide at least one column of data.");1===c&&(i=q.MANHATTAN);let d=h.map(e=>e.suppInfoStructWgsl).filter(e=>!!e&&""!=e).join(",\n"),m=!1;d&&""!=d.trim()||(m=!0,d="\ndummy: f32\n");const p=h.map(e=>e.dataStructWgsl).filter(e=>!!e&&""!=e).join(",\n"),g=new Uint32Array(c*u);h.forEach((e,t)=>{g.set(e.arraySizes,t*u)});const f=1e4,y=100,b=h.reduce((e,t)=>e+t.complexity,0),w=Math.ceil(6e3/b),v=Math.ceil(Math.sqrt(Math.ceil(100))),T=10*v,C=u*(u-1)/2,A=Math.ceil(C/f),E=s.createShaderModule({label:"Sparse matrix compute shader",code:`\n // each thread will perform 100 iterations at one time, comparing 100 pairs of entries.\n // in total, each thread will perform at most ${A} comparisons.\n // first is the result struct, containing is, js, and distances. each array with length of 100,\n // and also integer for how many pairs were found to be below threshold.\n struct SparseResult {\n i: array<array<u32, 100>, 10000>,\n j: array<array<u32, 100>, 10000>,\n distances: array<array<f32, 100>, 10000>,\n found: array<u32, 10000>,\n done: array<u32, 10000>\n }\n // struct for the data\n struct ComputeInfo {\n // start at cols and rows, and end at cols and rows for each thread, these will be calculated on cpu and passed to gpu.\n startAtCols: array<u32, 10000>,\n startAtRows: array<u32, 10000>,\n endAtCols: array<u32, 10000>,\n endAtRows: array<u32, 10000>,\n\n // the ACTUALLY sizes of each entry\n entrySizes: array<array<u32, ${u}>, ${c}>,\n // the weights for each entry\n weights: array<f32, ${c}>,\n // the data for each entry\n ${p} // an example of the dataWgsl would be:\n //data0: array<array<u32,20>,100>,\n //data1: array<array<u32,20>,100>\n }\n\n // struct for the supplementary information\n struct SuppInfo {\n // struct containing all the supplementary info, like scoring matrix, alphabet indexes, range, etc.\n ${d}\n };\n\n @group(0) @binding(0) var<storage, read_write> computeInfo: ComputeInfo;\n @group(0) @binding(1) var<storage, read_write> suppInfo: SuppInfo;\n @group(0) @binding(2) var<storage, read_write> results: SparseResult;\n @compute @workgroup_size(10, 10) fn calcSparseMatrix(\n @builtin(global_invocation_id) id: vec3<u32>\n ) {\n ${m?"let otherDummy = suppInfo.dummy * 2;":""} // just to make sure that the suppInfo is not optimized out\n let threadCol = id.x;\n let threadRow = id.y;\n let linearIndex = threadRow * ${T} + threadCol;\n if (linearIndex >= 10000) {\n return; // if we are out of bounds, return\n } \n var startAtCol: u32 = computeInfo.startAtCols[linearIndex];\n var startAtRow: u32 = computeInfo.startAtRows[linearIndex];\n let endAtCol: u32 = min(computeInfo.endAtCols[linearIndex], ${u}u);\n let endAtRow: u32 = min(computeInfo.endAtRows[linearIndex], ${u}u);\n let is = &results.i[linearIndex];\n let js = &results.j[linearIndex];\n let distances = &results.distances[linearIndex];\n results.found[linearIndex] = 0; // initialize the found counter\n var found: u32 = 0;\n if (results.done[linearIndex] > 0) {\n return; // if we are done, return\n }\n for (var i = 0; i < ${w}; i++) {\n if (startAtCol >= endAtCol && startAtRow >= endAtRow) {\n results.done[linearIndex] = 1;\n break;\n }\n if (found >= 100) {\n break;\n }\n let dist = combinedDistance(startAtCol, startAtRow);\n if (dist <= ${l}) {\n (*is)[found] = startAtCol;\n (*js)[found] = startAtRow;\n (*distances)[found] = dist;\n found = found + 1;\n }\n startAtCol = startAtCol + 1;\n if (startAtCol >= ${u}u) {\n startAtRow += 1;\n startAtCol = startAtRow + 1;\n }\n }\n results.found[linearIndex] = found;\n // update the startAtCols and startAtRows\n computeInfo.startAtCols[linearIndex] = startAtCol;\n computeInfo.startAtRows[linearIndex] = startAtRow;\n\n }\n\n // this will generate the distance script for each distance metric and then combine them into one\n ${ne(n,h.map(e=>e.maxEntryLen),l,i)}\n\n\n `}),_=s.createComputePipeline({label:"sparse matrix compute pipeline",layout:"auto",compute:{module:E,entryPoint:"calcSparseMatrix"}}),I=new Uint32Array(f),L=new Uint32Array(f),x=new Uint32Array(f),N=new Uint32Array(f),R=Math.floor(C/f);let $=0,H=1;console.time("GPUthreadStarts");for(let e=0;e<f;e++){const t=9999===e?C-1:(e+1)*R,n=u-2-Math.floor(Math.sqrt(-8*t+4*u*(u-1)-7)/2-.5),i=t-u*n+Math.floor((n+1)*(n+2)/2);I[e]=H,L[e]=$,x[e]=i,N[e]=n,$=n,H=i}console.timeEnd("GPUthreadStarts");const O=4e4+u*c+c+h.reduce((e,t)=>e+t.sourceArraySize,0),D=h.reduce((e,t)=>e+t.suppInfoSize,0),k=1e6,F=O*Uint32Array.BYTES_PER_ELEMENT;let G=F;const B=15&F;0!==B&&(G+=16-B);const V=s.createBuffer({label:"compute info buffer",size:G,usage:GPUBufferUsage.STORAGE|GPUBufferUsage.COPY_SRC|GPUBufferUsage.COPY_DST,mappedAtCreation:!0}),U=V.getMappedRange();let W=0;new Uint32Array(U,W,f).set(I),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,f).set(L),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,f).set(x),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,f).set(N),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,g.length).set(g),W+=g.length*Uint32Array.BYTES_PER_ELEMENT,new Float32Array(U,W,c).set(o),W+=c*Float32Array.BYTES_PER_ELEMENT;for(const e of h){const t=e.EncodedArrayConstructor,n=e.sourceArraySize;new t(U,W,n).set(e.flatSourceArray),W+=n*t.BYTES_PER_ELEMENT}V.unmap();const Y=D*Uint32Array.BYTES_PER_ELEMENT;let j=Y;const K=15&Y;0!==K&&(j+=16-K),j=Math.max(j,16);const z=s.createBuffer({label:"supp info buffer",size:j,usage:GPUBufferUsage.STORAGE|GPUBufferUsage.COPY_SRC|GPUBufferUsage.COPY_DST,mappedAtCreation:!0}),X=z.getMappedRange();let J=0;for(const e of h)e.suppInfoBuffer&&e.suppInfoBuffer.byteLength>0&&e.suppInfoSize>0&&(new("UINT32ARRAY"===e.suppInfoType?Uint32Array:Float32Array)(X,J,e.suppInfoBuffer.length).set(e.suppInfoBuffer),J+=e.suppInfoBuffer.byteLength);0===J&&new Uint32Array(X,0,4).set([1,1,1,1]),z.unmap();const te=302e4*Uint32Array.BYTES_PER_ELEMENT;let ie=te;const oe=15&te;0!==oe&&(ie+=16-oe);const re=s.createBuffer({label:"results buffer",size:ie,usage:GPUBufferUsage.STORAGE|GPUBufferUsage.COPY_SRC}),se=s.createBindGroup({label:"bindGroup for sparse matrix buffer",layout:_.getBindGroupLayout(0),entries:[{binding:0,resource:{buffer:V}},{binding:1,resource:{buffer:z}},{binding:2,resource:{buffer:re}}]}),ae=s.createBuffer({label:"results out buffer",size:re.size,usage:GPUBufferUsage.MAP_READ|GPUBufferUsage.COPY_DST}),le=[],ce=[],ue=[];let he=!1;for(;!he;){const e=s.createCommandEncoder({label:"distance encoder"}),t=e.beginComputePass({label:"distance compute pass"});t.setPipeline(_),t.setBindGroup(0,se),t.dispatchWorkgroups(v,v),t.end(),e.copyBufferToBuffer(re,0,ae,0,ae.size);const n=e.finish();s.queue.submit([n]),yield s.queue.onSubmittedWorkDone(),yield ae.mapAsync(GPUMapMode.READ);const i=ae.getMappedRange();let o=0;const r=new Uint32Array(i,o,k);o+=k*Uint32Array.BYTES_PER_ELEMENT;const a=new Uint32Array(i,o,k);o+=k*Uint32Array.BYTES_PER_ELEMENT;const l=new Float32Array(i,o,k);o+=k*Float32Array.BYTES_PER_ELEMENT;const c=new Uint32Array(i,o,f);o+=f*Uint32Array.BYTES_PER_ELEMENT,he=new Uint32Array(i,o,f).every(e=>1===e);const u=c.reduce((e,t)=>e+t,0),h=new Uint32Array(u),d=new Uint32Array(u),m=new Float32Array(u);let p=0;for(let e=0;e<c.length;e++){const t=c[e];0!==t&&(h.set(r.subarray(e*y,e*y+t),p),d.set(a.subarray(e*y,e*y+t),p),m.set(l.subarray(e*y,e*y+t),p),p+=t)}le.push(h),ce.push(d),ue.push(m),ae.unmap()}const de=le.reduce((e,t)=>e+t.length,0),me=new Uint32Array(de),pe=new Uint32Array(de),ge=new Float32Array(de);let fe=0;for(let e=0;e<le.length;e++)me.set(le[e],fe),pe.set(ce[e],fe),ge.set(ue[e],fe),fe+=le[e].length;return V.destroy(),z.destroy(),re.destroy(),ae.destroy(),{i:me,j:pe,distance:ge}})}function ne(e,t,n,i){return e.map((e,i)=>`\n fn distanceScript${i}(aIndex: u32, bIndex: u32) -> f32 {\n let a = computeInfo.data${i}[aIndex];\n let b = computeInfo.data${i}[bIndex];\n let maxDistance: f32 = ${n};\n ${J[e](t[i],i)}\n }\n `).join("\n")+"\n"+`\n fn combinedDistance(aIndex: u32, bIndex: u32) -> f32 {\n var distances: array<f32, ${e.length}>;\n ${e.map((e,t)=>`distances[${t}] = distanceScript${t}(aIndex, bIndex);`).join("\n")}\n ${z[i](e.length)}\n }\n \n `}var ie=n(1991),oe=n.n(ie);let re=0;const se="cliffsDf",ae=new u.Subject,le="SALI",ce="line index",ue=["From","To"],he="filterCliffs";async function de(e,t,i,o,l,c,u,h,d,m,p,g,f,y,b,w,v){re++;const T=c/100;let C,A=!1;const E=g.inputs,S=await g.apply({[E[0].name]:t,[E[1].name]:u,...d.preprocessingFuncArgs??{}});let M=[];if(h===x){const t=await function(e,t,i,o,r,s,a=10,l=!1,c=2){const u=new Worker(new URL(n.p+n.u(980),n.b));let h;return u.postMessage({data:e,threshold:t,weights:i,aggregationMethod:o,distanceFns:r,distanceFnArgs:s,maxIterations:a,useWebGPU:l,inflate:c}),{promise:new Promise((e,t)=>{h=e,u.onmessage=t=>{setTimeout(()=>u.terminate(),100),e(t.data.res)},u.onerror=e=>{setTimeout(()=>u.terminate(),100),t(e)}}),terminate:()=>{try{h(null),u.terminate()}catch(e){console.error(e)}}}}([S.entries],c,[1],"MANHATTAN",[u],[S.options??{}],d?.maxIterations??5,d.useWebGPU??!1).promise;e.columns.addNewInt(e.columns.getUnusedName("MCL Cluster")).init(e=>t.clusters[e]),M=[t.embedX,t.embedY]}else M=await K([S.entries],h,[u],[1],"MANHATTAN",{...d,distanceFnArgs:[S.options??{}]});if(M.length!==i.length)throw new Error("Number of axes names should be equal to number of embedding dimensions");for(let t=0;t<M.length;++t)e.columns.addNewFloat(i[t]).init(e=>M[t][e]);let P=null;if(d.useWebGPU)try{P=await te([S.entries],T,[u],q.MANHATTAN,[1],[S.options??{}])}catch(e){console.error(e)}P||(d.useWebGPU&&console.error("WebGPU sparse matrix calculation failed, falling back to CPU implementation"),P=await(new F).calc(S.entries,u,T,S.options));const _=await async function(e,t){const n=e.distance.map((n,i)=>{const o=Math.abs(t.get(e.i[i])-t.get(e.j[i]));return 0!=n?o/n:1/0}),i=e.distance.map(e=>1-e),o=e.i,r=e.j,s=a.BitSet.create(t.length);return e.distance.forEach((t,n)=>{s.set(e.i[n],!0),s.set(e.j[n],!0)}),{simVals:i,saliVals:n,n1:o,n2:r,cliffsBitSet:s}}(P,l),I=function(e,t,n,i,o,r,s){const l=new Array(e).fill(0);for(let e=0;e!=i.length;++e)n[e]!=1/0&&(s.get(i[e])>s.get(o[e])?l[i[e]]+=n[e]:l[o[e]]+=n[e]);return a.Column.fromList("double",t,l)}(t.length,`sali_${i[0].substring(i[0].lastIndexOf("_"))}`,_.saliVals,_.n1,_.n2,0,l);e.columns.add(I);const L=_.cliffsBitSet,N=function(e){const t=e.filter(e=>e!==1/0),n=t.reduce((e,t)=>Math.min(e,t),Number.MAX_VALUE);return{max:t.reduce((e,t)=>Math.max(e,t),n),min:n}}(_.saliVals),R=.8/(N.max-N.min),H=r.shell.tv?.dataFrame===e?r.shell.tv:r.shell.getTableView(e.name),O=H.addViewer(a.VIEWER.SCATTER_PLOT,{xColumnName:i[0],yColumnName:i[1],size:I.name,color:l.name,showXSelector:!1,showYSelector:!1,showSizeSelector:!1,showColorSelector:!1,markerMinSize:5,markerMaxSize:25,title:o}),D=function(e,t,n,i,o,r,s,l){const c={from:new Uint32Array(t.n1.length),to:new Uint32Array(t.n1.length),opacities:new Float32Array(t.n1.length),colors:new Array(t.n1.length),widths:new Float32Array(t.n1.length)};for(let n=0;n<t.n1.length;n++)c.from[n]=t.n1[n],c.to[n]=t.n2[n],c.opacities[n]=t.saliVals[n]===1/0?1:.2+(t.saliVals[n]-s.min)*l,c.colors[n]=e.selection.get(c.from[n])&&e.selection.get(c.to[n])?"255,255,0":"0,128,0",c.widths[n]=1;const u=a.DataFrame.create(c.from.length);return ue.forEach((e,t)=>{u.columns.addNewString(e).init(e=>n.get(0===t?c.from[e]:c.to[e])),function(e,t){Object.keys(t).forEach(n=>{e.tags[n]=t[n]})}(u.col(e),r),u.col(e).semType=o}),u.columns.addNewFloat("Δ activity").init(e=>Math.abs(i.get(c.from[e])-i.get(c.to[e]))),u.columns.addNewInt(ce).init(e=>e),u.columns.addNewFloat(le).init(e=>t.saliVals[e]),u.columns.addNewFloat("Similarity").init(e=>t.simVals[e]),u.name=`${se}${re}`,{lines:c,linesDf:u}}(e,_,t,l,m,p,N,R);D.lines.skipMultiLineCalculation=!0,D.linesDf.col(le).setTag("description","Structure−Activity Landscape Index (activity difference divided by 1 minus similarity)");const k=new U(O,i[0],i[1],D.lines,G.none),B=b?b(D.linesDf,ue).sort([le],[!1]):D.linesDf.plot.grid().sort([le],[!1]);B.col(ce)&&(B.col(ce).visible=!1),e.temp[".cliffsDfGrid"]=B;const V=s.button(`${D.linesDf.rowCount} cliffs`,()=>{const e=oe()(H.viewers).some(e=>e.dataFrame.name===`${se}${re}`);v&&!e&&H.addViewer(B),H.dockManager.dock(B,"down",null,"Activity cliffs",w??.2)});V.classList.add("scatter_plot_link","cliffs_grid");const W=s.input.toggle("Show only cliffs",{value:!1,onValueChanged:t=>{t?(O.dataFrame.setTag(he,i[0]),e.filter.and(L),ae.next(i[0])):(O.dataFrame.setTag(he,""),e.filter.setAll(!0),ae.next(""))}});O.root.prepend(s.divH([V,W.root],"cliffs_div")),ae.subscribe(e=>{W.enabled=""===e||e===i[0]}),e.onRowsFiltering.subscribe(()=>{W.value&&e.filter.and(_.cliffsBitSet)});const Y=r.events.onViewerClosed.subscribe(e=>{e.args.viewer===O&&(H.dockManager.close(B.root),Y.unsubscribe(),H.subs=H.subs.filter(e=>e!==Y))});return H.subs.push(Y),D.linesDf.onCurrentCellChanged.subscribe(()=>{for(let e=0;e<D.linesDf.rowCount;e++)D.lines.widths[e]=e===D.linesDf.currentRowIdx?3:1;k.linesToRender=D.lines;const n=D.linesDf.currentCol&&D.linesDf.currentCol.name===ue[1]?D.lines.to:D.lines.from,o=-1!==D.linesDf.currentRowIdx?D.linesDf.currentRowIdx:null;if(O.dataFrame.currentRowIdx=o?n[o]:-1,null!==o){const n=D.linesDf.currentRowIdx;k.currentLineId=n;const{zoomLeft:a,zoomRight:c,zoomTop:u,zoomBottom:h}=function(e,t,n,i,o,r){const s=Math.abs(n-o),a=Math.abs(i-r),l=e/s,c=t/a,u=Math.min(l,c),h=e/u*5,d=t/u*5,m=(n<o?n:o)+s/2-h/2,p=(i>r?i:r)-a/2+d/2;return{zoomLeft:m,zoomRight:m+h,zoomTop:p,zoomBottom:p-d}}(O.viewport.width,O.viewport.height,O.dataFrame.get(i[0],D.lines.from[n]),O.dataFrame.get(i[1],D.lines.from[n]),O.dataFrame.get(i[0],D.lines.to[n]),O.dataFrame.get(i[1],D.lines.to[n]));O.zoom(a,u,c,h),W.value?e.filter.and(L):!0===W.enabled&&e.filter.setAll(!0),setTimeout(()=>{!function(e,t,n,i,o,a,l,c,u){const h=t.getPane("Cliff Details");s.empty(h.root);const d=u({points:[n,i],lineId:o,df:e,seqCol:a,activityCol:l,sali:c});h.root.append(d),setTimeout(()=>{r.shell.o=t.root},500)}(e,C,D.lines.from[o],D.lines.to[o],o,t,l,D.linesDf.get(le,o),y);const n=O.dataFrame.getSortedOrder(H.grid.sortByColumns,H.grid.sortTypes);H.grid.scrollToCell(t.name,n.indexOf(O.dataFrame.currentRowIdx))},1e3)}}),D.linesDf.onSelectionChanged.subscribe(t=>{setTimeout(()=>(()=>{const t=a.BitSet.create(e.rowCount);for(let e=0;e<D.linesDf.rowCount;e++){const n=D.linesDf.selection.get(e);n&&(t.set(D.lines.from[e],!0),t.set(D.lines.to[e],!0)),D.lines.colors[e]=n?"255,255,0":"0,128,0"}e.selection.copyFrom(t),k.linesToRender=D.lines})(),100)}),e.onSelectionChanged.subscribe(t=>{!1===e.selection.anyTrue&&"number"==typeof t&&(A?A=!1:(e=>{e.selection.setAll(!1);for(let e=0;e<D.lines.colors.length;e++)D.lines.colors[e]="0,128,0";k.linesToRender=D.lines})(B.dataFrame))}),k.lineClicked.subscribe(t=>{if(A=!0,k.currentLineId=t.id,-1!==t.id){const n=D.linesDf.selection.clone();setTimeout(()=>{t.event.ctrlKey?(n.set(t.id,!n.get(t.id)),D.linesDf.selection.copyFrom(n)):(D.linesDf.currentRowIdx!==t.id&&(D.linesDf.currentRowIdx=t.id,e.currentRowIdx=D.lines.from[t.id]),D.linesDf.selection.copyFrom(n));const i=D.linesDf.getSortedOrder(B.sortByColumns,B.sortTypes);B.scrollToCell(ue[0],i.indexOf(t.id))},500)}}),k.lineHover.pipe((0,$.debounceTime)(500)).subscribe(n=>{-1!==n.id&&-1===e.mouseOverRowIdx&&s.tooltip.show(f({lineId:n.id,points:[D.lines.from[n.id],D.lines.to[n.id]],df:e,seqCol:t,activityCol:l}),n.x,n.y)}),O.addProperty("similarityLimit","double",T),C=function(){const e=s.accordion(),t=s.element("i");return t.className="grok-icon svg-icon svg-view-layout",e.addTitle(s.span([t,s.label("Activity cliffs")])),e.addPane("Cliff Details",()=>s.divText("Cliff has not been selected"),!0),r.shell.o=e.root,e}(),O}var me=n(6863),pe=n(2003),ge=n(3516),fe=n(3151);function ye(e,t){const n=e=>o[e]??null,i=e=>{const t=s.columns.addNewString((e+1).toString());return o.push(t),t},o=[],r=e.length,s=a.DataFrame.create(r),l=t.getSeqHandler(e);for(let e=0;e<r;++e){const t=l.getSplitted(e);for(let o=0;o<t.length;++o){const r=t.getCanonical(o);(n(o)||i(o)).set(e,r,!1)}}return s}var be,we=n(439),ve=n(4971);async function Te(e){const t=(await(0,ve.pj)()).getMonomerLib(),n=[],i={},o=e.map(e=>t.getMonomer("PEPTIDE",e)?.smiles??""),s=a.Column.fromStrings("smiles",o);for(let t=0;t<o.length;++t){i[e[t]]=t;const a=o[t],l=""===a?new Array(o.length).fill(0):(await r.chem.getSimilarities(s,a)).getRawData();l[t]=1,n[t]=Array.from(l)}return{scoringMatrix:n,alphabetIndexes:i}}!function(e){e.IDENTITY="identity",e.SIMILARITY="similarity"}(be||(be={}));var Ce=n(9192);class Ae{constructor(){this.maxIterations={uiName:"Max iterations",value:0,tooltip:"Maximum iterations for MCL process.Default is \n 0 which will construct the clusters with plain sparse matrix. Values greater than 0 will \n perform MCL with the given number of iterations and will result in trans-cluster activity cliff lines."},this.useWebGPU={uiName:"Use WebGPU",value:!1,tooltip:"Use WebGPU for MCL calculation. (Experimental)",type:"boolean"}}}class Ee extends R{constructor(e={}){super({...e,enableMCL:!0});const t=Array.from(this.tableInput.value.columns.numericalNoDateTime);this.activitiesInput=s.input.column("Activities",{table:this.tableInput.value,value:t.length?t[0]:null,filter:e=>t.includes(e)}),this.activitiesInputRoot=this.activitiesInput.root,this.similarityInput=s.input.int("Similarity cutoff",{value:80}),this.methodsParams[x]=new Ae}onTableInputChanged(){if(super.onTableInputChanged(),this.activitiesInputRoot){s.empty(this.activitiesInputRoot);const e=Array.from(this.tableInput.value.columns.numerical);this.activitiesInput=s.input.column("Activities",{table:this.tableInput.value,value:e.length?e[0]:null,filter:t=>e.includes(t)}),Array.from(this.activitiesInput.root.children).forEach(e=>this.activitiesInputRoot.append(e))}}getEditor(){return s.div([this.tableInput,this.colInputRoot,this.preprocessingFunctionInputRoot,this.preprocessingFuncSettingsDiv,this.activitiesInputRoot,this.similarityMetricInputRoot,this.methodInput,this.methodSettingsDiv,this.similarityMetricInputRoot,this.similarityInput],{style:{minWidth:"320px"},classes:"ui-form dim-reduction-dialog-form"})}getParams(){return{...super.getParams(),activities:this.activitiesInput.value,similarityThreshold:this.similarityInput.value}}getInput(){return{...super.getInput(),activityCol:this.activitiesInput.value.name,simThreshold:this.similarityInput.value}}async applyInput(e){super.applyInput(e),this.activitiesInput.value=this.tableInput.value.col(e.activityCol),this.similarityInput.value=e.simThreshold}}var Se,Me,Pe;function _e(e){const t=["Embed_X","Embed_Y"],n=e.columns.names().filter(e=>e.includes(t[0])).length+1;return t.map(e=>`${e}_${n}`)}function Ie(e,t){return`${t} (${e.length>4?`${e.length} columns`:e.map(e=>e.name).join(", ")})`}async function Le(e,t,i,o,c,u,h,d=!0,m=!1,p={preprocessingFuncArgs:[]},g={},f=null,y={},b){const w={showXAxis:!1,showYAxis:!1,showXSelector:!1,showYSelector:!1};if(t.length!==o.length||t.length!==u.length||t.length!==c.length||t.length!==p.preprocessingFuncArgs.length)throw new Error("columns, metrics and preprocessing functions, weights and function argumentsmust have the same length");const v=d?g.tableView??r.shell.tableView(e.name)??r.shell.addTableView(e):null,T=async()=>{const T=a.TaskBarProgressIndicator.create(`Initializing ${g.scatterPlotName??"dimensionality reduction"} ...`);let C;try{const A=_e(e);function E(n,o,r){let c=null,u=null;e.columns.names().includes(A[0])?(c=e.columns.byName(A[0]),u=e.columns.byName(A[1])):(c=e.columns.add(a.Column.float(A[0],e.rowCount)),u=e.columns.add(a.Column.float(A[1],e.rowCount)),d&&!C&&(C=v.scatterPlot({...w,x:A[0],y:A[1],title:g.scatterPlotName??Ie(t,i)}))),g[l.YP]&&(C?.root&&s.setUpdateIndicator(C.root,!1),c.init(e=>r[0]?r[0][e]:void 0),u.init(e=>r[1]?r[1][e]:void 0));const h=n/o*100;T.update(h,`Running ${g.scatterPlotName??"dimensionality reduction"}... ${h.toFixed(0)}%`)}async function S(){e.columns.add(a.Column.float(A[0],e.rowCount)),e.columns.add(a.Column.float(A[1],e.rowCount));let n=null;d&&(C=v.scatterPlot({...w,x:A[0],y:A[1],title:g.scatterPlotName??Ie(t,i)}),s.setUpdateIndicator(C.root,!0));const m=r.events.onViewerClosed.subscribe(e=>{const t=e.args.viewer;t?.getOptions()?.look?.title&&C?.getOptions()?.look?.title&&t?.getOptions()?.look?.title===C?.getOptions()?.look?.title&&(r.events.fireCustomEvent(W,{}),m.unsubscribe(),n?.(),T.close())}),f=new Promise(async(r,s)=>{try{n=r;const s=[];let a=o,d=c,m=h;if(b&&t.every(e=>e.isNumerical)){const n=t.map(e=>e.toList()),i=new Array(e.rowCount).fill(0).map((e,n)=>new Float32Array(t.length));for(let o=0;o<t.length;++o)for(let t=0;t<e.rowCount;++t)i[t][o]=n[o][t];p.distanceFnArgs=[{}],s.push({entries:i,options:{}}),a=[b],d=[1],m="MANHATTAN"}else for(let e=0;e<u.length;++e){const n=u[e];if(p.distanceFnArgs||(p.distanceFnArgs=[]),n){const i=n.inputs[0].name,r=n.inputs[1].name,{entries:a,options:l}=await n.apply({[i]:t[e],[r]:o[e],...p.preprocessingFuncArgs[e]??{}});s.push({entries:a,options:l}),p.distanceFnArgs.push(l)}else{const n=t[e].toList(),i={};s.push({entries:n,options:i}),p.distanceFnArgs.push(i)}}r(await K(s.map(e=>e.entries),i,a,d,h,p,g[l.vb]?void 0:E))}catch(e){s(e)}}),y=await f;return T.close(),m.unsubscribe(),y}const M=await S();if(m&&M){const P=a.TaskBarProgressIndicator.create("Clustering embeddings ...");try{const _=await function(e,t,i,o){return function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})}(this,void 0,void 0,function*(){return new Promise(function(r,s){const a=new Worker(new URL(n.p+n.u(682),n.b));a.postMessage({embedX:e,embedY:t,minPts:o,epsilon:i}),a.onmessage=({data:{error:e,clusters:t}})=>{a.terminate(),e?s(e):r(t)}})})}(M[0],M[1],p.dbScanEpsilon??.01,p.dbScanMinPts??4),I=e.columns.getUnusedName("Cluster (DBSCAN)");e.columns.addNewString(I).init(e=>_[e].toString()),C&&(C.props.colorColumnName=I)}catch(L){r.shell.error("Clustering embeddings failed"),console.error(L)}finally{P.close()}}if(M){const x=e.columns.byName(A[0]),N=e.columns.byName(A[1]);if(x.init(e=>M[0][e]),N.init(e=>M[1][e]),f)try{const R=f.inputs[0].name,$=f.inputs[1].name;await f.prepare({[R]:x,[$]:N,...y}).call(!0)}catch(H){r.shell.error("Post-processing failed"),console.error(H)}if(C)return s.setUpdateIndicator(C.root,!1),C.helpUrl="/help/compute/sequence-space",C}}catch(O){r.shell.error("Dimensionality reduction failed"),console.error(O),T.close(),C&&s.setUpdateIndicator(C.root,!1)}};return new Promise(async(t,n)=>{try{if(g.fastRowCount&&e.rowCount>g.fastRowCount&&!g[l.vb])s.dialog().add(s.divText("Analysis might take several minutes. Do you want to continue?")).onOK(async()=>{try{const e=await T();t(e)}catch(e){n(e)}}).onCancel(()=>t(void 0)).show();else{const e=await T();t(e)}}catch(e){n(e)}})}n(5540),function(e){e.ADD="ADD",e.SUB="SUB",e.MULT="MULT"}(Se||(Se={})),function(e){e.SQUARE="SQUARE",e.INVERSE="INVERSE",e.TRANSPOSE="TRANSPOSE",e.NORM="NORM",e.COLUMN_NORM="COLUMN_NORM"}(Me||(Me={})),function(e){e.SCALARMULT="SCALARMULT",e.SCALARADD="SCALARADD",e.SCALARPOW="SCALARPOW"}(Pe||(Pe={})),Object.prototype.toString;var xe=n(6873),Ne=n(4356),Re=n(6717),$e=n(4025),He=n(4870),Oe=n(3856),De=n(6882),ke=n(7278),Fe=n(5553),Ge=n(6642),Be=n(3599),Ve=n(673),Ue=n(8312);class We extends Ge.sD{monomerLib=null;seqHelper=null;constructor(e,t){super(e,t,To.logger),(0,ve.pj)().then(e=>{this.monomerLib=e.getMonomerLib(),this.dirty=!0,this.gridCol?.grid?.invalidate(),this.subs.push(this.monomerLib.onChanged.subscribe(()=>{this.dirty=!0,this.gridCol?.grid?.invalidate()}))}),(0,Ue.Q)().then(e=>{this.seqHelper=e,this.dirty=!0,this.gridCol?.grid?.invalidate()})}}var qe=n(4139);const Ye=pe.zS;function je(e){const t=!oe().enumerate(e).some(([t,n])=>t.length>1&&0!=n&&n!=e.length-1),n=[],i=t?"":" ";for(const[t,o]of oe().enumerate(e)){let r=t;o<e.length&&(r+=`${t?"":"-"}${i}`),n.push(r)}return[n,t]}class Ke extends a.GridCellRenderer{seqHelper;get name(){return"sequence"}get cellType(){return"sequence"}get defaultHeight(){return 30}get defaultWidth(){return 230}hasMouseOver=!1;constructor(){super(),this.seqHelper=To.seqHelper}getRendererBack(e){const[t,n,i]=(0,Ge.BG)(e);if(i.rendererBack)return i.rendererBack;let o=null;return this.seqHelper&&(o=this.seqHelper.getSeqHandler(n).getRendererBack(t,n)),o}onClick(e,t){e.cell.column.temp["current-word"]=e.cell.value,e.grid.invalidate();const n=this.getRendererBack(e);n?.onClick(e,t)}onMouseEnter(e,t){const n=this.getRendererBack(e);n?.onMouseEnter(e,t),this.hasMouseOver=!0}onMouseMove(e,t){const n=this.getRendererBack(e);n?.onMouseMove(e,t)}onMouseLeave(e,t){if((0,Fe.WN)(e,null),e?.grid){const t=e.grid.onEvent("d4-grid-show-tooltip").subscribe(e=>{t.unsubscribe(),this.hasMouseOver&&e.preventDefault()})}this.hasMouseOver=!1}onDoubleClick(e,t){const n=this.getRendererBack(e);n?.onDoubleClick(e,t)}onKeyDown(e,t){const n=this.getRendererBack(e);n?.onKeyDown(e,t)}onKeyPress(e,t){const n=this.getRendererBack(e);n?.onKeyPress(e,t)}renderInt(e,t,n,i,o,r,s){const[a,l,c]=(0,Ge.BG)(r);if(!l)return;const u=l.temp,h=this.seqHelper.getSeqHandler(l);let d=(To.properties?To.properties.maxMonomerLength:4)??50;if(Oe.gp.maxMonomerLength in l.tags){const e=parseInt(l.getTag(Oe.gp.maxMonomerLength));d=!isNaN(e)&&e?e:50}if(".mm.cellRenderer.maxMonomerLength"in u){const e=u[".mm.cellRenderer.maxMonomerLength"];d=!isNaN(e)&&e?e:50}let m=c.rendererBack;m||(m=c.rendererBack=new De.Jy(a,l,To.logger,d,()=>{const{font:e,fontWidth:t}=De.Jy.getFontSettings(l);return{font:e,fontCharWidth:t,separatorWidth:h.isMsa()?8:0,monomerToShort:Ye}}),l.temp[".mm.cellRenderer.settingsChanged"],Ve.s.true,m.init().then(()=>{})),m.render(e,t,n,i,o,r,s)}render(e,t,n,i,o,r,s){const a=this.getRendererBack(r);a?a?.render(e,t,n,i,o,r,s):this.renderInt(e,t,n,i,o,r,s)}}class ze extends We{constructor(e,t){super(e,t)}render(e,t,n,i,o,r,s){const a=window.devicePixelRatio,l=r.grid,c=r.cell.value??"",u=this.tableCol.tags[pe.gp.separator],h=this.tableCol.meta.units;i=(0,De.U0)(l,e,t,i,a);const[d,m]=c.split("#"),p=this.tableCol.temp[$e.j.notationProvider]?.separatorSplitter??(0,ke.Iv)(h,u),g=p(d),f=p(m),y=oe().count(0).take(g.length).map(e=>g.getCanonical(e)).toArray(),b=oe().count(0).take(f.length).map(e=>f.getCanonical(e)).toArray(),w=this.tableCol.getTag(pe.gp.alphabet);Xe(e,t,n,i,o,y,b,w===pe.YI.RNA||w===pe.YI.DNA?Be.o.NUCLEOTIDE:Be.o.AA,this.monomerLib,void 0,void 0)}async awaitRendered(e=1e4,t=`${e} timeout`){return Promise.resolve()}static getOrCreate(e){const[t,n,i]=(0,Ge.BG)(e);let o=i.rendererBack;return o||(o=i.rendererBack=new ze(t,n)),o}}class Ze extends a.GridCellRenderer{get name(){return"MacromoleculeDifferenceCR"}get cellType(){return qe.uF.MACROMOLECULE_DIFFERENCE}get defaultHeight(){return 30}get defaultWidth(){return 230}render(e,t,n,i,o,r,s){ze.getOrCreate(r).render(e,t,n,i,o,r,s)}}function Xe(e,t,n,i,o,r,s,a,l,c,u){if(r.length!==s.length){const e=function(e,t){let n=0,i=0;const o=e.length>t.length?e:t,r=e.length>t.length?t:e;for(let e=0;e<r.length;e++)o[e]===r[e]&&n++;const s=o.length-r.length;for(let e=o.length-1;e>s;e--)o[e]===r[e-s]&&i++;const a=new Array(Math.abs(e.length-t.length)).fill(we.b9[pe.Hi.FASTA]);function l(e){return n>i?e.concat(a):a.concat(e)}return e.length>t.length?t=l(oe()(t).toArray()):e=l(oe()(e).toArray()),{subParts1:e,subParts2:t}}(r,s);r=e.subParts1,s=e.subParts2}const h=e.measureText(je(r).join("")),d=e.measureText(je(s).join("")),m=Math.max(h.width,d.width);c&&(i=m+4*r.length,e.canvas.width=m+4*r.length);let p=Math.max(t,t+(i-(m+4*r.length))/2)+5;const g=Math.max(n,n+(o-28)/2);e.save();try{e.beginPath(),e.rect(t,n,c?m+4*r.length:i,o),e.clip(),e.font="12px monospace",e.textBaseline="top";const h=7;for(let t=0;t<r.length;t++){const n=r[t],c=s[t];let d=De.S$;if(l&&(d=l.getMonomerTextColor(a,n)),n!=c){let r=De.S$;l&&(r=l.getMonomerTextColor(a,c));const s=(0,Oe.oZ)(e,n,p,g-h,i,o,{color:d,pivot:0,left:!0}),m=(0,Oe.oZ)(e,c,p,g+h,i,o,{color:r,pivot:0,left:!0});p=Math.max(m,s),u&&(u[t]=Je(n,c,d,r,g,h,o))}else p=(0,Oe.oZ)(e,n,p,g,i,o,{color:d,pivot:0,left:!0,transparencyRate:.5});p+=4}}finally{e.restore()}}function Je(e,t,n,i,o,r,s){const a=document.createElement("canvas"),l=a.getContext("2d");l.font="12px monospace";const c=l.measureText(je([e]).join("")).width,u=l.measureText(je([t]).join("")).width,h=Math.max(c,u);return a.height=s,a.width=h+4,l.font="12px monospace",l.textBaseline="top",(0,Oe.oZ)(l,e,0,o-r,h,s,{color:n,pivot:0,left:!0}),(0,Oe.oZ)(l,t,0,o+r,h,s,{color:i,pivot:0,left:!0}),a}var Qe,et=n(8070),tt=n(4326);!function(e){e.Unknown="unknown",e.FR="framework",e.CDR="cdr"}(Qe||(Qe={}));const nt=new class{constructor(){this.regionTypes=[Qe.CDR],this.chains=["Heavy","Light"],this.skipEmptyPositions=!1,this.fitWidth=!1,this.positionWidth=16,this.positionHeight=tt.fH.Entropy,this.filterSource=tt.Fo.filterSource}};var it=n(7602),ot=n(250);const rt=Qe;var st,at;!function(e){e.STYLE="Style",e.BEHAVIOR="Behavior",e.LAYOUT="Layout",e.DATA="Data"}(st||(st={})),function(e){e.skipEmptyPositions="skipEmptyPositions",e.regionTypes="regionTypes",e.chains="chains",e.fitWidth="fitWidth",e.positionWidth="positionWidth",e.positionHeight="positionHeight",e.filterSource="filterSource"}(at||(at={}));const lt=nt;class ct extends a.JsViewer{viewed=!1;regionsFg=null;regionsRoot=null;isOpened=!1;panelNode=null;regions=[];regionTypes;chains;skipEmptyPositions;fitWidth;positionWidth;positionHeight;filterSource;constructor(){super(),this.skipEmptyPositions=this.bool(at.skipEmptyPositions,lt.skipEmptyPositions,{category:st.DATA}),this.regionTypes=this.stringList(at.regionTypes,lt.regionTypes,{category:st.DATA,choices:Object.values(rt).filter(e=>e!=rt.Unknown)}),this.chains=this.stringList(at.chains,lt.chains,{category:st.DATA,choices:["Heavy","Light"]}),this.fitWidth=this.bool(at.fitWidth,lt.fitWidth,{category:st.LAYOUT}),this.positionWidth=this.float(at.positionWidth,lt.positionWidth,{category:st.LAYOUT,editor:"slider",min:0,max:64,description:"Internal WebLogo viewers property width of position."}),this.positionHeight=this.string(at.positionHeight,lt.positionHeight,{category:st.LAYOUT,choices:Object.keys(tt.fH)}),this.filterSource=this.string(at.filterSource,lt.filterSource,{category:st.BEHAVIOR,choices:Object.values(tt.lT)}),this.viewSyncer=new it.g(To.logger)}static viewerCounter=-1;viewerId=++ct.viewerCounter;viewerToLog(){return`VdRegionsViewer<${this.viewerId}>`}async init(){this.subs.push((0,u.fromEvent)(this.root,"mousemove").subscribe(this.rootOnMouseMove.bind(this)))}detach(){const e=`${this.viewerToLog()}.detach()`,t=super.detach.bind(this);this.viewSyncer.sync(`${e}`,async()=>{this.setDataInProgress||(this.viewed&&(await this.destroyView("detach"),this.viewed=!1),t())})}onTableAttached(){super.onTableAttached(),this.setData(this.regions)}onPropertyChanged(e){if(super.onPropertyChanged(e),e){switch(e.name){case at.regionTypes:case at.chains:this.setData(this.regions)}switch(e.name){case at.skipEmptyPositions:for(let e=0;e<this.logos.length;++e)for(const t of this.chains)this.logos[e][t].setOptions({[ot.n5.skipEmptyPositions]:this.skipEmptyPositions});this.calcSize();break;case at.fitWidth:case at.positionWidth:this.calcSize();break;case at.positionHeight:for(let e=0;e<this.logos.length;++e)for(const t of this.chains)this.logos[e][t].setOptions({[ot.n5.positionHeight]:this.positionHeight});this.calcSize();break;case at.filterSource:this.filterSourceInput.value=this.filterSource;break;default:this.setData(this.regions)}}else console.warn("Bio: VdRegionsViewer.onPropertyChanged() property is null")}setData(e){const t=`${this.viewerToLog()}.setData()`;To.logger.debug(`${t}, in, regions.length = ${e.length}`),this.viewSyncer.sync(`${t}`,async()=>{if(!this.setDataInProgress){this.setDataInProgress=!0;try{this.viewed&&(await this.destroyView("setData"),this.viewed=!1),this.regions=e,this.viewed||(await this.buildView("setData"),this.viewed=!0)}finally{this.setDataInProgress=!1}}})}viewSyncer;setDataInProgress=!1;host=null;filterSourceInput;mainLayout=null;logos=[];viewSubs=[];async destroyView(e){To.logger.debug(`Bio: VdRegionsViewer.destroyView( mainLayout = ${this.mainLayout?"value":"none"} ), purpose = '${e}', this.regions.length = ${this.regions.length}`),this.filterSourceInput&&s.empty(this.filterSourceInput.root),null!=this.mainLayout&&(this.mainLayout.remove(),this.host.remove(),this.host=null,this.mainLayout=null);for(const e of this.viewSubs)e.unsubscribe()}async buildView(e){To.logger.debug(`Bio: VdRegionsViewer.buildView() begin, purpose = '${e}', this.regions.length = ${this.regions.length}`);const t=this.regions.filter(e=>this.regionTypes.includes(e.type)),n=Array.from(new Set(t.map(e=>e.order))).sort(),i=[];for(let e=0;e<n.length;e++)for(const o of this.chains){const r=t.find(t=>t.order==n[e]&&t.chain==o);i.push((async()=>{const t=await this.dataFrame.plot.fromType("WebLogo",{sequenceColumnName:r.sequenceColumnName,startPositionName:r.positionStartName,endPositionName:r.positionEndName,fixWidth:!0,skipEmptyPositions:this.skipEmptyPositions,positionWidth:this.positionWidth,positionHeight:this.positionHeight,filterSource:this.filterSource});return t.onSizeChanged.subscribe(()=>{this.calcSize()}),[e,o,t]})())}const o=await Promise.all(i);this.logos=new Array(n.length);for(let e=0;e<n.length;++e)this.logos[e]={};for(const[e,t,n]of o)this.logos[e][t]=n,this.viewSubs.push(n.onFreqsCalculated.subscribe(()=>{this.calcSize()}));this.mainLayout=s.table(this.chains,e=>[...n.length>0?[s.div(e,{style:{transform:"rotate(-90deg)",font:"12px Roboto, Roboto Local, sans-serif",textAlign:"center",width:"16px",marginTop:"24px",marginLeft:"6px"}})]:[],...[...Array(n.length).keys()].map(t=>{const n=this.logos[t][e];return n.root.style.height="100%",s.div([n.root],{style:{marginTop:"4px",marginBottom:"4px"}})})],["",...[...Array(n.length).keys()].map(e=>t.find(t=>t.order==n[e]&&t.chain==this.chains[0]).name||"Name")]),this.mainLayout.className="mlb-vd-regions-viewer-table2",this.filterSourceInput=s.input.choice("Data source",{value:this.filterSource,items:Object.values(tt.lT),onValueChanged:this.filterSourceInputOnValueChanged.bind(this)}),this.filterSourceInput.root.style.position="absolute",this.filterSourceInput.root.style.right="9px",this.filterSourceInput.root.style.top="-4px",Math.ceil(255*Math.random()).toString(16),this.host=s.div([this.mainLayout,this.filterSourceInput.root],{}),this.root.appendChild(this.host),this.root.style.overflowX="auto",this.calcSize(),this.viewSubs.push(s.onSizeChanged(this.root).subscribe(this.rootOnSizeChanged.bind(this))),To.logger.debug("Bio: VdRegionsViewer.buildView() end")}calcSizeRequested=!1;calcSize(){To.logger.debug("Bio: VdRegionsViewer.calcSize(), start");const e=()=>{if(!this.host)return;const e=(this.root.clientHeight-54)/this.chains.length;let t=0;for(let n=0;n<this.logos.length;n++){for(const t of this.chains)this.logos[n][t].root.style.height=`${e}px`;t+=Math.max(...this.chains.map(e=>this.logos[n][e].Length))}if(this.fitWidth){if(this.logos.length>0&&t>0){const e=22,n=13,i=9,o=(this.root.clientWidth-e-(this.logos.length-1)*i-n)/t;for(let e=0;e<this.logos.length;e++)for(const t of this.chains){const n=this.logos[e][t];n.setOptions({[ot.n5.positionWidth]:o-n.positionMarginValue}),n.root.style.width=o*n.Length+"px"}}this.host.style.setProperty("overflow","hidden","important")}else{for(let e=0;e<this.logos.length;e++)for(const t of this.chains)this.logos[e][t].setOptions({[ot.n5.positionWidth]:this.positionWidth});this.host.style.removeProperty("overflow")}0===this.positionWidth?this.host.style.setProperty("overflow-x","hidden","important"):this.host.style.removeProperty("overflow-x")};this.calcSizeRequested||(this.calcSizeRequested=!0,window.setTimeout(()=>{e(),this.calcSizeRequested=!1},0))}rootOnSizeChanged(e){this.calcSize()}rootOnMouseMove(e){}filterSourceInputOnValueChanged(){const e=`${this.viewerToLog()}.filterSourceInputOnValueChanged()`,t=this.filterSourceInput.value;this.viewSyncer.sync(`${e}`,async()=>{if(this.filterSource!==t){this.props.getProperty(at.filterSource).set(this,t);for(let e=0;e<this.logos.length;e++)for(let t=0;t<this.chains.length;t++){const n=this.chains[t];this.logos[e][n].setOptions({[ot.n5.filterSource]:this.filterSource})}}})}_onRendered=new u.Subject;get onRendered(){return this._onRendered}invalidate(e){const t=`${this.viewerToLog()}.invalidate(${e?` <- ${e} `:""})`;this.viewSyncer.sync(`${t}`,async()=>{this._onRendered.next()})}async awaitRendered(e=5e3){await(0,et.PE)(this.onRendered,()=>{},()=>{this.invalidate()},e);const t=this.viewSyncer.resetErrors();if(t.length>0)throw t[0]}}class ut{value;parentI;parentJ;constructor(){this.value=0,this.parentI=0,this.parentJ=0}}class ht{seq1;seq2;score;constructor(e,t,n){this.seq1=e,this.seq2=t,this.score=n}}class dt{seq1="";seq2="";gap=1;len1=0;len2=0;step=1;alignGrid=[];scores=[];dpGrid=[];connections={};BLOSUM45=[[5,-2,-1,-2,-1,-1,-1,0,-2,-1,-1,-1,-1,-2,-1,1,0,-2,-2,0,-1,-1,0,-5],[-2,7,0,-1,-3,1,0,-2,0,-3,-2,3,-1,-2,-2,-1,-1,-2,-1,-2,-1,0,-1,-5],[-1,0,6,2,-2,0,0,0,1,-2,-3,0,-2,-2,-2,1,0,-4,-2,-3,4,0,-1,-5],[-2,-1,2,7,-3,0,2,-1,0,-4,-3,0,-3,-4,-1,0,-1,-4,-2,-3,5,1,-1,-5],[-1,-3,-2,-3,12,-3,-3,-3,-3,-3,-2,-3,-2,-2,-4,-1,-1,-5,-3,-1,-2,-3,-2,-5],[-1,1,0,0,-3,6,2,-2,1,-2,-2,1,0,-4,-1,0,-1,-2,-1,-3,0,4,-1,-5],[-1,0,0,2,-3,2,6,-2,0,-3,-2,1,-2,-3,0,0,-1,-3,-2,-3,1,4,-1,-5],[0,-2,0,-1,-3,-2,-2,7,-2,-4,-3,-2,-2,-3,-2,0,-2,-2,-3,-3,-1,-2,-1,-5],[-2,0,1,0,-3,1,0,-2,10,-3,-2,-1,0,-2,-2,-1,-2,-3,2,-3,0,0,-1,-5],[-1,-3,-2,-4,-3,-2,-3,-4,-3,5,2,-3,2,0,-2,-2,-1,-2,0,3,-3,-3,-1,-5],[-1,-2,-3,-3,-2,-2,-2,-3,-2,2,5,-3,2,1,-3,-3,-1,-2,0,1,-3,-2,-1,-5],[-1,3,0,0,-3,1,1,-2,-1,-3,-3,5,-1,-3,-1,-1,-1,-2,-1,-2,0,1,-1,-5],[-1,-1,-2,-3,-2,0,-2,-2,0,2,2,-1,6,0,-2,-2,-1,-2,0,1,-2,-1,-1,-5],[-2,-2,-2,-4,-2,-4,-3,-3,-2,0,1,-3,0,8,-3,-2,-1,1,3,0,-3,-3,-1,-5],[-1,-2,-2,-1,-4,-1,0,-2,-2,-2,-3,-1,-2,-3,9,-1,-1,-3,-3,-3,-2,-1,-1,-5],[1,-1,1,0,-1,0,0,0,-1,-2,-3,-1,-2,-2,-1,4,2,-4,-2,-1,0,0,0,-5],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-1,-1,2,5,-3,-1,0,0,-1,0,-5],[-2,-2,-4,-4,-5,-2,-3,-2,-3,-2,-2,-2,-2,1,-3,-4,-3,15,3,-3,-4,-2,-2,-5],[-2,-1,-2,-2,-3,-1,-2,-3,2,0,0,-1,0,3,-3,-2,-1,3,8,-1,-2,-2,-1,-5],[0,-2,-3,-3,-1,-3,-3,-3,-3,3,1,-2,1,0,-3,-1,0,-3,-1,5,-3,-3,-1,-5],[-1,-1,4,5,-2,0,1,-1,0,-3,-3,0,-2,-3,-2,0,0,-4,-2,-3,4,2,-1,-5],[-1,0,0,1,-3,4,4,-2,0,-3,-2,1,-1,-3,-1,0,-1,-2,-2,-3,2,4,-1,-5],[0,-1,-1,-1,-2,-1,-1,-1,-1,-1,-1,-1,-1,-1,-1,0,0,-2,-1,-1,-1,-1,-1,-5],[-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,1]];BLOSUM50=[[5,-2,-1,-2,-1,-1,-1,0,-2,-1,-2,-1,-1,-3,-1,1,0,-3,-2,0,-2,-1,-1,-5],[-2,7,-1,-2,-4,1,0,-3,0,-4,-3,3,-2,-3,-3,-1,-1,-3,-1,-3,-1,0,-1,-5],[-1,-1,7,2,-2,0,0,0,1,-3,-4,0,-2,-4,-2,1,0,-4,-2,-3,4,0,-1,-5],[-2,-2,2,8,-4,0,2,-1,-1,-4,-4,-1,-4,-5,-1,0,-1,-5,-3,-4,5,1,-1,-5],[-1,-4,-2,-4,13,-3,-3,-3,-3,-2,-2,-3,-2,-2,-4,-1,-1,-5,-3,-1,-3,-3,-2,-5],[-1,1,0,0,-3,7,2,-2,1,-3,-2,2,0,-4,-1,0,-1,-1,-1,-3,0,4,-1,-5],[-1,0,0,2,-3,2,6,-3,0,-4,-3,1,-2,-3,-1,-1,-1,-3,-2,-3,1,5,-1,-5],[0,-3,0,-1,-3,-2,-3,8,-2,-4,-4,-2,-3,-4,-2,0,-2,-3,-3,-4,-1,-2,-2,-5],[-2,0,1,-1,-3,1,0,-2,10,-4,-3,0,-1,-1,-2,-1,-2,-3,2,-4,0,0,-1,-5],[-1,-4,-3,-4,-2,-3,-4,-4,-4,5,2,-3,2,0,-3,-3,-1,-3,-1,4,-4,-3,-1,-5],[-2,-3,-4,-4,-2,-2,-3,-4,-3,2,5,-3,3,1,-4,-3,-1,-2,-1,1,-4,-3,-1,-5],[-1,3,0,-1,-3,2,1,-2,0,-3,-3,6,-2,-4,-1,0,-1,-3,-2,-3,0,1,-1,-5],[-1,-2,-2,-4,-2,0,-2,-3,-1,2,3,-2,7,0,-3,-2,-1,-1,0,1,-3,-1,-1,-5],[-3,-3,-4,-5,-2,-4,-3,-4,-1,0,1,-4,0,8,-4,-3,-2,1,4,-1,-4,-4,-2,-5],[-1,-3,-2,-1,-4,-1,-1,-2,-2,-3,-4,-1,-3,-4,10,-1,-1,-4,-3,-3,-2,-1,-2,-5],[1,-1,1,0,-1,0,-1,0,-1,-3,-3,0,-2,-3,-1,5,2,-4,-2,-2,0,0,-1,-5],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-2,-1,2,5,-3,-2,0,0,-1,0,-5],[-3,-3,-4,-5,-5,-1,-3,-3,-3,-3,-2,-3,-1,1,-4,-4,-3,15,2,-3,-5,-2,-3,-5],[-2,-1,-2,-3,-3,-1,-2,-3,2,-1,-1,-2,0,4,-3,-2,-2,2,8,-1,-3,-2,-1,-5],[0,-3,-3,-4,-1,-3,-3,-4,-4,4,1,-3,1,-1,-3,-2,0,-3,-1,5,-4,-3,-1,-5],[-2,-1,4,5,-3,0,1,-1,0,-4,-4,0,-3,-4,-2,0,0,-5,-3,-4,5,2,-1,-5],[-1,0,0,1,-3,4,5,-2,0,-3,-3,1,-1,-4,-1,0,-1,-2,-2,-3,2,5,-1,-5],[-1,-1,-1,-1,-2,-1,-1,-2,-1,-1,-1,-1,-1,-2,-2,-1,0,-3,-1,-1,-1,-1,-1,-5],[-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,1]];BLOSUM62=[[4,-1,-2,-2,0,-1,-1,0,-2,-1,-1,-1,-1,-2,-1,1,0,-3,-2,0,-2,-1,0,-4],[-1,5,0,-2,-3,1,0,-2,0,-3,-2,2,-1,-3,-2,-1,-1,-3,-2,-3,-1,0,-1,-4],[-2,0,6,1,-3,0,0,0,1,-3,-3,0,-2,-3,-2,1,0,-4,-2,-3,3,0,-1,-4],[-2,-2,1,6,-3,0,2,-1,-1,-3,-4,-1,-3,-3,-1,0,-1,-4,-3,-3,4,1,-1,-4],[0,-3,-3,-3,9,-3,-4,-3,-3,-1,-1,-3,-1,-2,-3,-1,-1,-2,-2,-1,-3,-3,-2,-4],[-1,1,0,0,-3,5,2,-2,0,-3,-2,1,0,-3,-1,0,-1,-2,-1,-2,0,3,-1,-4],[-1,0,0,2,-4,2,5,-2,0,-3,-3,1,-2,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-2,0,-1,-3,-2,-2,6,-2,-4,-4,-2,-3,-3,-2,0,-2,-2,-3,-3,-1,-2,-1,-4],[-2,0,1,-1,-3,0,0,-2,8,-3,-3,-1,-2,-1,-2,-1,-2,-2,2,-3,0,0,-1,-4],[-1,-3,-3,-3,-1,-3,-3,-4,-3,4,2,-3,1,0,-3,-2,-1,-3,-1,3,-3,-3,-1,-4],[-1,-2,-3,-4,-1,-2,-3,-4,-3,2,4,-2,2,0,-3,-2,-1,-2,-1,1,-4,-3,-1,-4],[-1,2,0,-1,-3,1,1,-2,-1,-3,-2,5,-1,-3,-1,0,-1,-3,-2,-2,0,1,-1,-4],[-1,-1,-2,-3,-1,0,-2,-3,-2,1,2,-1,5,0,-2,-1,-1,-1,-1,1,-3,-1,-1,-4],[-2,-3,-3,-3,-2,-3,-3,-3,-1,0,0,-3,0,6,-4,-2,-2,1,3,-1,-3,-3,-1,-4],[-1,-2,-2,-1,-3,-1,-1,-2,-2,-3,-3,-1,-2,-4,7,-1,-1,-4,-3,-2,-2,-1,-2,-4],[1,-1,1,0,-1,0,0,0,-1,-2,-2,0,-1,-2,-1,4,1,-3,-2,-2,0,0,0,-4],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-2,-1,1,5,-2,-2,0,-1,-1,0,-4],[-3,-3,-4,-4,-2,-2,-3,-2,-2,-3,-2,-3,-1,1,-4,-3,-2,11,2,-3,-4,-3,-2,-4],[-2,-2,-2,-3,-2,-1,-2,-3,2,-1,-1,-2,-1,3,-3,-2,-2,2,7,-1,-3,-2,-1,-4],[0,-3,-3,-3,-1,-2,-2,-3,-3,3,1,-2,1,-1,-2,-2,0,-3,-1,4,-3,-2,-1,-4],[-2,-1,3,4,-3,0,1,-1,0,-3,-4,0,-3,-3,-2,0,-1,-4,-3,-3,4,1,-1,-4],[-1,0,0,1,-3,3,4,-2,0,-3,-3,1,-1,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-1,-1,-1,-2,-1,-1,-1,-1,-1,-1,-1,-1,-1,-2,0,0,-2,-1,-1,-1,-1,-1,-4],[-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,1]];BLOSUM80=[[7,-3,-3,-3,-1,-2,-2,0,-3,-3,-3,-1,-2,-4,-1,2,0,-5,-4,-1,-3,-2,-1,-8],[-3,9,-1,-3,-6,1,-1,-4,0,-5,-4,3,-3,-5,-3,-2,-2,-5,-4,-4,-2,0,-2,-8],[-3,-1,9,2,-5,0,-1,-1,1,-6,-6,0,-4,-6,-4,1,0,-7,-4,-5,5,-1,-2,-8],[-3,-3,2,10,-7,-1,2,-3,-2,-7,-7,-2,-6,-6,-3,-1,-2,-8,-6,-6,6,1,-3,-8],[-1,-6,-5,-7,13,-5,-7,-6,-7,-2,-3,-6,-3,-4,-6,-2,-2,-5,-5,-2,-6,-7,-4,-8],[-2,1,0,-1,-5,9,3,-4,1,-5,-4,2,-1,-5,-3,-1,-1,-4,-3,-4,-1,5,-2,-8],[-2,-1,-1,2,-7,3,8,-4,0,-6,-6,1,-4,-6,-2,-1,-2,-6,-5,-4,1,6,-2,-8],[0,-4,-1,-3,-6,-4,-4,9,-4,-7,-7,-3,-5,-6,-5,-1,-3,-6,-6,-6,-2,-4,-3,-8],[-3,0,1,-2,-7,1,0,-4,12,-6,-5,-1,-4,-2,-4,-2,-3,-4,3,-5,-1,0,-2,-8],[-3,-5,-6,-7,-2,-5,-6,-7,-6,7,2,-5,2,-1,-5,-4,-2,-5,-3,4,-6,-6,-2,-8],[-3,-4,-6,-7,-3,-4,-6,-7,-5,2,6,-4,3,0,-5,-4,-3,-4,-2,1,-7,-5,-2,-8],[-1,3,0,-2,-6,2,1,-3,-1,-5,-4,8,-3,-5,-2,-1,-1,-6,-4,-4,-1,1,-2,-8],[-2,-3,-4,-6,-3,-1,-4,-5,-4,2,3,-3,9,0,-4,-3,-1,-3,-3,1,-5,-3,-2,-8],[-4,-5,-6,-6,-4,-5,-6,-6,-2,-1,0,-5,0,10,-6,-4,-4,0,4,-2,-6,-6,-3,-8],[-1,-3,-4,-3,-6,-3,-2,-5,-4,-5,-5,-2,-4,-6,12,-2,-3,-7,-6,-4,-4,-2,-3,-8],[2,-2,1,-1,-2,-1,-1,-1,-2,-4,-4,-1,-3,-4,-2,7,2,-6,-3,-3,0,-1,-1,-8],[0,-2,0,-2,-2,-1,-2,-3,-3,-2,-3,-1,-1,-4,-3,2,8,-5,-3,0,-1,-2,-1,-8],[-5,-5,-7,-8,-5,-4,-6,-6,-4,-5,-4,-6,-3,0,-7,-6,-5,16,3,-5,-8,-5,-5,-8],[-4,-4,-4,-6,-5,-3,-5,-6,3,-3,-2,-4,-3,4,-6,-3,-3,3,11,-3,-5,-4,-3,-8],[-1,-4,-5,-6,-2,-4,-4,-6,-5,4,1,-4,1,-2,-4,-3,0,-5,-3,7,-6,-4,-2,-8],[-3,-2,5,6,-6,-1,1,-2,-1,-6,-7,-1,-5,-6,-4,0,-1,-8,-5,-6,6,0,-3,-8],[-2,0,-1,1,-7,5,6,-4,0,-6,-5,1,-3,-6,-2,-1,-2,-5,-4,-4,0,6,-1,-8],[-1,-2,-2,-3,-4,-2,-2,-3,-2,-2,-2,-2,-2,-3,-3,-1,-1,-5,-3,-2,-3,-1,-2,-8],[-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,1]];BLOSUM90=[[5,-2,-2,-3,-1,-1,-1,0,-2,-2,-2,-1,-2,-3,-1,1,0,-4,-3,-1,-2,-1,-1,-6],[-2,6,-1,-3,-5,1,-1,-3,0,-4,-3,2,-2,-4,-3,-1,-2,-4,-3,-3,-2,0,-2,-6],[-2,-1,7,1,-4,0,-1,-1,0,-4,-4,0,-3,-4,-3,0,0,-5,-3,-4,4,-1,-2,-6],[-3,-3,1,7,-5,-1,1,-2,-2,-5,-5,-1,-4,-5,-3,-1,-2,-6,-4,-5,4,0,-2,-6],[-1,-5,-4,-5,9,-4,-6,-4,-5,-2,-2,-4,-2,-3,-4,-2,-2,-4,-4,-2,-4,-5,-3,-6],[-1,1,0,-1,-4,7,2,-3,1,-4,-3,1,0,-4,-2,-1,-1,-3,-3,-3,-1,4,-1,-6],[-1,-1,-1,1,-6,2,6,-3,-1,-4,-4,0,-3,-5,-2,-1,-1,-5,-4,-3,0,4,-2,-6],[0,-3,-1,-2,-4,-3,-3,6,-3,-5,-5,-2,-4,-5,-3,-1,-3,-4,-5,-5,-2,-3,-2,-6],[-2,0,0,-2,-5,1,-1,-3,8,-4,-4,-1,-3,-2,-3,-2,-2,-3,1,-4,-1,0,-2,-6],[-2,-4,-4,-5,-2,-4,-4,-5,-4,5,1,-4,1,-1,-4,-3,-1,-4,-2,3,-5,-4,-2,-6],[-2,-3,-4,-5,-2,-3,-4,-5,-4,1,5,-3,2,0,-4,-3,-2,-3,-2,0,-5,-4,-2,-6],[-1,2,0,-1,-4,1,0,-2,-1,-4,-3,6,-2,-4,-2,-1,-1,-5,-3,-3,-1,1,-1,-6],[-2,-2,-3,-4,-2,0,-3,-4,-3,1,2,-2,7,-1,-3,-2,-1,-2,-2,0,-4,-2,-1,-6],[-3,-4,-4,-5,-3,-4,-5,-5,-2,-1,0,-4,-1,7,-4,-3,-3,0,3,-2,-4,-4,-2,-6],[-1,-3,-3,-3,-4,-2,-2,-3,-3,-4,-4,-2,-3,-4,8,-2,-2,-5,-4,-3,-3,-2,-2,-6],[1,-1,0,-1,-2,-1,-1,-1,-2,-3,-3,-1,-2,-3,-2,5,1,-4,-3,-2,0,-1,-1,-6],[0,-2,0,-2,-2,-1,-1,-3,-2,-1,-2,-1,-1,-3,-2,1,6,-4,-2,-1,-1,-1,-1,-6],[-4,-4,-5,-6,-4,-3,-5,-4,-3,-4,-3,-5,-2,0,-5,-4,-4,11,2,-3,-6,-4,-3,-6],[-3,-3,-3,-4,-4,-3,-4,-5,1,-2,-2,-3,-2,3,-4,-3,-2,2,8,-3,-4,-3,-2,-6],[-1,-3,-4,-5,-2,-3,-3,-5,-4,3,0,-3,0,-2,-3,-2,-1,-3,-3,5,-4,-3,-2,-6],[-2,-2,4,4,-4,-1,0,-2,-1,-5,-5,-1,-4,-4,-3,0,-1,-6,-4,-4,4,0,-2,-6],[-1,0,-1,0,-5,4,4,-3,0,-4,-4,1,-2,-4,-2,-1,-1,-4,-3,-3,0,4,-1,-6],[-1,-2,-2,-2,-3,-1,-2,-2,-2,-2,-2,-1,-1,-2,-2,-1,-1,-3,-2,-2,-2,-1,-2,-6],[-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,1]];NUCLEOTIDES=[[1,-1,-1,-1],[-1,1,-1,-1],[-1,-1,1,-1],[-1,-1,-1,1]];PAM30=[[6,-7,-4,-3,-6,-4,-2,-2,-7,-5,-6,-7,-5,-8,-2,0,-1,-13,-8,-2,-3,-3,-3,-17],[-7,8,-6,-10,-8,-2,-9,-9,-2,-5,-8,0,-4,-9,-4,-3,-6,-2,-10,-8,-7,-4,-6,-17],[-4,-6,8,2,-11,-3,-2,-3,0,-5,-7,-1,-9,-9,-6,0,-2,-8,-4,-8,6,-3,-3,-17],[-3,-10,2,8,-14,-2,2,-3,-4,-7,-12,-4,-11,-15,-8,-4,-5,-15,-11,-8,6,1,-5,-17],[-6,-8,-11,-14,10,-14,-14,-9,-7,-6,-15,-14,-13,-13,-8,-3,-8,-15,-4,-6,-12,-14,-9,-17],[-4,-2,-3,-2,-14,8,1,-7,1,-8,-5,-3,-4,-13,-3,-5,-5,-13,-12,-7,-3,6,-5,-17],[-2,-9,-2,2,-14,1,8,-4,-5,-5,-9,-4,-7,-14,-5,-4,-6,-17,-8,-6,1,6,-5,-17],[-2,-9,-3,-3,-9,-7,-4,6,-9,-11,-10,-7,-8,-9,-6,-2,-6,-15,-14,-5,-3,-5,-5,-17],[-7,-2,0,-4,-7,1,-5,-9,9,-9,-6,-6,-10,-6,-4,-6,-7,-7,-3,-6,-1,-1,-5,-17],[-5,-5,-5,-7,-6,-8,-5,-11,-9,8,-1,-6,-1,-2,-8,-7,-2,-14,-6,2,-6,-6,-5,-17],[-6,-8,-7,-12,-15,-5,-9,-10,-6,-1,7,-8,1,-3,-7,-8,-7,-6,-7,-2,-9,-7,-6,-17],[-7,0,-1,-4,-14,-3,-4,-7,-6,-6,-8,7,-2,-14,-6,-4,-3,-12,-9,-9,-2,-4,-5,-17],[-5,-4,-9,-11,-13,-4,-7,-8,-10,-1,1,-2,11,-4,-8,-5,-4,-13,-11,-1,-10,-5,-5,-17],[-8,-9,-9,-15,-13,-13,-14,-9,-6,-2,-3,-14,-4,9,-10,-6,-9,-4,2,-8,-10,-13,-8,-17],[-2,-4,-6,-8,-8,-3,-5,-6,-4,-8,-7,-6,-8,-10,8,-2,-4,-14,-13,-6,-7,-4,-5,-17],[0,-3,0,-4,-3,-5,-4,-2,-6,-7,-8,-4,-5,-6,-2,6,0,-5,-7,-6,-1,-5,-3,-17],[-1,-6,-2,-5,-8,-5,-6,-6,-7,-2,-7,-3,-4,-9,-4,0,7,-13,-6,-3,-3,-6,-4,-17],[-13,-2,-8,-15,-15,-13,-17,-15,-7,-14,-6,-12,-13,-4,-14,-5,-13,13,-5,-15,-10,-14,-11,-17],[-8,-10,-4,-11,-4,-12,-8,-14,-3,-6,-7,-9,-11,2,-13,-7,-6,-5,10,-7,-6,-9,-7,-17],[-2,-8,-8,-8,-6,-7,-6,-5,-6,2,-2,-9,-1,-8,-6,-6,-3,-15,-7,7,-8,-6,-5,-17],[-3,-7,6,6,-12,-3,1,-3,-1,-6,-9,-2,-10,-10,-7,-1,-3,-10,-6,-8,6,0,-5,-17],[-3,-4,-3,1,-14,6,6,-5,-1,-6,-7,-4,-5,-13,-4,-5,-6,-14,-9,-6,0,6,-5,-17],[-3,-6,-3,-5,-9,-5,-5,-5,-5,-5,-6,-5,-5,-8,-5,-3,-4,-11,-7,-5,-5,-5,-5,-17],[-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,1]];PAM70=[[5,-4,-2,-1,-4,-2,-1,0,-4,-2,-4,-4,-3,-6,0,1,1,-9,-5,-1,-1,-1,-2,-11],[-4,8,-3,-6,-5,0,-5,-6,0,-3,-6,2,-2,-7,-2,-1,-4,0,-7,-5,-4,-2,-3,-11],[-2,-3,6,3,-7,-1,0,-1,1,-3,-5,0,-5,-6,-3,1,0,-6,-3,-5,5,-1,-2,-11],[-1,-6,3,6,-9,0,3,-1,-1,-5,-8,-2,-7,-10,-4,-1,-2,-10,-7,-5,5,2,-3,-11],[-4,-5,-7,-9,9,-9,-9,-6,-5,-4,-10,-9,-9,-8,-5,-1,-5,-11,-2,-4,-8,-9,-6,-11],[-2,0,-1,0,-9,7,2,-4,2,-5,-3,-1,-2,-9,-1,-3,-3,-8,-8,-4,-1,5,-2,-11],[-1,-5,0,3,-9,2,6,-2,-2,-4,-6,-2,-4,-9,-3,-2,-3,-11,-6,-4,2,5,-3,-11],[0,-6,-1,-1,-6,-4,-2,6,-6,-6,-7,-5,-6,-7,-3,0,-3,-10,-9,-3,-1,-3,-3,-11],[-4,0,1,-1,-5,2,-2,-6,8,-6,-4,-3,-6,-4,-2,-3,-4,-5,-1,-4,0,1,-3,-11],[-2,-3,-3,-5,-4,-5,-4,-6,-6,7,1,-4,1,0,-5,-4,-1,-9,-4,3,-4,-4,-3,-11],[-4,-6,-5,-8,-10,-3,-6,-7,-4,1,6,-5,2,-1,-5,-6,-4,-4,-4,0,-6,-4,-4,-11],[-4,2,0,-2,-9,-1,-2,-5,-3,-4,-5,6,0,-9,-4,-2,-1,-7,-7,-6,-1,-2,-3,-11],[-3,-2,-5,-7,-9,-2,-4,-6,-6,1,2,0,10,-2,-5,-3,-2,-8,-7,0,-6,-3,-3,-11],[-6,-7,-6,-10,-8,-9,-9,-7,-4,0,-1,-9,-2,8,-7,-4,-6,-2,4,-5,-7,-9,-5,-11],[0,-2,-3,-4,-5,-1,-3,-3,-2,-5,-5,-4,-5,-7,7,0,-2,-9,-9,-3,-4,-2,-3,-11],[1,-1,1,-1,-1,-3,-2,0,-3,-4,-6,-2,-3,-4,0,5,2,-3,-5,-3,0,-2,-1,-11],[1,-4,0,-2,-5,-3,-3,-3,-4,-1,-4,-1,-2,-6,-2,2,6,-8,-4,-1,-1,-3,-2,-11],[-9,0,-6,-10,-11,-8,-11,-10,-5,-9,-4,-7,-8,-2,-9,-3,-8,13,-3,-10,-7,-10,-7,-11],[-5,-7,-3,-7,-2,-8,-6,-9,-1,-4,-4,-7,-7,4,-9,-5,-4,-3,9,-5,-4,-7,-5,-11],[-1,-5,-5,-5,-4,-4,-4,-3,-4,3,0,-6,0,-5,-3,-3,-1,-10,-5,6,-5,-4,-2,-11],[-1,-4,5,5,-8,-1,2,-1,0,-4,-6,-1,-6,-7,-4,0,-1,-7,-4,-5,5,1,-2,-11],[-1,-2,-1,2,-9,5,5,-3,1,-4,-4,-2,-3,-9,-2,-2,-3,-10,-7,-4,1,5,-3,-11],[-2,-3,-2,-3,-6,-2,-3,-3,-3,-3,-4,-3,-3,-5,-3,-1,-2,-7,-5,-2,-2,-3,-3,-11],[-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,1]];PAM250=[[2,-2,0,0,-2,0,0,1,-1,-1,-2,-1,-1,-3,1,1,1,-6,-3,0,0,0,0,-8],[-2,6,0,-1,-4,1,-1,-3,2,-2,-3,3,0,-4,0,0,-1,2,-4,-2,-1,0,-1,-8],[0,0,2,2,-4,1,1,0,2,-2,-3,1,-2,-3,0,1,0,-4,-2,-2,2,1,0,-8],[0,-1,2,4,-5,2,3,1,1,-2,-4,0,-3,-6,-1,0,0,-7,-4,-2,3,3,-1,-8],[-2,-4,-4,-5,12,-5,-5,-3,-3,-2,-6,-5,-5,-4,-3,0,-2,-8,0,-2,-4,-5,-3,-8],[0,1,1,2,-5,4,2,-1,3,-2,-2,1,-1,-5,0,-1,-1,-5,-4,-2,1,3,-1,-8],[0,-1,1,3,-5,2,4,0,1,-2,-3,0,-2,-5,-1,0,0,-7,-4,-2,3,3,-1,-8],[1,-3,0,1,-3,-1,0,5,-2,-3,-4,-2,-3,-5,0,1,0,-7,-5,-1,0,0,-1,-8],[-1,2,2,1,-3,3,1,-2,6,-2,-2,0,-2,-2,0,-1,-1,-3,0,-2,1,2,-1,-8],[-1,-2,-2,-2,-2,-2,-2,-3,-2,5,2,-2,2,1,-2,-1,0,-5,-1,4,-2,-2,-1,-8],[-2,-3,-3,-4,-6,-2,-3,-4,-2,2,6,-3,4,2,-3,-3,-2,-2,-1,2,-3,-3,-1,-8],[-1,3,1,0,-5,1,0,-2,0,-2,-3,5,0,-5,-1,0,0,-3,-4,-2,1,0,-1,-8],[-1,0,-2,-3,-5,-1,-2,-3,-2,2,4,0,6,0,-2,-2,-1,-4,-2,2,-2,-2,-1,-8],[-3,-4,-3,-6,-4,-5,-5,-5,-2,1,2,-5,0,9,-5,-3,-3,0,7,-1,-4,-5,-2,-8],[1,0,0,-1,-3,0,-1,0,0,-2,-3,-1,-2,-5,6,1,0,-6,-5,-1,-1,0,-1,-8],[1,0,1,0,0,-1,0,1,-1,-1,-3,0,-2,-3,1,2,1,-2,-3,-1,0,0,0,-8],[1,-1,0,0,-2,-1,0,0,-1,0,-2,0,-1,-3,0,1,3,-5,-3,0,0,-1,0,-8],[-6,2,-4,-7,-8,-5,-7,-7,-3,-5,-2,-3,-4,0,-6,-2,-5,17,0,-6,-5,-6,-4,-8],[-3,-4,-2,-4,0,-4,-4,-5,0,-1,-1,-4,-2,7,-5,-3,-3,0,10,-2,-3,-4,-2,-8],[0,-2,-2,-2,-2,-2,-2,-1,-2,4,2,-2,2,-1,-1,-1,0,-6,-2,4,-2,-2,-1,-8],[0,-1,2,3,-4,1,3,0,1,-2,-3,1,-2,-4,-1,0,0,-5,-3,-2,3,2,-1,-8],[0,0,1,3,-5,3,3,0,2,-2,-3,0,-2,-5,0,0,-1,-6,-4,-2,2,3,-1,-8],[0,-1,0,-1,-3,-1,-1,-1,-1,-1,-1,-1,-1,-2,-1,0,0,-4,-2,-1,-1,-1,-1,-8],[-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,1]];SCHNEIDER=[[11.6,-2.7,9.7,-1.7,-2.7,-6.4,-3.9,-5.6,5.1,-5,3.6,-4.2,-6.3,-13,-7.1,-11.5,.4,-6,-1.9,-5.3,-8.5,-11.2,-8.9,-10.8,2.1,0,1.4,.2,-10.2,-13.5,-13,-12.5,-2.6,-8.5,-5,-8.1,-6.3,-9.9,-7.5,-9,-7.1,-10.2,-8.2,-9.2,-8.2,-12.5,-11.1,-11.4,-50,-14.8,-50,-13.8,-7.3,-10.1,-8.4,-9.1,-50,-13,-13.5,-12.4,-10.7,-18.1,-11.8,-17.2],[-2.7,13,-3.3,10.9,-3.5,-.4,-3.3,-1.8,-5.4,4.6,-5.5,3,-10.2,-7.9,-9.9,-9.6,-5,.5,-5.5,-1,-10.3,-8.1,-9.4,-9.6,-8.1,-5,-7.3,-6.3,-13.4,-11.3,-14.4,-12.9,-6.3,.8,-6.4,-1.1,-7.4,-5,-6.2,-6.5,-5.6,-1.6,-4.7,-3,-10.8,-8.7,-11.9,-10,-50,-6.2,-50,-7.5,-6.3,-4.3,-6.2,-5.4,-50,-7,-16.3,-8.2,-13.2,-12.3,-13.1,-13.3],[9.7,-3.3,11.6,-2.8,-4.5,-6.7,-3.1,-6.9,3.3,-5.5,4.8,-5.1,-8.9,-13.2,-5.7,-12.6,-1.5,-6.1,-.6,-6.1,-10,-11.8,-8.6,-11.9,1.2,.5,2.2,.1,-11.8,-14,-11.9,-13.4,-4.9,-9.1,-3.4,-8.9,-8,-10,-7.2,-10,-9.1,-10.2,-7.1,-9.9,-10.1,-13,-10.6,-12.7,-50,-14.9,-50,-14.4,-8.9,-10.8,-8.9,-10.4,-50,-13.1,-11.8,-13,-12.4,-19.4,-11.5,-17.8],[-1.7,10.9,-2.8,12.9,-2.7,-2.2,-2.8,.2,-4.8,2.9,-5.2,5.2,-9.1,-9.5,-9,-7,-4,-1,-5,1,-9,-8.8,-8.9,-7.7,-7,-6.8,-7.1,-4.3,-12.4,-12.9,-13.9,-10,-4.9,-.7,-5.6,1.4,-6,-6.5,-6.2,-4.8,-5.1,-3.2,-5,-1.2,-9.8,-9.9,-11.3,-8.2,-50,-7.6,-50,-5.1,-5.5,-5.8,-5.9,-4.2,-50,-8.3,-15.5,-5.9,-11.6,-14.2,-12,-11.6],[-2.7,-3.5,-4.5,-2.7,11.7,9,10.6,9.6,-3.2,-.7,-5.1,-.4,.7,-4.6,-.4,-3.6,-4.8,-8.9,-6.5,-7.8,-1.4,-4.1,-2.9,-3.3,-8,-9.1,-8,-8.2,-6,-9.3,-7.7,-8.5,-6.4,-10.1,-7.5,-8.6,2.8,-.7,.9,.1,-5.9,-7.3,-6.5,-6.5,-.4,-3.9,-2.6,-3.1,-50,-14.6,-50,-12.6,2.9,.1,1.8,1,-50,-9.2,-13.6,-7.7,-4.8,-12.2,-6.2,-11],[-6.4,-.4,-6.7,-2.2,9,12.3,9.8,9.6,-7.1,2.4,-7.2,.3,-2.9,-1.2,-3,-3.3,-7.6,-6.7,-8.1,-7.9,-4.9,-1.9,-4.5,-3.8,-9.5,-7.8,-9.3,-8.9,-9.4,-7.1,-9,-9,-9.4,-7.5,-9.3,-9.2,-.7,2.6,.2,-.1,-8,-4.6,-7.7,-6.1,-3.6,-1,-4.1,-3.1,-50,-11.6,-50,-11.6,.2,2.3,.4,.5,-50,-6.5,-15.3,-7.8,-8.4,-9.5,-8.3,-11.1],[-3.9,-3.3,-3.1,-2.8,10.6,9.8,12.2,9.8,-4.9,.1,-3.6,-.2,-1.7,-4.1,.9,-3.5,-5.9,-8.9,-5.6,-8.5,-3.9,-3.9,-2.2,-4.5,-7.3,-7.5,-6.4,-8.5,-7.1,-8.2,-6.7,-7.8,-7.9,-9.1,-7.1,-9.4,.9,-.2,2.5,-.3,-6.9,-6.5,-5.5,-6.8,-1.7,-3.4,-1.7,-2.8,-50,-13,-50,-11.5,1.5,.7,2.7,.6,-50,-8.9,-12.1,-7.4,-6.1,-11.5,-5.4,-10.4],[-5.6,-1.8,-6.9,.2,9.6,9.6,9.8,11.6,-6.6,.9,-7.2,2.5,-2.3,-3.4,-2.3,-.6,-6.5,-8.2,-8,-6.3,-3.7,-3.5,-3.9,-1.6,-9.9,-8.9,-9.6,-7,-8.6,-8.9,-8.8,-6.8,-8.6,-8.2,-8.8,-6.8,.3,.1,.2,2.4,-7.4,-6.2,-6.9,-4.4,-2.9,-2.9,-3.5,-.9,-50,-12.2,-50,-10.1,1.2,.6,1.2,2.4,-50,-7.6,-16.1,-5.8,-7.2,-10.8,-7.4,-9],[5.1,-5.4,3.3,-4.8,-3.2,-7.1,-4.9,-6.6,13.3,-2.8,11.2,-1.9,-5.7,-12.5,-7.2,-11.6,-.7,-4.8,-3.1,-4.3,-10,-11.6,-8.8,-11.7,10.5,7.7,9.1,8.5,-9.8,-12.7,-11.7,-11.8,-6.3,-11.4,-8.8,-11,-7.5,-10.3,-8.3,-9.9,-1.9,-6.7,-4.1,-6.4,-7.9,-12.5,-11.4,-11.7,-50,-14,-50,-13.2,-8.5,-10.4,-9.1,-9.6,-50,-9.8,-7.7,-8.8,-10.3,-17.9,-11.8,-16],[-5,4.6,-5.5,2.9,-.7,2.4,.1,.9,-2.8,12.8,-2.6,11,-8.4,-6.3,-8.3,-7.7,-6.1,-2.9,-6.5,-4.2,-8.5,-5.9,-7.5,-7.7,-5.5,-2.4,-5.5,-4.1,-12.9,-10.3,-12.7,-11.3,-7.4,-3.1,-7.4,-4.9,-4.4,-1.8,-3.5,-3.5,-1.6,3,-.8,.9,-8.4,-6.3,-9.6,-7.3,-50,-9,-50,-9.7,-2.3,-.2,-1.2,-1.5,-50,-.7,-13.3,-2,-11.8,-11.9,-12.3,-12.7],[3.6,-5.5,4.8,-5.2,-5.1,-7.2,-3.6,-7.2,11.2,-2.6,13.4,-2.1,-7.7,-12.5,-5.3,-11.9,-2.2,-4.4,-1.9,-4.8,-10.2,-11.5,-8.1,-12,9.3,8.2,10,8,-10.8,-11.9,-10.7,-12.4,-8.2,-11.8,-6.9,-11.5,-8.4,-9.9,-7.1,-10.6,-4.7,-6.8,-1.2,-7,-9.8,-11.6,-9.6,-12.1,-50,-14.1,-50,-12.7,-10,-10.8,-8.8,-10.5,-50,-9.2,-4.2,-9.3,-11,-18.2,-11.1,-16.1],[-4.2,3,-5.1,5.2,-.4,.3,-.2,2.5,-1.9,11,-2.1,13.2,-7.6,-8.5,-8,-5.3,-5.6,-4.5,-6.8,-2.4,-7.8,-7.9,-7.9,-6.2,-5.7,-5.1,-5.4,-2.1,-12.4,-12.3,-13.1,-10.1,-6.6,-4.4,-6.9,-2.6,-3.6,-3.8,-3.7,-2,-1.4,.8,-.9,3,-8.2,-8.1,-9.2,-5.8,-50,-10.1,-50,-7.4,-1.7,-2,-1.5,-.5,-50,-2.1,-12.6,-.4,-11.6,-13.9,-11.4,-11.1],[-6.3,-10.2,-8.9,-9.1,.7,-2.9,-1.7,-2.3,-5.7,-8.4,-7.7,-7.6,13.2,9.6,3.5,9.7,-8.7,-12.4,-10.7,-10.7,-7.8,-10.2,-8.8,-9.6,-9.5,-11.9,-10.9,-10.5,2.3,-.4,-.2,-.3,-9.7,-15.5,-11.4,-13.7,-3,-6.4,-4.1,-5.4,-9.6,-11.9,-10.5,-11.8,6.2,3.3,3.7,3.6,-50,-13.6,-50,-11.9,-5.6,-8.8,-7.2,-8.9,-50,-12.4,-14.1,-11.6,2.8,-6.4,.5,-5.2],[-13,-7.9,-13.2,-9.5,-4.6,-1.2,-4.1,-3.4,-12.5,-6.3,-12.5,-8.5,9.6,12.7,.2,10.5,-12.4,-11.6,-13.2,-12,-12.4,-10.1,-11.6,-12,-15.1,-13.1,-14.3,-13.4,-1.4,1.4,-1.6,-.5,-14.9,-14.3,-15.2,-16.8,-7.7,-4.7,-6.3,-6.6,-14.6,-10.8,-12.8,-13,2.3,6,2.5,3.6,-50,-11.2,-50,-11.9,-10.5,-9.2,-10.5,-10.5,-50,-10.3,-16.2,-11.3,-1.7,-3.7,-2.5,-5.4],[-7.1,-9.9,-5.7,-9,-.4,-3,.9,-2.3,-7.2,-8.3,-5.3,-8,3.5,.2,14.3,1,-7.3,-11.2,-6.9,-9.7,-8.5,-10.2,-7.7,-9.8,-10,-10.4,-8.4,-10.2,1,-.6,1.7,-.5,-11.1,-14.8,-9.7,-14.5,-3.7,-5.8,-3.1,-5.6,-10.4,-11.5,-8.2,-11.1,.6,-1.6,1.6,-1.1,-50,-12.4,-50,-11.5,-5.5,-8,-4.9,-7.2,-50,-12.4,-10.3,-11.6,.7,-6.8,2.4,-6],[-11.5,-9.6,-12.6,-7,-3.6,-3.3,-3.5,-.6,-11.6,-7.7,-11.9,-5.3,9.7,10.5,1,12.6,-12,-12.2,-12.5,-9.7,-11.1,-11.2,-11.9,-9.4,-12.9,-14.3,-14,-11.9,-1,-.4,-1.6,1.2,-13.9,-15.4,-13.7,-12.6,-6.2,-6.7,-6.3,-4.4,-13,-12.2,-13,-10.4,2.9,3.8,2.5,5.8,-50,-12.5,-50,-10.2,-9.6,-9.7,-9.6,-8.3,-50,-11.6,-15.4,-9.4,-1.1,-5.4,-1.6,-3.3],[.4,-5,-1.5,-4,-4.8,-7.6,-5.9,-6.5,-.7,-6.1,-2.2,-5.6,-8.7,-12.4,-7.3,-12,12.8,2.3,10.2,3,0,-3.4,-.7,-3.2,2.5,-.8,.9,.2,-3,-7.2,-5.7,-6.1,-.2,-6.6,-1.8,-6,-5.3,-8.2,-5.7,-7.6,-6.7,-9.6,-7.5,-9.3,-7.1,-10.5,-9.6,-9.4,-50,-8.1,-50,-7.2,-4.3,-6.8,-5.7,-6.3,-50,-9.5,-9.6,-8.9,-6.2,-12.8,-6.8,-11.8],[-6,.5,-6.1,-1,-8.9,-6.7,-8.9,-8.2,-4.8,-2.9,-4.4,-4.5,-12.4,-11.6,-11.2,-12.2,2.3,14.6,1.9,12.9,-5.5,-2.6,-4.1,-4.7,-1.2,3,-1.1,1.6,-8,-4.7,-8.7,-6,-8.2,-4.7,-7.8,-6.7,-10,-8.3,-8.9,-9.9,-10.8,-7.1,-10,-9.2,-11.6,-10.1,-12.3,-11.9,-50,2.2,-50,.9,-7.9,-5.9,-7.4,-6.9,-50,-4.6,-11.6,-5.6,-9.7,-5.9,-9.9,-7.3],[-1.9,-5.5,-.6,-5,-6.5,-8.1,-5.6,-8,-3.1,-6.5,-1.9,-6.8,-10.7,-13.2,-6.9,-12.5,10.2,1.9,11.9,2.1,-2.3,-4.1,-.5,-4.6,-.1,-.9,2.4,-.8,-5.1,-6.9,-4.8,-6.7,-2.3,-7.1,-.8,-7.2,-7.2,-8,-5.6,-8.5,-9.4,-9.7,-7.2,-9.8,-9.2,-11.1,-9.5,-10.7,-50,-8.7,-50,-8.6,-6.1,-7.5,-5.5,-7.7,-50,-10.4,-7.7,-10,-7.3,-13.6,-6.4,-13.3],[-5.3,-1,-6.1,1,-7.8,-7.9,-8.5,-6.3,-4.3,-4.2,-4.8,-2.4,-10.7,-12,-9.7,-9.7,3,12.9,2.1,14.7,-4.9,-3.8,-4,-2.4,-1,.8,-1.3,3.4,-7.6,-5.7,-8.1,-3.5,-6.8,-5.8,-7.2,-4.2,-8.9,-10.2,-8.4,-8.2,-9.9,-8.4,-9.7,-6.4,-11.1,-11.1,-11.8,-10,-50,.4,-50,2.6,-7.2,-7,-7.4,-5.1,-50,-5.7,-9.8,-3.2,-8.4,-7.4,-8.9,-5.9],[-8.5,-10.3,-10,-9,-1.4,-4.9,-3.9,-3.7,-10,-8.5,-10.2,-7.8,-7.8,-12.4,-8.5,-11.1,0,-5.5,-2.3,-4.9,12.6,10,11.1,10.5,-6,-8.3,-6.9,-7.5,-2.2,-7.4,-5.3,-5.9,-8.9,-12.5,-9.4,-11.6,-.7,-3.9,-2.3,-3,-9.1,-9.8,-9.2,-9.5,-5.6,-9,-8,-8.5,-50,-15.3,-50,-14.1,2.3,-1.4,.3,-.5,-50,-13.6,-14.3,-11.5,-5.3,-13.7,-6.1,-12.7],[-11.2,-8.1,-11.8,-8.8,-4.1,-1.9,-3.9,-3.5,-11.6,-5.9,-11.5,-7.9,-10.2,-10.1,-10.2,-11.2,-3.4,-2.6,-4.1,-3.8,10,13.1,10.7,10.6,-8.1,-5.2,-8,-6.7,-6.1,-3.7,-7.5,-5.6,-11.1,-10.3,-10.6,-11.9,-3.2,-1,-2.2,-2.8,-10.5,-8.1,-9.4,-9.5,-8.3,-6.9,-9.4,-8.8,-50,-11.3,-50,-12.8,-.6,2.2,-.3,.1,-50,-10.1,-17.5,-11.1,-8.6,-9.9,-8.6,-11.9],[-8.9,-9.4,-8.6,-8.9,-2.9,-4.5,-2.2,-3.9,-8.8,-7.5,-8.1,-7.9,-8.8,-11.6,-7.7,-11.9,-.7,-4.1,-.5,-4,11.1,10.7,13.2,10.4,-5.7,-5.8,-3.5,-6.1,-3.6,-6.5,-3.3,-5.5,-9.4,-11,-8.7,-11.2,-1.8,-2.7,.7,-3,-9.1,-8.2,-7.3,-9.4,-7.2,-8.2,-7.2,-8.2,-50,-13.2,-50,-13.3,.5,-.9,1.8,-.6,-50,-11.4,-11.1,-10.5,-6.1,-12.9,-5,-11.9],[-10.8,-9.6,-11.9,-7.7,-3.3,-3.8,-4.5,-1.6,-11.7,-7.7,-12,-6.2,-9.6,-12,-9.8,-9.4,-3.2,-4.7,-4.6,-2.4,10.5,10.6,10.4,12.6,-8.2,-7.9,-9,-4.7,-6.1,-6,-7.5,-2.9,-10.9,-12.2,-11.2,-10.9,-2.4,-2.9,-2.7,-.9,-10.4,-9.7,-10.2,-8,-8.4,-9.1,-9.3,-6.5,-50,-13.3,-50,-11,-0,-.4,-.4,2.3,-50,-10.9,-17.2,-8.3,-8.3,-12.7,-7.8,-9.3],[2.1,-8.1,1.2,-7,-8,-9.5,-7.3,-9.9,10.5,-5.5,9.3,-5.7,-9.5,-15.1,-10,-12.9,2.5,-1.2,-.1,-1,-6,-8.1,-5.7,-8.2,13.8,11.3,11.8,12.1,-6,-9.1,-9,-9.5,-8.9,-13.4,-10,-13.1,-9.9,-11.7,-9.8,-12.8,-5.9,-9.4,-6.5,-8.1,-10.7,-14,-13.3,-13.9,-50,-11.9,-50,-9.7,-8.9,-10.8,-9,-11.1,-50,-6.5,-5.3,-6.3,-10.5,-16.2,-10.4,-15.2],[0,-5,.5,-6.8,-9.1,-7.8,-7.5,-8.9,7.7,-2.4,8.2,-5.1,-11.9,-13.1,-10.4,-14.3,-.8,3,-.9,.8,-8.3,-5.2,-5.8,-7.9,11.3,15,11.2,12.8,-9.7,-5.3,-9.2,-7.8,-11.7,-10.6,-10.1,-12.2,-11.7,-8.8,-8.9,-11.8,-9.3,-5,-8,-8.2,-13.6,-11.4,-12.8,-13,-50,-7.2,-50,-8.4,-11,-7.7,-8.7,-10.2,-50,-1.5,-7.1,-4.9,-11.2,-11.6,-11.6,-15],[1.4,-7.3,2.2,-7.1,-8,-9.3,-6.4,-9.6,9.1,-5.5,10,-5.4,-10.9,-14.3,-8.4,-14,.9,-1.1,2.4,-1.3,-6.9,-8,-3.5,-9,11.8,11.2,13.4,11.4,-7.3,-8.8,-6.5,-8.5,-10,-12.5,-7.8,-12.5,-9.6,-11,-7.1,-10.7,-7.9,-8,-4.3,-9.4,-11.4,-12.3,-10.9,-12.9,-50,-11.8,-50,-11.2,-9.4,-9.8,-7.3,-10.5,-50,-6.2,-2.2,-6.7,-9.8,-15.2,-8.5,-14.9],[.2,-6.3,.1,-4.3,-8.2,-8.9,-8.5,-7,8.5,-4.1,8,-2.1,-10.5,-13.4,-10.2,-11.9,.2,1.6,-.8,3.4,-7.5,-6.7,-6.1,-4.7,12.1,12.8,11.4,14.7,-8.7,-7.4,-9.4,-5.3,-9.9,-11.8,-10.5,-10.3,-9.9,-10.1,-9.3,-9.3,-8.1,-7.2,-8,-5.2,-12,-12.1,-12.6,-10.9,-50,-7.9,-50,-5.3,-9.3,-8.8,-8.9,-7,-50,-3.6,-7.1,-1.2,-10.2,-12.7,-9.9,-11],[-10.2,-13.4,-11.8,-12.4,-6,-9.4,-7.1,-8.6,-9.8,-12.9,-10.8,-12.4,2.3,-1.4,1,-1,-3,-8,-5.1,-7.6,-2.2,-6.1,-3.6,-6.1,-6,-9.7,-7.3,-8.7,11.2,7.9,8.9,8.1,-12.1,-17.4,-13.2,-16.8,-6.3,-9.5,-7.5,-8.8,-12.7,-15.2,-13.1,-14.2,0,-3.1,-1.8,-3.1,-50,-10.7,-50,-9.3,-4.6,-8.9,-5.9,-8.3,-50,-12.8,-9.6,-10.6,9.5,-3.2,8.2,-2.8],[-13.5,-11.3,-14,-12.9,-9.3,-7.1,-8.2,-8.9,-12.7,-10.3,-11.9,-12.3,-.4,1.4,-.6,-.4,-7.2,-4.7,-6.9,-5.7,-7.4,-3.7,-6.5,-6,-9.1,-5.3,-8.8,-7.4,7.9,11.9,7.8,9.3,-15.2,-15.1,-14.6,-17.2,-9.7,-7.3,-8.2,-9.2,-15,-12.8,-14.1,-14.9,-2.8,.2,-2.9,-2.3,-50,-7.4,-50,-8.7,-9.4,-7.3,-9.4,-9.4,-50,-8,-11.9,-9.7,6.5,.5,6.4,-1.8],[-13,-14.4,-11.9,-13.9,-7.7,-9,-6.7,-8.8,-11.7,-12.7,-10.7,-13.1,-.2,-1.6,1.7,-1.6,-5.7,-8.7,-4.8,-8.1,-5.3,-7.5,-3.3,-7.5,-9,-9.2,-6.5,-9.4,8.9,7.8,10.1,7.8,-14.3,-17.7,-13,-17.8,-8,-9.4,-6.2,-9.2,-15.1,-14.9,-12.2,-14.9,-1.8,-3.2,-.8,-3.2,-50,-10.8,-50,-9.9,-7.3,-9.6,-6.4,-9.4,-50,-12.3,-8.7,-11.3,7.6,-3.3,8.7,-2.9],[-12.5,-12.9,-13.4,-10,-8.5,-9,-7.8,-6.8,-11.8,-11.3,-12.4,-10.1,-.3,-.5,-.5,1.2,-6.1,-6,-6.7,-3.5,-5.9,-5.6,-5.5,-2.9,-9.5,-7.8,-8.5,-5.3,8.1,9.3,7.8,11.8,-14.4,-15.7,-14.5,-14.6,-8.4,-8.7,-7.9,-7.1,-14.3,-13.8,-13.8,-12.3,-2.4,-2.2,-2.9,-.2,-50,-8.9,-50,-7.1,-8.1,-9.1,-8.7,-6.6,-50,-9.7,-11.4,-8,6.8,-1.8,6.9,.4],[-2.6,-6.3,-4.9,-4.9,-6.4,-9.4,-7.9,-8.6,-6.3,-7.4,-8.2,-6.6,-9.7,-14.9,-11.1,-13.9,-.2,-8.2,-2.3,-6.8,-8.9,-11.1,-9.4,-10.9,-8.9,-11.7,-10,-9.9,-12.1,-15.2,-14.3,-14.4,11.1,2.9,9.2,3.5,-3,-7,-4.3,-6.2,-2.2,-6.6,-3.7,-5.7,-6,-10.4,-8.6,-9.5,-50,-15.5,-50,-13.9,-7.8,-10.5,-8.7,-9.6,-50,-16.5,-17.1,-14.8,-12.1,-18.9,-12.4,-17.4],[-8.5,.8,-9.1,-.7,-10.1,-7.5,-9.1,-8.2,-11.4,-3.1,-11.8,-4.4,-15.5,-14.3,-14.8,-15.4,-6.6,-4.7,-7.1,-5.8,-12.5,-10.3,-11,-12.2,-13.4,-10.6,-12.5,-11.8,-17.4,-15.1,-17.7,-15.7,2.9,12.5,3.1,10.3,-7.7,-5.2,-6.2,-7.3,-5.4,-1.7,-5.4,-3.7,-11.6,-9.1,-13,-10.8,-50,-10.3,-50,-11.2,-9.8,-8.3,-9.1,-9.7,-50,-12.7,-20.6,-13.1,-16,-16.6,-17,-18.4],[-5,-6.4,-3.4,-5.6,-7.5,-9.3,-7.1,-8.8,-8.8,-7.4,-6.9,-6.9,-11.4,-15.2,-9.7,-13.7,-1.8,-7.8,-.8,-7.2,-9.4,-10.6,-8.7,-11.2,-10,-10.1,-7.8,-10.5,-13.2,-14.6,-13,-14.5,9.2,3.1,10.8,3,-4.5,-6.7,-2.7,-6.7,-5,-6.8,-2.5,-6.7,-7.5,-10.4,-7.4,-10.2,-50,-15.5,-50,-14.2,-8.9,-10.2,-8.5,-10,-50,-15.6,-15.3,-15.5,-13,-18.8,-12.6,-18.3],[-8.1,-1.1,-8.9,1.4,-8.6,-9.2,-9.4,-6.8,-11,-4.9,-11.5,-2.6,-13.7,-16.8,-14.5,-12.6,-6,-6.7,-7.2,-4.2,-11.6,-11.9,-11.2,-10.9,-13.1,-12.2,-12.5,-10.3,-16.8,-17.2,-17.8,-14.6,3.5,10.3,3,12.4,-6.9,-7.5,-6.8,-4.9,-5.4,-4.2,-5.4,-1.3,-10.8,-11.5,-12.4,-8.2,-50,-12.5,-50,-8.9,-9.2,-10,-9.4,-7.9,-50,-14.3,-19.9,-11.4,-16.2,-19.2,-15.8,-15.9],[-6.3,-7.4,-8,-6,2.8,-.7,.9,.3,-7.5,-4.4,-8.4,-3.6,-3,-7.7,-3.7,-6.2,-5.3,-10,-7.2,-8.9,-.7,-3.2,-1.8,-2.4,-9.9,-11.7,-9.6,-9.9,-6.3,-9.7,-8,-8.4,-3,-7.7,-4.5,-6.9,11.3,8.2,9.4,9.1,-1,-3.3,-1.8,-2.4,1.5,-2.1,-.4,-1.1,-50,-14.5,-50,-12.9,2.8,-0,1.4,.7,-50,-8.7,-14.1,-7.5,-5.2,-12.5,-6.5,-10.7],[-9.9,-5,-10,-6.5,-.7,2.6,-.2,.1,-10.3,-1.8,-9.9,-3.8,-6.4,-4.7,-5.8,-6.7,-8.2,-8.3,-8,-10.2,-3.9,-1,-2.7,-2.9,-11.7,-8.8,-11,-10.1,-9.5,-7.3,-9.4,-8.7,-7,-5.2,-6.7,-7.5,8.2,11.6,8.8,9.1,-3.7,-.9,-3.1,-3,-2,1.2,-2.3,-1.3,-50,-12.1,-50,-12.6,.1,2.5,.7,.6,-50,-6,-14.8,-7.5,-8.6,-9.4,-8.5,-11.2],[-7.5,-6.2,-7.2,-6.2,.9,.2,2.5,.2,-8.3,-3.5,-7.1,-3.7,-4.1,-6.3,-3.1,-6.3,-5.7,-8.9,-5.6,-8.4,-2.3,-2.2,.7,-2.7,-9.8,-8.9,-7.1,-9.3,-7.5,-8.2,-6.2,-7.9,-4.3,-6.2,-2.7,-6.8,9.4,8.8,12.1,8.8,-2.1,-2,.1,-2.4,0,-1.1,1.3,-.8,-50,-11.9,-50,-12.6,1.2,.7,3.5,.8,-50,-7.1,-12.4,-7.1,-7.1,-10.6,-5,-10.6],[-9,-6.5,-10,-4.8,.1,-.1,-.3,2.4,-9.9,-3.5,-10.6,-2,-5.4,-6.6,-5.6,-4.4,-7.6,-9.9,-8.5,-8.2,-3,-2.8,-3,-.9,-12.8,-11.8,-10.7,-9.3,-8.8,-9.2,-9.2,-7.1,-6.2,-7.3,-6.7,-4.9,9.1,9.1,8.8,11.2,-3.1,-3,-3.3,-1,-1.1,-1.4,-2,1.2,-50,-12.8,-50,-10.9,.8,.5,.7,2.3,-50,-7.5,-16.5,-5.9,-7.8,-11.1,-7.8,-9],[-7.1,-5.6,-9.1,-5.1,-5.9,-8,-6.9,-7.4,-1.9,-1.6,-4.7,-1.4,-9.6,-14.6,-10.4,-13,-6.7,-10.8,-9.4,-9.9,-9.1,-10.5,-9.1,-10.4,-5.9,-9.3,-7.9,-8.1,-12.7,-15,-15.1,-14.3,-2.2,-5.4,-5,-5.4,-1,-3.7,-2.1,-3.1,12.8,9.6,11.1,10.1,-4.8,-9.4,-8.1,-8.6,-50,-18.3,-50,-15.4,-5.9,-7.5,-6.6,-7.1,-50,-9.5,-11.7,-8.4,-12.5,-17.3,-13.2,-15.4],[-10.2,-1.6,-10.2,-3.2,-7.3,-4.6,-6.5,-6.2,-6.7,3,-6.8,.8,-11.9,-10.8,-11.5,-12.2,-9.6,-7.1,-9.7,-8.4,-9.8,-8.1,-8.2,-9.7,-9.4,-5,-8,-7.2,-15.2,-12.8,-14.9,-13.8,-6.6,-1.7,-6.8,-4.2,-3.3,-.9,-2,-3,9.6,12.8,9.7,10.5,-8.5,-5.6,-9.3,-7.8,-50,-12.7,-50,-13.8,-6.8,-5.1,-5.3,-6.5,-50,-4.1,-12.8,-5.8,-14.4,-14.1,-13.6,-14.8],[-8.2,-4.7,-7.1,-5,-6.5,-7.7,-5.5,-6.9,-4.1,-.8,-1.2,-.9,-10.5,-12.8,-8.2,-13,-7.5,-10,-7.2,-9.7,-9.2,-9.4,-7.3,-10.2,-6.5,-8,-4.3,-8,-13.1,-14.1,-12.2,-13.8,-3.7,-5.4,-2.5,-5.4,-1.8,-3.1,.1,-3.3,11.1,9.7,12.9,9.8,-5.5,-8.1,-5.4,-7.8,-50,-16.4,-50,-14.8,-5.9,-7.1,-4.7,-7.2,-50,-8.4,-6.4,-8.1,-12.1,-16.2,-10.3,-15.8],[-9.2,-3,-9.9,-1.2,-6.5,-6.1,-6.8,-4.4,-6.4,.9,-7,3,-11.8,-13,-11.1,-10.4,-9.3,-9.2,-9.8,-6.4,-9.5,-9.5,-9.4,-8,-8.1,-8.2,-9.4,-5.2,-14.2,-14.9,-14.9,-12.3,-5.7,-3.7,-6.7,-1.3,-2.4,-3,-2.4,-1,10.1,10.5,9.8,13.1,-7.2,-8,-8.4,-5,-50,-14.7,-50,-11.4,-6.3,-6.7,-5.8,-5,-50,-6.1,-13.4,-3.6,-13,-16,-13.7,-13.3],[-8.2,-10.8,-10.1,-9.8,-.4,-3.6,-1.7,-2.9,-7.9,-8.4,-9.8,-8.2,6.2,2.3,.6,2.9,-7.1,-11.6,-9.2,-11.1,-5.6,-8.3,-7.2,-8.4,-10.7,-13.6,-11.4,-12,0,-2.8,-1.8,-2.4,-6,-11.6,-7.5,-10.8,1.5,-2,0,-1.1,-4.8,-8.5,-5.5,-7.2,11.9,8.6,10,9,-50,-14.2,-50,-12.8,-4.1,-7.4,-5.7,-6.5,-50,-11,-14.3,-9.9,1.4,-7.9,-.7,-6.8],[-12.5,-8.7,-13,-9.9,-3.9,-1,-3.4,-2.9,-12.5,-6.3,-11.6,-8.1,3.3,6,-1.6,3.8,-10.5,-10.1,-11.1,-11.1,-9,-6.9,-8.2,-9.1,-14,-11.4,-12.3,-12.1,-3.1,.2,-3.2,-2.2,-10.4,-9.1,-10.4,-11.5,-2.1,1.2,-1.1,-1.4,-9.4,-5.6,-8.1,-8,8.6,12.4,8.6,9.5,-50,-10.4,-50,-11.6,-7.2,-5.7,-7.5,-7.4,-50,-8.6,-15.7,-9.7,-3,-3.7,-3.2,-5.9],[-11.1,-11.9,-10.6,-11.3,-2.6,-4.1,-1.7,-3.5,-11.4,-9.6,-9.6,-9.2,3.7,2.5,1.6,2.5,-9.6,-12.3,-9.5,-11.8,-8,-9.4,-7.2,-9.3,-13.3,-12.8,-10.9,-12.6,-1.8,-2.9,-.8,-2.9,-8.6,-13,-7.4,-12.4,-.4,-2.3,1.3,-2,-8.1,-9.3,-5.4,-8.4,10,8.6,11.4,8.9,-50,-13.7,-50,-13.2,-6.1,-8.1,-5.5,-7.5,-50,-11.3,-12.7,-10.1,-1.6,-7.8,-.3,-7.2],[-11.4,-10,-12.7,-8.2,-3.1,-3.1,-2.8,-.9,-11.7,-7.3,-12.1,-5.8,3.6,3.6,-1.1,5.8,-9.4,-11.9,-10.7,-10,-8.5,-8.8,-8.2,-6.5,-13.9,-13,-12.9,-10.9,-3.1,-2.3,-3.2,-.2,-9.5,-10.8,-10.2,-8.2,-1.1,-1.3,-.8,1.2,-8.6,-7.8,-7.8,-5,9,9.5,8.9,12,-50,-13,-50,-10.3,-6.2,-7,-7.1,-5.4,-50,-9.3,-14,-8.2,-2.4,-6.3,-2.4,-3.9],[-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,33.3,-50,30.6,-50,-50,-50,-50,-50,29.2,-50,-50,-50,-50,-50,-50,-50],[-14.8,-6.2,-14.9,-7.6,-14.6,-11.6,-13,-12.2,-14,-9,-14.1,-10.1,-13.6,-11.2,-12.4,-12.5,-8.1,2.2,-8.7,.4,-15.3,-11.3,-13.2,-13.3,-11.9,-7.2,-11.8,-7.9,-10.7,-7.4,-10.8,-8.9,-15.5,-10.3,-15.5,-12.5,-14.5,-12.1,-11.9,-12.8,-18.3,-12.7,-16.4,-14.7,-14.2,-10.4,-13.7,-13,-50,15.1,-50,13.3,-9.9,-5.8,-8.9,-7.6,-50,-1.5,-7.8,-3,-8.1,3.6,-9.4,2],[-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,30.6,-50,35.2,-50,-50,-50,-50,-50,28.5,-50,-50,-50,-50,-50,-50,-50],[-13.8,-7.5,-14.4,-5.1,-12.6,-11.6,-11.5,-10.1,-13.2,-9.7,-12.7,-7.4,-11.9,-11.9,-11.5,-10.2,-7.2,.9,-8.6,2.6,-14.1,-12.8,-13.3,-11,-9.7,-8.4,-11.2,-5.3,-9.3,-8.7,-9.9,-7.1,-13.9,-11.2,-14.2,-8.9,-12.9,-12.6,-12.6,-10.9,-15.4,-13.8,-14.8,-11.4,-12.8,-11.6,-13.2,-10.3,-50,13.3,-50,15.2,-8.6,-7,-8.4,-4.8,-50,-3,-7.1,-.1,-7.3,2.3,-8.7,3.9],[-7.3,-6.3,-8.9,-5.5,2.9,.2,1.5,1.2,-8.5,-2.3,-10,-1.7,-5.6,-10.5,-5.5,-9.6,-4.3,-7.9,-6.1,-7.2,2.3,-.6,.5,-0,-8.9,-11,-9.4,-9.3,-4.6,-9.4,-7.3,-8.1,-7.8,-9.8,-8.9,-9.2,2.8,.1,1.2,.8,-5.9,-6.8,-5.9,-6.3,-4.1,-7.2,-6.1,-6.2,-50,-9.9,-50,-8.6,12.5,9.4,11,9.8,-50,-4.8,-8.7,-3.5,-0,-8.6,-2.1,-7],[-10.1,-4.3,-10.8,-5.8,.1,2.3,.7,.6,-10.4,-.2,-10.8,-2,-8.8,-9.2,-8,-9.7,-6.8,-5.9,-7.5,-7,-1.4,2.2,-.9,-.4,-10.8,-7.7,-9.8,-8.8,-8.9,-7.3,-9.6,-9.1,-10.5,-8.3,-10.2,-10,-0,2.5,.7,.5,-7.5,-5.1,-7.1,-6.7,-7.4,-5.7,-8.1,-7,-50,-5.8,-50,-7,9.4,12.7,10.1,10,-50,-1.5,-11.3,-3.3,-5.4,-4.2,-5.6,-6.8],[-8.4,-6.2,-8.9,-5.9,1.8,.4,2.7,1.2,-9.1,-1.2,-8.8,-1.5,-7.2,-10.5,-4.9,-9.6,-5.7,-7.4,-5.5,-7.4,.3,-.3,1.8,-.4,-9,-8.7,-7.3,-8.9,-5.9,-9.4,-6.4,-8.7,-8.7,-9.1,-8.5,-9.4,1.4,.7,3.5,.7,-6.6,-5.3,-4.7,-5.8,-5.7,-7.5,-5.5,-7.1,-50,-8.9,-50,-8.4,11,10.1,13.2,10.2,-50,-4.2,-6.1,-3.6,-3.5,-8.4,-1.2,-6.8],[-9.1,-5.4,-10.4,-4.2,1,.5,.6,2.4,-9.6,-1.5,-10.5,-.5,-8.9,-10.5,-7.2,-8.3,-6.3,-6.9,-7.7,-5.1,-.5,.1,-.6,2.3,-11.1,-10.2,-10.5,-7,-8.3,-9.4,-9.4,-6.6,-9.6,-9.7,-10,-7.9,.7,.6,.8,2.3,-7.1,-6.5,-7.2,-5,-6.5,-7.4,-7.5,-5.4,-50,-7.6,-50,-4.8,9.8,10,10.2,12.1,-50,-3.1,-11.4,-.7,-4.6,-6.6,-4.9,-3.9],[-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,29.2,-50,28.5,-50,-50,-50,-50,-50,33.3,-50,-50,-50,-50,-50,-50,-50],[-13,-7,-13.1,-8.3,-9.2,-6.5,-8.9,-7.6,-9.8,-.7,-9.2,-2.1,-12.4,-10.3,-12.4,-11.6,-9.5,-4.6,-10.4,-5.7,-13.6,-10.1,-11.4,-10.9,-6.5,-1.5,-6.2,-3.6,-12.8,-8,-12.3,-9.7,-16.5,-12.7,-15.6,-14.3,-8.7,-6,-7.1,-7.5,-9.5,-4.1,-8.4,-6.1,-11,-8.6,-11.3,-9.3,-50,-1.5,-50,-3,-4.8,-1.5,-4.2,-3.1,-50,16.4,-5.1,14.2,-10.1,-4.3,-10,-5.4],[-13.5,-16.3,-11.8,-15.5,-13.6,-15.3,-12.1,-16.1,-7.7,-13.3,-4.2,-12.6,-14.1,-16.2,-10.3,-15.4,-9.6,-11.6,-7.7,-9.8,-14.3,-17.5,-11.1,-17.2,-5.3,-7.1,-2.2,-7.1,-9.6,-11.9,-8.7,-11.4,-17.1,-20.6,-15.3,-19.9,-14.1,-14.8,-12.4,-16.5,-11.7,-12.8,-6.4,-13.4,-14.3,-15.7,-12.7,-14,-50,-7.8,-50,-7.1,-8.7,-11.3,-6.1,-11.4,-50,-5.1,18.6,-4.8,-8.6,-8.1,-4.5,-7.3],[-12.4,-8.2,-13,-5.9,-7.7,-7.8,-7.4,-5.8,-8.8,-2,-9.3,-.4,-11.6,-11.3,-11.6,-9.4,-8.9,-5.6,-10,-3.2,-11.5,-11.1,-10.5,-8.3,-6.3,-4.9,-6.7,-1.2,-10.6,-9.7,-11.3,-8,-14.8,-13.1,-15.5,-11.4,-7.5,-7.5,-7.1,-5.9,-8.4,-5.8,-8.1,-3.6,-9.9,-9.7,-10.1,-8.2,-50,-3,-50,-.1,-3.5,-3.3,-3.6,-.7,-50,14.2,-4.8,16.4,-8.9,-5.8,-8.9,-3.4],[-10.7,-13.2,-12.4,-11.6,-4.8,-8.4,-6.1,-7.2,-10.3,-11.8,-11,-11.6,2.8,-1.7,.7,-1.1,-6.2,-9.7,-7.3,-8.4,-5.3,-8.6,-6.1,-8.3,-10.5,-11.2,-9.8,-10.2,9.5,6.5,7.6,6.8,-12.1,-16,-13,-16.2,-5.2,-8.6,-7.1,-7.8,-12.5,-14.4,-12.1,-13,1.4,-3,-1.6,-2.4,-50,-8.1,-50,-7.3,-0,-5.4,-3.5,-4.6,-50,-10.1,-8.6,-8.9,13.2,-.9,9.7,-.3],[-18.1,-12.3,-19.4,-14.2,-12.2,-9.5,-11.5,-10.8,-17.9,-11.9,-18.2,-13.9,-6.4,-3.7,-6.8,-5.4,-12.8,-5.9,-13.6,-7.4,-13.7,-9.9,-12.9,-12.7,-16.2,-11.6,-15.2,-12.7,-3.2,.5,-3.3,-1.8,-18.9,-16.6,-18.8,-19.2,-12.5,-9.4,-10.6,-11.1,-17.3,-14.1,-16.2,-16,-7.9,-3.7,-7.8,-6.3,-50,3.6,-50,2.3,-8.6,-4.2,-8.4,-6.6,-50,-4.3,-8.1,-5.8,-.9,14.2,-1.8,11.6],[-11.8,-13.1,-11.5,-12,-6.2,-8.3,-5.4,-7.4,-11.8,-12.3,-11.1,-11.4,.5,-2.5,2.4,-1.6,-6.8,-9.9,-6.4,-8.9,-6.1,-8.6,-5,-7.8,-10.4,-11.6,-8.5,-9.9,8.2,6.4,8.7,6.9,-12.4,-17,-12.6,-15.8,-6.5,-8.5,-5,-7.8,-13.2,-13.6,-10.3,-13.7,-.7,-3.2,-.3,-2.4,-50,-9.4,-50,-8.7,-2.1,-5.6,-1.2,-4.9,-50,-10,-4.5,-8.9,9.7,-1.8,11.3,-.9],[-17.2,-13.3,-17.8,-11.6,-11,-11.1,-10.4,-9,-16,-12.7,-16.1,-11.1,-5.2,-5.4,-6,-3.3,-11.8,-7.3,-13.3,-5.9,-12.7,-11.9,-11.9,-9.3,-15.2,-15,-14.9,-11,-2.8,-1.8,-2.9,.4,-17.4,-18.4,-18.3,-15.9,-10.7,-11.2,-10.6,-9,-15.4,-14.8,-15.8,-13.3,-6.8,-5.9,-7.2,-3.9,-50,2,-50,3.9,-7,-6.8,-6.8,-3.9,-50,-5.4,-7.3,-3.4,-.3,11.6,-.9,14.1]];TRANS=[[5,0,0,4],[0,5,4,0],[0,4,5,0],[4,0,0,5]];CONBLO={A:0,R:1,N:2,D:3,C:4,Q:5,E:6,G:7,H:8,I:9,L:10,K:11,M:12,F:13,P:14,S:15,T:16,W:17,Y:18,V:19,B:20,Z:21,X:22,"*":23};CONNUCL={A:0,T:1,C:2,G:3};CONSCHN={AAA:0,AAC:1,AAG:2,AAT:3,ACA:4,ACC:5,ACG:6,ACT:7,AGA:8,AGC:9,AGG:10,AGT:11,ATA:12,ATC:13,ATG:14,ATT:15,CAA:16,CAC:17,CAG:18,CAT:19,CCA:20,CCC:21,CCG:22,CCT:23,CGA:24,CGC:25,CGG:26,CGT:27,CTA:28,CTC:29,CTG:30,CTT:31,GAA:32,GAC:33,GAG:34,GAT:35,GCA:36,GCC:37,GCG:38,GCT:39,GGA:40,GGC:41,GGG:42,GGT:43,GTA:44,GTC:45,GTG:46,GTT:47,TAA:48,TAC:49,TAG:50,TAT:51,TCA:52,TCC:53,TCG:54,TCT:55,TGA:56,TGC:57,TGG:58,TGT:59,TTA:60,TTC:61,TTG:62,TTT:63};fillNeedleman(){for(let e=0;e<=this.len1;e++)this.dpGrid[e][0].value=-e*this.gap,this.dpGrid[e][0].parentI=e-1,this.dpGrid[e][0].parentJ=0;for(let e=1;e<=this.len2;e++)this.dpGrid[0][e].value=-e*this.gap,this.dpGrid[0][e].parentI=0,this.dpGrid[0][e].parentJ=e-1}fillOne(e,t){this.dpGrid[e][t].value=Math.max(this.dpGrid[e-1][t-1].value+this.scores[e-1][t-1],Math.max(this.dpGrid[e-1][t].value-this.gap,this.dpGrid[e][t-1].value-this.gap)),this.dpGrid[e][t].value==this.dpGrid[e-1][t-1].value+this.scores[e-1][t-1]?(this.dpGrid[e][t].parentI=e-1,this.dpGrid[e][t].parentJ=t-1):this.dpGrid[e][t].value==this.dpGrid[e-1][t].value-this.gap?(this.dpGrid[e][t].parentI=e-1,this.dpGrid[e][t].parentJ=t):(this.dpGrid[e][t].parentI=e,this.dpGrid[e][t].parentJ=t-1)}gridFromName(e){switch(e){case"BLOSUM45":this.alignGrid=this.BLOSUM45,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM50":this.alignGrid=this.BLOSUM50,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM62":this.alignGrid=this.BLOSUM62,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM80":this.alignGrid=this.BLOSUM80,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM90":this.alignGrid=this.BLOSUM90,this.connections=this.CONBLO,this.step=1;break;case"PAM30":this.alignGrid=this.PAM30,this.connections=this.CONBLO,this.step=1;break;case"PAM70":this.alignGrid=this.PAM70,this.connections=this.CONBLO,this.step=1;break;case"PAM250":this.alignGrid=this.PAM250,this.connections=this.CONBLO,this.step=1;break;case"NUCLEOTIDES":this.alignGrid=this.NUCLEOTIDES,this.connections=this.CONNUCL,this.step=1;break;case"TRANS":this.alignGrid=this.TRANS,this.connections=this.CONNUCL,this.step=1;break;case"SCHNEIDER":this.alignGrid=this.SCHNEIDER,this.connections=this.CONSCHN,this.step=3}this.fillScores()}constructResult(e,t){let n="",i="",o="";const r=this.dpGrid[e][t].value;for(let e=0;e<this.step;e++)o+="|";for(;e>0||t>0;){this.dpGrid[e][t].parentI==e?(n=o+n,i=this.seq2.substr((t-1)*this.step,this.step)+i):this.dpGrid[e][t].parentJ==t?(i=o+i,n=this.seq1.substr((e-1)*this.step,this.step)+n):(n=e-1>=0?this.seq1.substr((e-1)*this.step,this.step)+n:o+n,i=t-1>=0?this.seq2.substr((t-1)*this.step,this.step)+i:o+i);const r=e;e=this.dpGrid[e][t].parentI,t=this.dpGrid[r][t].parentJ}return new ht(n,i,r)}fillScores(){this.scores=[];for(let e=0;e<this.len1;e++){this.scores.push([]);for(let t=0;t<this.len2;t++)this.scores[e].push(this.alignGrid[this.connections[this.seq1.substr(e*this.step,this.step)]][this.connections[this.seq2.substr(t*this.step,this.step)]])}}typeRec(){if(/[ATGC]*/.test(this.seq1)&&/[ATGC]*/.test(this.seq2))return"NUCLEOTIDES";if(/[ARNDCQEGHILKMFPSTWYVBZX*]*/.test(this.seq1)&&/[ARNDCQEGHILKMFPSTWYVBZX*]*/.test(this.seq2))return"BLOSUM62";throw Error("Can't recognize sequence type")}needlemanWunsch(){this.dpGrid=[];for(let e=0;e<this.len1+1;e++){const e=[];for(let t=0;t<this.len2+1;t++)e.push(new ut);this.dpGrid.push(e)}this.fillNeedleman();for(let e=1;e<=this.len1;e++)for(let t=1;t<=this.len2;t++)this.fillOne(e,t);return this.constructResult(this.len1,this.len2)}smithWaterman(){this.dpGrid=[];for(let e=0;e<this.len1+1;e++){const e=[];for(let t=0;t<this.len2+1;t++)e.push(new ut);this.dpGrid.push(e)}let e=0,t=0,n=0;for(let i=1;i<=this.len1;i++)for(let o=1;o<=this.len2;o++)this.fillOne(i,o),this.dpGrid[i][o].value<=0?(this.dpGrid[i][o].value=0,this.dpGrid[i][o].parentI=0,this.dpGrid[i][o].parentJ=0):0==this.dpGrid[this.dpGrid[i][o].parentI][this.dpGrid[i][o].parentJ].value&&(this.dpGrid[i][o].parentI=0,this.dpGrid[i][o].parentJ=0),this.dpGrid[i][o].value>e&&(e=this.dpGrid[i][o].value,t=i,n=o);return this.constructResult(t,n)}setSequences(e,t){this.seq1=e,this.seq2=t,this.len1=this.seq1.length/this.step,this.len2=this.seq2.length/this.step,this.fillScores()}setGap(e){this.gap=e}setMethod(e=""){"AUTO"==e&&(e=this.typeRec()),this.gridFromName(e)}constructor(e,t,n,i=""){this.setMethod(i),this.setSequences(e,t),this.setGap(n)}}async function mt(e,t,n="Morgan",i=1,o=.6){const r=e.length,s=To.seqHelper.getSeqHandler(e),l=Array(r);let c=1;const u=new Map,h=e.categories,d=e.getRawData();for(let t=0;t<r;t++){if(null==h[d[t]]||e.isNone(t)){l[t]=null;continue}l[t]="";const n=s.getSplitted(t);for(let e=0;e<n.length;e++){const i=n.getCanonical(e);u.has(i)||(u.set(i,String.fromCharCode(c)),c++),l[t]+=u.get(i)}}let m={};if(t===me.Z.MONOMER_CHEMICAL_DISTANCE||t===me.Z.NEEDLEMANN_WUNSCH){const e=Array.from(u.keys()),r=await async function(e,t="Morgan"){const n=(await(0,ve.pj)()).getMonomerLib(),i=new Array(e.length).fill(0).map(()=>new Array(e.length).fill(0)),o={},r=e.map(e=>n.getMonomer("PEPTIDE",e)?.molfile||n.getMonomer("PEPTIDE",e)?.smiles||""),s=a.Func.find({package:"Chem",name:"getFingerprints"})[0];if(!s)return console.warn('Function "Chem:getFingerprints" is not found in chem package. falling back to Morgan fingerprints'),await Te(e);const l=a.Column.fromStrings("smiles",r),c=(a.DataFrame.fromColumns([l]),(await s.apply({col:l,fingerprintType:t}))?.entries);if(!c)return console.warn(`${t} Fingerprints could not be calculated for monomers from chem package.\n falling back to Morgan fingerprints`),await Te(e);for(let t=0;t<c.length;++t)if(i[t][t]=1,o[e[t]]=t,c[t])for(let e=t+1;e<c.length;++e)c[e]&&(i[t][e]=i[e][t]=(0,H.$1)(c[t],c[e]));return{scoringMatrix:i,alphabetIndexes:o}}(e,n),s={};Object.entries(r.alphabetIndexes).forEach(([e,t])=>{s[u.get(e)]=t});const c=l.reduce((e,t)=>Math.max(e,t?.length||0),0);m={scoringMatrix:r.scoringMatrix,alphabetIndexes:s,maxLength:c},t===me.Z.NEEDLEMANN_WUNSCH&&(m.gapOpen=i,m.gapExtend=o)}return{seqList:l,options:m}}var pt=n(4954);function gt(e){const t=s.divH([],{style:{gap:"10px"}}),n=s.divV([s.divText(e.seqCol.name),s.divText(e.activityCol.name)]);return n.style.fontWeight="bold",n.style.display="flex",n.style.justifyContent="space-between",t.append(n),e.points.forEach(n=>{const i=s.divText(e.activityCol.get(n).toFixed(2));i.style.display="flex",i.style.justifyContent="left",i.style.paddingLeft="30px",t.append(s.divV([s.divText(e.seqCol.get(n)),i]))}),t}function ft(e){const t=s.div();t.append(s.divText(e.seqCol.name,{style:{fontWeight:"bold"}}));const n=new Array(2);e.points.forEach((t,i)=>{n[i]=e.activityCol.get(t)});const i={},o=To.seqHelper.getSeqHandler(e.seqCol),r=o.defaultBiotype,a=bt(o.getSplitted(e.points[0]),o.getSplitted(e.points[1]),r,i);return t.append(s.div(a,{style:{width:"300px",overflow:"scroll"}})),t.append(wt(i)),t.append(yt("Activity delta",Math.abs(n[0]-n[1]))),t.append(yt("Cliff",e.sali)),t}function yt(e,t){return s.divH([s.divText(`${e}: `,{style:{fontWeight:"bold",paddingRight:"5px"}}),s.divText(t.toFixed(2))],{style:{paddingTop:"10px"}})}function bt(e,t,n,i){const o=document.createElement("canvas"),r=o.getContext("2d");o.height=30;const s=To.monomerLib;return Xe(r,0,0,0,30,oe().count(0).take(e.length).map(t=>e.getCanonical(t)).toArray(),oe().count(0).take(t.length).map(e=>t.getCanonical(e)).toArray(),n,s,!0,i),o}function wt(e){const t=s.div();if(Object.keys(e).length>0){const n=s.divV([]);n.append(s.divH([s.divText("Pos",{style:{fontWeight:"bold",width:"30px",borderBottom:"1px solid"}}),s.divText("Difference",{style:{fontWeight:"bold",borderBottom:"1px solid"}})]));for(const t of Object.keys(e))e[t].style.borderBottom="1px solid lightgray",n.append(s.divH([s.divText((parseInt(t)+1).toString(),{style:{width:"30px",borderBottom:"1px solid lightgray"}}),e[t]]));t.append(n)}return t}function vt(e,t){const n=a.Column.string("seq_diff",e.rowCount).init(n=>`${e.get(t[0],n)}#${e.get(t[1],n)}`);n.semType="MacromoleculeDifference",n.meta.units=e.col(t[0]).meta.units,n.setTag(pe.gp.separator,e.col(t[0]).getTag(pe.gp.separator)),e.columns.add(n);const i=e.plot.grid();return i.col(t[0]).visible=!1,i.col(t[1]).visible=!1,i}class Tt extends a.JsViewer{constructor(e,t){super(),this.name="",this.semType="",this.initialized=!1,this.gridSelect=!1,this.maxLimit=100,this.recomputeOnCurrentRowChange=!0,this.skipRecomputingProperies=[],this.debounceTimer=null,this.computeRequested=!1,this.renderPromise=Promise.resolve(),this.limit=this.int("limit",10,{min:1,max:this.maxLimit}),this.targetColumnName=this.string("targetColumnName",null,{...t?{semType:t}:{},nullable:!1}),this.name=e,this.semType=t}init(){this.initialized=!0}detach(){this.subs.forEach(e=>e.unsubscribe())}async onTableAttached(){if(this.init(),this.dataFrame){this.subs.push(a.debounce(this.dataFrame.onRowsRemoved,50).subscribe(e=>this.render(!0)));const e="diversity"!==this.name;this.subs.push(a.debounce(this.dataFrame.onCurrentRowChanged,50).subscribe(t=>{this.gridSelect||this.render(e)})),this.subs.push(a.debounce(this.dataFrame.selection.onChanged,50).subscribe(e=>this.render(!1))),this.subs.push(a.debounce(s.onSizeChanged(this.root),50).subscribe(e=>this.render(!1))),this.targetColumnName??(this.targetColumnName=this.dataFrame.columns.bySemType(this.semType).name),this.targetColumn=this.dataFrame.col(this.targetColumnName),this.getProperty("limit").fromOptions({min:1,max:this.maxLimit})}this.render()}onPropertyChanged(e){if(super.onPropertyChanged(e),this.initialized){if("targetColumnName"===e.name){const t=this.dataFrame.col(e.get(this));t.semType===this.semType&&(this.targetColumn=t)}this.debouncedRender()}}debouncedRender(e=!0){this.debounceTimer&&clearTimeout(this.debounceTimer),this.debounceTimer=setTimeout(()=>{this.render(e),this.debounceTimer=null},100)}render(e=!0){this.renderPromise=this.renderPromise.then(async()=>{this.computeRequested=this.computeRequested||e,await this.renderInt(e)})}async renderInt(e){}beforeRender(){return!(!this.initialized||!this.targetColumnName||this.dataFrame&&this.targetColumnName&&this.dataFrame.col(this.targetColumnName).semType!==this.semType&&(r.shell.error(`${this.targetColumnName} is not ${this.semType} type`),1))}}class Ct extends Tt{distanceMetric;fingerprint;gapOpen;gapExtend;metricsProperties=["distanceMetric","fingerprint","gapOpen","gapExtend"];fingerprintChoices=["Morgan","RDKit","Pattern","AtomPair","MACCS","TopologicalTorsion"];distanceFunctionChoices=[me.Z.NEEDLEMANN_WUNSCH,me.Z.HAMMING,me.Z.LEVENSHTEIN,me.Z.MONOMER_CHEMICAL_DISTANCE];tags=[a.TAGS.UNITS,pe.gp.aligned,pe.gp.separator,pe.gp.alphabet,"cell.renderer"];preComputeDistanceMatrix=!1;requiresSampling=!1;constructor(e,t){super(e,t),this.distanceMetric=this.string("distanceMetric",me.Z.HAMMING,{choices:this.distanceFunctionChoices}),this.fingerprint=this.string("fingerprint",this.fingerprintChoices[0],{choices:this.fingerprintChoices}),this.gapOpen=this.float("gapOpen",1),this.gapExtend=this.float("gapExtend",.6)}async onTableAttached(){if(super.onTableAttached(),this.dataFrame){const e=this.dataFrame.rowCount;this.preComputeDistanceMatrix=e<=1e4,this.requiresSampling=e>1e4}}needsGapPenalties(){return this.distanceMetric===me.Z.NEEDLEMANN_WUNSCH}needsFingerprint(){return this.distanceMetric===me.Z.MONOMER_CHEMICAL_DISTANCE||this.distanceMetric===me.Z.NEEDLEMANN_WUNSCH}}const At={gapPenalty:1,matchScore:1,gapSymbol:we.b9[we.Hi.FASTA],localAlignment:!1};class Et extends Ct{seqHelper;cutoff;hotSearch;similarColumnLabel;sketchedMolecule="";curIdx=0;molCol=null;idxs=null;scores=null;gridSelect=!1;targetMoleculeIdx=0;computeCompleted=new u.Subject;distanceMatrixComputed=!1;mmDistanceMatrix;knn;kPrevNeighbors=0;demo;analysisGrid;subInited=!1;lastDistanceMetric="";lastFingerprint="";lastGapOpen=0;lastGapExtend=0;constructor(e,t){super("similarity",a.SEMTYPE.MACROMOLECULE),this.seqHelper=e,this.cutoff=this.float("cutoff",.01,{min:0,max:1}),this.hotSearch=this.bool("hotSearch",!0),this.similarColumnLabel=this.string("similarColumnLabel",null),this.demo=t}init(){this.hotSearch=!0,this.initialized=!0}async renderInt(e){if(this.beforeRender()&&this.targetColumn){this.curIdx=-1==this.dataFrame.currentRowIdx?0:this.dataFrame.currentRowIdx;const t=this.lastDistanceMetric!==this.distanceMetric||this.lastFingerprint!==this.fingerprint||this.lastGapOpen!==this.gapOpen||this.lastGapExtend!==this.gapExtend;if(e&&!this.gridSelect||t){this.targetMoleculeIdx=(this.dataFrame.currentRowIdx??-1)<0?0:this.dataFrame.currentRowIdx,await this.computeByMM();const e=null!=this.similarColumnLabel?this.similarColumnLabel:`similar (${this.targetColumn})`;this.molCol=a.Column.string(e,this.idxs.length).init(e=>this.targetColumn?.get(this.idxs?.get(e))),this.molCol.semType=a.SEMTYPE.MACROMOLECULE,this.tags.forEach(e=>this.molCol.setTag(e,this.targetColumn.getTag(e)));const t=a.DataFrame.fromColumns([this.idxs,this.molCol,this.scores]);await t.meta.detectSemanticTypes(),await r.data.detectSemanticTypes(t),this.molCol.temp["reference-sequence"]=this.targetColumn.get(this.targetMoleculeIdx),this.molCol.temp[".mm.cellRenderer.maxMonomerLength"]=4;let n=null;t.onCurrentRowChanged.subscribe(e=>{n&&clearTimeout(n),(t.currentRowIdx??-1)<0||(this.dataFrame.currentRowIdx=t.col("indexes").get(t.currentRowIdx),n=setTimeout(()=>{this.createPropertyPanel(t)},300),this.gridSelect=!0)}),this.analysisGrid?(this.analysisGrid.dataFrame=t,this.analysisGrid.invalidate()):(this.analysisGrid=t.plot.grid(),(0,He.Ku)(this.root,this.analysisGrid.root)),this.analysisGrid.col("indexes").visible=!1,(0,He.Kd)(this.analysisGrid,this.molCol.name,450,30,!0);const i=this.idxs?.getRawData().findIndex(e=>e==this.targetMoleculeIdx);this.analysisGrid.cell("score",i).cell.value=null;const o=r.shell.tv;this.subInited||(o.grid.root.addEventListener("click",e=>{this.gridSelect=!1}),this.subInited=!0),this.computeCompleted.next(!0)}}}async computeByMM(){const e=this.targetColumn.length,t=Math.min(this.limit,e-1);if(!this.knn||this.kPrevNeighbors!==t||this.lastDistanceMetric!==this.distanceMetric||this.lastFingerprint!==this.fingerprint||this.lastGapOpen!==this.gapOpen||this.lastGapExtend!==this.gapExtend){const e=this.distanceMetric,n=await mt(this.targetColumn,e,this.fingerprint,this.gapOpen,this.gapExtend),i=n.seqList,o=n.options;this.lastDistanceMetric=this.distanceMetric,this.lastFingerprint=this.fingerprint,this.lastGapOpen=this.gapOpen,this.lastGapExtend=this.gapExtend,this.kPrevNeighbors=t,this.knn=await(new F).getKNN(i,e,t,o)}const n=new Array(t).fill(0).map((e,t)=>({idx:this.knn.knnIndexes[this.targetMoleculeIdx][t],score:1-this.knn.knnDistances[this.targetMoleculeIdx][t]}));n.sort((e,t)=>t.score-e.score),n.unshift({idx:this.targetMoleculeIdx,score:a.FLOAT_NULL}),this.idxs=a.Column.int("indexes",t+1).init(e=>n[e].idx),this.scores=a.Column.float("score",t+1).init(e=>n[e].score)}createPropertyPanel(e){const t=s.div(),n={},i=this.molCol?.name,o=e.col(i),a=this.seqHelper.getSeqHandler(this.targetColumn),l=this.seqHelper.getSeqHandler(o),c=a.getSplitted(this.targetMoleculeIdx),u=l.getSplitted(e.currentRowIdx),h=function(e,t,n={}){const i={...At,...n};function o(e,t){return e===t?i.matchScore:-i.matchScore}const r=e.length,s=t.length,a=Array(r+1).fill(0).map(()=>Array(s+1).fill(0));let l=-9999,c=[1,1];for(let n=1;n<r+1;n++)for(let r=1;r<s+1;r++)a[n][r]=Math.max(0,a[n-1][r-1]+o(e.getCanonical(n-1),t.getCanonical(r-1)),a[n-1][r]-i.gapPenalty,a[n][r-1]-i.gapPenalty),a[n][r]>=l&&(l=a[n][r],c=[n,r]);let u=i.localAlignment?c[0]:r,h=i.localAlignment?c[1]:s,d=new Array(0),m=new Array(0);for(;u>0&&h>0;){const n=Math.max(a[u-1][h-1],a[u-1][h],a[u][h-1]);a[u][h]==a[u-1][h-1]+i.matchScore&&n==a[u-1][h-1]?(d.push(e.getCanonical(u-1)),m.push(t.getCanonical(h-1)),u-=1,h-=1):a[u][h]==a[u-1][h]-i.gapPenalty?(m.push(i.gapSymbol),d.push(e.getCanonical(u-1)),u-=1):a[u][h]==a[u][h-1]-i.gapPenalty?(d.push(i.gapSymbol),m.push(t.getCanonical(h-1)),h-=1):(d.push(e.getCanonical(u-1)),m.push(t.getCanonical(h-1)),u-=1,h-=1)}d=[...oe().count(0).take(u).map(t=>e.getCanonical(t)),...d.reverse(),...i.localAlignment?oe().count(c[0]).take(r).map(t=>e.getCanonical(t)):[]],m=[...oe().count(0).take(h).map(e=>t.getCanonical(e)),...m.reverse(),...i.localAlignment?oe().count(c[1]).take(s).map(e=>t.getCanonical(e)):[]];const p=u,g=h;return p>g?m=[...new Array(p-g).fill(i.gapSymbol.valueOf()),...m]:d=[...new Array(g-p).fill(i.gapSymbol.valueOf()),...d],m.length>d.length?d.push(...new Array(m.length-d.length).fill(i.gapSymbol.valueOf())):m.push(...new Array(d.length-m.length).fill(i.gapSymbol.valueOf())),{seq1:d.join(""),seq2:m.join(""),seq1Splitted:new ke.Mu(d,i.gapSymbol),seq2Splitted:new ke.Mu(m,i.gapSymbol)}}(c,u),d=bt(h.seq1Splitted,h.seq2Splitted,l.defaultBiotype,n);t.append(s.div(d,{style:{width:"300px",overflow:"scroll"}})),c.length!==u.length&&t.append(s.divV([s.divText("Different sequence length:",{style:{fontWeight:"bold"}}),s.divText(`target: ${c.length} monomers`),s.divText(`selected: ${u.length} monomers`)],{style:{paddingBottom:"10px"}})),t.append(wt(n));const m=s.accordion(),p=s.element("i");p.className="grok-icon svg-icon svg-view-layout",m.addTitle(s.span([p,s.label("Similarity search")])),m.addPane("Differences",()=>t,!0),r.shell.o=m.root}}class St extends Ct{seqHelper;diverseColumnLabel;renderMolIds=null;columnNames=[];computeCompleted=new u.Subject;sampledIndices=null;constructor(e){super("diversity",a.SEMTYPE.MACROMOLECULE),this.seqHelper=e,this.diverseColumnLabel=this.string("diverseColumnLabel",null)}async renderInt(e){if(this.beforeRender()&&this.dataFrame&&e&&this.targetColumn){await this.computeByMM();const e=null!=this.diverseColumnLabel?this.diverseColumnLabel:`diverse (${this.targetColumnName})`,t=a.Column.string(e,this.renderMolIds.length).init(e=>this.targetColumn?.get(this.renderMolIds[e]));t.semType=a.SEMTYPE.MACROMOLECULE,this.tags.forEach(e=>t.setTag(e,this.targetColumn.getTag(e)));const n=a.DataFrame.fromColumns([t]);t.temp[".mm.cellRenderer.maxMonomerLength"]=4,n.onCurrentRowChanged.subscribe(e=>{this.dataFrame.currentRowIdx=this.renderMolIds[n.currentRowIdx]});const i=n.plot.grid();(0,He.Kd)(i,t.name,450,30),(0,He.Ku)(this.root,i.root),this.computeCompleted.next(!0)}}async computeByMM(){const e=this.targetColumn.length;let t;this.requiresSampling&&e>1e4?(t=this.createRandomSample(e,1e4),this.sampledIndices=t):(t=Array.from({length:e},(e,t)=>t),this.sampledIndices=null);const n=this.distanceMetric,i=await mt(this.targetColumn,n,this.fingerprint,this.gapOpen,this.gapExtend),o=i.seqList,r=i.options,s=t.map(e=>o[e]),a=new k(!0,!1),l=await a.calc(s,n,!0,r);a.terminate();const c=t.length,u=(d=c,(e,t)=>d*e+t-Math.floor((e+2)*(e+1)/2)),h=function(e,t){function n(e,t){let n=null,i=null;for(const o of e){const e=t(o);(null==i||e>i)&&(n=o,i=e)}return n}const i=[(r=e-1,Math.floor(function(e){return Math.random()*e}(r)))],o=new Set;var r;for(let t=0;t<e;++t)i.includes(t)||o.add(t);for(;i.length<t;){const e=n(o.values(),e=>Math.min.apply(Math,i.map(function(t,n){return l[u(e,t)]})));null!=e&&(i.push(e),o.delete(e))}return i}(c,Math.min(c,this.limit));var d;this.renderMolIds=h.map(e=>t[e])}createRandomSample(e,t){const n=[];for(let t=0;t<e;t++)this.targetColumn.isNone(t)||n.push(t);if(n.length<=t)return n;for(let e=n.length-1;e>0;e--){const t=Math.floor(Math.random()*(e+1)),i=n[e];n[e]=n[t],n[t]=i}return n.slice(0,t)}}var Mt,Pt=n(5433),_t=n(3890),It=n(1687);!function(e){e.TYPE="V2000",e[e.NUM_OF_HEADER_LINES=3]="NUM_OF_HEADER_LINES",e[e.NUM_OF_COUNTS_DIGITS=3]="NUM_OF_COUNTS_DIGITS",e[e.ATOM_TYPE_COL=4]="ATOM_TYPE_COL",e[e.FIRST_BONDED_ATOM_COL=1]="FIRST_BONDED_ATOM_COL",e[e.BOND_TYPE_COL=3]="BOND_TYPE_COL",e[e.RGP_SHIFT=8]="RGP_SHIFT",e[e.MAX_ATOM_COUNT=999]="MAX_ATOM_COUNT",e.RGP_LINE_START="M RGP",e.ATOM_ALIAS_LINE_START="A ",e.END="M END"}(Mt||(Mt={}));class Lt{constructor(e){this.init(e)}init(e){this.fileContent=e.replace(/\r/g,""),this._atomCount=void 0,this._atomTypes=void 0,this._bondCount=void 0,this._bondTypes=void 0,this.xyzAtomCoordinates=void 0,this._pairsOfBondedAtoms=void 0}get atomCount(){return void 0===this._atomCount&&this.setAtomAndBondCounts(),this._atomCount}get bondCount(){return void 0===this._bondCount&&this.setAtomAndBondCounts(),this._bondCount}get x(){var e;return null!==(e=this.xyzAtomCoordinates)&&void 0!==e||(this.xyzAtomCoordinates=this.parseAtomCoordinates()),this.xyzAtomCoordinates.x}get y(){var e;return null!==(e=this.xyzAtomCoordinates)&&void 0!==e||(this.xyzAtomCoordinates=this.parseAtomCoordinates()),this.xyzAtomCoordinates.y}get z(){var e;return null!==(e=this.xyzAtomCoordinates)&&void 0!==e||(this.xyzAtomCoordinates=this.parseAtomCoordinates()),this.xyzAtomCoordinates.z}get atomTypes(){var e;return null!==(e=this._atomTypes)&&void 0!==e||(this._atomTypes=this.parseAtomTypes()),this._atomTypes}get pairsOfBondedAtoms(){var e;return null!==(e=this._pairsOfBondedAtoms)&&void 0!==e||(this._pairsOfBondedAtoms=this.parseBondedAtomPairs()),this._pairsOfBondedAtoms}get bondTypes(){var e;return null!==(e=this._bondTypes)&&void 0!==e||(this._bondTypes=this.parseBondTypes()),this._bondTypes}setAtomAndBondCounts(){const{atomCount:e,bondCount:t}=this.parseAtomAndBondCounts();this._atomCount=e,this._bondCount=t}getNextColumnIdx(e){for(;!this.isWhitespace(e);)++e;for(;this.isWhitespace(e);)++e;return e}shiftIdxToSpecifiedColumn(e,t){let n=e;const i=this.isWhitespace(n)?t:t-1;for(let e=0;e<i;e++)n=this.getNextColumnIdx(n);return n}parseAtomTypes(){const e=this.atomCount,t=new Array(e);let n=this.getAtomBlockIdx();for(let i=0;i<e;i++)n=this.shiftIdxToAtomType(n),t[i]=this.parseAtomType(n),n=this.getNextLineIdx(n);return t}parseAtomCoordinates(){const e=new Float32Array(this.atomCount),t=new Float32Array(this.atomCount),n=new Float32Array(this.atomCount);let i=this.getAtomBlockIdx();for(let o=0;o<this.atomCount;o++){i=this.shiftIdxToXColumn(i);for(const r of[e,t,n])r[o]=this.parseFloatValue(i),i=this.getNextColumnIdx(i);i=this.getNextLineIdx(i)}return{x:e,y:t,z:n}}parseBondedAtomPairs(){const e=new Array(this.bondCount);let t=this.getBondBlockIdx();for(let n=0;n<this.bondCount;n++){t=this.shiftIdxToBondedAtomsPair(t);const i=new Uint16Array(2);i[0]=this.parseIntValue(t),t=this.getNextColumnIdx(t),i[1]=this.parseIntValue(t),e[n]=i,t=this.getNextLineIdx(t)}return e}parseBondTypes(){const e=this.bondCount,t=new Uint16Array(e);let n=this.getBondBlockIdx();for(let i=0;i<e;i++)n=this.shiftIdxToBondType(n),t[i]=this.parseIntValue(n),n=this.getNextLineIdx(n);return t}isWhitespace(e){const t=this.fileContent[e];return" "===t||"\t"===t}getNextLineIdx(e){return"\n"!==this.fileContent[e]?this.fileContent.indexOf("\n",e)+1:e+1}parseFloatValue(e){return this.parseNumericValue(parseFloat,e)}parseIntValue(e){return this.parseNumericValue(parseInt,e)}parseNumericValue(e,t){let n=t+1;for(;!this.isWhitespace(n);)++n;return e(this.fileContent.substring(t,n))}}class xt extends Lt{constructor(e){super(e),this.init(e)}init(e){super.init(e)}parseAtomType(e){let t=e,n=t;return this.isQuote(t)?(n=this.getNextIdenticalChar(t),t++):n=this.fileContent.indexOf(" ",n),this.fileContent.substring(t,n)}isQuote(e){const t=this.fileContent[e].charCodeAt(0);return 39===t||34===t}getNextIdenticalChar(e){const t=this.fileContent[e];return t?this.fileContent.indexOf(t,e+1):-1}isQuery(){return this.isQueryOrFragment((e,t)=>{return 39===e||34===e||76===e&&!((n=this.fileContent.charCodeAt(t+1))>64&&n<91||n>96&&n<123);var n})}isFragment(){return this.isQueryOrFragment(e=>82===e||42===e)}isQueryOrFragment(e){const t=this.atomCount;let n=this.getAtomBlockIdx();for(let i=0;i<t;i++){if(n=this.shiftIdxToAtomType(n),e(this.fileContent.charCodeAt(n),n))return!0;n=this.getNextLineIdx(n)}return!1}}class Nt extends xt{constructor(e){super(e)}getAtomLines(){const e=this.getAtomBlockIdx(),t=this.getBondBlockIdx();return this.fileContent.substring(e,t).split("\n").slice(0,this.atomCount)}getBondLines(){const e=this.getBondBlockIdx();return this.fileContent.substring(e).split("\n").slice(0,this.bondCount)}getRGroupIdToAtomicIdxMap(){const e=new Map,t=this.fileContent.split("\n");t.filter(e=>e.startsWith(Mt.RGP_LINE_START)).forEach(t=>{const n=this.getAtomIdxToRgpIdxList(t);for(const[t,i]of n){if(e.has(t))throw new Error(`R group ${t} is already in the map`);e.set(t,i)}});const n=t.map((e,t)=>{if(e.startsWith(Mt.ATOM_ALIAS_LINE_START))return t}).filter(e=>void 0!==e),i=n.map(e=>t[e]),o=n.map(e=>t[e+1]);i.forEach((t,n)=>{const i=parseInt(t.split(/\s+/)[1])-1,r=parseInt(o[n].substring(1));if(e.has(r))throw new Error(`R group ${r} is already in the map`);e.set(r,i)});const r=this.getRGroupAtomicIndices().filter(t=>!Array.from(e.values()).includes(t));if(0!==r.length)throw new Error(`Unaccounted R group indices: ${r}`);return e}getAtomIdxToRgpIdxList(e){const t=e.split(/\s+/).filter(e=>e).slice(3).map(e=>parseInt(e)),n=new Array(t.length/2);for(let e=0;e<t.length;e+=2)n[e/2]=[t[e+1],t[e]-1];return n}getRGroupAtomicIndices(){return this.atomTypes.map((e,t)=>{if(e.includes("R#"))return t}).filter(e=>void 0!==e)}static isValidMolfile(e){return-1!==e.indexOf(Mt.TYPE)&&-1!==e.indexOf(Mt.END)}shiftIdxToAtomType(e){return this.shiftIdxToSpecifiedColumn(e,Mt.ATOM_TYPE_COL)}getCountsLineIdx(){let e=0;for(let t=0;t<Mt.NUM_OF_HEADER_LINES;++t)e=this.getNextLineIdx(e);return e}getAtomBlockIdx(){let e=this.getCountsLineIdx();return e=this.getNextLineIdx(e),e}shiftIdxToXColumn(e){return this.getNextColumnIdx(e)}shiftIdxToBondedAtomsPair(e){return this.shiftIdxToSpecifiedColumn(e,Mt.FIRST_BONDED_ATOM_COL)}shiftIdxToBondType(e){return this.shiftIdxToSpecifiedColumn(e,Mt.BOND_TYPE_COL)}getBondBlockIdx(){let e=this.getAtomBlockIdx();for(let t=0;t<this.atomCount;t++)e=this.getNextLineIdx(e);return e}parseAtomAndBondCounts(){let e=this.getCountsLineIdx(),t=e+Mt.NUM_OF_COUNTS_DIGITS;const n=parseInt(this.fileContent.substring(e,t));return e=t,t+=Mt.NUM_OF_COUNTS_DIGITS,{atomCount:n,bondCount:parseInt(this.fileContent.substring(e,t))}}}class Rt extends xt{constructor(e){super(e),this.init(e)}getAtomLines(){const e=this.getAtomBlockIdx(),t=this.getBondBlockIdx();return this.fileContent.substring(e,t).split("\n").slice(0,this.atomCount)}getBondLines(){const e=this.getBondBlockIdx();return this.fileContent.substring(e).split("\n").slice(0,this.bondCount)}getRGroupIdToAtomicIdxMap(){const e=new Map;return this.getAtomLines().forEach((t,n)=>{const i=t.match(/RGROUPS=\(([\d\s]+)\)/);if(i){const t=i[1].split(/\s+/).map(e=>parseInt(e));if(t.length>2)throw new Error(`R group data ${t} has more than 2 elements`);const o=t[1];if(e.has(o))throw new Error(`R group ${o} is already in the map`);e.set(o,n)}}),e}shiftIdxToAtomType(e){return this.shiftIdxToSpecifiedColumn(e,4)}getCountsLineIdx(){return this.fileContent.indexOf("M V30 COUNTS ")}getAtomBlockIdx(){let e=this.fileContent.indexOf("M V30 BEGIN ATOM");return e=this.getNextLineIdx(e),e}shiftIdxToXColumn(e){let t=this.shiftIdxToAtomType(e);return this.isQuote(t)?(t=this.getNextIdenticalChar(t),t=this.getNextColumnIdx(t),t):this.shiftIdxToSpecifiedColumn(e,5)}shiftIdxToBondedAtomsPair(e){return this.shiftIdxToSpecifiedColumn(e,5)}shiftIdxToBondType(e){return this.shiftIdxToSpecifiedColumn(e,4)}getBondBlockIdx(){return this.getNextLineIdx(this.fileContent.indexOf("M V30 BEGIN BOND"))}static isValidMolfile(e){return-1!==e.indexOf("V3000")&&-1!==e.indexOf("M END")}parseAtomAndBondCounts(){let e=this.fileContent.indexOf("M V30 COUNTS ")+14,t=this.fileContent.indexOf(" ",e+1);const n=parseInt(this.fileContent.substring(e,t));return e=t+1,t=this.fileContent.indexOf(" ",e+1),{atomCount:n,bondCount:parseInt(this.fileContent.substring(e,t))}}}class $t{constructor(){}static getInstance(e){if($t.isMolfileV2K(e))return new Nt(e);if($t.isMolfileV3K(e))return new Rt(e);throw new Error("Malformed molfile")}static isMolfileV2K(e){return Nt.isValidMolfile(e)}static isMolfileV3K(e){return Rt.isValidMolfile(e)}}var Ht=n(6197),Ot=n(9124),Dt=n(3527);class kt{biotype;id;n;m;type;mt;smiles;get issmiles(){return!!this.smiles}at={R1:"H",R2:"H",R3:"H",R4:"H",R5:"H",R6:"H",R7:"H",R8:"H",R9:"H"};get rs(){return Object.keys(this.at).length}constructor(e,t,n="missing",i=void 0,o=void 0,r=void 0,s){if(this.biotype=e,this.id=t,this.n=n,this.m=i,this.type=o,this.mt=r,this.smiles=s,!this.id)throw new Error("Invalid arg undefined [id].")}static objCounter=-1;objId=++kt.objCounter;className="WebEditorMonomerDummy";toLog(){return`Helm: ${this.className}<${this.objId}>`}}class Ft extends kt{backgroundcolor="#808080";linecolor="#000000";textcolor="#000000";constructor(e,t,n,i,o){super(e,t,i,void 0,void 0,void 0,n),this.at={},o.forEach(e=>{this.at[e]="H"})}}class Gt extends kt{backgroundcolor="#FFFFFF";linecolor="#808080";textcolor="#808080";constructor(e){super(e,"*","gap")}}class Bt extends kt{backgroundcolor="#808080";linecolor="#000000";textcolor="#000000";constructor(e,t){super(e,t,"ambiguous")}}class Vt extends kt{backgroundcolor="#FF4444";linecolor="#800000";textcolor="#FFFFFF";constructor(e,t,n){super(e,t,"missing"),n&&(this.backgroundcolor="#C0C0C0",this.linecolor="#404040",this.textcolor="#404040")}}class Ut extends kt{backgroundcolor="#FFFF44";linecolor="#800000";textcolor="#000000";constructor(e,t){super(e,t,"broken")}}class Wt{id;m;n;na;type;mt;at;smiles;get rs(){return Object.keys(this.at).length}get issmiles(){return!!this.smiles}linecolor;backgroundcolor;textcolor;constructor(e,t,n,i,o,r,s,a){this.id=e,this.m=t,this.n=n,this.na=i,this.type=o,this.mt=r,this.at=s,this.smiles=a}static fromMonomer(e,t,n){let i={};const o=t.symbol,r=t.smiles;if(t.rgroups.length>0)t.rgroups.forEach(e=>{i[e.label]=e.capGroupName});else{if(!r){if(t.lib)return new Ut(e,o);throw new Error("Unexpected missing monomer without .lib")}i=n.getRS(r)}const s=new Wt(t.symbol,t.molfile,t.name,t.naturalAnalog,t.polymerType,t.monomerType,i),a=n.getMonomerColors(e,t.symbol);return a&&(s.textcolor=a?.textcolor,s.linecolor=a?.linecolor,s.backgroundcolor=a?.backgroundcolor),s}}const qt={[Be.o.BASE]:{A:"#20E040",G:"#040404",T:"#FF8080",C:"#2060FF",U:"#FF8080"},[Be.o.NUCLEOTIDE]:{A:"#20E040",G:"#040404",T:"#FF8080",C:"#2060FF",U:"#FF8080"},[Be.o.LINKER]:{P:"#9aa5e1",p:"#9aa5e1"},[Be.o.SUGAR]:{R:"#7a85c1",r:"#7a85c1"},[Be.o.AA]:{A:"rgb(44,160,44)",R:"rgb(23,190,207)",N:"rgb(235,137,70)",D:"rgb(31,119,180)",C:"rgb(188,189,34)",E:"rgb(31, 120, 150)",Q:"rgb(205, 111, 71)",G:"rgb(214,39,40)",H:"rgb(158,218,229)",I:"rgb(23,103,57)",L:"rgb(30,110,96)",K:"rgb(108, 218, 229)",M:"rgb(60,131,95)",F:"rgb(24,110,79)",P:"rgb(255,152,150)",S:"rgb(255,187,120)",T:"rgb(245,167,100)",W:"rgb(182, 223, 138)",Y:"rgb(152,223,138)",V:"rgb(74,160,74)"},[Be.o.CHEM]:{R:"#eeeeee"},[Be.o.BLOB]:{B:"#999999",G:"#e2e2e2"}};class Yt{constructor(e,t=[],n={}){this.onItemChanged=new u.Subject,this.onAddingItemChanged=new u.Subject,this.onItemAdded=new u.Subject,this.onItemRemoved=new u.Subject,this.options={removeButtonTooltip:"Remove item",addButtonTooltip:"Add item",allowAdd:!0,allowRemove:!0},this.addingItemInputs={},this.properties=e,this.options=Object.assign(Object.assign({},this.options),n),this._root=s.divV([],{style:{display:"grid",gridTemplateColumns:`repeat(${this.properties.length}, 1fr)`,alignItems:"center",gap:"12px"},classes:"ui-items-grid"}),this._items=t,this.render()}get root(){return this._root}get items(){return this._items}set items(e){this._items=e,this.render()}addItem(e,t=!0){this._items.push(e),this.render(),t&&this.onItemAdded.next(e)}removeItem(e,t=!0){-1!==this._items.indexOf(e)&&(this._items.splice(this._items.indexOf(e),1),this.render(),t&&this.onItemRemoved.next(e))}removeAtIndex(e,t=!0){if(e<0||e>=this._items.length)return;const n=this._items.splice(e,1);this.render(),t&&this.onItemRemoved.next(n[0])}removeAllItems(){this._items=[],this.render()}render(){var e,t,n,i,o;if(s.empty(this._root),!this.options.horizontalInputNames)for(const n of this.properties){let i=null!==(e=n.caption)&&void 0!==e?e:n.name;(null===(t=this.options.customLabels)||void 0===t?void 0:t[n.name])&&(i=this.options.customLabels[n.name]);const o=s.divText(i);o.style.fontWeight="bold",this._root.appendChild(o)}for(const e of this._items){const t=this.getItemDiv(e);for(const e of t)this._root.appendChild(e)}if(this.options.allowAdd){const e=this.getItemDiv(null!==(o=null===(i=(n=this.options).newItemFunction)||void 0===i?void 0:i.call(n))&&void 0!==o?o:void 0,!0);for(const t of e)this._root.appendChild(t)}}get addingItem(){const e={};return Object.keys(this.addingItemInputs).forEach(t=>{e[t]=this.addingItemInputs[t].value}),e}getItemDiv(e={},t){var n,i;const o=[],r={};let l=null;for(const c of this.properties){void 0===e[c.name]&&(e[c.name]=null);const u=(null===(n=this.options.customInputs)||void 0===n?void 0:n[c.name])?this.options.customInputs[c.name](e):s.input.forProperty(c,e),h=null===(i=this.options.validators)||void 0===i?void 0:i[c.name];h&&u.addValidator(h),o.push(this.options.horizontalInputNames?u.root:this.hideLabel(u.root)),c.propertyType!==a.TYPE.BOOL&&"color"!==c.name.toLowerCase()&&u.input&&(u.input.style.width="100%"),r[c.name]=u,u.onChanged.subscribe(()=>{e[c.name]=u.value,t?this.onAddingItemChanged.next({item:e,fieldName:c.name}):this.onItemChanged.next({item:e,fieldName:c.name})}),u.root.style.alignItems="center",l=u}let c=null;if(t)this.addingItemInputs=r,c=s.icons.add(()=>{const e=this.options.newItemFunction?this.options.newItemFunction():{};Object.keys(r).forEach(t=>{e[t]=r[t].value}),this._items.push(e),this.onItemAdded.next(e),this.render()},this.options.addButtonTooltip);else{if(!this.options.allowRemove)return o;c=s.icons.delete(()=>{this._items.splice(this._items.indexOf(e),1),this.onItemRemoved.next(e),this.render()},this.options.removeButtonTooltip)}return l&&l.addOptions?l.addOptions(c):null==l||l.root.appendChild(c),c.style.color="#2083d5",o}hideLabel(e){return e.getElementsByTagName("label")[0]&&e.removeChild(e.getElementsByTagName("label")[0]),e}hasErrors(){return this._root.querySelectorAll(".d4-invalid").length>0}}const jt={A:new V.A(new Uint32Array([2,0,0,0,16,0,0,0,134217728,0,0,0,32,0,33554432,0,0,0,0,0,1024,0,0,0,262144,128,0,0,0,0,0,0,0,2,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1048576,0,536870912,0,0,0,0]),2048),C:new V.A(new Uint32Array([2,0,65536,0,0,0,0,32,0,0,2,0,32,0,0,0,0,0,0,0,1024,0,0,0,262144,128,0,0,0,0,0,0,0,65536,0,0,524288,0,0,0,0,0,0,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,34603008,0,536870912,64,0,0,0]),2048),D:new V.A(new Uint32Array([2,0,65600,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,0,262400,128,0,0,0,0,0,0,0,0,0,2097152,524288,0,0,0,1024,0,0,0,524288,0,0,0,0,0,0,0,0,0,512,0,0,34603008,0,536870912,0,0,0,0]),2048),E:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,8,262144,128,0,0,16,134217728,0,0,0,0,0,0,524288,0,0,0,128,0,0,0,524288,0,0,0,268435456,0,0,0,0,0,512,2147483648,0,34603008,0,536870912,0,0,0,0]),2048),F:new V.A(new Uint32Array([2,0,98304,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,0,262144,128,33554432,0,0,0,0,33554432,0,1024,1,0,524288,32768,32,0,0,0,0,16,524288,0,0,0,0,0,0,0,0,0,71303168,0,0,34603008,131072,536870912,0,0,0,0]),2048),G:new V.A(new Uint32Array([134217728,0,65536,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,0,0,128,0,0,0,0,2097216,0,0,0,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,512,0,0,0,0,536870912,0,0,0,0]),2048),H:new V.A(new Uint32Array([2,0,1073840128,0,0,0,0,0,0,0,0,67108864,32,0,0,0,0,0,0,0,1024,0,512,0,262144,192,0,268435456,0,0,8200,0,0,0,67108864,0,524296,0,32,0,0,0,0,16,524288,0,0,2147483648,0,0,8,0,0,0,0,0,0,34603008,131072,536870920,4194304,0,0,0]),2048),I:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,150994944,64,0,0,32,0,0,0,0,0,0,0,1024,0,8388608,0,327680,128,0,0,0,0,0,0,0,2,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,256,0,0,0,0,8388608,0,33554432,0,1048576,0,536870912,0,0,0,0]),2048),K:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,0,0,0,0,268435488,0,0,0,0,0,0,0,1024,0,0,8,262144,128,0,0,0,0,2097152,0,0,67108864,0,0,524288,0,0,0,8,0,0,0,524288,0,0,8192,0,0,0,0,0,0,0,2147483648,0,34668544,0,545259520,0,0,0,0]),2048),L:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,134217728,0,0,0,32,512,0,0,0,0,0,0,1024,256,0,8388608,262400,128,0,0,0,0,0,0,0,2,0,0,524288,0,0,0,0,0,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,42991616,0,536870912,0,0,0,0]),2048),M:new V.A(new Uint32Array([2050,0,65536,1048576,0,0,0,0,0,0,0,0,1056,0,0,0,0,0,0,0,1024,0,0,8,262144,128,0,0,0,0,0,536870912,0,2,0,0,1074266112,0,0,0,0,0,0,0,524288,0,0,0,4194304,0,0,0,0,0,0,2147483648,0,34603008,0,536870912,4194304,0,0,0]),2048),N:new V.A(new Uint32Array([2,0,65536,0,4096,0,0,0,0,0,0,16777216,32,0,0,0,0,0,0,0,1024,0,0,0,262400,128,0,0,0,0,0,0,0,0,0,0,524288,0,0,0,1024,0,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,34603008,0,536871936,67108864,0,0,0]),2048),P:new V.A(new Uint32Array([0,0,1024,0,0,0,0,0,0,131072,0,1024,32,0,0,0,0,512,0,0,1024,0,0,64,0,128,0,0,1073741824,0,0,138412032,16,0,67108864,0,0,0,0,0,0,8192,0,0,8388608,0,0,8,0,0,0,0,0,0,256,0,0,0,0,553648128,0,0,0,0]),2048),Q:new V.A(new Uint32Array([2,0,65536,0,4096,0,0,0,0,0,0,0,32,0,0,0,0,2,0,0,1024,0,0,8,262144,128,0,0,16,0,0,0,0,0,0,0,524288,0,0,0,0,0,0,0,524288,0,0,0,268435456,0,0,0,0,0,16777216,2147483648,0,34603008,0,536871936,0,0,0,0]),2048),R:new V.A(new Uint32Array([2,0,65536,0,4096,0,32,0,0,0,0,0,268435488,0,0,0,0,0,0,32768,134218752,0,16,8,262144,128,0,1073741824,0,0,8388608,0,0,0,65536,0,524289,0,0,0,0,0,0,0,524288,2048,0,0,0,0,0,0,0,0,0,2147483648,0,34603008,1048576,545259520,0,0,0,0]),2048),S:new V.A(new Uint32Array([2,0,65536,0,0,0,1073741824,0,0,0,0,0,32,0,0,4,0,0,0,0,1024,0,0,0,262144,128,0,0,0,0,0,0,0,0,0,0,524288,0,0,1048576,0,0,0,0,524288,0,0,0,0,0,0,0,0,0,8388608,0,0,34603008,0,536870912,0,0,0,0]),2048),T:new V.A(new Uint32Array([2,0,0,0,0,0,0,8,134217728,0,0,67108864,32,0,0,0,0,0,0,0,1024,0,8388608,0,262144,128,0,0,0,0,0,0,0,2,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,536870912,0,0,0,0,1048576,67108864,536870912,0,0,0,0]),2048),V:new V.A(new Uint32Array([2,0,0,0,0,0,0,0,134217728,0,0,0,32,0,0,0,0,0,0,0,1024,0,8388608,0,262144,128,0,0,0,0,0,1073741824,128,2,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,8192,0,1048576,0,536870912,0,0,0,0]),2048),W:new V.A(new Uint32Array([2,0,98304,8388608,0,0,0,0,0,0,256,4096,32,0,0,0,0,0,0,0,1024,0,0,0,262144,192,0,0,0,0,0,0,0,0,67108865,0,524288,32768,32,0,0,0,8224,16,524288,0,0,0,0,32,128,0,2097152,0,4194304,8388608,0,34603008,8519680,536870912,131072,262144,0,0]),2048),Y:new V.A(new Uint32Array([2,0,98304,0,0,0,0,0,0,4194304,0,0,32,0,0,0,0,0,0,0,1024,0,0,512,262144,128,33554432,0,0,0,0,33554432,0,0,0,0,524288,0,32,0,0,2,0,16,524288,0,0,0,0,0,4,0,0,0,71303168,262144,0,34603008,131072,536870912,0,0,0,0]),2048)},Kt={RNA:{A:new V.A(new Uint32Array([0,0,0,0,0,0,0,0,0,1024,0,67108864,0,0,0,512,0,0,0,8388608,0,0,512,0,0,64,4,0,0,0,4,0,0,0,67108864,0,524289,0,0,0,0,0,0,16,0,659456,0,256,0,16,0,0,0,268435456,0,0,262144,0,131072,0,0,0,8388608,0]),2048),C:new V.A(new Uint32Array([0,1073741824,0,0,0,0,0,2147483648,4,67108864,0,67108864,0,256,0,0,0,0,0,0,1024,0,128,0,0,64,0,0,0,0,0,0,0,0,67108864,0,524289,0,65536,0,0,0,0,16,0,131072,0,4,0,0,0,0,0,0,4194304,0,0,2147483648,131072,0,4096,0,0,0]),2048),G:new V.A(new Uint32Array([0,0,0,0,1024,0,0,0,0,67109888,16384,67108864,0,0,0,0,0,0,0,33562624,1024,33554432,512,16384,0,64,4,0,0,33554432,0,0,0,0,67108864,0,524289,0,0,0,0,0,0,16,0,135168,0,268435456,0,0,0,0,0,268435456,131072,0,0,2147483648,131072,0,0,0,8388608,0]),2048),T:new V.A(new Uint32Array([8388608,0,0,0,0,0,0,0,0,67108864,0,0,0,4,0,0,0,0,0,0,1024,0,0,16384,0,64,0,0,0,0,0,0,0,2,67108864,0,0,0,0,0,0,0,0,40976,0,0,0,0,0,0,0,0,0,67108864,131072,524288,0,0,8519680,0,1,33554432,1048576,0]),2048),U:new V.A(new Uint32Array([0,0,131072,1073741824,0,0,0,0,0,67108864,0,0,0,0,0,0,0,0,0,0,1024,0,128,0,0,64,0,0,0,0,0,0,0,32768,67108864,0,0,0,0,0,0,0,0,16,0,0,0,4,0,0,2048,0,0,0,4341760,0,0,0,131072,0,0,33554432,1048576,0]),2048)},PEPTIDE:jt};async function zt(e,t,n=0){if(!Object.keys(Kt).includes(t))return null;const i=await async function(e){const t=a.Func.find({package:"Chem",name:"getMorganFingerprint"})?.[0];if(!t)return null;try{const n=(await t.apply({molString:e}))?.getBuffer().buffer;if(n)return new V.A(new Uint32Array(n),2048)}catch(e){return null}}(e);if(!i)return null;if(!Kt[t])return null;const o=Kt[t];let r=0,s=null;for(const[e,t]of Object.entries(o)){const o=(0,H.$1)(i,t);o>r&&o>=n&&(r=o,s=e)}return s}var Zt=n(857),Xt={};Xt.styleTagTransform=C(),Xt.setAttributes=b(),Xt.insert=f().bind(null,"head"),Xt.domAPI=p(),Xt.insertStyleElement=v(),d()(Zt.A,Xt),Zt.A&&Zt.A.locals&&Zt.A.locals;const Jt=[{alternateId:"R1-H",capGroupName:"H",capGroupSmiles:"[*:1][H]",label:"R1"},{alternateId:"R2-OH",capGroupName:"OH",capGroupSmiles:"O[*:2]",label:"R2"},{alternateId:"R3-H",capGroupName:"H",capGroupSmiles:"[*:3][H]",label:"R3"},{alternateId:"R4-H",capGroupName:"H",capGroupSmiles:"[*:4][H]",label:"R4"},{alternateId:"R5-H",capGroupName:"H",capGroupSmiles:"[*:5][H]",label:"R5"},{alternateId:"R6-H",capGroupName:"H",capGroupSmiles:"[*:6][H]",label:"R6"}];var Qt;!function(e){e.MONOMER="Monomer",e.SYMBOL="Symbol",e.NAME="Name",e.R_GROUPS="~R-Groups",e.MONOMER_TYPE="Monomer Type",e.POLYMER_TYPE="Polymer Type",e.NATURAL_ANALOG="Natural Analog",e.AUTHOR="Author",e.CREATE_DATE="Create Date",e.ID="ID",e.META="Meta",e.SOURCE="Source"}(Qt||(Qt={}));const en={[Qt.MONOMER]:a.COLUMN_TYPE.STRING,[Qt.SYMBOL]:a.COLUMN_TYPE.STRING,[Qt.NAME]:a.COLUMN_TYPE.STRING,[Qt.R_GROUPS]:a.COLUMN_TYPE.STRING,[Qt.MONOMER_TYPE]:a.COLUMN_TYPE.STRING,[Qt.POLYMER_TYPE]:a.COLUMN_TYPE.STRING,[Qt.NATURAL_ANALOG]:a.COLUMN_TYPE.STRING,[Qt.AUTHOR]:a.COLUMN_TYPE.STRING,[Qt.CREATE_DATE]:a.COLUMN_TYPE.DATE_TIME,[Qt.ID]:a.COLUMN_TYPE.INT,[Qt.META]:a.COLUMN_TYPE.STRING,[Qt.SOURCE]:a.COLUMN_TYPE.STRING};async function tn(e){const t=await nn(e);if(e.length!==t.rowCount)throw new Error(`Monomers length ${e.length} does not match dataframe row count ${t.rowCount}`);return await Promise.all(new Array(e.length).fill(null).map(async(e,n)=>mn(t.rows.get(n))))}async function nn(e){try{const t=a.DataFrame.create(e.length),n=new Set;for(const t of e)t.rgroups.forEach(e=>{e.label&&n.add(e.label)});const i=Array.from(n);i.sort();for(const[e,n]of Object.entries(en))if(t.columns.addNew(e,n),e===Qt.R_GROUPS)for(const e of i)t.columns.addNew(e,a.COLUMN_TYPE.STRING);t.col(Qt.SYMBOL).semType="Monomer",t.col(Qt.SYMBOL).setTag(Oe.Mn.applyToBackground,"true"),t.col(Qt.SYMBOL).setTag(we.qE.polymerTypeColumnName,Qt.POLYMER_TYPE);const o=a.TaskBarProgressIndicator.create("Creating Monomers DataFrame...");for(let n=0;n<e.length;n++){n%20==0&&o.update((n+1)/e.length*100,"Creating Monomers DataFrame...");const r=()=>{let o=un(e[n].rgroups,e[n].smiles,e[n].molfile);o=rn(o),e[n].rgroups=ln(e[n].rgroups);const r=i.map(t=>{const i=e[n].rgroups.find(e=>e.label===t);return i?an(i,"capGroupSmiles"):""});let s=null;if(e[n].createDate)try{s=Date.parse(e[n].createDate)}catch(t){console.error(`Error parsing date ${e[n].createDate}`)}t.rows.setValues(n,[o,e[n].symbol,e[n].name,JSON.stringify(e[n].rgroups??[]),...r,e[n].monomerType,e[n].polymerType,e[n].naturalAnalog,e[n].author,s,e[n].id,JSON.stringify(e[n].meta??{}),e[n].lib?.source??""],!1);try{s&&t.col(Qt.CREATE_DATE)?.set(n,s,!1)}catch(t){console.error(`Error setting date ${e[n].createDate}`,t)}};await new Promise(e=>{const t=()=>{try{r(),e()}catch(t){console.error("Error in doFill",t),e()}};n%20==0?setTimeout(()=>{t()}):t()})}return o.close(),t.col(Qt.MONOMER).semType=a.SEMTYPE.MOLECULE,i.forEach(e=>{t.col(e).semType=a.SEMTYPE.MOLECULE}),t}catch(e){throw r.shell.error("Error creating monomers dataframe"),console.error(e),e}}class on{monomerLibManamger;adjustTable(){this.tv?.dataFrame&&(r.data.detectSemanticTypes(this.tv.dataFrame),this.tv.dataFrame.meta.detectSemanticTypes()),setTimeout(()=>{this.tv?.grid&&(this.tv.grid.props.allowEdit=!1,this.tv.grid.col(Qt.NAME).width=100,this.tv.grid.col(Qt.SYMBOL).width=70)},200)}static VIEW_NAME="Manage Monomers";_newMonomer=fe.pe;_newMonomerForm;monomerLib;tv=null;libInput;static instance;activeMonomerLib=null;constructor(e){this.monomerLibManamger=e,this.monomerLib=e.getBioLib(),this._newMonomerForm=new cn(e,()=>this.activeMonomerLib,async e=>{const t=await this.getMonomersDf(this.libInput.value);this.tv?.dataFrame&&(this.tv.dataFrame=t,this.adjustTable(),null!=e&&setTimeout(()=>{const n=t.col(Qt.SYMBOL).toList().indexOf(e);-1!==n&&(this.tv?.grid.scrollToCell(t.columns.byIndex(0),n),t.currentRow=t.rows.get(n))},500))},()=>this.tv?.dataFrame)}static async getInstance(){if(!this.instance){const e=await kn.getInstance();await e.awaitLoaded(),this.instance=new on(e)}return this.instance}static async getNewInstance(){const e=await kn.getInstance();return await e.awaitLoaded(),new on(e)}async createNewMonomerLib(e,t,n){this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!0);try{const i=(await this.monomerLibManamger.getProviders()).find(t=>t.name===e);if(!i)throw new Error(`Provider ${e} not found`);const o=n.map(e=>({...e,lib:void 0,wem:void 0}));await i.addOrUpdateLibrary(t,o),await this.monomerLibManamger.loadMonomerLib(!1),r.shell.v=await this.getViewRoot(t)}catch(e){r.shell.error("Error creating library"),console.error(e)}finally{this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!1)}}async createNewLibDialog(e){const t=await this.monomerLibManamger.getAvaliableLibraryNames(),n=s.input.string("Library Name",{placeholder:"Enter library name",nullable:!1,onValueChanged:()=>{const e=i(n.value);l.getButton("Create")?.classList?.toggle("d4-disabled",!!e)}});function i(e){return e&&e.trim()?t.includes(e)||t.includes(e+".json")?"Library with this name already exists":null:"Library name cannot be empty"}n.addValidator(i);const o=(await this.monomerLibManamger.getProviders()).map(e=>e.name),a=s.input.choice("Storage",{items:o,value:o[0],nullable:!1,tooltipText:"Select storage provider for the new library"});1===o.length&&(a.readOnly=!0);const l=s.dialog("Create New Library").add(a).add(n).addButton("Create",async()=>{const t=i(n.value);if(t)r.shell.warning(t);else if(a.value){try{await this.createNewMonomerLib(a.value,n.value,e??[])}catch(e){r.shell.error("Error creating library"),console.error(e)}l.close()}else r.shell.warning("Please select storage provider")}).show();l.getButton("Create")?.classList?.toggle("d4-disabled",!0)}get newMonomer(){return this._newMonomer}getNewMonomerForm(){return this._newMonomerForm}_contextMenuSub=null;async getMonomersTableView(e,t=!0){const n=await this.getMonomersDf(e);return this.tv=a.TableView.create(n,t),this.adjustTable(),this._contextMenuSub?.unsubscribe(),this._contextMenuSub=r.events.onContextMenu.subscribe(({args:e})=>{if(!e||!e.menu||!e.context||e.context.type!==a.VIEWER.GRID||!e.context.tableView||e.context.tableView.id!==(this.tv.id??"")||!e.item||!e.item.isTableCell||(e.item.tableRowIndex??-1)<0)return;const t=e.item.tableRowIndex;e.menu.item("Edit Monomer",async()=>{await this.editMonomer(this.tv.dataFrame.rows.get(t))}),e.menu.item("Fix all monomers",()=>{this.fixAllMonomers()}),this.tv.dataFrame.selection.trueCount>0?(e.menu.item("Remove Selected Monomers",async()=>{const e=await Promise.all(Array.from(this.tv.dataFrame.selection.getSelectedIndexes()).map(e=>mn(this.tv.dataFrame.rows.get(e))));this._newMonomerForm.removeMonomers(e,this.libInput.value)}),e.menu.item("Selection To New Library",async()=>{const e=await Promise.all(Array.from(this.tv.dataFrame.selection.getSelectedIndexes()).map(e=>mn(this.tv.dataFrame.rows.get(e))));this.createNewLibDialog(e)})):e.menu.item("Remove Monomer",async()=>{const e=await mn(this.tv.dataFrame.rows.get(t));this._newMonomerForm.removeMonomers([e],this.libInput.value)})}),this.tv.grid&&(this.tv.grid.props.allowEdit=!1),this.tv}static closeAllMonomerManagers(){Array.from(r.shell.tableViews??[]).filter(e=>e.name===on.VIEW_NAME).forEach(e=>e.close())}findActiveManagerView(){if(!this.tv)return null;const e=Array.from(r.shell.tableViews??[]).find(e=>e.id===this.tv.id);return e?r.shell.v=e:on.closeAllMonomerManagers(),e??null}_skipLibInputOnchange=!1;async getViewRoot(e,t=!0){const n=await this.monomerLibManamger.getAvaliableLibraryNames();if(this._newMonomerForm.molSketcher.resize(),t&&(this.tv=this.findActiveManagerView())&&(e??this.libInput.value)){try{this._skipLibInputOnchange=!0,this.libInput&&(this.libInput.items=n),e&&(this.libInput.value=e)}catch(e){r.shell.error("Error updating library list"),console.error(e)}finally{this._skipLibInputOnchange=!1}const t=await this.getMonomersDf(e);return this.tv.dataFrame=t,this.adjustTable(),this.tv}e??=n[0],this.tv=await this.getMonomersTableView(e,t);let i=this.tv.getRibbonPanels();i.forEach((e,t)=>{i[t]=e.filter(e=>0!==e.getElementsByClassName("grok-icon-filter").length)}),i=i.filter(e=>e.length>0);const o=s.icons.add(()=>{this._newMonomerForm.setEmptyMonomer()},"Add New Monomer"),l=s.iconFA("wand-magic",()=>{this.fixAllMonomers()},"Fix all monomers"),c=s.icons.edit(async()=>{(this.tv?.dataFrame?.currentRowIdx??-1)<0||await this.editMonomer(this.tv.dataFrame.rows.get(this.tv.dataFrame.currentRowIdx))},"Edit Monomer"),u=s.icons.delete(async()=>{const e=this.tv?.dataFrame?.currentRowIdx??-1,t=Array.from(this.tv?.dataFrame?.selection?.getSelectedIndexes()??[]);if(e<0&&0===t.length)return;if(t.length>0){const e=await Promise.all(t.map(e=>mn(this.tv.dataFrame.rows.get(e))));return void await this._newMonomerForm.removeMonomers(e,this.libInput.value)}const n=await mn(this.tv.dataFrame.rows.get(e));await this._newMonomerForm.removeMonomers([n],this.libInput.value)});s.tooltip.bind(u,()=>(this.tv?.dataFrame?.selection?.trueCount??0)>0?"Delete selected monomers":"Delete monomer");const h=s.iconFA("arrow-to-bottom",async()=>{const e=this.libInput.value;if(!e)return r.shell.error("No library selected");let t=null;try{const n=await(0,ve.pY)(await this.monomerLibManamger.getProviders(),e);if(!n)throw new Error(`Library ${e} not found in any provider`);t=await n.getLibraryAsString(e)}catch(t){return r.shell.error(`Error reading library ${e}`),console.error(t)}if(!t)return r.shell.error(`Library ${e} is empty`);a.Utils.download(e,t,"text/plain")},"Download Monomer Library");i.push([o,c,l,u,h]),this.tv.setRibbonPanels(i),this.tv.name=on.VIEW_NAME,this.libInput=s.input.choice("Monomer Library",{value:e,items:n,nullable:!1,onValueChanged:async()=>{try{if(this._skipLibInputOnchange)return;const e=await this.getMonomersDf(this.libInput.value);this.tv.dataFrame=e,this.adjustTable()}catch(e){console.error(e)}}}),this.libInput.addOptions(s.icons.add(()=>{this.createNewLibDialog()},"Create new monomer library..."));const d=this._newMonomerForm.form;return d.prepend(this.libInput.root),s.tools.waitForElementInDom(this.tv.root).then(()=>{this.tv.dockManager.dock(d,a.DOCK_TYPE.LEFT,null,void 0,.4)}),this.tv}async editMonomer(e){return this._newMonomer=await mn(e),this._newMonomerForm.setMonomer(this._newMonomer),this._newMonomer}async getMonomersDf(e){this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!0);try{let t=null;const n=await this.monomerLibManamger.getProviders();if(0===n.length)throw new Error("No monomer library providers available");if(e){if(t=await(0,ve.pY)(n,e),!t)throw new Error(`Library ${e} not found in any provider`)}else t=n[0],e=(await t.listLibraries())[0];if(this.activeMonomerLib=await this.monomerLibManamger.readSingleLibrary(t.name,e),!this.activeMonomerLib)return r.shell.error(`Library ${e} not found`),a.DataFrame.create();const i=this.activeMonomerLib.getPolymerTypes().flatMap(e=>this.activeMonomerLib.getMonomerSymbolsByType(e).map(t=>this.activeMonomerLib.getMonomer(e,t)));return await nn(i)}catch(e){throw r.shell.error("Error creating monomers dataframe"),console.error(e),e}finally{this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!1)}}async fixAllMonomers(){s.dialog("Fix All Monomers").add(s.divText("This action will fix all monomers in the library, standardize their smiles, molblocks and r-groups, assign correct natural analogs and save the library.")).add(s.divText("Do you wish to continue?")).onOK(async()=>{const e=this.tv?.dataFrame,t=this.libInput.value;if(e&&t){this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!0);try{const n=await(0,ve.pY)(await this.monomerLibManamger.getProviders(),t);if(!n)throw new Error(`Library ${t} not found in any provider`);const i=(await Promise.all(new Array(e.rowCount).fill(0).map((t,n)=>mn(e.rows.get(n))))).map(e=>({...e,lib:void 0,wem:void 0}));await n.addOrUpdateLibrary(t,i),await this.monomerLibManamger.loadMonomerLib(!0),r.shell.v=await this.getViewRoot(t)}catch(e){r.shell.error("Error saving library"),console.error(e)}finally{this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!1)}}else r.shell.error("No monomer library loaded")}).show()}resetCurrentRowFollowing(){this._newMonomerForm.molChanged=!1}}function rn(e){let t=e.replaceAll(/\[R[1-9]\]/g,e=>`[*:${e[2]}]`);return t=t.replaceAll(/\[\d\*\]/g,e=>`[*:${e[1]}]`),t.replaceAll(/\[\d\*\:\d\]/g,e=>`[*:${e[1]}]`)}const sn=["alternateId","capGroupName","capGroupSMILES","label"];function an(e,t){const n=Object.keys(e).find(e=>e.toLowerCase()===t.toLowerCase());if(n)return e[n]}function ln(e){return e.map(e=>{const t=function(e,t){const n={};return e.forEach(e=>{const i=Object.keys(t).find(t=>t.toLowerCase()===e.toLowerCase());i&&(n[e]=t[i])}),n}(sn,e),n=an(t,"capGroupSMILES"),i=an(t,"alternateId"),o=an(t,"capGroupName"),r=an(t,"label")??"R1";if(n&&i&&o||r.length<2)return t;if(i&&-1!==i.indexOf(`${r}-`)){const e=i.replace(`${r}-`,"");o||(t.capGroupName=e),n||(t.capGroupSMILES=`[*:${r.substring(1)}][${e}]`)}else o&&(n||(t.capGroupSMILES=`[*:${r.substring(1)}][${o}]`),i||(t.alternateId=`${r}-${o}`));return t}).sort((e,t)=>e.label?.localeCompare(t.label??"")??0)}class cn{monomerLibManager;getMonomerLib;refreshTable;getMonomersDataFrame;molSketcher;monomerTypeInput;polymerTypeInput;monomerSymbolInput;monomerNameInput;monomerIdInput;monomerNaturalAnalogInput;rgroupsGrid;metaGrid;colors;colorsEditor;saveButton;rgroupsGridRoot;_molChanged=!1;get molChanged(){return this._molChanged}set molChanged(e){this._molChanged=e}saveValidationResult=null;triggerMolChange=!0;inputsTabControl;constructor(e,t,n,i){this.monomerLibManager=e,this.getMonomerLib=t,this.refreshTable=n,this.getMonomersDataFrame=i,this.colors={line:"#000000",background:"#000000",text:"#000000"},this.colorsEditor=new pn(this.colors),this.molSketcher=new a.chem.Sketcher,this.molSketcher.root.classList.add("monomer-manager-sketcher"),this.polymerTypeInput=s.input.choice("Polymer Type",{value:"PEPTIDE",items:["PEPTIDE","RNA","CHEM","BLOB","G"],onValueChanged:()=>this.onMonomerInputChanged(),nullable:!1}),this.monomerTypeInput=s.input.choice("Monomer Type",{value:"Backbone",items:["Backbone","Branch","Terminal"],onValueChanged:()=>this.onMonomerInputChanged(),nullable:!1}),this.monomerSymbolInput=s.input.string("Monomer Symbol",{nullable:!1,onValueChanged:()=>this.onMonomerInputChanged()}),this.monomerNameInput=s.input.string("Monomer Name",{nullable:!1,onValueChanged:()=>this.onMonomerInputChanged()}),this.monomerNameInput.nullable=!1,this.monomerIdInput=s.input.int("Monomer ID",{nullable:!0,value:0,onValueChanged:()=>this.onMonomerInputChanged()}),this.monomerNaturalAnalogInput=s.input.string("Natural Analog",{nullable:!0,onValueChanged:()=>this.onMonomerInputChanged()}),this.saveButton=s.bigButton("Save",async()=>{const e=this.validateInputs();e?r.shell.warning(e):await this.saveMonomer()}),this.molSketcher.subs.push(this.molSketcher.onChanged.subscribe(async()=>{if(this.triggerMolChange){try{this.rgroupsGridRoot.style.display="none";const e=this.inputsTabControl.panes.find(e=>"r-groups"===e.name?.toLowerCase());e&&e.header.style.removeProperty("background-color");let t=this.molSketcher.getSmiles();if(!t)return this.rgroupsGrid.items=[],this.rgroupsGrid.render(),this.saveValidationResult="Monomer molecule is required",void this.invalidateSaveButton();t=un([],t);const n=this.findRgroupsInSmiles(t);if(0===n.length)return this.rgroupsGrid.items=[],this.rgroupsGrid.render(),this.saveValidationResult="At least one R-group is required",e&&e.header.style.setProperty("background-color","#ff000030"),void this.invalidateSaveButton();if(new Set(n.map(e=>e[0])).size!==n.length)return this.saveValidationResult="Duplicate R-groups are not allowed",this.rgroupsGridRoot.style.display="flex",e&&e.header.style.setProperty("background-color","#ff000030"),void this.invalidateSaveButton();const i=n.map(e=>Number.parseInt(e[0].match(/[1-9]/g)[0])).map(e=>this.rgroupsGrid.items.find(t=>t.label===`R${e}`)??{capGroupSMILES:`[*:${e}][H]`,alternateId:`R${e}-H`,capGroupName:"H",label:`R${e}`});this.rgroupsGrid.items=i.sort((e,t)=>e.label?.localeCompare(t.label??"")??0),this.rgroupsGrid.render(),this.rgroupsGridRoot.style.display="flex";const o=await zt(dn(t,i),this.polymerTypeInput.value??"");o&&(this.monomerNaturalAnalogInput.value=o)}catch(e){console.error(e)}this.onMonomerInputChanged(),this._molChanged=!0}else this.triggerMolChange=!0}));const o=[a.Property.js("capGroupSMILES",a.TYPE.STRING,{caption:"R-group SMILES",nullable:!1}),a.Property.js("alternateId",a.TYPE.STRING,{caption:"Alternate ID",nullable:!1}),a.Property.js("capGroupName",a.TYPE.STRING,{caption:"R-group name",nullable:!1}),a.Property.js("label",a.TYPE.STRING,{fieldName:"R-group Label",nullable:!1,userEditable:!1})];this.rgroupsGrid=new Yt(o,[],{allowAdd:!1,allowRemove:!1,validators:{capGroupSMILES:e=>e?r.chem.checkSmiles(e)?null:"Invalid SMILES":"Cap group smiles is required",alternateId:e=>e?null:"Alternate ID is required",capGroupName:e=>e?null:"Cap group name is required",label:e=>e?null:"R-group label is required"},customLabels:{capGroupSMILES:"R-group SMILES",alternateId:"Alternate ID",capGroupName:"Cap Group Name",label:"Label"}}),this.rgroupsGrid.onItemChanged.subscribe(()=>this.onMonomerInputChanged()),this.rgroupsGridRoot=s.divV([this.rgroupsGrid.root]),this.rgroupsGridRoot.style.display="none";const l=[a.Property.js("Property",a.TYPE.STRING,{caption:"Property",nullable:!0}),a.Property.js("Value",a.TYPE.STRING,{caption:"Value",nullable:!0})];this.metaGrid=new Yt(l,[]),this.onMonomerInputChanged();const c=s.divV([this.polymerTypeInput,this.monomerTypeInput,this.monomerSymbolInput,this.monomerNameInput,this.monomerIdInput,this.monomerNaturalAnalogInput]);this.inputsTabControl=s.tabControl({Monomer:c,"R-groups":this.rgroupsGridRoot,Meta:s.divV([this.metaGrid.root]),Colors:this.colorsEditor.form},!1)}invalidateSaveButton(){this.saveValidationResult?this.saveButton.classList.add("d4-disabled"):this.saveButton.classList.remove("d4-disabled")}onMonomerInputChanged(){setTimeout(()=>{this.saveValidationResult=this.validateInputs(),this.invalidateSaveButton();const e=this.polymerTypeInput.value&&this.polymerTypeInput.value&&!!this.getMonomerLib()?.getMonomer(this.polymerTypeInput.value,this.monomerSymbolInput.value);this.saveButton.textContent=e?"Save Monomer":"Add Monomer"},200)}setEmptyMonomer(){this.triggerMolChange=!1,this.molSketcher.setSmiles(""),this.monomerSymbolInput.value="",this.monomerNameInput.value="",this.monomerIdInput.value=null,this.monomerNaturalAnalogInput.value=null,this.rgroupsGrid.items=[],this.metaGrid.items=[],this.rgroupsGrid.render(),this.metaGrid.render(),this.rgroupsGridRoot.style.display="none",this.onMonomerInputChanged(),this.colorsEditor.colors={line:"#000000",background:"#000000",text:"#000000"}}setMonomer(e){this.triggerMolChange=!1,this.molSketcher.setSmiles(e.smiles),this.polymerTypeInput.value=e.polymerType,this.monomerTypeInput.value=e.monomerType,this.monomerSymbolInput.value=e.symbol,this.monomerNameInput.value=e.name,this.monomerIdInput.value=e.id,this.monomerNaturalAnalogInput.value=e.naturalAnalog??null,this.rgroupsGrid.items=ln(e.rgroups),this.metaGrid.items=Object.entries(e.meta??{}).filter(([e,t])=>"colors"!==e?.toLowerCase()).map(([e,t])=>({Property:e,Value:t})),this.rgroupsGrid.render(),this.metaGrid.render(),this.rgroupsGridRoot.style.display="flex",this.onMonomerInputChanged(),!e.naturalAnalog&&e.polymerType&&zt(dn(e.smiles,this.rgroupsGrid.items),e.polymerType).then(e=>{e&&(this.monomerNaturalAnalogInput.value=e)});const t=e.meta?.colors??"";let n={};try{n=t?JSON.parse(t)?.default:{}}catch(e){console.error(e)}this.colorsEditor.colors={line:n.line??"#000000",background:n.background??"#000000",text:n.text??"#000000"}}validateInputs(){const e=this.inputsTabControl.panes.find(e=>"r-groups"===e.name?.toLowerCase());if(e&&e.header.style.removeProperty("background-color"),!this.molSketcher.getSmiles())return"Monomer Molecule field is required";for(const e of[this.polymerTypeInput,this.monomerTypeInput,this.monomerSymbolInput,this.monomerNameInput])if(null==e.value||""===e.value)return`${e.caption} field is required`;let t=null;if(this.rgroupsGrid.items.length<1&&(t="At least one R-group is required"),!t)e:for(const e of this.rgroupsGrid.items)for(const[n,i]of Object.entries(e))if(!i){t=`R-group ${n} field is required for ${e.label}`;break e}return!t&&this.rgroupsGrid.hasErrors()&&(t="R-group fields contain errors"),t?(e&&e.header.style.setProperty("background-color","#ff000030"),t):null}findRgroupsInSmiles(e){return[...Array.from(e.matchAll(/\[[1-9]\*\]/g)),...Array.from(e.matchAll(/\[\*\:[1-9]\]/g))]}get form(){this.inputsTabControl.root.classList.add("monomer-manager-form-tab-control"),this.inputsTabControl.header.style.marginBottom="10px";const e=s.buttonsInput([this.saveButton]);return s.tooltip.bind(e,()=>this.saveValidationResult??"Save monomer to library"),s.divV([this.molSketcher.root,this.inputsTabControl.root,e],{classes:"ui-form",style:{paddingLeft:"10px",overflow:"scroll",maxWidth:"unset"}})}get fieldInputs(){return{molecule:this.molSketcher,polymerType:this.polymerTypeInput,monomerType:this.monomerTypeInput,symbol:this.monomerSymbolInput,name:this.monomerNameInput,id:this.monomerIdInput,naturalAnalog:this.monomerNaturalAnalogInput}}get metaInputs(){return[]}get rgroupInputs(){return[]}getMonomerInfoTable(e){const t=un(e.rgroups,e.smiles,e.molfile),n=r.chem.drawMolecule(t,150,150),i=s.tableFromMap({name:e.name,author:e.author,createDate:e.createDate});return s.divH([n,i],{style:{alignItems:"center"}})}async removeMonomers(e,t,n=!0){const i=await(0,ve.pY)(await this.monomerLibManager.getProviders(),t);if(!i)return void r.shell.error(`Library ${t} not found in any provider`);const o=s.divV(e.map(e=>this.getMonomerInfoTable(e)),{style:{maxHeight:"500px",overflow:"scroll"}}),a=e.length>1,l=a?`Are you sure you want to remove monomers ${e.map(e=>e.symbol).join(", ")} from ${t} library?`:`Are you sure you want to remove monomer with symbol ${e[0].symbol} from ${t} library?`,c=s.dialog("Remove Monomer"+(a?"s":"")).add(s.h1(l)).add(o).addButton("Remove",async()=>{await i.deleteMonomersFromLibrary(t,e),await this.monomerLibManager.loadMonomerLib(!0),await this.refreshTable(),n&&r.shell.info(`Monomer${a?"s":""} ${e.map(e=>e.symbol).join(", ")} ${a?"were":"was"} successfully removed from ${t} library`),c.close()}).show()}async addMonomerToLib(e,t){const n=this.getMonomersDataFrame();if(!n)return void r.shell.error("No monomer library loaded");const i=n?.col(Qt.POLYMER_TYPE)?.toList()??[],o=n?.col(Qt.SYMBOL)?.toList()??[],a=n?.col(Qt.MONOMER)?.toList()??[];if(i.length!==o.length||i.length!==a.length)return void r.shell.error("Monomer library data frame is corrupted");const l=i.findIndex((t,n)=>t===e.polymerType&&o[n]===e.symbol),c=a.findIndex(t=>t===e.smiles),u=async()=>{try{const n=await(0,ve.pY)(await this.monomerLibManager.getProviders(),t);if(!n)return void r.shell.error(`Library ${t} not found in any provider`);await n.updateOrAddMonomersInLibrary(t,[{...e,lib:void 0,wem:void 0}]),await this.monomerLibManager.loadMonomerLib(!0),await this.refreshTable(e.symbol),this._molChanged=!1,r.shell.info(`Monomer ${e.symbol} was successfully saved in library ${t}`)}catch(e){r.shell.error("Error saving monomer"),console.error(e)}this.onMonomerInputChanged()};let h=null,d="";if(l>=0)h=this.getMonomerInfoTable(await mn(n.row(l))),d=`Monomer with symbol '${e.symbol}' already exists in library ${t}.\nAre you sure you want to overwrite it?`;else if((c??-1)>=0){const e=await mn(this.getMonomersDataFrame().rows.get(c));h=this.getMonomerInfoTable(e),d=`Monomer with the same structure already exists in library ${t} with different symbol (${e.symbol}).\nAre you sure you want to duplicate it?`}if(h){const e=s.dialog("Save Monomer").add(s.divText(d)).add(h).addButton("Save",()=>{e.close(),u()}).show()}else await u()}async saveMonomer(){let e=this.molSketcher.getSmiles();if(!e||!r.chem.checkSmiles(e))return void r.shell.warning("Invalid SMILES");e=un([],e);let t=r.chem.convert(e,a.chem.Notation.Smiles,a.chem.Notation.MolBlock);t=hn(t);const n={};this.metaGrid.items.filter(e=>!!e.Property&&!!e.Value).forEach(e=>{n[e.Property]=e.Value});const i=this.metaGrid.addingItem;i&&i.Property&&i.Value&&(n[i.Property]=i.Value),"#000000"===this.colorsEditor.colors.line&&"#000000"===this.colorsEditor.colors.background&&"#000000"===this.colorsEditor.colors.text||(n.colors={default:this.colorsEditor.colors});const o={symbol:this.monomerSymbolInput.value,name:this.monomerNameInput.value,molfile:t,smiles:e,polymerType:this.polymerTypeInput.value,monomerType:this.monomerTypeInput.value,naturalAnalog:this.monomerNaturalAnalogInput.value?this.monomerNaturalAnalogInput.value:void 0,id:this.monomerIdInput.value??0,rgroups:this.rgroupsGrid.items,author:a.User.current().friendlyName,createDate:(new Date).toISOString(),meta:n},s=this.getMonomerLib()?.source;s?await this.addMonomerToLib(o,s):r.shell.warning("Monomer library source is not specified")}}function un(e,t,n){const i=!t||!r.chem.checkSmiles(t);if(i&&!n)throw new Error("Both SMILES and MOL block are empty or malformed");let o=i?r.chem.convert(n,a.chem.Notation.Unknown,a.chem.Notation.Smiles):t;return o=function(e,t){let n=e;return t.forEach(e=>{const t=e.label[1]??"1",i=new RegExp(`\\[\\${e.capGroupName}:${t}\\]`,"g");n=n.replace(i,`[*:${t}]`)}),n=n.replaceAll(/\[\d[A-Z]{1,2}\]/g,e=>`[*:${e[1]}]`),n}(o,e),o=rn(o),i?o:r.chem.convert(o,a.chem.Notation.Unknown,a.chem.Notation.Smiles)}function hn(e){const t=e.split("\n"),n=t.findIndex(e=>e.startsWith("M")&&e.includes("ISO"));if(-1!==n){const e=t[n].indexOf("ISO");t[n]=t[n].substring(0,e)+"RGP"+t[n].substring(e+3)}const i=t.findIndex(e=>e.includes("V2000"));if(-1===i)return console.error("Mol start line not found"),e;const o=Number.parseInt(t[i].trim().split(" ")[0].slice(0,3).trim()),r={};for(let e=i+1;e<i+1+o;e++){const n=t[e].indexOf("R ");if(-1===n)continue;"#"!==t[e][n+1]&&(t[e]=t[e].replace("R ","R#"));const o=t[e].trim().split(" ").map(e=>e.trim()).filter(Boolean);if(r[e-i]=1,o.length<14)continue;const s=Number.parseInt(o[13]);Number.isNaN(s)||(r[e-i]=s)}const s=Object.keys(r);if(-1===t.findIndex(e=>e.startsWith("M")&&e.includes("RGP"))){const e=`M RGP${s.length.toString().padStart(3," ")}${Object.entries(r).map(([e,t])=>`${e.toString().padStart(4," ")}${t.toString().padStart(4," ")}`).join("")}`,n=t.findIndex(e=>e.startsWith("M")&&e.includes("END"));t.splice(n,0,e)}return s.filter(e=>!!Number.parseInt(e)).map(e=>Number.parseInt(e)+i).forEach(e=>{const n=t[e].split(" "),i=n.findIndex(e=>"R#"===e);if(-1!==i){for(let e=i+1;e<n.length;e++)n[e]&&1==n[e].length&&(Number.parseInt(n[e])??0)>0&&(n[e]="0");t[e]=n.join(" ")}}),t.join("\n")}function dn(e,t){let n=e;return t.forEach(e=>{const t=e.label[1]??"1",i=an(e,"capGroupName");n=n.replace(`[*:${t}]`,`[${i}]`)}),n}async function mn(e){let t;try{t=JSON.parse(e.get(Qt.META)??"{}");for(const e in t)"object"==typeof t[e]&&(t[e]=JSON.stringify(t[e])),("string"!=typeof t[e]||t[e]!==a.INT_NULL.toString()&&t[e]!==a.FLOAT_NULL.toString())&&("number"!=typeof t[e]||t[e]!==a.INT_NULL&&t[e]!==a.FLOAT_NULL)||(t[e]=null)}catch(e){console.error(e)}const n=e.get(Qt.MONOMER);if(!n)throw new Error("Monomer SMILES is empty");let i="";try{i=r.chem.convert(n,a.chem.Notation.Smiles,a.chem.Notation.MolBlock),i=hn(i)}catch(e){r.shell.error(`Error converting SMILES to molfile, \n ${n}`),console.error(e)}let o=e.get(Qt.NATURAL_ANALOG);const s=e.get(Qt.POLYMER_TYPE);let l=[];try{if(l=JSON.parse(e.get(Qt.R_GROUPS)??"[]"),!o&&s){const e=await zt(dn(n,l),s);e&&(o=e)}}catch(e){l??=[]}return{symbol:e.get(Qt.SYMBOL),name:e.get(Qt.NAME),molfile:i,smiles:n,polymerType:s,monomerType:e.get(Qt.MONOMER_TYPE),naturalAnalog:o,id:e.get(Qt.ID),rgroups:l,meta:t,author:e.get(Qt.AUTHOR),createDate:e.get(Qt.CREATE_DATE)}}class pn{_colors;_colorInputs;constructor(e){this._colors=e,this._colorInputs={line:s.input.color("Line",{value:e.line,onValueChanged:e=>this._colors.line=e}),background:s.input.color("Background",{value:e.background,onValueChanged:e=>this._colors.background=e}),text:s.input.color("Text",{value:e.text,onValueChanged:e=>this._colors.text=e})}}get colors(){return this._colors}set colors(e){const t={line:a.Color.toHtml(a.Color.fromHtml(e.line??"#000000")),background:a.Color.toHtml(a.Color.fromHtml(e.background??"#000000")),text:a.Color.toHtml(a.Color.fromHtml(e.text??"#000000"))};this._colors=t;for(const e in this._colorInputs)this._colorInputs[e].value=t[e]}get colorsMetaFormat(){return{colors:{default:this._colors}}}get form(){return s.form(Object.values(this._colorInputs))}}const gn=/.*\|\$.*R.*\$\|/,fn=/\[R(\d+)\]/,yn=/\[R(\d+)\]/g,bn=/\[\*:(\d+)\]/g;function wn(e,t){const n=Array.from(e.matchAll(yn)).map(e=>e[1]),i={name:"Explicit SMILES Monomer",smiles:e,polymerType:t??"CHEM",molfile:"",rgroups:n.map(e=>({label:`R${e}`,capGroupName:"H",capGroupSmiles:`[*:${e}][H]`,alternateId:`R${e}-H`})),author:"Datagrok auto-generated",id:0,createDate:null,monomerType:"Backbone"};try{let t=e;i.rgroups.forEach(e=>{const n=e.label.substring(1);t=t.replace(`[R${n}]`,`[*:${n}]`)});const n=hn(r.chem.convert(t,r.chem.Notation.Smiles,r.chem.Notation.MolBlock));i.molfile=n,i.smiles=t}catch(t){To.logger.error(`getMonomerFromRSmiles: cannot convert SMILES to Molfile: ${e}\n${t}`)}return i}const vn=/[\w()]+/,Tn=RegExp(String.raw`\(${vn}(,${vn})+\)`),Cn=e=>{const t=s.canvas(250,250);return r.chem.canvasMol(0,0,250,250,t,e),t},An=new Dt.Mi([255,255,255]),En=new Dt.Mi([0,0,0]),Sn=.7*(0,j.wQ)(An);class Mn{_monomers;source;_isEmpty;get isEmpty(){return this._isEmpty}_onChanged=new u.Subject;get onChanged(){return this._onChanged}constructor(e,t){this._monomers=e,this.source=t,this._isEmpty=!this._monomers||0===Object.keys(this._monomers).length||Object.entries(this._monomers).every(([e,t])=>0===Object.keys(t).length);for(const[e,t]of Object.entries(this._monomers))for(const[e,n]of Object.entries(t))n.lib=this}getMonomerSymbolsByType(e){const t=Object.keys(this._monomers[e]);return this._smilesMonomerCache[e]&&t.push(...Object.keys(this._smilesMonomerCache[e])),t}_smilesMonomerCache={};addMissingMonomer(e,t){let n=this._monomers[e];n||(n=this._monomers[e]={});let i=t;t==we._S||t===we.b9[we.Hi.HELM]?i="Gap":("PEPTIDE"===e&&"X"===t||"RNA"===e&&"N"===t)&&(i="Any");const o=function(e,t){try{if(gn.test(e)){const n=e.split("|$"),i=n[0].trim(),o=n[1],r=Array.from(o.matchAll(/R(\d+)/g)),s=Array.from(i.matchAll(/(\*)/g));if(r.length!==s.length)return null;let a=i.replaceAll(/\[\*\]/g,"*");const l=r.map(e=>e[1]);for(let e=0;e<l.length;e++){const t=l[e];a=a.replace("*",`[R${t}]`)}return wn(a,t)}let n=e;const i=Array.from(e.matchAll(bn));for(const e of i){const t=e[0],i=e[1];n=n.replace(t,`[R${i}]`)}if(fn.test(n))return wn(n,t)}catch(t){To.logger.error(`smiles2Monomer: cannot parse SMILES: ${e}\n${t}`)}return null}(t,e);if(o){this._smilesMonomerCache[e]=this._smilesMonomerCache[e]??{};const i=this._smilesMonomerCache[e],r=Object.keys(i).length+1;i[t]=`#${e[0]}${r}`;const s={...o,symbol:i[t]},a=new Ft((0,ke.MD)(e),s.symbol,t,`SMILES Monomer ${s.symbol}`,s.rgroups.map(e=>e.label));return s.wem=a,n[s.symbol]=s,s}return n[t]={symbol:t,name:i,molfile:"",author:"MISSING",id:-1,rgroups:oe().count(1).take(9).map(e=>({capGroupSmiles:"",alternateId:"",capGroupName:"",label:`R${e.toString()}`})).toArray(),smiles:"",polymerType:e,monomerType:void 0,createDate:null}}getMonomer(e,t){let n=t;"RNA"==e&&"R"==n&&(n="r"),"RNA"==e&&"P"==n&&(n="p");let i=null;if(e){this._smilesMonomerCache[e]?.[n]&&(n=this._smilesMonomerCache[e][n]);const t=this._monomers[e];i=t?.[n]??null}else{To.logger.warning(`Bio: MonomerLib.getMonomer() symbol '${t}', polymerType not specified.`);for(const[e,t]of Object.entries(this._monomers))if(i=t[n],i)break}return i}getWebEditorMonomer(e,t){const[n,i]=(0,Ot.fA)(e,t),o=(0,Ht.Y)(n);let r=this.getMonomer(o,i);if(r&&n==Be.o.LINKER&&2!=r.rgroups.length)return null;if(r&&n==Be.o.SUGAR&&3!=r.rgroups.length)return null;r||(r=this.addMissingMonomer(o,i));let s=r.wem??null;return s||(i===we._S||"*"==i?s=r.wem=new Gt(n):n===Be.o.NUCLEOTIDE&&"N"===i||n===Be.o.AA&&"X"===i||(Be.o.CHEM,0)||Tn.test(i)?s=r.wem=new Bt(n,i):r.lib||(s=r.wem=new Vt(n,i,this.isEmpty)),s||(s=r.wem=Wt.fromMonomer(n,r,this))),s}getTooltip(e,t){const n=(0,Ht.Y)(e),i=s.div([],{classes:"ui-form ui-tooltip"}),o=this.getWebEditorMonomer(e,t),r=this.getMonomer(n,t);if(r){const e=r.symbol,[t,n,a]=(r.name,o?[o.textcolor,o.backgroundcolor,o.linecolor]:["#202020","#A0A0A0","#202020"]);let l;if(i.append(s.divH([s.div([e],{style:{textWrap:"nowrap",marginLeft:"4px",marginRight:"4px",color:t,backgroundColor:n,borderColor:a,borderWidth:"1px",borderStyle:"solid",borderRadius:"2px",padding:"3px",minWidth:"24px",textAlign:"center"}}),s.div([r.name],{style:{padding:"4px"}})],{style:{display:"flex",flexDirection:"row",justifyContent:"left"}})),l=r.molfile?Cn(r.molfile):r.smiles?s.divV([Cn(r.smiles),s.divText("from smiles",{style:{fontSize:"smaller"}})]):s.divText("No structure",{style:{margin:"6px"}}),i.append(s.div(l,{style:{display:"flex",flexDirection:"row",justifyContent:"center",margin:"6px"}})),r.symbol!=we._S){let e=r.lib?.source;e?(e.endsWith(".json")&&(e=e.substring(0,e.length-5)),e=e.replace(/_/g," ").replace(/-/g," ").replace(/([a-z])([a-z])([A-Z])/g,"$1$2 $3"),i.append(s.divText(e))):i.append(s.divText("Missed in libraries"))}}else i.append(s.divV([s.divText(`Monomer '${t}' of type '${n}' not found.`),s.divText("Open the Context Panel, then expand Manage Libraries")]));return i}getMonomerTextColor(e,t){const n=this.getMonomerColors(e,t),i=e=>{const t=/rgb\(\s*(\d+)\s*,\s*(\d+)\s*,\s*(\d+)\s*\)/.exec(e);if(t)return[parseInt(t[1]),parseInt(t[2]),parseInt(t[3])];const n=a.Color.fromHtml(e);return[a.Color.r(n),a.Color.g(n),a.Color.b(n)]},o=i(n.textcolor),r=new Dt.Mi([...o.map(e=>e+1)]),s=(0,j.KE)(r,An)/((0,j.wQ)(r)*(0,j.wQ)(An)),l=i(n.backgroundcolor),c=new Dt.Mi([...l.map(e=>e+.01)]);let u;u=(0,j.KE)(c,An)/((0,j.wQ)(c)*(0,j.wQ)(An))<s?l:o;let h=new Dt.Mi(u);const d=(0,j.wQ)(h);return d>Sn&&(h=(0,j.dC)(En,h,Sn/d)),`rgb(${h[0]}, ${h[1]}, ${h[2]})`}getMonomerColors(e,t){const n="default";let i=n;const o=(0,Ht.Y)(e),r=this.getMonomer(o,t);let s;if(r){if(r.meta&&r.meta.colors){if("string"==typeof r.meta.colors)try{r.meta.colors=JSON.parse(r.meta.colors)}catch(e){To.logger.error(`Bio: MonomerLib.getMonomerColors() failed to parse monomer.meta.colors: ${e}`)}const e=r.meta.colors;e&&"string"!=typeof e&&!(n in e)&&(i="default"),e&&"string"!=typeof e&&i in e&&(s=e[i])}if(!s){const t=qt[e],n=t?.[r.symbol];n&&(s={textColor:a.Color.toHtml(a.Color.getContrastColor(a.Color.fromHtml(n))),lineColor:"#202020",backgroundColor:n})}const t=r.naturalAnalog;if(!s&&t&&t!==r.symbol)return this.getMonomerColors(e,t)}return s||(s={textColor:"#202020",lineColor:"#202020",backgroundColor:"#A0A0A0"}),{textcolor:s.text??s.textColor,linecolor:s.line??s.lineColor,backgroundcolor:s.background??s.backgroundColor}}getRS(e){const t=e.match(/(?<=\[)[^\][]*(?=])/gm),n={};let i,o="";if(t)for(let e=0;e<t.length;e++)if(null!=t[e]&&/\d/.test(t[e])){i=t[e][t[e].length-1],t[e]=t[e].replace(/[0-9]/g,"");for(let n=0;n<t[e].length;n++)":"!=t[e][n]&&(o+=t[e][n]);n["R"+i]=o,o=""}return n}}var Pn=n(5488),_n={};_n.styleTagTransform=C(),_n.setAttributes=b(),_n.insert=f().bind(null,"head"),_n.domAPI=p(),_n.insertStyleElement=v(),d()(Pn.A,_n),Pn.A&&Pn.A.locals&&Pn.A.locals;class In extends Mn{error;_duplicateMonomers={};get duplicateMonomers(){return this._duplicateMonomers}_duplicatesHandled=!0;get duplicatesHandled(){return this._duplicatesHandled}duplicatesNotified=!1;constructor(e,t,n=void 0){super(e,t),this.error=n}toJSON(){const e=[];for(const t of Object.values(this._monomers))for(const n of Object.values(t))e.push({...n,lib:void 0,wem:void 0});return e}_monomerSets=null;getMonomerSet(e){const t=(0,Ht.Y)(e);if(this._monomerSets||(this._monomerSets={}),!(e in this._monomerSets))for(const[e,n]of Object.entries(this._monomers[t]));return this._monomerSets[e]}getPolymerTypes(){return Object.keys(this._monomers)}getMonomerMolsByPolymerType(e){const t={};return Object.keys(this._monomers[e]??{}).forEach(n=>{t[n]=this._monomers[e][n].molfile}),t}getMonomerSymbolsByRGroup(e,t,n){let i=this.getMonomerSymbolsByType(t).map(e=>this.getMonomer(t,e));return i=i.filter(e=>null!==e),0===i.length?[]:(i=i.filter(t=>{if(!t?.rgroups)return!1;let n=t?.rgroups.length>=e;var i;return i=$t.getInstance(t.molfile).atomTypes,i.map((e,t)=>"R#"===e?t:-1).filter(e=>-1!==e),n&&=!0,n}),i.map(e=>e?.symbol))}_updateLibInt(e){const t=e.getPolymerTypes(),n=this.getPolymerTypes();t.forEach(t=>{n.includes(t)||(this._monomers[t]={}),e.getMonomerSymbolsByType(t).forEach(n=>{this._monomers[t][n]&&(this._duplicateMonomers[t]??={},this._duplicateMonomers[t][n]??=[this._monomers[t][n]],this._duplicateMonomers[t][n].push(e.getMonomer(t,n))),this._monomers[t][n]=e.getMonomer(t,n)})}),this._isEmpty=this.isEmpty&&e.isEmpty}async updateLibs(e,t=!1){t&&(this._monomers={},this._isEmpty=!0),this._duplicateMonomers={};for(const t of e)t.error||this._updateLibInt(t);if(Object.entries(this.duplicateMonomers).length>0){const e=await(0,Ne.u)();this.assignDuplicatePreferences(e)}else this._duplicatesHandled=!0;this._onChanged.next()}assignDuplicatePreferences(e){let t=!0;for(const n in this.duplicateMonomers)for(const i in this.duplicateMonomers[n])if(e.duplicateMonomerPreferences?.[n]?.[i]){const o=e.duplicateMonomerPreferences[n][i],r=this.duplicateMonomers[n][i].find(e=>e.lib?.source===o);r?this._monomers[n][i]=r:t=!1}else t=!1;return this._duplicatesHandled=t,t}clear(){this._monomers={},this._onChanged.next()}getSummaryObj(){const e={},t=this.getPolymerTypes();for(const n of t)e[n]=this.getMonomerSymbolsByType(n).length;return e}getSummaryDf(){const e=this.getPolymerTypes(),t=new Array(e.length);for(const[n,i]of oe().enumerate(e))t[i]=this.getMonomerSymbolsByType(n).length;return a.DataFrame.fromColumns([a.Column.fromStrings("polymerType",e),a.Column.fromList(a.COLUMN_TYPE.INT,"count",t)])}getSummary(){const e=this.getPolymerTypes();return 0==e.length?"empty":e.map(e=>`${e} ${this.getMonomerSymbolsByType(e).length}`).join("\n")}static overrideCounter=0;override(e,t){return new Ln(e,`override: ${++In.overrideCounter}, ${t}`,this)}}class Ln extends Mn{data;base;constructor(e,t,n){super(e,t),this.data=e,this.base=n}get onChanged(){return this.base.onChanged}getMonomerSymbolsByType(e){const t=this.base.getMonomerSymbolsByType(e);for(const n of Object.keys(this.data[e]??{}))t.includes(n)||t.push(n);return t}addMissingMonomer(e,t){return this.base.addMissingMonomer(e,t)}getMonomer(e,t){const n=this.data[e]?.[t];return n??this.base.getMonomer(e,t)}}var xn=n(8604),Nn=n(7433),Rn=n.n(Nn),$n=n(1913),Hn=n.n($n);class On{helmMonomerSchema;validateMonomerSchema;constructor(e){this.helmMonomerSchema=e;const t=new(Rn())({allErrors:!0,strictTuples:!1,allowUnionTypes:!0});Hn()(t),this.validateMonomerSchema=t.compile(this.helmMonomerSchema)}validateFile(e,t){const n=this.parseJson(e,t);return null!=n&&(Array.isArray(n)?this.validateJsonContent(n,t):(console.warn(`Bio: Monomer Library File Validator file '${t}': Invalid JSON format: The file must contain an array of monomers.`),!1))}parseJson(e,t){try{return JSON.parse(e)}catch(e){return console.error(`Bio: Monomer Library File Validator file '${t}': Invalid JSON format:`,e),null}}validateJsonContent(e,t){let n=!0;const i=new Set;for(const o of e){const e=o.symbol??o.id??o.name??"#N/A";if(n=this.validateMonomerSchema(o),!n){console.warn(`Bio: Monomer Library File Validator file ${t}, monomer '${e}' violating JSON schema:`,o,"\nError reason: ",JSON.stringify(this.validateMonomerSchema.errors??{}),`\nThere may be other errors in ${t} since the validation is stopped after the first error.`," Please, verify that the monomer library file satisfies the JSON schema");break}const r=`${o.polymerType??""}-${e}`;i.has(r)&&console.warn(`Bio: Monomer Library File Validator file ${t}, monomer '${e}' is duplicated.`,"Please, verify that the monomer library file does not contain duplicated monomer symbols."),i.add(r)}return n}}class Dn{fileValidator;libHelper;logger;get LIB_PATH(){return"System:AppData/Bio/monomer-libraries/"}get SETS_PATH(){return"System:AppData/Bio/monomer-sets/"}static HELM_JSON_SCHEMA_PATH="System:AppData/Bio/tests/libraries/HELMmonomerSchema.json";static _instance=null;filesPromise=Promise.resolve();name=ve.ic;_onChanged=new u.Subject;get onChanged(){return this._onChanged}constructor(e,t,n){this.fileValidator=e,this.libHelper=t,this.logger=n}static async getInstance(e,t){if(null==this._instance){const n=await r.dapi.files.readAsText(Dn.HELM_JSON_SCHEMA_PATH),i=JSON.parse(n),o=new On(i);Dn._instance=new Dn(o,e,t),Dn._instance.refreshLists()}return Dn._instance}toLog(){return"MonomerLibFileManager"}async validateAgainstHELM(e,t){if(!this.isValidHELMLibrary(e,t))throw new Error(`File ${t} does not satisfy HELM standard`)}isValidHELMLibrary(e,t){return this.fileValidator.validateFile(e,t)}async refreshLists(){await Promise.all([this.updateValidLibList(),this.updateValidSetList()])}async addOrUpdateLibraryString(e,t){e=e.endsWith(".json")?e:`${e}.json`;try{await this.validateAgainstHELM(t,e),await r.dapi.files.writeAsText(this.LIB_PATH+`${e}`,t),await this.updateValidLibList(),await r.dapi.files.exists(this.LIB_PATH+`${e}`)?r.shell.info(`Added ${e} HELM library`):r.shell.error(`Failed to add ${e} library`)}catch(t){this.logger.error(t),r.shell.error(`Failed to add ${e} library`)}}async addOrUpdateLibrary(e,t){const n=JSON.stringify([...t.map(e=>({...e,wem:void 0,lib:void 0}))],null,2);await this.addOrUpdateLibraryString(e,n)}get loadPromise(){return this.filesPromise}async listLibraries(){return this.validLibList}async listSets(){return this.validSetList}async loadLibraries(e,t=!1){let n=[];e=e.map(e=>e.endsWith(".json")?e:`${e}.json`);const i=t?e:e.map(e=>this.LIB_PATH+e),o=[];for(let e=0;e<i.length;e++){const t={};try{const o=await r.dapi.files.readAsText(i[e]);n=JSON.parse(o),n.forEach(e=>{const n=e.polymerType,i=e.symbol;t[n]||(t[n]={}),t[n][i]=e})}catch(t){this.logger.error(`Failed to load monomer library file: ${i[e]}`),this.logger.error(t);continue}finally{o.push(t)}}return o}async loadSets(e){const t=[],n=this.libHelper.getMonomerLib();for(const i of e){const e=i.endsWith(".json")?i:`${i}.json`,o=this.SETS_PATH+e;try{const e=await r.dapi.files.readAsText(o),i=JSON.parse(e),s=i.description,a=Object.entries(i.placeholders).map(([e,t])=>{const i=e,o=t.polymerType,r=t.monomerType,s=t.set;return new ve.lH(n,i,o,r,s)});t.push(new ve.YS(s,a))}catch(e){this.logger.error(`Failed to load monomer set file: ${o}`),this.logger.error(e);continue}}return t}async deleteLibrary(e){const t=e.endsWith(".json")?e:`${e}.json`;await r.dapi.files.delete(this.LIB_PATH+t),await this.updateValidLibList()}async deleteSet(e){const t=e.endsWith(".json")?e:`${e}.json`;await r.dapi.files.delete(this.SETS_PATH+t),await this.updateValidSetList()}async addOrUpdateSetString(e,t){const n=e.endsWith(".json")?e:`${e}.json`;await r.dapi.files.writeAsText(this.SETS_PATH+n,t),await this.updateValidSetList()}async addOrUpdateSet(e,t){const n=JSON.stringify(t,null,2);await this.addOrUpdateSetString(e,n)}async deleteMonomersFromLibrary(e,t){const n=e.endsWith(".json")?e:`${e}.json`,i=this.LIB_PATH+n,o=await r.dapi.files.readAsText(i);let s=JSON.parse(o);s=s.filter(e=>!t.some(t=>e.polymerType===t.polymerType&&e.symbol===t.symbol));const a=JSON.stringify(s,null,2);await r.dapi.files.writeAsText(i,a),await this.updateValidLibList()}validLibList=[];libListHasChanged(e){const t=this.validLibList;return e.length!==t.length||e.some((e,n)=>e!==t[n])}validSetList=[];setListHasChanged(e){const t=this.validSetList;return e.length!==t.length||e.some((e,n)=>e!==t[n])}async getLibraryAsString(e){const t=e.endsWith(".json")?e:`${e}.json`;return r.dapi.files.readAsText(this.LIB_PATH+t)}async getSingleLibrary(e){return(await this.loadLibraries([e]))?.[0]}async getSingleLibraryWithFullPath(e){return(await this.loadLibraries([e],!0))?.[0]}async updateOrAddMonomersInLibrary(e,t){const n=e.endsWith(".json")?e:`${e}.json`,i=this.LIB_PATH+n,o=await r.dapi.files.readAsText(i),s=JSON.parse(o);for(const e of t){const t=s.findIndex(t=>t.polymerType===e.polymerType&&t.symbol===e.symbol);-1!==t?s[t]={...e,lib:void 0,wem:void 0}:s.push({...e,lib:void 0,wem:void 0})}const a=JSON.stringify(s,null,2);await r.dapi.files.writeAsText(i,a),await this.updateValidLibList()}async updateValidLibList(){const e=`${this.toLog()}.updateValidLibList()`;return this.logger.debug(`${e}, start`),this.filesPromise=this.filesPromise.then(async()=>{this.logger.debug(`${e}, IN`);const t=[],n=await this.getLibFileListAtLocation();if(!this.libListHasChanged(n))return void this.logger.debug(`${e}, end, not changed`);for(const e of n){if(!e.endsWith(".json")){t.push(e);continue}const n=await r.dapi.files.readAsText(this.LIB_PATH+`${e}`);this.isValidHELMLibrary(n,e)||t.push(e)}const i=n.filter(e=>!t.includes(e));if(this.libListHasChanged(i)&&(this.validLibList=i,await this.libHelper.loadMonomerLib(!0)),i.some(e=>!e.endsWith(".json"))&&this.logger.warning(`Wrong validation: ${i}`),t.length>0){const e=`Invalid monomer library files in ${this.LIB_PATH}, consider fixing or removing them: ${t.join(", ")}`;this.logger.warning(e)}this.logger.debug(`${e}, OUT`),this._onChanged.next()}),this.logger.debug(`${e}, end`),this.filesPromise}async updateValidSetList(){const e=`${this.toLog()}.updateValidSetList()`;return this.logger.debug(`${e}, start`),this.filesPromise=this.filesPromise.then(async()=>{this.logger.debug(`${e}, IN`);const t=[],n=await this.getSetFileListAtLocation();if(!this.setListHasChanged(n))return void this.logger.debug(`${e}, end, not changed`);for(const e of n)e.endsWith(".json")||t.push(e);const i=n.filter(e=>!t.includes(e));this.setListHasChanged(i)&&(this.validSetList=i,this.libHelper.loadMonomerSets(!0)),this.logger.debug(`${e}, OUT`),this._onChanged.next()}),this.logger.debug(`${e}, end`),this.filesPromise}async getLibFileListAtLocation(){const e=`${this.toLog()}.getLibFileListAtLocation()`;this.logger.debug(`${e}, start`);const t=await r.dapi.files.list(this.LIB_PATH).then(e=>e.filter(e=>e.isFile).map(e=>e.fullPath)),n=[];return n.push(...t),n.map(e=>e.substring(this.LIB_PATH.length))}async getSetFileListAtLocation(){const e=`${this.toLog()}.getSetFileListAtLocation()`;this.logger.debug(`${e}, start`);const t=await r.dapi.files.list(this.SETS_PATH).then(e=>e.map(e=>e.fullPath)),n=[];return n.push(...t),n.map(e=>e.substring(this.SETS_PATH.length))}}class kn{logger;_monomerLib=new In({},"MAIN");_monomerSets=new ve.YS("MAIN",[]);_initialLoadCompleted=!1;get initialLoadCompleted(){return this._initialLoadCompleted}_providersDataChanged=new u.Subject;get providersDataChanged(){return this._providersDataChanged}_fileUploadRequested=new u.Subject;get fileUploadRequested(){return this._fileUploadRequested}requestFileUpload(){this._fileUploadRequested.next()}_selectionChanged=new u.Subject;get librarySelectionChanged(){return this._selectionChanged}notifyLibrarySelectionChanged(){this._selectionChanged.next()}async getAvaliableLibraryNames(e=!1){const t=await this.getProviders(),n=[];for(const i of t){e&&await i.refreshLists();const t=await i.listLibraries();n.push(...t)}return n}async refreshValidLibraryLists(){const e=await this.getProviders();await Promise.all(e.map(async e=>e.refreshLists()))}async getAvailableLibrariesPerProvider(){const e=await this.getProviders(),t=new Map;for(const n of e){const e=await n.listLibraries();t.set(n.name,e)}return t}async awaitLoaded(e=1/0){return e=e===1/0?6e4:e,await Promise.race([(async()=>{const e=await this.getProviders();return await Promise.all(e.map(async e=>e.loadPromise)),await this.loadLibrariesPromise,!0})(),(async()=>(await(0,et.cb)(e),!1))()]).then(t=>{if(!t)throw new Error(`Loading monomer libraries timeout ${e} ms.`)})}_monomerLibProviders=null;async getProviders(){if(null==this._monomerLibProviders){const e=a.Func.find({tags:["monomer-lib-provider"]});this._monomerLibProviders=await Promise.all(e.map(async e=>await e.apply({}))),this._monomerLibProviders.push(await Dn.getInstance(this,To.logger)),a.debounce((0,u.merge)(...this._monomerLibProviders.map(e=>e.onChanged)),200).subscribe(()=>{this._providersDataChanged.next()})}return this._monomerLibProviders}constructor(e){this.logger=e}static objCounter=-1;objId=(()=>{if(++kn.objCounter>0)throw new Error("MonomerLibManager MUST be a singleton.");return kn.objCounter})();toLog(){return`MonomerLibManager<${this.objId}>`}getMonomerLib(){return this._monomerLib}getBioLib(){return this.getMonomerLib()}getMonomerSets(){return this._monomerSets}get duplicateMonomers(){return this._monomerLib.duplicateMonomers}get duplicatesHandled(){return this._monomerLib.duplicatesHandled}assignDuplicatePreferances(e){this._monomerLib.assignDuplicatePreferences(e)}loadLibrariesPromise=Promise.resolve();async loadMonomerLib(e=!1){const t=`${this.toLog()}.loadMonomerLib()`;return this.logger.debug(`${t}, start`),this.loadLibrariesPromise=this.loadLibrariesPromise.then(async()=>{this.logger.debug(`${t}, IN`);const n=a.TaskBarProgressIndicator.create("Loading monomers ...");try{const t=await(0,Ne.u)(),i=await this.getProviders(),o=await Promise.all(i.map(async e=>e.listLibraries()));o.forEach((e,n)=>{o[n]=e.filter(e=>{const n=!t.exclude.includes(e),i=0===(t.explicit?.length??0)||t.explicit.includes(e);return n&&i})});let s=0;const a=[];for(let e=0;e<i.length;e++){const t=i[e],l=o[e];try{const e=await t.loadLibraries(l);for(let t=0;t<e.length;t++)a.push(new In(e[t],l[t]))}catch(e){r.shell.warning(`Loading monomer libraries from provider '${t.name}' failed: `),this.logger.error(`Loading monomer libraries from provider '${t.name}' failed: ${e instanceof Error?e.message:e.toString()}`)}n.update(Math.round(100*++s/i.length),`Loading monomers ${s}/${i.length}`)}this._monomerLib.updateLibs(a,e),this._initialLoadCompleted=!0}catch(e){const t=`Loading monomer libraries error: ${e instanceof Error?e.message:e.toString()}`;r.shell.warning(t);const n=e instanceof Error?e.stack:void 0;this.logger.error(t,void 0,n)}finally{n.close(),this.logger.debug(`${t}, OUT`)}}),this.logger.debug(`${t}, end`),this.loadLibrariesPromise}async loadLibraries(e){return this.loadMonomerLib(e)}loadSetsPromise=Promise.resolve();async loadMonomerSets(e=!1){const t=`${this.toLog()}.loadMonomerSets()`;return this.logger.debug(`${t}, start`),this.loadSetsPromise=this.loadSetsPromise.then(async()=>{this.logger.debug(`${t}, IN`);const e=a.TaskBarProgressIndicator.create("Loading monomer sets ...");try{const t=await this.getProviders(),n=await Promise.all(t.map(async e=>e.listSets())),i=[];let o=0;for(let s=0;s<t.length;s++){const a=t[s],l=n[s];try{const e=await a.loadSets(l);for(let t=0;t<e.length;t++)i.push(e[t])}catch(e){r.shell.warning(`Loading monomer sets from provider '${a.name}' failed: `),this.logger.error(`Loading monomer sets from provider '${a.name}' failed: ${e instanceof Error?e.message:e.toString()}`)}e.update(Math.round(100*++o/t.length),`Loading monomer sets ${o}/${t.length}`)}this._monomerSets.updateSets(i)}catch(e){const t=`Loading monomer sets error: ${e instanceof Error?e.message:e.toString()}`;r.shell.warning(t);const n=e instanceof Error?e.stack:void 0;this.logger.error(t,void 0,n)}finally{e.close(),this.logger.debug(`${t}, OUT`)}}),this.logger.debug(`${t}, end`),this.loadSetsPromise}async loadMonomerLibForTests(){await(0,Ne.E)(xn.G),await this.awaitLoaded(1e4),await this.loadMonomerLib(!0)}async readSingleLibrary(e,t){const n=(await this.getProviders()).find(t=>t.name===e);if(!n)return this.logger.error(`Provider '${e}' not found.`),null;try{const i=await n.loadLibraries([t]);return 0===i.length?(this.logger.error(`Library '${t}' not found in provider '${e}'.`),null):new In(i[0],t)}catch(e){return this.logger.error(`Loading monomer library '${t}' from provider '${n.name}' failed: ${e instanceof Error?e.message:e.toString()}`),null}}async readLibraryFromFilePath(e){const t=(await this.getProviders()).find(e=>e.name===ve.ic);if(!t)throw new Error(`Provider '${ve.ic}' not found.`);const n=await t.getSingleLibraryWithFullPath(e);if(!n)throw new Error(`Library at path '${e}' not found.`);return new In(n,e)}async readSingleLibraryByName(e){const t=await this.getProviders(),n=await(0,ve.pY)(t,e);return n?this.readSingleLibrary(n.name,e):(this.logger.error(`No provider found for library '${e}'.`),null)}async readSingleSet(e,t){const n=(await this.getProviders()).find(t=>t.name===e);if(!n)return this.logger.error(`Provider '${e}' not found.`),null;try{const i=await n.loadSets([t]);return 0===i.length?(this.logger.error(`Set '${t}' not found in provider '${e}'.`),null):i[0]}catch(e){return this.logger.error(`Loading monomer set '${t}' from provider '${n.name}' failed: ${e instanceof Error?e.message:e.toString()}`),null}}static async getInstance(){let e=window.$monomerLibHelperPromise;return null==e&&(e=window.$monomerLibHelperPromise=(async()=>new kn(To.logger))()),e}}var Fn=n(1757),Gn=n.n(Fn);class Bn{monomer;root=s.divV([],{classes:"monomer-card-root"});_selected=!1;get selected(){return this._selected}set selected(e){this._selected=e,this.root.style.border=e?"2px solid var(--green-2)":"2px solid var(--grey-2)"}constructor(e){this.monomer=e}render(){s.empty(this.root);const e=this.monomer.smiles&&r.chem.checkSmiles(this.monomer.smiles)?r.chem.drawMolecule(this.monomer.smiles,200,200):r.chem.drawMolecule(this.monomer.molfile??"",200,200);this.root.appendChild(e);const t=s.divH([s.divText("Monomer Name: "),s.divText(this.monomer.name)],{classes:"monomer-card-info-row"});if(this.root.appendChild(t),s.tooltip.bind(t,this.monomer.name),this.monomer.lib?.source){const e=s.divH([s.divText("Source: "),s.divText(this.monomer.lib.source)],{classes:"monomer-card-info-row"});this.root.appendChild(e),s.tooltip.bind(e,this.monomer.lib.source)}const n=s.divH([s.divText("Polymer Type: "),s.divText(this.monomer.polymerType)],{classes:"monomer-card-info-row"});this.root.appendChild(n),s.tooltip.bind(n,this.monomer.polymerType),s.tooltip.bind(this.root,"Select Monomer")}}class Vn{monomerSymbol;monomers;root=s.divH([],{style:{alignItems:"center",width:"100%",overflow:"hidden",visibility:"visible"},classes:"duplicate-monomer-symbol-row"});monomerCards;constructor(e,t,n,i){this.monomerSymbol=e,this.monomers=t,this.monomerCards=t.map(e=>new Bn(e));const o=s.divH([],{style:{overflowX:"auto",width:"100%"}}),r=s.h1(e,{style:{lineHeight:"2em",fontSize:"1.5em",marginRight:"20px",width:"100px",overflow:"hidden",textOverflow:"elipsis"}});s.tooltip.bind(r,e),this.root.appendChild(r),this.root.appendChild(o),this.monomerCards.forEach(e=>{e.root.onclick=()=>{this.monomerCards.forEach(e=>e.selected=!1),e.selected=!0,i(e.monomer)},n&&e.monomer===n&&(e.selected=!0),o.appendChild(e.root)})}render(){this.monomerCards.forEach(e=>e.render())}}class Un{monomerCardRows=[];saveSettingsPromise=Promise.resolve();searchInput;_root;monomers;settings;filteredMonomerRows=[];static _instance;vv;static async getInstance(){return Un._instance||(Un._instance=new Un,await Un._instance.refresh(),(await kn.getInstance()).getMonomerLib().onChanged.subscribe(async()=>await Un._instance.refresh())),Un._instance.refresh(),Un._instance}async refresh(){this.settings=await(0,Ne.u)();const e=await kn.getInstance();await e.awaitLoaded(),this.monomers=e.duplicateMonomers,this.monomerCardRows=[];for(const t in this.monomers)for(const n in this.monomers[t]){const i=this.settings.duplicateMonomerPreferences?.[t]?.[n]??null,o=i?this.monomers[t][n].find(e=>e.lib?.source===i)??null:null;this.monomerCardRows.push(new Vn(n,this.monomers[t][n],o,async i=>{this.saveSettingsPromise=this.saveSettingsPromise.then(async()=>{i.lib?.source&&(this.settings.duplicateMonomerPreferences=this.settings.duplicateMonomerPreferences??{},this.settings.duplicateMonomerPreferences[t]=this.settings.duplicateMonomerPreferences[t]??{},this.settings.duplicateMonomerPreferences[t][n]=i.lib.source,await(0,Ne.E)(this.settings),e.assignDuplicatePreferances(this.settings),r.shell.info(`Monomer '${i.name}' from source '${i.lib.source}' selected for symbol '${n}'.`))})}))}const t=s.divText("Set Default");if(t.addEventListener("click",async()=>{if(0===Object.keys(this.monomers??{}).length)return void r.shell.info("No Duplicate Monomers found");const t=new Set;for(const e in this.monomers)for(const n in this.monomers[e])for(const i of this.monomers[e][n])i.lib?.source&&t.add(i.lib.source);if(0===t.size)return void r.shell.info("No Duplicate Monomers found");const n=Array.from(t),i=s.input.choice("Default Library",{items:n,nullable:!0});s.dialog("Set Default Monomer Source for Duplicates").add(i).onOK(async()=>{if(i.value){for(const e in this.monomers)for(const t in this.monomers[e]){const n=this.monomers[e][t];n?.some(e=>e.lib?.source===i.value)&&(this.settings.duplicateMonomerPreferences=this.settings.duplicateMonomerPreferences??{},this.settings.duplicateMonomerPreferences[e]=this.settings.duplicateMonomerPreferences[e]??{},this.settings.duplicateMonomerPreferences[e][t]=i.value)}await(0,Ne.E)(this.settings),e.assignDuplicatePreferances(this.settings),r.shell.info(`Default Monomer Source for Duplicates set to '${i.value}'.`),setTimeout(()=>this.refresh(),100)}else r.shell.info("No library selected")}).show()}),this.filteredMonomerRows=this.monomerCardRows,this.vv)this.vv.setData(this.filteredMonomerRows.length,e=>(this.filteredMonomerRows[e].render(),this.filteredMonomerRows[e].root));else{this.vv=s.virtualView(this.monomerCardRows.length,e=>(this.monomerCardRows[e].render(),this.monomerCardRows[e].root)),this.vv.root.classList.add("duplicate-monomers-virtual-view"),this.searchInput=s.input.string("Search",{placeholder:"Monomer Symbol",value:"",onValueChanged:()=>e(this.searchInput.value)}),this.searchInput.root.style.justifyContent="center",this.searchInput.addOptions(t),this.searchInput.input.style.width="200px",this._root=s.divV([s.h1("Manage Duplicate Monomer Symbols",{style:{textAlign:"center"}}),this.searchInput.root,s.divV([this.vv.root],{style:{overflowY:"auto",height:"100%"}})],{style:{height:"100%"}});const e=e=>{this.filteredMonomerRows=this.monomerCardRows.filter(t=>t.monomerSymbol.toLowerCase().includes(e.toLowerCase())),this.vv.setData(this.filteredMonomerRows.length,e=>(this.filteredMonomerRows[e].render(),this.filteredMonomerRows[e].root))}}}constructor(){}get root(){return this._root}}var Wn=n(3017),qn={};async function Yn(){await Xn.showDialog()}async function jn(e=!0){return await Jn.showView(e)}qn.styleTagTransform=C(),qn.setAttributes=b(),qn.insert=f().bind(null,"head"),qn.domAPI=p(),qn.insertStyleElement=v(),d()(Wn.A,qn),Wn.A&&Wn.A.locals&&Wn.A.locals;class Kn{_widget;get widget(){return this._widget}constructor(){}static instancePromise;libHelper;static async getInstance(){return null==Kn.instancePromise&&(Kn.instancePromise=(async()=>{const e=new Kn,t=await(0,ve.pj)();return e.libHelper=t,e._widget=await e.createWidget(),e})()),Kn.instancePromise}static async reloadWidget(){const e=await Kn.getInstance();e._widget=await e.createWidget()}_fileUploadSubscription=null;async createWidget(){const e=await this.getWidgetContent(),t=await(0,ve.pj)();return this._fileUploadSubscription?.unsubscribe(),this._fileUploadSubscription=t.fileUploadRequested.subscribe(()=>this.promptToAddLibraryFiles()),new a.Widget(e)}async getWidgetContent(){const e=await zn.createControlsForm();return Gn()(e).addClass("monomer-lib-controls-form"),setTimeout(()=>{e&&Gn()(e)&&Gn()(e).removeClass("ui-form-condensed")},200),s.divV([e])}async promptToAddLibraryFiles(){a.Utils.openFile({accept:".json",open:async e=>{const t=async t=>{const n=e.name;if((await t.listLibraries()).includes(n)&&!await new Promise(e=>{s.dialog("Confirm Library Update").add(s.divText(`Library '${n}' already exists. Do you want to overwrite it?`)).onOK(()=>e(!0)).onCancel(()=>e(!1)).show()}))return;const i=await e.text(),o=a.TaskBarProgressIndicator.create(`Adding ${n} as a monomer library`);try{await t.addOrUpdateLibraryString(n,i)}catch(e){r.shell.error(`File ${n} is not a valid monomer library, verify it is aligned to HELM JSON schema.`),console.error(e)}finally{o.close()}},n=await this.libHelper.getProviders();if(0===n.length)return void r.shell.error("No monomer library providers available to add the library.");if(1===n.length)return void await t(n[0]);const i=s.dialog("Select storage for new monomer library"),o=s.input.choice("Storage",{items:n.map(e=>e.name),value:n[0].name,nullable:!1,tooltipText:"Storage provider for new monomer library"});i.add(o).onOK(async()=>{const e=n.find(e=>e.name===o.value);await t(e)}).show()}})}}class zn{libHelper;userLibSettings;constructor(e,t){this.libHelper=e,this.userLibSettings=t,this.libHelper.providersDataChanged.subscribe(async()=>{await this.updateControlsForm()})}toLog(){return"LibraryControlsManager<#>"}static async createControlsForm(){To.logger.debug("LibraryControlsForm.createControlsForm(), start");const e=await(0,Ne.u)(),t=await(0,ve.pj)();return new zn(t,e)._createControlsForm()}async _createControlsForm(){const e=await this.createLibraryControls(),t=s.wideForm(e,void 0);return Gn()(t).addClass("monomer-lib-controls-form"),t}async updateControlsForm(){const e=await this._createControlsForm();Gn()(".monomer-lib-controls-form").replaceWith(e)}async createLibraryControls(){return(await this.libHelper.getAvaliableLibraryNames()).map(e=>this.createLibInput(e))}createLibInput(e){const t=`${this.toLog()}.createLibInput()`;To.logger.debug(`${t}, libFileName = '${e}', start`);const n=!this.userLibSettings.exclude.includes(e),i=s.input.bool(e,{value:n,onValueChanged:()=>{Zn(i.value,e)}});s.tooltip.bind(i.root,`Include monomers from ${e}`);const o=s.iconFA("trash-alt",()=>this.promptForLibraryDeletion(e)),a=s.icons.edit(async()=>{r.shell.v=await(await on.getInstance()).getViewRoot(e)},"Edit monomer library");return s.tooltip.bind(o,`Delete ${e}`),i.addOptions(a),i.addOptions(o),To.logger.debug(`${t}, libFileName = '${e}', end`),i}promptForLibraryDeletion(e){s.dialog("Warning").add(s.divText(`Are you sure you want to delete library "${e}"?`)).onOK(async()=>{try{const t=a.TaskBarProgressIndicator.create(`Deleting ${e} library`);await Zn(!1,e);const n=await(0,ve.pY)(await this.libHelper.getProviders(),e);if(!n)throw new Error(`Cannot find provider for library ${e}`);await n.deleteLibrary(e),t.close()}catch(t){console.error(t),r.shell.error(`Failed to delete ${e} library`)}}).showModal(!1)}}async function Zn(e,t){const n=await(0,Ne.u)();!function(e,t,n){t?e.exclude=e.exclude.filter(e=>e!==n):e.exclude.includes(n)||e.exclude.push(n)}(n,e,t),await(0,Ne.E)(n);const i=await(0,ve.pj)();await i.loadMonomerLib(!0),r.shell.info("Monomer library user settings saved"),i.notifyLibrarySelectionChanged()}class Xn{constructor(){}static _instance;dialog;closeDialogSubject$=new u.Subject;static async showDialog(){Xn._instance||(Xn._instance=new Xn,Xn._instance.closeDialogSubject$.subscribe(()=>{Xn._instance.dialog=void 0})),Xn._instance.dialog||(Xn._instance.dialog=await Xn._instance.getDialog()),Xn._instance.dialog.show()}async getDialog(){const e=(await Kn.getInstance()).widget,t=await(0,ve.pj)(),n=s.dialog({title:"Manage monomer libraries",helpUrl:"/help/datagrok/solutions/domains/bio/bio.md#manage-monomer-libraries"});Gn()(n.root).css("width","350px"),n.clear(),n.addButton("Add",()=>t.requestFileUpload(),void 0,"Upload new HELM monomer library"),n.add(e);const i=n.onClose.subscribe(()=>{this.closeDialogSubject$.next(),i.unsubscribe()});return n}}class Jn{constructor(){}static _instance;static viewName="Manage Monomer Libraries";_view;_duplicateManager;libManager;async getView(e=!0){const t=(await Kn.getInstance()).widget,n=s.bigButton("Add",()=>this.libManager.requestFileUpload(),"Upload new HELM monomer library"),i=s.bigButton("Merge",()=>{this.mergeSelectedLibs()},"Merge selected libraries into one"),o=s.splitH([s.divV([t.root,s.buttonsInput([n,i])],{classes:"ui-form"}),this._duplicateManager.root],{style:{width:"100%",height:"100%"}},!0);if(this._view)try{this._view.subs.forEach(e=>e.unsubscribe()),this._view.detach(),this._view.close()}catch(e){}return this._view=a.View.fromRoot(o),this._view.name=Jn.viewName,e&&r.shell.addView(this._view),s.tools.waitForElementInDom(o).then(()=>{setTimeout(()=>{const e=Array.from(o.children).filter(e=>e.classList.contains("ui-box"));if(2!==e.length)return;const[t,n]=e,i=t.getBoundingClientRect().width+n.getBoundingClientRect().width,r=.3*i;t.style.width=`${r}px`;const s=i-r;n.style.width=`${s}px`},100),this._view.subs.push(r.events.onCurrentViewChanged.subscribe(()=>{try{const e=Jn._instance;e&&e._view&&r.shell.v&&"id"in r.shell.v&&r.shell.v.id===e._view.id&&e._duplicateManager?.refresh()}catch(e){console.error(e)}}))}),this._view}static async showView(e=!0){return Jn._instance||(Jn._instance=new Jn),Jn._instance._duplicateManager||(Jn._instance._duplicateManager=await Un.getInstance()),Jn._instance.libManager||(Jn._instance.libManager=await kn.getInstance()),e&&Jn._instance._view&&Array.from(r.shell.views).find(e=>e.id&&e.id===Jn._instance._view.id)?(r.shell.v=Jn._instance._view,await Jn._instance._duplicateManager.refresh(),Jn._instance._view):(Jn.closeExistingViews(),Jn._instance.getView(e))}static closeExistingViews(){Array.from(r.shell.views).filter(e=>e.name===Jn.viewName).forEach(e=>e.close())}async mergeSelectedLibs(){const e="Library with this name already exists",t=await kn.getInstance();if(await t.awaitLoaded(),!t.duplicatesHandled)return void r.shell.warning("Selected libraries contain repeating symbols with different monomers.\n Please choose the correct monomer for each symbol using duplicate monomomer manager.");const n=t.getBioLib().toJSON(),i=s.dialog("Merge selected libraries"),o=s.input.string("Library Name",{placeholder:"Enter new library name",nullable:!1,onValueChanged:()=>{const t=c(o.value);i.getButton("Download")?.classList?.toggle("d4-disabled",!!t&&t!==e),i.getButton("Save")?.classList?.toggle("d4-disabled",!!t)}}),l=await this.libManager.getAvaliableLibraryNames();function c(t){return t&&t.trim()?l.includes(t)||l.includes(t+".json")?e:null:"Library name cannot be empty"}o.addValidator(c);const u=await this.libManager.getProviders();if(0===u.length)return void r.shell.error("No monomer library providers available to save the merged library.");const h=s.input.choice("Storage",{items:u.map(e=>e.name),value:u[0].name,nullable:!1,tooltipText:"Storage provider for saving new monomer library"});i.add(h).add(o).add(s.divText(`Total monomers: ${n.length}`)).addButton("Download",()=>{a.Utils.download((()=>{let e=o.value.trim();return e||(e="New"),e.toLowerCase().endsWith(".json")||(e+=".json"),e})(),JSON.stringify(n))}).addButton("Save",async()=>{if(!o.value||!o.value.trim()||!h.value)return h.validate(),void o.validate();i.close();const e=o.value,t=JSON.stringify(n);this._view&&s.setUpdateIndicator(this._view.root,!0);try{const n=u.find(e=>e.name===h.value);await n.addOrUpdateLibraryString(e,t);const i=await(0,Ne.u)();i.exclude=l,await(0,Ne.E)(i),await this.libManager.loadMonomerLib(!0),await Kn.reloadWidget()}catch(t){r.shell.error(`Failed to save library ${e}. see console for details.`),console.error(t)}finally{this._view&&s.setUpdateIndicator(this._view.root,!1)}}).show(),i.getButton("Download")?.classList?.add("d4-disabled"),i.getButton("Save")?.classList?.add("d4-disabled")}}var Qn,ei=function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})};class ti{_setBreadcrumbsInViewName(){var e,t;const n=["Home","Demo",...(null!==(e=this._path)&&void 0!==e?e:"").split("/")],i=s.breadcrumbs(n);if(i.onPathClick.subscribe(e=>ei(this,void 0,void 0,function*(){const t=e[e.length-1];if(t===i.path[i.path.length-1])return;const n=r.shell.browsePanel.mainTree.getOrCreateGroup("Apps").getOrCreateGroup("Demo");n.currentItem="Demo"===t?n:n.items.find(e=>e.text===t)})),r.shell.v){if(0!==i.path.length&&"Home"===i.path[0]){const e=s.iconFA("home",()=>{r.shell.v.close(),r.shell.v=a.View.createByType(a.VIEW_TYPE.HOME)});e.classList.add("demo-breadcrumbs-home-element"),i.root.firstElementChild.replaceWith(e)}const e=null===(t=r.shell.v.ribbonMenu.root.parentElement)||void 0===t?void 0:t.getElementsByClassName("d4-ribbon-name")[0];e&&(e.textContent="",e.appendChild(i.root))}}constructor(e,t,n=!1,i){var o,r;this.name="",this.description="",this._isAutomatic=!1,this._autoStartFirstStep=!1,this._currentStep=0,this._isStopped=!1,this._isCancelled=!1,this._isStepProcessed=!1,this._root=s.div([],{id:"demo-script",classes:"tutorials-root tutorials-track demo-app-script"}),this._steps=[],this._mainHeader=s.panel([],"tutorials-main-header"),this._header=s.h2(""),this._headerDiv=s.divH([],"tutorials-root-header"),this._stopStartBtn=s.button(s.iconFA("pause"),()=>ei(this,void 0,void 0,function*(){return yield this._changeStopState()}),"Play / pause"),this._restartBtn=s.button(s.iconFA("redo"),()=>ei(this,void 0,void 0,function*(){return yield this._restartScript()}),"Restart"),this._nextStepBtn=s.button(s.iconFA("play"),()=>ei(this,void 0,void 0,function*(){this._isStepProcessed||(yield this._nextStep())}),"Next step"),this._activity=s.panel([],"tutorials-root-description"),this._progressDiv=s.divV([],"tutorials-root-progress"),this._progress=s.element("progress"),this._progressSteps=s.divText(""),this._closeBtn=s.button(s.iconFA("chevron-left"),()=>this._closeDock(),"Back to demo"),this.DEMO_PATH="apps/Tutorials/Demo",this.name=e,this.description=t,this._isAutomatic=n,this._autoStartFirstStep=null!==(o=null==i?void 0:i.autoStartFirstStep)&&void 0!==o&&o,this._path=null!==(r=null==i?void 0:i.path)&&void 0!==r?r:"",this._progress.max=0,this._progress.value=1,ti.currentObject=this}get steps(){return this._steps}get stepNumber(){return this._steps.length}_addHeader(){this._createHeaderDiv(),this._createProgressDiv(),this._mainHeader.append(this._headerDiv,this._progressDiv)}_createHeaderDiv(){this._header.innerText=this.name,this._headerDiv.append(this._closeBtn),this._headerDiv.append(this._header),this._nextStepBtn.firstChild.className="grok-icon fas fa-play",this._headerDiv.append(this._isAutomatic?this._stopStartBtn:this._nextStepBtn)}_createProgressDiv(){this._progress.max=this.stepNumber,this._progressDiv.append(this._progress),this._progressSteps=s.divText(`Step: ${this._progress.value} of ${this.stepNumber}`),this._progressDiv.append(this._progressSteps)}_addDescription(){var e;this._activity.append(s.div(this.description,"tutorials-root-description"));for(let t=0;t<this.stepNumber;t++){let n=s.iconFA("clock");this._isAutomatic||0===t&&(n=s.iconFA("play",()=>this._nextStep(),"Next step"),n.className="grok-icon fas fa-play");const i=s.div(this._steps[t].name,"grok-tutorial-entry-instruction"),o=s.div(null===(e=this._steps[t].options)||void 0===e?void 0:e.description,"grok-tutorial-step-description hidden"),r=s.divH([n,i],"grok-tutorial-entry");this._activity.append(r,o)}}_initRoot(){r.shell.windows.showContextPanel=!0,r.shell.windows.showHelp=!1,this._node=r.shell.dockManager.dock(this._root,a.DOCK_TYPE.FILL,r.shell.dockManager.findNode(r.shell.browsePanel.root),this.name),this._node.container.containerElement.classList.add("tutorials-demo-script-container"),this._addHeader(),this._root.append(this._mainHeader),this._addDescription(),this._root.append(this._activity)}_setViewParams(){var e;r.shell.v&&(r.shell.v.name=this.name,r.shell.v.path=`${this.DEMO_PATH}/${(null!==(e=this._path)&&void 0!==e?e:"").replaceAll(" ","-")}`,this._setBreadcrumbsInViewName())}_nextStep(){return ei(this,void 0,void 0,function*(){var e,t;this._isStepProcessed=!0,this._isAutomatic||(this._nextStepBtn.classList.add("disabled"),this._nextStepBtn.firstChild.classList.add("fa-disabled"));const n=this._activity.getElementsByClassName("grok-tutorial-entry")[this._currentStep],i=this._activity.getElementsByClassName("grok-icon")[this._currentStep],o=this._activity.getElementsByClassName("grok-tutorial-step-description")[this._currentStep];i.className="grok-icon far fa-spinner-third fa-spin",o.classList.remove("hidden"),o.classList.add("visible");const l=n,c=(null===(e=this._steps[this._currentStep].options)||void 0===e?void 0:e.delay)?null===(t=this._steps[this._currentStep].options)||void 0===t?void 0:t.delay:2e3;try{this._setViewParams(),yield this._steps[this._currentStep].func(),this._setViewParams()}catch(e){console.error(e)}this._scrollTo(this._root,l.offsetTop-this._mainHeader.offsetHeight),this._isAutomatic&&(yield this._countdown(n,i,c),yield(0,et.cb)(c));const u=s.iconFA("check");if(i.replaceWith(u),u.className="grok-icon far fa-check",this._progress.value++,this._progressSteps.innerText=`Step: ${this._progress.value} of ${this.stepNumber}`,this._currentStep++,this._isStepProcessed=!1,this._currentStep!==this.stepNumber){if(!this._isAutomatic){const e=this._activity.getElementsByClassName("grok-icon")[this._currentStep],t=s.iconFA("play",()=>this._nextStep(),"Next step");t.className="grok-icon fas fa-play",e.replaceWith(t),this._nextStepBtn.classList.remove("disabled"),this._nextStepBtn.firstChild.classList.remove("fa-disabled")}r.shell.v instanceof a.TableView&&(yield r.data.detectSemanticTypes(r.shell.tv.dataFrame))}else this._isAutomatic?this._stopStartBtn.replaceWith(this._restartBtn):this._nextStepBtn.replaceWith(this._restartBtn)})}_startScript(){return ei(this,void 0,void 0,function*(){for(let e=this._currentStep;e<this.stepNumber&&!this._isStopped&&!this._isCancelled;e++)yield this._nextStep()})}_scrollTo(e,t){e.focus(),e.scrollTop=t}_countdown(e,t,n){return ei(this,void 0,void 0,function*(){const i=s.div([],"demo-script-countdown");t.classList.add("hidden");let o=n/1e3;const r=this._createSVGIndicator(o);i.append(r),e.prepend(i);const a=setInterval(()=>{o--,0===o&&(clearInterval(a),i.remove(),t.classList.remove("hidden"),t.classList.add("visible"))},1e3)})}_createSVGIndicator(e){const t=document.createElementNS("http://www.w3.org/2000/svg","svg"),n=document.createElementNS("http://www.w3.org/2000/svg","circle");return n.setAttributeNS(null,"cx","7"),n.setAttributeNS(null,"cy","7"),n.setAttributeNS(null,"r","6"),n.setAttributeNS(null,"style",`animation: countdown ${e}s linear infinite forwards`),t.append(n),t}_changeStopState(){return ei(this,void 0,void 0,function*(){const e=this._stopStartBtn.getElementsByClassName("grok-icon");e[0].className="grok-icon fas fa-play",this._isStopped=!this._isStopped,this._isStopped||(e[0].className="grok-icon fal fa-pause",this._isStepProcessed||(yield this._startScript()))})}_restartScript(){return ei(this,void 0,void 0,function*(){r.shell.dockManager.close(this._node),this._clearRoot(),this._setInitParams(),yield this.start()})}_clearRoot(){this._root=s.div([],{id:"demo-script",classes:"tutorials-root tutorials-track demo-app-script"}),this._mainHeader=s.panel([],"tutorials-main-header"),this._header=s.h2(""),this._headerDiv=s.divH([],"tutorials-root-header"),this._activity=s.panel([],"tutorials-root-description"),this._progressDiv=s.divV([],"tutorials-root-progress"),this._progress=s.element("progress"),this._progressSteps=s.divText(""),this._progress.max=0,this._progress.value=1}_setInitParams(){this._currentStep=0,this._isStopped=!1,this._isCancelled=!1,this._stopStartBtn.getElementsByClassName("grok-icon")[0].className="grok-icon fal fa-pause",this._nextStepBtn.classList.remove("disabled")}_closeDock(){r.shell.dockManager.close(this._node),this.cancelScript()}cancelScript(){this._isCancelled=!0,ti.currentObject=null}step(e,t,n){return this._steps[this.steps.length]={name:e,func:t,options:n},this}start(){return ei(this,void 0,void 0,function*(){this._initRoot(),r.shell.v.name===this.name&&(r.shell.v.close(),this._node=r.shell.dockManager.dock(this._root,a.DOCK_TYPE.FILL,r.shell.dockManager.findNode(r.shell.browsePanel.root),this.name)),this._isAutomatic?yield this._startScript():this._autoStartFirstStep&&(yield this._nextStep())})}}ti.currentObject=null,function(e){e.X="Embed_X",e.Y="Embed_Y"}(Qn||(Qn={}));var ni=n(966),ii=n(608),oi=n(1619);class ri{urlParams;funcName;options;df;view;constructor(e,t,n={}){this.urlParams=e,this.funcName=t,this.options=n}async init(e){this.df=e,await this.buildView()}async buildView(){const e=oe()(this.urlParams.entries()).map(([e,t])=>`${e}=${encodeURIComponent(t)}`).toArray().join("&");this.view=r.shell.addTableView(this.df),this.view.path=this.view.basePath=`func/${To.name}.${this.funcName}?${e}`;const t={...this.options,sequenceColumnName:"sequence"};for(const[e,n]of this.urlParams.entries())switch(e){case ot.n5.fixWidth:case ot.n5.fitArea:t[e]=(e=>["1","on","true"].includes(e.toLowerCase()))(n);break;default:t[e]=n}const n=await this.view.dataFrame.plot.fromType("WebLogo",t);this.view.dockManager.dock(n,a.DOCK_TYPE.DOWN,null,"WebLogo",.35)}}class si{tableInput;seqColInput;funcParamsDiv;get funcParams(){return{table:this.tableInput.value,sequence:this.seqColInput.value}}get paramsUI(){return this.funcParamsDiv}constructor(){this.tableInput=s.input.table("Table",{value:r.shell.tv.dataFrame,onValueChanged:()=>{this.onTableInputChanged()}});const e=this.tableInput.value.columns.bySemType(a.SEMTYPE.MACROMOLECULE);this.seqColInput=s.input.column("Sequence",{table:this.tableInput.value,value:e,filter:e=>e.semType===a.SEMTYPE.MACROMOLECULE}),this.funcParamsDiv=s.inputs([this.tableInput,this.seqColInput],{style:{minWidth:"320px"}})}onTableInputChanged(){this.seqColInput=s.input.column("Sequence",{table:this.tableInput.value,value:this.tableInput.value.columns.bySemType(a.SEMTYPE.MACROMOLECULE)})}}var ai=n(6869);new class{tooltipHandlerTemp="tooltip-handler.Monomer"};const li="-";class ci extends We{constructor(e,t){super(e,t)}render(e,t,n,i,o,r,s){e.save(),e.beginPath(),e.rect(t,n,i,o),e.clip();try{if(!r.isTableCell)return;const s=r.cell?.column&&r.cell.column?.dart&&"true"===r.cell.column.getTag(Oe.Mn.applyToBackground);e.font="12px monospace",e.textBaseline="middle",e.textAlign="left";let a=r.cell.value;a&&a!==we._S||(a=li);const l=a.split(we.ot).map(e=>e&&e!==we._S?e.trim():li),c=l.map(e=>(0,pe.zS)(e,Math.max(2,Math.floor(.15*i/l.length)))),u=c.map(t=>e.measureText(t).width),h=u.reduce((e,t)=>e+t,0);let d=t+(i-h)/2;const m=this.tableCol.getTag(we.gp.alphabet),p=m===pe.YI.RNA||m===pe.YI.DNA?ai.o.NUCLEOTIDE:ai.o.AA;for(let a=0;a<c.length;a++){const h=l[a],m=this.getHelmType(r,p);let g=De.S$,f="rgb(255, 255, 255)";if(this.monomerLib)if(s){const e=this.monomerLib.getMonomerColors(m,h);g=e?.textcolor??g,f=e?.backgroundcolor??f}else g=this.monomerLib.getMonomerTextColor(m,h);s&&1==l.length&&(e.fillStyle=f,e.fillRect(t,n,i,o)),e.fillStyle=g,e.fillText(c[a],d,n+o/2,i),d+=u[a]}}finally{e.restore()}}onMouseMove(e,t){const[n,i,o]=(0,Ge.BG)(e);if(e.grid.dart!=this.gridCol?.grid.dart||n?.dart!=this.gridCol?.dart||!i||!e.isTableCell)return!1;const r=i.getTag(we.gp.alphabet),a=e.cell.value,l=e.grid.canvas.getBoundingClientRect(),c=e.bounds.right+l.left-4,u=e.bounds.bottom+l.top-4;if(!a||a==we._S||a==li)return s.tooltip.show(s.divText("gap"),c,u),!0;if(!this.monomerLib)return s.tooltip.show(s.divText("Monomer library is not available."),c,u),!0;const h=r===pe.YI.RNA||r===pe.YI.DNA?ai.o.NUCLEOTIDE:ai.o.AA,d=a.split(we.ot).map(t=>{if(!t||t===we._S||t===li)return s.divText("gap");const n=this.getHelmType(e,h);return this.monomerLib.getTooltip(n,t)}),m=s.divH(d,{style:{alignItems:"top"}}),p=Array.from(m.querySelectorAll("canvas"));if(p.length>2){const e=Math.floor(550/p.length);p.forEach(t=>{t.style.setProperty("max-width",`${e}px`,"important"),t.style.setProperty("max-height",`${e}px`,"important")})}return s.tooltip.show(m,c,u),!0}getHelmType(e,t){let n=t;const[i,o,r]=(0,Ge.BG)(e);if((e.tableRowIndex??-1)>-1&&o?.getTag(we.qE.polymerTypeColumnName)){const t=o.getTag(we.qE.polymerTypeColumnName),i=o.dataFrame?.col(t);if(i){const t=i.get(e.tableRowIndex);t&&["BLOB","CHEM","G","PEPTIDE","RNA"].includes(t)&&(n=(0,ke.MD)(t))}}return n}async awaitRendered(e=1e4,t=`${e} timeout`){return Promise.resolve()}static getOrCreate(e){const[t,n,i]=(0,Ge.BG)(e);let o=i.rendererBack;return o||(o=i.rendererBack=new ci(t,n)),o}}class ui extends a.GridCellRenderer{get name(){return qe.uF.MONOMER}get cellType(){return qe.uF.MONOMER}get defaultHeight(){return 15}get defaultWidth(){return 40}render(e,t,n,i,o,r,s){ci.getOrCreate(r).render(e,t,n,i,o,r,s)}onMouseMove(e,t){ci.getOrCreate(e).onMouseMove(e,t),t.preventDefault()}}class hi{constructor(e,t,n=""){this.target=e,this.debugEnabled=t,this.prefix=n}error(e,t,n){return this.target.error(this.prefix+e,t,n)}warning(e,t){return this.target.warning(this.prefix+e,t)}info(e,t){return this.target.info(this.prefix+e,t)}debug(e,t){if(this.debugEnabled)return this.target.debug(this.prefix+e,t)}}class di extends Map{_onPropertyChanged=new u.Subject;get onPropertyChanged(){return this._onPropertyChanged}get fontSize(){const e=super.get("FontSize");return e&&!isNaN(e)?Number.parseInt(e):12}set fontSize(e){super.set("FontSize",e),this._onPropertyChanged.next("FontSize")}get maxMonomerLength(){const e=super.get("MaxMonomerLength");return"long"===e?null:parseInt(e)}set maxMonomerLength(e){const t=null==e?"long":e.toString();super.set("MaxMonomerLength",t),this._onPropertyChanged.next("MaxMonomerLength")}get tooltipWebLogo(){return super.get("TooltipWebLogo")}set tooltipWebLogo(e){super.set("TooltipWebLogo",e),this._onPropertyChanged.next("TooltipWebLogo")}get defaultSeparator(){return super.get("DefaultSeparator")}set defaultSeparator(e){if(1!==e.length)throw new Error("The separator must be of length one.");super.set("DefaultSeparator",e),this._onPropertyChanged.next("DefaultSeparator")}constructor(e){super(Object.entries(e))}}class mi extends a.Package{_properties;_seqHelper;get seqHelper(){if(!this._seqHelper)throw new Error("Package Bio .seqHelper is not initialized.");return this._seqHelper}_monomerLib;get monomerLib(){if(!this._monomerLib)throw new Error("Package Bio .monomerLib is not initialized.");return this._monomerLib}_monomerSets;get monomerSets(){if(!this._monomerSets)throw new Error("Package Bio .monomerSets is not initialized.");return this._monomerSets}_rdKitModule;get rdKitModule(){if(!this._rdKitModule)throw new Error("Package Bio .rdKitModule is not initialized.");return this._rdKitModule}get properties(){return this._properties}set properties(e){this._properties=e}_initialized=!1;get initialized(){return this._initialized}constructor(e={debug:!1}){super(),super._logger=new hi(super.logger,e.debug)}completeInit(e,t,n,i){this._seqHelper=e,this._monomerLib=t,this._monomerSets=n,this._rdKitModule=i,this._initialized=!0}handleErrorUI(e){const[t,n]=(0,Ce.AP)(e);r.shell.error(t),this.logger.error(t,void 0,n)}}var pi=n(6307),gi=n(5999),fi={};fi.styleTagTransform=C(),fi.setAttributes=b(),fi.insert=f().bind(null,"head"),fi.domAPI=p(),fi.insertStyleElement=v(),d()(gi.A,fi),gi.A&&gi.A.locals&&gi.A.locals;class yi extends a.Widget{seqCol;seqHelper;get type(){return"MacromoleculeColumnWidget"}viewed=!1;wlViewer=null;constructor(e,t){super(s.divV([])),this.seqCol=e,this.seqHelper=t}async init(){const e=this.seqHelper.getSeqHandler(this.seqCol),t=To.properties.tooltipWebLogo,n=this.seqCol.getTag(tt.gp.tooltipWebLogo);!1===t||["false","off","disable","disabled"].includes(n)||(this.wlViewer=await this.seqCol.dataFrame.plot.fromType("WebLogo",{sequenceColumnName:this.seqCol.name,backgroundColor:0,positionHeight:"Entropy",positionWidth:e.getAlphabetIsMultichar()?24:16,fixWidth:!0,fitArea:!1,positionNames:"",endPositionName:"50"}),this.wlViewer.root.style.height="50px",this.root.appendChild(this.wlViewer.root),this.root.style.width="100%")}detach(){this.wlViewer&&(this.wlViewer.detach(),this.wlViewer=null),super.detach()}}function bi(e,t,n,i){const o=To.seqHelper.getSeqHandler(e);let r=null,s=null;for(let e=0;e<o.posList.length;++e)o.posList[e]==t&&(r=e),o.posList[e]==n&&(s=e);if(null==r&&null!==t)throw new Error(`Start position ${t} not found.`);if(null==s&&null!==n)throw new Error(`End position ${n} not found.`);if(o.posList.length<s)throw new Error(`End position ${s} exceeds positions length`);const a=i||`${e.name}: (${t??""}-${n??""})`;return o.getRegion(r,s,a)}const wi={df:a.DataFrame.fromCsv("seq,value\nATCCGTCGT,0.5\nTGTTCGTCA,0.4\nATGGTCGTA,0.7\nATCCGTGCA,0.1"),colName:"seq",positionNames:["1","1A","1C","2","4","4A","4B","5","6"].join(pe.z1),regions:[{name:"first region",start:"1",end:"2"},{name:"second region",start:"1C",end:"4"},{name:"overlapping second",start:"1C",end:"4A"},{name:"whole sequence",start:"1",end:"6"},{name:"bad start",start:"0",end:"6"},{name:"bad end",start:"1",end:"4C"},{name:"bad start & end",start:"0",end:"4C"}]};class vi{urlParams;funcName;view;data;constructor(e,t){this.urlParams=e,this.funcName=t}async init(e){this.data=e??wi;const t=this.data.df.getCol(this.data.colName);this.data.positionNames&&t.setTag(pe.gp.positionNames,this.data.positionNames),this.data.regions&&t.setTag(pe.gp.regions,JSON.stringify(this.data.regions)),await this.buildView()}async buildView(){await r.data.detectSemanticTypes(this.data.df),this.view=r.shell.addTableView(this.data.df),this.view.path=this.view.basePath=`func/${To.name}.${this.funcName}`;const e=await this.view.dataFrame.plot.fromType("WebLogo",{sequenceColumnName:this.data.colName});this.view.dockManager.dock(e,a.DOCK_TYPE.DOWN,null,"WebLogo",.35)}}class Ti{call;seqHelper;inputs=new class{table;sequence;region;start;end;name};constructor(e,t){this.call=e,this.seqHelper=t;const n=e=>this.call.inputParams[e].property.description;this.inputs.table=s.input.table("Table",{value:this.call.inputParams.table.value??r.shell.tv.dataFrame});const i=this.call.inputParams.sequence.value??this.inputs.table.value.columns.bySemType(a.SEMTYPE.MACROMOLECULE);this.inputs.sequence=s.input.column("Sequence",{table:r.shell.tv.dataFrame,value:i,onValueChanged:this.sequenceInputChanged.bind(this),filter:e=>e.semType===a.SEMTYPE.MACROMOLECULE}),this.inputs.start=s.input.choice("Start",{onValueChanged:this.startInputChanged.bind(this)}),this.inputs.end=s.input.choice("End",{onValueChanged:this.endInputChanged.bind(this)}),this.inputs.region=s.input.choice("Region",{value:null,items:[],onValueChanged:this.regionInputChanged.bind(this)}),this.inputs.name=s.input.string("Column name",{value:this.getDefaultName(),onValueChanged:this.nameInputChanged.bind(this),clearIcon:!0}),this.inputs.name.onInput.subscribe(()=>this.nameInputInput.bind(this));for(const e in this.call.inputParams)s.tooltip.bind(this.inputs[e].captionLabel,n(e));this.sequenceInputChanged()}sequenceInputChanged(){const e=this.inputs.sequence.value;e&&this.seqHelper.getSeqHandler(e),this.updateRegionItems(),this.updateStartEndInputItems(),this.updateRegion(!0),this.updateNameInput()}fixRegion=!1;regionInputChanged(){this.fixRegion=!0;try{const e=this.inputs.region.stringValue,t=e?JSON.parse(e):null;if(null!==t)this.inputs.start.value=t?.start,this.inputs.end.value=t?.end;else{const e=this.seqHelper.getSeqHandler(this.inputs.sequence.value);this.inputs.start.value=e.posList[0],this.inputs.end.value=e.posList[e.posList.length-1]}}finally{this.fixRegion=!1}}startInputChanged(){this.updateRegion(!1),this.updateNameInput()}endInputChanged(){this.updateRegion(!1),this.updateNameInput()}nameInputChanged(){this.defaultNameUpdating||(this.defaultName=!1)}nameInputInput(){this.inputs.name.value||(this.defaultName=!0,this.inputs.name.input.focus())}updateStartEndInputItems(){const e=this.inputs.sequence.value,t=e?this.seqHelper.getSeqHandler(e):null,n=this.inputs.start.input,i=this.inputs.end.input;for(let e=n.options.length-1;e>=0;--e)n.options.remove(e);for(let e=i.options.length-1;e>=0;--e)i.options.remove(e);for(const e of t?.posList??[]){const t=document.createElement("option"),o=document.createElement("option");t.text=o.text=e,t.value=o.value=e,n.options.add(t),i.options.add(o)}n.value=t?.posList[0]??"",i.value=t?.posList[t?.posList.length-1]??""}updateRegionItems(){const e=this.inputs.sequence.value,t=e?e.getTag(pe.gp.regions):null,n=t?JSON.parse(t):null,i=this.inputs.region.input;for(let e=i.options.length-1;e>=0;--e)i.options.remove(e);const o=document.createElement("option");if(o.text="",o.value=JSON.stringify(null),i.options.add(o),null!=n){this.inputs.region.root.style.removeProperty("display");for(const e of n){const t=document.createElement("option");t.text=`${e.name}: ${e.start}-${e.end}`,t.value=JSON.stringify(e),i.options.add(t)}}else this.inputs.region.root.style.display="none"}updateRegion(e){const t=this.inputs.start.stringValue??"",n=this.inputs.end.stringValue??"";if(!this.fixRegion){const e=this.inputs.region.input;e.selectedIndex=-1;for(let i=e.options.length-1;i>=0;--i){const o=e.options[i],r=JSON.parse(o.value);r&&t===r.start&&n===r.end&&(e.selectedIndex=i)}}}defaultName=!0;defaultNameUpdating=!1;updateNameInput(){this.defaultNameUpdating=!0;try{this.defaultName&&(this.inputs.name.value=this.getDefaultName())}finally{this.defaultNameUpdating=!1}}getDefaultName(){const e=this.inputs.region.stringValue,t=e?JSON.parse(e):null,n=this.inputs.sequence.value,i=this.inputs.start.stringValue??"",o=this.inputs.end.stringValue??"";return null!=t?`${n.name}(${t.name}): ${t.start}-${t.end}`:`${n?.name}: (${i}-${o})`}getParams(){return{table:this.inputs.table.value,sequence:this.inputs.sequence.value,start:this.getStart(),end:this.getEnd(),name:this.getName()}}getStart(){return this.inputs.start.stringValue}getEnd(){return this.inputs.end.stringValue}getName(){const e=this.inputs.name.stringValue;return""==e?null:e}dialog(){const e=s.inputs(Object.values(this.inputs),{style:{minWidth:"320px"}});s.dialog({title:"Get Region"}).add(e).onOK(()=>{(async()=>{const e=this.getParams();await this.call.func.prepare(e).call(!0)})().catch(e=>{To.handleErrorUI(e)})}).show()}widget(){const e=s.inputs(Object.entries(this.inputs).filter(([e,t])=>!["table","sequence"].includes(e)).map(([e,t])=>t)),t=s.button("Get Region",()=>{(async()=>{const e=this.getParams();await this.call.func.prepare(e).call(!0)})().catch(e=>{To.handleErrorUI(e)})});return a.Widget.fromRoot(s.divV([e,s.div(t)]))}}var Ci=n(8754);async function Ai(e,t,n,i,o){const s=await async function(e,t,n,i,o){const s=ye(t,o),l=o.getSeqHandler(t).getNewColumnFromList("ref",[n]),c=o.getSeqHandler(l).getSplitted(0),u=i===be.IDENTITY?function(e,t){const n=t.columns.length,i=new Array(n),o=new Array(n),r=new Array(n);for(let s=0;s<n;++s){const n=t.columns.byIndex(s);i[s]=n.getRawData(),o[s]=n.categories.indexOf("");const a=s<e.length?e.getOriginal(s):we._S;r[s]=n.categories.indexOf(a)}const s=a.Column.float("Identity",t.rowCount),l=s.getRawData();for(let n=0;n<t.rowCount;++n){l[n]=0;for(let t=0;t<e.length;++t)(i[t]?i[t][n]:0)===r[t]&&++l[n];l[n]/=e.length}return s}(c,s):i===be.SIMILARITY?await async function(e,t,n){const i=t.columns.toList(),o=await async function(e,t,n){e instanceof a.Column&&(e=ye(e,n).columns.toList());const i=(await(0,ve.pj)()).getMonomerLib(),o=new Array(e.length),s=e[0].length,l=new Float32Array(s);for(let n=0;n<e.length;++n){const c=n<t.length?t.getCanonical(n):we._S,u=i.getMonomer("PEPTIDE",c)?.smiles??"",h=e[n],d=h.getRawData(),m=h.categories,p=m.indexOf("");if(o[n]={categories:m,data:d,emptyIndex:p},void 0===c)continue;const g=a.Column.fromStrings("smiles",m.map(e=>i.getMonomer("PEPTIDE",e)?.smiles??"")),f=(a.DataFrame.fromColumns([g]),await r.chem.getSimilarities(g,u)),y=f?f.getRawData():null;for(let e=0;e<s;++e){const t=d[e];c!==we._S&&t!==p?l[e]+=y[t]:c===we._S&&t===p&&(l[e]+=1)}}for(let n=0;n<l.length;++n){let i=l[n]/t.length;for(let r=0;r<e.length;++r){const e=o[r];if(r>=t.length&&e.data[n]!==e.emptyIndex||e.data[n]===e.emptyIndex&&r<t.length){i=a.FLOAT_NULL;break}}l[n]=i}return a.Column.fromFloat32Array("Similarity",l)}(i,e,n);return o}(c,s,o):null;if(null===u)throw new Error(`In bio library: Unknown sequence scoring method: ${i}`);return u.name=e.columns.getUnusedName(u.name),e.columns.add(u),u}(e,t,n,i,o);for(let e=0;e<s.length;e++)t.isNone(e)&&s.set(e,null,!1);return s}var Ei=n(294),Si=n(330);const Mi=OCL;var Pi=n(2582);class _i{monomerSymbol;constructor(e){this.monomerSymbol=e}atoms;bonds;rGroups;get atomCount(){return this.atoms.count}get bondCount(){return this.bonds.count}shiftR1GroupToOrigin(){const e=this.rGroups.getAtomicIdx(1);if(null==e)return;const{x:t,y:n}=this.atoms.atomCoordinates[e];this.atoms.shift({x:-t,y:-n})}alignR2AlongX(){const e=this.rGroups.getAtomicIdx(2);if(null==e)throw new Error(`Cannot find R2 group for monomer ${this.monomerSymbol}`);const t=this.atoms.atomCoordinates[e],n=t.y/t.x,i=Math.atan(n);if(isNaN(i))throw new Error(`Cannot calculate angle for R2 group for monomer ${this.monomerSymbol}`);this.rotateCoordinates(-i)}shiftMonomerToDefaultPosition(){this.shiftR1GroupToOrigin(),null!==this.rGroups.getAtomicIdx(2)&&this.alignR2AlongX()}deleteBondLineWithSpecifiedRGroup(e){this.rGroups.deleteBondLineWithSpecifiedRGroup(e)}shiftCoordinates(e){this.atoms.shift(e)}rotateCoordinates(e){this.atoms.rotate(e)}getBondLines(){return this.bonds.getBondLines()}getAtomLines(){return this.atoms.atomLines}removeRGroups(e){this.rGroups.removeRGroups(e)}replaceRGroupWithAttachmentAtom(e,t){this.rGroups.replaceRGroupWithAttachmentAtom(e,t)}getAttachmentAtomByRGroupId(e){return this.rGroups.getAttachmentAtomIdByRGroupId(e)}shiftBonds(e){this.bonds.shift(e)}capRGroups(e){this.rGroups.capRGroups(e)}}var Ii=n(6956);class Li{atoms;bonds;constructor(e,t,n){this.atoms=t,this.bonds=n,this.rGroupIdToAtomicIndexMap=e.getRGroupIdToAtomicIdxMap()}rGroupIdToAtomicIndexMap;rGroupBondPositionMap=new Map;getAtomicIdx(e){const t=this.rGroupIdToAtomicIndexMap.get(e);return null==t?null:t}removeRGroupsFromAtomBlock(e){e.forEach(e=>{if(null==this.rGroupIdToAtomicIndexMap.get(e))throw new Error(`Cannot find atomic index for R group ${e}`)});const t=Array.from(this.rGroupIdToAtomicIndexMap.entries()).filter(([t,n])=>e.includes(t)).map(([e,t])=>t);this.atoms.deleteAtoms(t)}removeRGroups(e){this.removeRGroupsFromAtomBlock(e),e.forEach(e=>{const t=this.replaceRGroupInBondsByDummy(e);this.rGroupBondPositionMap.set(e,t)})}replaceRGroupInBondsByDummy(e){const t=this.rGroupIdToAtomicIndexMap.get(e);if(this.rGroupBondPositionMap.has(e))throw new Error(`R group ${e} is already handled`);const n=this.bonds.getPositionsInBonds(t+1);if(0===n.length)throw new Error(`Cannot find position for R group ${e}`);if(n.length>1)throw new Error(`More than one position for R group ${e}`);const i=n[0];return this.bonds.replacePositionsInBondsByDummy([i]),this.bonds.removeAtomIdFromBonds(t+1),this.removeRGroupFromAtomicIdxMap(e,t),i}removeRGroupFromAtomicIdxMap(e,t){this.rGroupIdToAtomicIndexMap.delete(e);for(const[e,n]of this.rGroupIdToAtomicIndexMap)n>t&&this.rGroupIdToAtomicIndexMap.set(e,n-1)}deleteBondLineWithSpecifiedRGroup(e){const t=this.rGroupBondPositionMap.get(e);if(!t)throw new Error(`Cannot find position for R group ${e}`);const{bondLineIdx:n}=t;this.bonds.deleteBondLines([n]),this.rGroupBondPositionMap.delete(e),this.rGroupIdToAtomicIndexMap.delete(e),this.rGroupBondPositionMap.forEach(e=>{e.bondLineIdx>n&&(e.bondLineIdx-=1)})}replaceRGroupWithAttachmentAtom(e,t){const n=this.rGroupBondPositionMap.get(e);if(!n)throw new Error(`Cannot find position for R group ${e}`);const{bondLineIdx:i,nodeIdx:o}=n;this.bonds.bondedAtoms[i][o]=t}getAttachmentAtomIdByRGroupId(e){const t=this.rGroupBondPositionMap.get(e);if(!t)throw new Error(`Cannot find position for R group ${e}`);const{bondLineIdx:n,nodeIdx:i}=t;return this.bonds.bondedAtoms[n][(i+1)%2]}capRGroups(e){this.rGroupIdToAtomicIndexMap.forEach((t,n)=>{const i=e[n-1];i===Ii.m?(this.removeRGroups([n]),this.deleteBondLineWithSpecifiedRGroup(n)):this.atoms.replaceRGroupSymbolByElement(t,i)})}}class xi{coordinates=[];rawAtomLines=[];get count(){return this.coordinates.length}get atomCoordinates(){return this.coordinates}replaceRGroupSymbolByElement(e,t){this.rawAtomLines[e]=this.rawAtomLines[e].replace("R#",t)}deleteAtoms(e){this.coordinates=this.coordinates.filter((t,n)=>!e.includes(n)),this.rawAtomLines=this.rawAtomLines.filter((t,n)=>!e.includes(n))}shift(e){this.coordinates=this.coordinates.map(t=>{const n=t.x+e.x,i=t.y+e.y;if(isNaN(n)||isNaN(i))throw new Error(`Cannot shift coordinates by ${e.x}, ${e.y}`);return{x:n,y:i}})}rotate(e){this.coordinates=this.coordinates.map(t=>{const n=t.x,i=t.y,o=n*Math.cos(e)-i*Math.sin(e),r=n*Math.sin(e)+i*Math.cos(e);if(isNaN(o)||isNaN(r))throw new Error(`Cannot rotate coordinates by ${e}`);return{x:o,y:r}})}}class Ni extends xi{constructor(e){super(),this.rawAtomLines=e.getAtomLines(),this.coordinates=this.rawAtomLines.map(e=>({x:parseFloat(e.substring(0,10)),y:parseFloat(e.substring(10,20))}))}get atomLines(){return this.rawAtomLines.map((e,t)=>{const n=this.coordinates[t];return`${n.x.toFixed(4).padStart(10," ")}${n.y.toFixed(4).padStart(10," ")}${e.substring(20)}`})}}class Ri{bondedAtomPairs=[];rawBondLines=[];get count(){return this.bondedAtomPairs.length}get bondedAtoms(){return this.bondedAtomPairs}deleteBondLines(e){this.rawBondLines=this.rawBondLines.filter((t,n)=>!e.includes(n)),this.bondedAtomPairs=this.bondedAtomPairs.filter((t,n)=>!e.includes(n))}getPositionsInBonds(e){const t=[];return this.bondedAtomPairs.forEach((n,i)=>{n.forEach((n,o)=>{n===e&&t.push({bondLineIdx:i,nodeIdx:o})})}),t}replacePositionsInBondsByDummy(e,t){null==t&&(t=-1),e.forEach(e=>{const{bondLineIdx:n,nodeIdx:i}=e;this.bondedAtomPairs[n][i]=t})}removeAtomIdFromBonds(e){this.bondedAtomPairs=this.bondedAtomPairs.map(t=>t.map(t=>t>e?t-1:t))}shift(e){this.bondedAtomPairs=this.bondedAtomPairs.map(t=>t.map(t=>t+e))}}class $i extends Ri{constructor(e){super(),this.rawBondLines=e.getBondLines(),this.bondedAtomPairs=this.rawBondLines.map(e=>[parseInt(e.substring(0,3)),parseInt(e.substring(3,6))])}getBondLines(){return this.bondedAtomPairs.map((e,t)=>{if(e.some(e=>-1===e))throw new Error(`Bonded pair ${e} contains -1`);return`${e[0].toString().padStart(3," ")}${e[1].toString().padStart(3," ")}${this.rawBondLines[t].substring(6)}`})}}class Hi extends _i{constructor(e,t){super(t);const n=$t.getInstance(e);this.atoms=new Ni(n),this.bonds=new $i(n),this.rGroups=new Li(n,this.atoms,this.bonds),this.shiftMonomerToDefaultPosition()}}class Oi extends xi{molfileHandler;constructor(e){super(),this.molfileHandler=e,this.rawAtomLines=e.getAtomLines(),this.coordinates=this.getCoordinates()}getCoordinates(){const e=this.molfileHandler.x,t=this.molfileHandler.y;return Array.from(e).map((e,n)=>({x:e,y:t[n]}))}get atomLines(){const e=/^(M V30 [^-]*)(-?\d+\.\d+)( )(-?\d+\.\d+)( -?\d+\.\d+.*)$/,t=/\sRGROUPS=\(\d+(\s+\d+)*\)/;return this.rawAtomLines.map((n,i)=>{const o=this.coordinates[i],r=o.x.toFixed(4)+"00",s=o.y.toFixed(4)+"00";return n.replace(e,(e,t,n,i,o,a)=>t+r+i+s+a).replace(t,"")})}replaceRGroupSymbolByElement(e,t){super.replaceRGroupSymbolByElement(e,t);const n=this.rawAtomLines[e].substring(3).split(" ");n.length>7&&(this.rawAtomLines[e]=`M ${n.slice(0,7).join(" ")}`)}}class Di extends Ri{molfileHandler;constructor(e){super(),this.molfileHandler=e,this.rawBondLines=e.getBondLines(),this.bondedAtomPairs=this.getBondedAtomPairs()}getBondedAtomPairs(){return this.molfileHandler.pairsOfBondedAtoms.map(e=>[e[0],e[1]])}getBondLines(){const e=/^(M\s+V30\s+\d+\s+\d+\s+)(\d+)(\s+)(\d+)(.*)$/;return this.bondedAtomPairs.map((t,n)=>{if(t.some(e=>-1===e))throw new Error(`Bonded pair ${t} contains -1`);return this.rawBondLines[n].replace(e,(e,n,i,o,r,s)=>`${n}${t[0]}${o}${t[1]}${s}`)})}}class ki extends _i{constructor(e,t){super(t);const n=$t.getInstance(e);this.atoms=new Oi(n),this.bonds=new Di(n),this.rGroups=new Li(n,this.atoms,this.bonds),this.shiftMonomerToDefaultPosition()}}class Fi{static getInstance(e,t){if($t.isMolfileV2K(e))return new Hi(e,t);if($t.isMolfileV3K(e))return new ki(e,t);throw new Error("Unsupported molfile version")}}class Gi{monomerSymbol;monomerIdx;helm;monomerLib;molfileWrapper;capGroupElements=[];static molfileV2KToV3KCache=new Map;constructor(e,t,n,i,o,r){this.monomerSymbol=e,this.monomerIdx=t,this.helm=n,this.monomerLib=r;const s=this.getLibraryMonomerObject();let a=s.molfile;$t.isMolfileV2K(a)&&(a=this.convertMolfileToV3KFormat(a,e,o)),this.molfileWrapper=Fi.getInstance(a,e),this.capGroupElements=this.getCapGroupElements(s),this.removeRGroups(n.bondedRGroupsMap[t]),this.capRemainingRGroups(),this.shiftCoordinates(i)}get atomCount(){return this.molfileWrapper.atomCount}get bondCount(){return this.molfileWrapper.bondCount}convertMolfileToV3KFormat(e,t,n){if(Gi.molfileV2KToV3KCache.has(e))return Gi.molfileV2KToV3KCache.get(e);let i=null;try{if(i=n.get_mol(e,JSON.stringify({mergeQueryHs:!0})),i){const t=i.get_v3Kmolblock();return Gi.molfileV2KToV3KCache.set(e,t),t}throw new Error(`Cannot convert ${t} to molV3000`)}finally{i?.delete()}}getLibraryMonomerObject(){const e=this.helm.getPolymerTypeByMonomerIdx(this.monomerIdx),t=this.monomerLib.getMonomer(e,this.monomerSymbol);if(!t)throw new Error(`Monomer ${this.monomerSymbol} is not found in the library`);return t}getCapGroupElements(e){return e.rgroups.map(e=>(e.capGroupSmiles||e.capGroupSMILES).replace(/(\[|\]|\*|:|\d)/g,""))}shiftCoordinates(e){this.molfileWrapper.shiftCoordinates(e)}getAtomLines(){return this.molfileWrapper.getAtomLines()}getBondLines(){return this.molfileWrapper.getBondLines()}removeRGroups(e){this.molfileWrapper.removeRGroups(e)}capRemainingRGroups(){this.molfileWrapper.capRGroups(this.capGroupElements)}replaceRGroupWithAttachmentAtom(e,t){this.molfileWrapper.replaceRGroupWithAttachmentAtom(e,t)}getAttachmentAtomByRGroupId(e){return this.molfileWrapper.getAttachmentAtomByRGroupId(e)}deleteBondLineWithSpecifiedRGroup(e){this.molfileWrapper.deleteBondLineWithSpecifiedRGroup(e)}shiftBonds(e){this.molfileWrapper.shiftBonds(e)}}class Bi{rdKitModule;monomerLib;constructor(e,t,n){this.rdKitModule=t,this.monomerLib=n,this.helm=new Pi.f(e)}monomerWrappers=[];helm;addMonomer(e,t,n){if(e===we.b9[pe.Hi.HELM])return;const i=this.monomerWrappers.length,o=new Gi(e,i,this.helm,n,this.rdKitModule,this.monomerLib);this.monomerWrappers.push(o)}getAtomNumberShifts(){const e=[];let t=0;return this.monomerWrappers.forEach(n=>{e.push(t),t+=n.getAtomLines().length}),e}restoreBondsBetweenMonomers(){this.helm.bondData.forEach(e=>{const t=e.map(e=>e.monomerIdx),n=e.map(e=>e.rGroupId),i=t.map(e=>this.monomerWrappers[e]),o=i[1].getAttachmentAtomByRGroupId(n[1]);i[0].replaceRGroupWithAttachmentAtom(n[0],o),i[1].deleteBondLineWithSpecifiedRGroup(n[1])})}compileToMolfile(){const e=[],t=[],n=this.getAtomNumberShifts();this.monomerWrappers.forEach((e,t)=>{e.shiftBonds(n[t])}),this.restoreBondsBetweenMonomers();const i=new Ei.Cg;for(const[n,o]of oe().enumerate(this.monomerWrappers)){const r=e.length,s=t.length;e.push(...n.getAtomLines()),t.push(...n.getBondLines());const a="RNA"==this.helm.getPolymerTypeByMonomerIdx(o)?Be.o.NUCLEOTIDE:Be.o.AA;i.set(o,{biotype:a,symbol:n.monomerSymbol,atoms:oe().count(r).take(n.atomCount).toArray(),bonds:oe().count(s).take(n.bondCount).toArray()})}const o=e.length,r=t.length;return{molfile:[this.getV3KHeader(o,r),this.getV3KAtomBlock(e),this.getV3KBondBlock(t),"M V30 END CTAB\nM END"].join("\n"),monomers:i}}getV3KHeader(e,t){return`\n Datagrok\n\n 0 0 0 0 0 0 0 0 0 0999 V3000\nM V30 BEGIN CTAB\nM V30 COUNTS ${e} ${t} 0 0 1`}getV3KAtomBlock(e){const t=/^(M V30 )(\d+)( .*)$/;return["M V30 BEGIN ATOM",...e.map((e,n)=>{const i=n+1;return e.replace(t,(e,t,n,o)=>t+i+o)}),"M V30 END ATOM"].join("\n")}getV3KBondBlock(e){const t=/^(M V30 )(\d+)( .*)$/;return["M V30 BEGIN BOND",...e.map((e,n)=>{const i=n+1;return e.replace(t,(e,t,n,o)=>t+i+o)}),"M V30 END BOND"].join("\n")}}class Vi{constructor(e){this.molfileHandler=$t.getInstance(e)}molfileHandler;get monomerSymbols(){return this.molfileHandler.atomTypes}getMonomerShifts(e){return{x:this.molfileHandler.x[e],y:this.molfileHandler.y[e]}}}class Ui{helmHelper;rdKitModule;monomerLib;constructor(e,t,n){this.helmHelper=e,this.rdKitModule=t,this.monomerLib=n}convertToSmiles(e){const t=e.dataFrame,n=this.getSmilesList(e),i=`smiles(${e.name})`,o=t?t.columns.getUnusedName(i):i;return a.Column.fromStrings(o,n.map(e=>null==e?"":e))}getSmilesList(e){return this.convertToMolfileV3KColumn(e).toList().map(e=>a.chem.convert(e,a.chem.Notation.MolBlock,a.chem.Notation.Smiles))}molV3KtoMolV3KOCL(e){try{if(!e)return"";return Mi.Molecule.fromMolfile(e).toMolfileV3().replace("STERAC1","STEABS")}catch(e){const[t,n]=(0,Ce.AP)(e);return To.logger.error(t,void 0,n),""}}getMolV3000ViaOCL(e,t){const n=e.map(e=>{if(null==e)return"";const t=e.get_v3Kmolblock();return e.delete(),t}),i=new Array(n.length),o=a.TaskBarProgressIndicator.create("Handling chirality...");for(let e=0;e<n.length;e++){i[e]=this.molV3KtoMolV3KOCL(n[e]);const t=e/n.length*100;o.update(t,`${t?.toFixed(2)}% of molecules completed`)}return o.close(),a.Column.fromStrings(t,i)}convertToRdKitBeautifiedMolfileColumn(e,t,n,i){const o=e.dataFrame,r=this.convertToMolfileV3KColumn(e).toList().map(e=>{if(""===e)return null;const t=n.get_mol(e);return t?(t.set_new_coords(),t.normalize_depiction(1),t.straighten_depiction(!0),t):null}),s=`molfile(${e.name})`,l=o?o.columns.getUnusedName(s):s;return t?this.getMolV3000ViaOCL(r,l):a.Column.fromStrings(l,r.map(e=>{if(null==e)return"";const t=e.get_v3Kmolblock();return e.delete(),t}))}convertToMolfileV3KColumn(e){const t=e.dataFrame,n=this.convertToMolfileV3K(e.toList()).map(e=>e.molfile),i=(0,Si.kA)(t,`molfileV3K(${e.name})`);return a.Column.fromList("string",i,n)}convertToMolfileV3K(e){const t=new Array(e.length);for(let n=0;n<e.length;++n){const i=e[n];if(!i){t[n]=Ei.vF.createEmpty();continue}let o;try{o=this.getPolymerMolfile(i)}catch(e){const[t,n]=(0,Ce.AP)(e);To.logger.error(t,void 0,n),o=Ei.vF.createEmpty()}t[n]=o}return t}getPolymerGraphColumn(e){const t=e.toList(),n=this.helmHelper.getMolfiles(t);return a.Column.fromStrings("mols",n)}getPolymerMolfile(e){const t=this.helmHelper.removeGaps(e),n=t.resHelm,i=new Map;for(const[e,n]of t.monomerMap?.entries()??[])i.set(n,e);const o=this.helmHelper.getMolfiles([n])[0],r=new Vi(o),s=new Bi(n,this.rdKitModule,this.monomerLib);r.monomerSymbols.forEach((e,t)=>{const n=r.getMonomerShifts(t);s.addMonomer(e,t,n)});const a=s.compileToMolfile(),l=new Ei.Cg;for(const[e,t]of a.monomers.entries()){const n=i.get(e);l.set(n,t)}return new Ei.vF(a.molfile,l)}}var Wi=n(2738);class qi{seqHelper;_column;_units;_notation;_defaultGapOriginal;_notationProvider=null;_tempReadForNotProvider=!1;get notationProvider(){return this._tempReadForNotProvider||(this._tempReadForNotProvider=!0,this._notationProvider=this._notationProvider??this._column.temp[$e.j.notationProvider]??null),this._notationProvider}set notationProvider(e){this._notationProvider=e}_splitter=null;_refinerPromise=Promise.resolve();get refinerPromise(){return this._refinerPromise}constructor(e,t){if(this.seqHelper=t,e.type!==a.TYPE.STRING)throw new Error(`Unexpected column type '${e.type}', must be '${a.TYPE.STRING}'.`);this._column=e;const n=this._column.meta.units;if(!n)throw new Error("Units are not specified in column");this._units=n,this._notation=this.getNotation(),(this.isCustom()||this.isBiln())&&(this.notationProvider=this.column.temp[$e.j.notationProvider]??null);const i=this.isFasta()?we.b9[pe.Hi.FASTA]:this.isSeparator()?we.b9[pe.Hi.SEPARATOR]:this.isHelm()?we.b9[pe.Hi.HELM]:this.isCustom()||this.isBiln()?this.notationProvider?.defaultGapOriginal??we.b9[pe.Hi.SEPARATOR]:void 0;if(null==i)throw new Error(`Unexpected defaultGapOriginal for notation '${this.notation}'`);if(this._defaultGapOriginal=i,!this.column.tags.has(pe.gp.aligned)||!this.column.tags.has(pe.gp.alphabet)||!this.column.tags.has(pe.gp.alphabetIsMultichar)&&!this.isHelm()&&this.alphabet===pe.YI.UN)if(this.isFasta())this.seqHelper.setUnitsToFastaColumn(this);else if(this.isSeparator()){const t=e.getTag(pe.gp.separator);this.seqHelper.setUnitsToSeparatorColumn(this,t)}else if(this.isHelm())this.seqHelper.setUnitsToHelmColumn(this);else{if(!this.isCustom()&&!this.isBiln())throw new Error(`Unexpected units '${this.column.meta.units}'.`);this.notationProvider?.setUnits(this)}if(!this.column.tags.has(pe.gp.alphabetIsMultichar))if(this.isHelm())this.column.setTag(pe.gp.alphabetIsMultichar,"true");else if(["UN"].includes(this.alphabet))throw new Error(`For column '${this.column.name}' of alphabet '${this.alphabet}' tag '${pe.gp.alphabetIsMultichar}' is mandatory.`);this.columnVersion=this.column.version,!this.isSeparator()||(this.isCustom()||this.isBiln())&&this.notationProvider||e.temp.seqHandlerRefined||(this._refinerPromise=this.refineSeparatorNotation(),e.temp.seqHandlerRefined=!0)}async refineSeparatorNotation(){const e=((e,t,n)=>{const i={};let o=!0,r=null;for(const t of e){const e=t?n(t):[];if(null==r?r=e.length:e.length!==r&&(o=!1),e.length>=3)for(const t of e)t in i||(i[t]=0),i[t]+=1}return{freq:i,sameLength:o}})([...new Set((this.column.length<100?oe().count(0).take(Math.min(100,this.column.length)).map(e=>this.column.get(e)):this.column.categories.slice(0,100)).map(e=>e?e.substring(0,500):"").filter(e=>0!==e.length))],0,e=>e.split(this.separator));let t=!1;const n=a.Func.find({tags:["notationRefiner"]});for(const i of n)try{const n=i.prepare({col:this.column,stats:e,separator:this.separator}),o=(await n.call()).getOutputParamValue();t||=o}catch(e){console.error(e)}t&&(this._tempReadForNotProvider=!1,delete this.column.temp[$e.j.seqHandler],this.column.fireValuesChanged())}static setTags(e){const t=e.column.meta.units;if([pe.Hi.FASTA,pe.Hi.SEPARATOR].includes(t)){if(!e.column.getTag(pe.gp.alphabet)&&0===Object.keys(e.stats.freq).length)throw new Error("Alphabet is empty and not annotated.");let t=e.column.getTag(pe.gp.aligned);null==t&&(t=e.stats.sameLength?"SEQ.MSA":"SEQ",e.column.setTag(pe.gp.aligned,t));let n=e.column.getTag(pe.gp.alphabet);if(null==n&&(n=(0,ke.pc)(e.stats.freq,pe.q7),e.column.setTag(pe.gp.alphabet,n)),n===pe.YI.UN){const t=Object.keys(e.stats.freq).length,n=Object.keys(e.stats.freq).some(e=>e.length>1);e.column.setTag(pe.gp.alphabetSize,t.toString()),e.column.setTag(pe.gp.alphabetIsMultichar,n?"true":"false")}}else if(t===pe.Hi.HELM){let t=e.column.getTag(pe.gp.alphabet);if(null==t){const n=pe.q7.map(e=>new Wi.a(e.name,e.alphabet,.9));t=(0,ke.p0)(e.stats.freq,n,e.defaultGapOriginal),e.column.setTag(pe.gp.alphabet,t)}}}get column(){return this._column}get length(){return this._column.length}get units(){return this._units}get notation(){return this._notation}get defaultGapOriginal(){return this._defaultGapOriginal}get separator(){const e=this.column.getTag(pe.gp.separator)??void 0;if(this.notation===pe.Hi.SEPARATOR&&null==e)throw new Error(`Separator is mandatory for column '${this.column.name}' of notation '${this.notation}'.`);return e}get aligned(){const e=this.column.getTag(pe.gp.aligned);if(!e&&(this.isFasta()||this.isSeparator()))throw new Error("Tag aligned not set");return e}get alphabet(){const e=this.column.getTag(pe.gp.alphabet);if(!e&&(this.isFasta()||this.isSeparator()))throw new Error("Tag alphabet not set");return e}get defaultBiotype(){return this.alphabet===pe.YI.RNA||this.alphabet===pe.YI.DNA?Be.o.NUCLEOTIDE:Be.o.AA}get helmCompatible(){return this.column.getTag(pe.gp.isHelmCompatible)}getAlphabetSize(){if(this.notation==pe.Hi.HELM||this.alphabet==pe.YI.UN){const e=this.column.getTag(pe.gp.alphabetSize);let t;if(e)t=parseInt(e);else{const e=this.stats;t=Object.keys(e.freq).length}return t}switch(this.alphabet){case pe.YI.PT:return 20;case pe.YI.DNA:case pe.YI.RNA:return 4;case"NT":return console.warn("Unexpected alphabet 'NT'."),4;default:throw new Error(`Unexpected alphabet '${this.alphabet}'.`)}}getAlphabetIsMultichar(){return this.notation===pe.Hi.HELM||this.alphabet===pe.YI.UN&&"true"===this.column.getTag(pe.gp.alphabetIsMultichar)}cached=!0;_splitted=null;columnVersion=null;getSplitted(e,t){if(this.cached&&void 0===t){this.column.version===this.columnVersion&&null!=this._splitted||(this.columnVersion=this.column.version,this._splitted=new Array(this.column.length));let t=this._splitted[e]?this._splitted[e].deref():void 0;if(!t){const n=this.column.get(e);t=this.splitter(n),this._splitted[e]=new WeakRef(t)}return t}{const n=this.column.get(e);return this.getSplitter(t)(n)}}getMonomerAtPosition(e,t,n){if(this.isCanonicalAlphabet&&this.isFasta()&&!this.getAlphabetIsMultichar()){const i=(this.column.get(e)??"")[t];return n?i===we.b9[pe.Hi.FASTA]?we._S:i??we._S:i??""}const i=this.getSplitted(e);return t<0||t>=i.length?this.defaultGapOriginal:n?i.getCanonical(t):i.getOriginal(t)}getMonomersAtPosition(e,t){const n=this.column.length,i=new Array(n).fill(we._S);if(this.isCanonicalAlphabet&&this.isFasta()&&!this.getAlphabetIsMultichar()){const o=this.column.categories,r=this.column.getRawData();for(let s=0;s<n;s++){const n=o[r[s]]??"";if(e<n.length){const o=n[e];i[s]=t?o===we.b9[pe.Hi.FASTA]?we._S:o??we._S:o??""}}}else for(let o=0;o<n;o++){const n=this.getSplitted(o);e>=0&&e<n.length&&(i[o]=t?n.getCanonical(e):n.getOriginal(e))}return i}getValue(e,t){return this.column.get(e),new $e.C(e,this)}getHelm(e){let t;const n=this.column.get(e);return t=this.notation===pe.Hi.HELM?n:this.notation===pe.Hi.CUSTOM||this.notation===pe.Hi.BILN?this.notationProvider.getHelm(n,{}):this.getConverter(pe.Hi.HELM)(n),t}_stats=null;get isCanonicalAlphabet(){const e=this.alphabet;return e===pe.YI.DNA||e===pe.YI.RNA||e===pe.YI.PT}get stats(){if(null==this._stats){const e={};let t=!0,n=null;const i=this.column.length;for(let o=0;o<i;++o){const i=this.getSplitted(o);null==n?n=i.length:i.length!==n&&(t=!1);for(let t=0;t<i.length;++t){const n=i.getCanonical(t);n in e||(e[n]=0),e[n]+=1}}this._stats={freq:e,sameLength:t}}return this._stats}_maxLength=null;get maxLength(){return null==this._maxLength&&(this._maxLength=0===this.column.length?0:oe().count(0).take(this.column.length).map(e=>this.getSplitted(e).length).reduce((e,t)=>e>t?e:t,0)),this._maxLength}_posList=null;get posList(){if(null==this._posList){const e=this.column.getTag(pe.gp.positionNames);this._posList=e?e.split(pe.z1).map(e=>e.trim()):oe().count(1).take(this.maxLength).map(e=>e.toString()).toArray()}return this._posList}isFasta(){return this.notation===pe.Hi.FASTA}isSeparator(){return this.notation===pe.Hi.SEPARATOR||!!this.separator}isFastaOrSeparator(){return this.isFasta()||this.isSeparator()}isHelm(){return this.notation===pe.Hi.HELM}isCustom(){return this.notation===pe.Hi.CUSTOM}isBiln(){return this.notation===pe.Hi.BILN}isRna(){return this.alphabet===pe.YI.RNA}isDna(){return this.alphabet===pe.YI.DNA}isPeptide(){return this.alphabet===pe.YI.PT}isMsa(){return!!this.aligned&&this.aligned.toUpperCase().includes("MSA")}isHelmCompatible(){return"true"===this.helmCompatible}isGap(e){return!e||e===this._defaultGapOriginal}getNotation(){if(this.units.toLowerCase().startsWith(pe.Hi.FASTA))return pe.Hi.FASTA;if(this.units.toLowerCase().startsWith(pe.Hi.SEPARATOR))return pe.Hi.SEPARATOR;if(this.units.toLowerCase().startsWith(pe.Hi.HELM))return pe.Hi.HELM;if(this.units.toLowerCase().startsWith(pe.Hi.CUSTOM))return pe.Hi.CUSTOM;if(this.units.toLowerCase().startsWith(pe.Hi.BILN))return pe.Hi.BILN;throw new Error(`Column '${this.column.name}' has unexpected notation '${this.units}'.`)}getHelmWrappers(){return[this.isDna()||this.isRna()||this.isHelmCompatible()?"RNA1{":"PEPTIDE1{",this.isDna()?"d(":this.isRna()?"r(":"",this.isDna()||this.isRna()?")p":"","}$$$$"]}getNewColumn(e,t,n,i){const o=this.column,r=e.toLowerCase()+"("+o.name+")",s=n??o.dataFrame?.columns.getUnusedName(r)??r,l=a.Column.fromList("string",s,i??new Array(this.column.length).fill(""));if(l.semType=a.SEMTYPE.MACROMOLECULE,l.meta.units=e,e===pe.Hi.SEPARATOR){if(!t)throw new Error(`Notation '${pe.Hi.SEPARATOR}' requires separator value.`);l.setTag(pe.gp.separator,t)}l.setTag(a.TAGS.CELL_RENDERER,e===pe.Hi.HELM?"helm":"sequence");const c=o.getTag(pe.gp.aligned);c&&l.setTag(pe.gp.aligned,c);let u=o.getTag(pe.gp.alphabet);u||this.notation!==pe.Hi.HELM||e===pe.Hi.HELM||(u=pe.YI.UN),null!=u&&l.setTag(pe.gp.alphabet,u);let h=o.getTag(pe.gp.alphabetSize);null!=u&&h&&l.setTag(pe.gp.alphabetSize,h);const d=o.getTag(pe.gp.alphabetIsMultichar);return null!=u&&void 0!==d&&l.setTag(pe.gp.alphabetIsMultichar,d),e==pe.Hi.HELM&&(h=this.getAlphabetSize().toString(),l.setTag(pe.gp.alphabetSize,h)),e===pe.Hi.BILN&&(l.setTag(pe.gp.separator,"-"),l.meta.units=pe.Hi.SEPARATOR),l}getNewColumnFromList(e,t){return this.getNewColumn(this.notation,this.separator,e,t)}static unitsStringIsValid(e){return e=e.toLowerCase(),[pe.Hi.FASTA,pe.Hi.SEPARATOR,pe.Hi.HELM].some(t=>e.startsWith(t.toLowerCase()))}static getNewColumnFromParams(e,t,n){if(!qi.unitsStringIsValid(n))throw new Error("Invalid format of 'units' parameter");const i=a.Column.fromList("string",t,new Array(e).fill(""));return i.semType=a.SEMTYPE.MACROMOLECULE,i.meta.units=n,i}get splitter(){return null==this._splitter&&(this._splitter=this.getSplitter()),this._splitter}getSplitter(e){let t=null;if(t=this.notationProvider?this.notationProvider.splitter:null,t)return t;if(this.units.toLowerCase().startsWith(pe.Hi.FASTA))return null===this.column.getTag(pe.gp.alphabet)||this.getAlphabetIsMultichar()?pe.J9:ke.tm;if(this.units.toLowerCase().startsWith(pe.Hi.SEPARATOR))return(0,pe.dh)(this.separator,e);if(this.units.toLowerCase().startsWith(pe.Hi.HELM))return pe.qp;throw new Error(`Unexpected units ${this.units} .`)}split(e){return this.splitter(e)}getDistanceFunctionName(){if(!this.isFasta())throw new Error("Only FASTA notation is supported");if(this.isMsa())return me.Z.HAMMING;switch(this.alphabet){case pe.YI.DNA:case pe.YI.RNA:case pe.YI.PT:}return me.Z.LEVENSHTEIN}getDistanceFunction(){return me.V[this.getDistanceFunctionName()]()}async checkHelmCompatibility(){if(this.column.tags.has(pe.gp.isHelmCompatible))return"true"===this.column.getTag(pe.gp.isHelmCompatible);const e=(await(0,ve.pj)()).getMonomerLib().getMonomerSymbolsByType("PEPTIDE"),t=new Set(e),n=((0,pe.dh)(this.separator),new Set),i=this.column.length,o=this.column.getRawData();for(let e=0;e<i;++e){const i=o[e];if(!(i in n)){n.add(i);const o=this.getSplitted(e);for(let e=0;e<o.length;++e){const n=o.getCanonical(e);if(!t.has(n))return this.column.setTag(pe.gp.isHelmCompatible,"false"),!1}}}return this.column.setTag(pe.gp.isHelmCompatible,"true"),!0}toFasta(e){return e===pe.Hi.FASTA}toSeparator(e){return e===pe.Hi.SEPARATOR}toHelm(e){return e===pe.Hi.HELM}convertHelmToFastaSeparator(e,t,n,i){i||(i=this.toFasta(t)?we.b9[pe.Hi.FASTA]:we.b9[pe.Hi.SEPARATOR]),n||(n=this.toFasta(t)?"":this.separator);const o=e.startsWith("RNA"),r=(0,pe.qp)(e),s=[];for(let e=0;e<r.length;++e){let n=r.getOriginal(e);if(o&&(n=n.replace(fe.EK,"$1")),n===we.b9[pe.Hi.HELM])s.push(i);else if(this.toFasta(t)&&n.length>1){const e="["+n+"]";s.push(e)}else s.push(n)}return s.join(n)}convert(e,t){const n=this.getJoiner({notation:e,separator:t}),i=this.getNewColumn(e,t);return i.init(e=>{const t=this.getSplitted(e);return n(t)}),i}getRegion(e,t,n){const i=this.getNewColumn(this.notation,this.separator);i.name=n;const o=e??0,r=t??this.maxLength-1,s=this.getJoiner(),a=r-o+1,l=we.b9[this.notation];i.init(e=>{const t=this.getSplitted(e),n=new Array(a);for(let e=0;e<a;++e){const i=o+e;n[e]=i<t.length?t.getOriginal(i):l}return s(new ke.Mu(n,l))});const c=e=>{const t=e.split(",").map(e=>e.trim()),n=new Array(a);for(let e=0;e<a;++e){const i=o+e;n[e]=i<t.length?t[i]:"?"}return n.join(pe.z1)},u=this.column.getTag(pe.gp.positionNames);u&&i.setTag(pe.gp.positionNames,c(u));const h=this.column.getTag(pe.gp.positionLabels);return h&&i.setTag(pe.gp.positionLabels,c(h)),i}_joiner=void 0;get joiner(){return this._joiner||(this._joiner=this.getJoiner()),this._joiner}getJoiner(e){const t=e?e.notation:this.notation,n=e?e.separator:this.separator;let i;const o=this;switch(t){case pe.Hi.FASTA:i=function(e){return o.joinToFasta(e,o.isHelm())};break;case pe.Hi.SEPARATOR:if(!n)throw new Error(`Separator is mandatory for notation '${t}'.`);i=function(e){return Yi(e,n,o.isHelm())};break;case pe.Hi.HELM:{const e=o.alphabet===pe.YI.DNA||o.alphabet===pe.YI.RNA,t=o.getHelmWrappers();i=function(n){return ji(n,t,e)};break}case pe.Hi.BILN:i=function(e){return Ki(e)};break;default:throw new Error(`Unexpected notation '${t}'.`)}return i}getConverter(e,t=void 0){if(e===pe.Hi.SEPARATOR&&!t)throw new Error(`Target separator is not specified for target units '${pe.Hi.SEPARATOR}'.`);const n=this;if(e===pe.Hi.FASTA)return function(e){return n.convertToFasta(e)};if(e===pe.Hi.HELM)return function(e){return n.convertToHelm(e)};if(e===pe.Hi.SEPARATOR)return function(e){return n.convertToSeparator(e,t)};if(e===pe.Hi.BILN)return function(e){return n.convertToBiln(e)};throw new Error("Unexpected target units '"+e+"'.")}static forColumn(e,t){let n=e.temp[$e.j.seqHandler];return n&&n.columnVersion===e.version||(n=e.temp[$e.j.seqHandler]=new qi(e,t)),n}joinToFasta(e,t){const n=new Array(e.length);for(let i=0;i<e.length;++i){const o=e.getOriginal(i);let r=e.getOriginal(i);t&&(r=r.replace(fe.EK,"$1")),o===we._S?r=we.b9[pe.Hi.FASTA]:o===fe.q7?r="":r.length>1&&(r="["+r+"]"),n[i]=r}return n.join("")}convertToFasta(e){const t=this.splitter,n=this.isHelm()?this.splitterAsHelmNucl(e):t(e);return this.joinToFasta(n,this.isHelm())}convertToSeparator(e,t){return Yi(this.isHelm()?this.splitterAsHelmNucl(e):this.splitter(e),t,this.isHelm())}convertToHelm(e){if(this.notation==pe.Hi.HELM)return e;const t=this.getHelmWrappers(),n=this.isDna()||this.isRna();return ji(this.splitter(e),t,n)}convertToBiln(e){return this.notation==pe.Hi.BILN?e:Ki(this.splitter(e))}splitterAsHelmNucl(e){const t=this.splitter(e),n=new Array(t.length),i=e.startsWith("DNA"),o=e.startsWith("RNA");for(let e=0;e<t.length;++e){let r=t.getOriginal(e);(i||o)&&(r=r.replace(fe.EK,"$1"),r=r===fe.q7?null:r),n[e]=r||null}return new ke.Mu(n.filter(e=>!!e),we.b9[pe.Hi.HELM])}getRendererBack(e,t){const n=this.column.temp;let i=n.rendererBack;return i||(i=n.rendererBack=this.notationProvider?.createCellRendererBack(e,t)),i}}function Yi(e,t,n){const i=new Array(e.length);for(let t=0;t<e.length;++t){const o=e.getCanonical(t);let r=e.getOriginal(t);n&&(r=r.replace(fe.EK,"$1")),o===we._S?r=we.b9[pe.Hi.SEPARATOR]:o===fe.q7&&(r=""),i[t]=r}return i.join(t)}function ji(e,t,n){if(e.graphInfo&&(e.graphInfo.connections?.length??0)>0){const i=n?"RNA":"PEPTIDE",o="$$$",r=e.graphInfo.disjointSeqStarts,s=t[1],a=t[2],l=[];for(let t=0;t<r.length;t++){const o=r[t],c=t+1<r.length?r[t+1]:e.length,u=new Array(c-o);for(let t=o;t<c;++t){const i=e.getCanonical(t);let r=i;i===we._S?r=we.b9[pe.Hi.HELM]:(n&&(r=r.replace(fe.EK,"$1")),r=1===r.length?`${s}${r}${a}`:`${s}[${r}]${a}`),u[t-o]=r}l.push(`${i}${t+1}{${u.join(".")}}`)}return`${l.join("|")}$${e.graphInfo.connections.map(e=>`${i}${e.seqIndex1+1},${i}${e.seqIndex2+1},${e.monomerIndex1+1}:R${e.rGroup1}-${e.monomerIndex2+1}:R${e.rGroup2}`).join("|")}${o}V2.0`}{const[i,o,r,s]=t,a=new Array(e.length);for(let t=0;t<e.length;++t){const i=e.getCanonical(t);let s=i;i===we._S?s=we.b9[pe.Hi.HELM]:(n&&(s=s.replace(fe.EK,"$1")),s=1===s.length?`${o}${s}${r}`:`${o}[${s}]${r}`),a[t]=s}return`${i}${a.join(".")}${s}`}}function Ki(e){const t=e=>e&&(e.includes("-")||e.includes("*")||e.includes("[R"));if(e.graphInfo&&(e.graphInfo.connections?.length??0)>0){const n=e.graphInfo.disjointSeqStarts,i=new Array(e.length);for(let n=0;n<e.length;++n){const o=e.getCanonical(n);t(o)?i[n]=`[${o}]`:i[n]=o}for(let t=0;t<e.graphInfo.connections.length;t++){const o=e.graphInfo.connections[t],r=`${t+1}`,s=o.seqIndex1,a=o.seqIndex2,l=n[s]+o.monomerIndex1,c=n[a]+o.monomerIndex2,u=`${i[l]}(${r},${o.rGroup1})`,h=`${i[c]}(${r},${o.rGroup2})`;i[l]=u,i[c]=h}return n.map((t,o)=>{const r=o+1<n.length?n[o+1]:e.length;return i.slice(t,r).join("-")}).join(".")}{const n=new Array(e.length);for(let i=0;i<e.length;++i){const o=e.getCanonical(i);t(o)?n[i]=`[${o}]`:n[i]=o}return n.join("-")}}class zi{libHelper;rdKitModule;constructor(e,t){this.libHelper=e,this.rdKitModule=t}getSeqHandler(e){return qi.forColumn(e,this)}getSeqMonomers(e){const t=this.getSeqHandler(e);return Object.keys(t.stats.freq)}async getHelmToMolfileConverter(e){const t=await(0,Ot.b2)();return new Ui(t,this.rdKitModule,e)}helmToAtomicLevelSingle(e,t,n,i=!0){if(!e)return Ei.vF.createEmpty();const o=t.convertToMolfileV3K([e])[0];if(!o||!o.molfile)return Ei.vF.createEmpty();let r=null;try{let e=o.molfile;if(i){if(r=this.rdKitModule.get_mol(e),!r)return Ei.vF.createEmpty();r.set_new_coords(),r.normalize_depiction(1),r.straighten_depiction(!0),e=r.get_v3Kmolblock()}return n&&(e=t.molV3KtoMolV3KOCL(e)),new Ei.vF(e,o.monomers)}catch(e){const[t,n]=(0,Ce.AP)(e);return To.logger.error(t,void 0,n),Ei.vF.createEmpty()}finally{r?.delete()}}async helmToAtomicLevel(e,t,n,i){const o=i??this.libHelper.getMonomerLib(),s=e.dataFrame,l=(0,Si.qj)(s,e.name),c=await this.getHelmToMolfileConverter(o),u=e.toList(),h=new Array(e.length),d=a.Func.find({package:"Chem",name:"beautifyMols"})[0],m=a.Func.find({package:"Chem",name:"convertToV3KViaOCL"})[0];for(let n=0;n<e.length;n++)h[n]=this.helmToAtomicLevelSingle(u[n],c,t&&!m,!d).molfile;if(d){const t=await d.apply({mols:h});if(t&&Array.isArray(t)&&t.length===e.length)for(let n=0;n<e.length;n++)t[n]&&(h[n]=t[n])}if(t&&m){const t=await m.apply({mols:h});if(t&&Array.isArray(t)&&t.length===e.length)for(let n=0;n<e.length;n++)t[n]&&(h[n]=t[n]);else r.shell.warning("OCL function returned an unexpected result")}const p=a.Column.fromStrings(l,h);return p.semType=a.SEMTYPE.MOLECULE,p.meta.units=a.UNITS.Molecule.MOLBLOCK,p.setTag(".sequence-src-col",e.name),{molCol:p,warnings:[]}}setUnitsToFastaColumn(e){if(e.column.semType!==a.SEMTYPE.MACROMOLECULE||e.column.meta.units!==pe.Hi.FASTA)throw new Error(`The column of notation '${pe.Hi.FASTA}' must be '${a.SEMTYPE.MACROMOLECULE}'.`);e.column.meta.units=pe.Hi.FASTA,qi.setTags(e)}setUnitsToSeparatorColumn(e,t){if(e.column.semType!==a.SEMTYPE.MACROMOLECULE)throw new Error(`The column of notation '${pe.Hi.SEPARATOR}' must be '${a.SEMTYPE.MACROMOLECULE}'.`);if(!t)throw new Error(`The column of notation '${pe.Hi.SEPARATOR}' must have the separator tag.`);e.column.meta.units=pe.Hi.SEPARATOR,e.column.setTag(pe.gp.separator,t),qi.setTags(e)}setUnitsToHelmColumn(e){if(e.column.semType!==a.SEMTYPE.MACROMOLECULE)throw new Error(`The column of notation '${pe.Hi.HELM}' must be '${a.SEMTYPE.MACROMOLECULE}'`);e.column.meta.units=pe.Hi.HELM,qi.setTags(e)}}async function Zi(e){let t="";try{if(!e||!e.value)return t="No sequence provided",{errorText:t,mol:""};if(!(e.cell&&e.cell.dart&&e.cell.dataFrame&&e.cell.column))return t="Atomic level conversion requeires a sequence column",{errorText:t,mol:""};if(![pe.Hi.FASTA,pe.Hi.SEPARATOR,pe.Hi.HELM,pe.Hi.BILN].includes(e.cell.column.meta.units?.toLowerCase()??""))return t="Unsupported sequence notation. please use Bio | Polytool | Convert",{errorText:t,mol:""};const n=(await Ao.getSeqHelper()).getSeqHandler(e.cell.column);if(!n)return t="No sequence handler found",{errorText:t,mol:""};if((n.getSplitted(e.cell.rowIndex,60)?.length??100)>50)return t="Maximum number of monomers is 50",{errorText:t,mol:""};const i=a.Column.fromStrings("singleVal",[e.value]),o=a.DataFrame.fromColumns([i]);Object.entries(e.cell.column.tags).forEach(([e,t])=>{i.setTag(e,t)}),e.cell.column.temp[$e.j.notationProvider]&&(i.temp[$e.j.notationProvider]=e.cell.column.temp[$e.j.notationProvider]);const r=n.getSplitted(e.cell.rowIndex),s=(r.graphInfo?.connections?.length??0)>0,l=n.isHelm()&&new Set(r.graphInfo?.polymerTypes??[]).size>1;if(await Ao.toAtomicLevel(o,i,s||l,!1),o.columns.length<2)return t="No structure generated",{errorText:t,mol:""};const c=o.columns.byIndex(1).get(0);return c?{errorText:"",mol:c}:(t="No structure generated",{errorText:t,mol:""})}catch(e){To.logger.error(e)}return t="No Structure generated",{errorText:t,mol:""}}const Xi="#333333",Ji="rgba(60, 177, 115, 0.1)",Qi="rgba(240, 240, 240, 0.5)",eo="rgba(100, 100, 100, 0.3)";class to{constructor(e=oo.DEFAULT_TRACK_HEIGHT,t=oo.MIN_TRACK_HEIGHT,n=""){this.ctx=null,this.visible=!0,this.title="",this.tooltipEnabled=!1,this.tooltipContent=null,this.height=e,this.defaultHeight=e,this.minHeight=t,this.title=n}init(e){this.ctx=e}getMonomerAt(e,t,n){return null}enableTooltip(e){this.tooltipEnabled=e}setTooltipContentGenerator(e){this.tooltipContent=e}getTooltipContent(e,t){if(!this.tooltipEnabled||!this.tooltipContent)return null;const n=this.getPositionData(e)??new Map;return this.tooltipContent(e,t,n)}getPositionData(e){return null}setVisible(e){this.visible=e}getHeight(){return this.visible?this.height:0}getDefaultHeight(){return this.defaultHeight}getMinHeight(){return this.minHeight}setHeight(e){this.height=Math.max(this.minHeight,e)}resetHeight(){this.height=this.defaultHeight}isVisible(){return this.visible}setTitle(e){this.title=e}getTitle(){return this.title}}class no extends to{constructor(e=new Map,t=oo.DEFAULT_TRACK_HEIGHT,n="",i="WebLogo"){super(t,oo.DEFAULT_TRACK_HEIGHT,i),this.data=new Map,this.monomerLib=null,this.biotype="HELM_AA",this.hoveredPosition=-1,this.hoveredMonomer=null,this.data=e,this.visible=e.size>0}setHovered(e,t){this.hoveredPosition=e,this.hoveredMonomer=t}getPositionData(e){return this.data.get(e)||null}setupDefaultTooltip(){this.enableTooltip(!0),this.setTooltipContentGenerator((e,t,n)=>this.createTooltipContent(e,t,n))}createFrequencyTable(e){let t;switch(this.biotype){case"HELM_BASE":case"HELM_SUGAR":case"HELM_NUCLETIDE":t=Be.o.NUCLEOTIDE;break;default:t=Be.o.AA}const n=Array.from(e.values()).reduce((e,t)=>e+t,0),i={};for(const[t,o]of e.entries())i[t]=Math.max(1,Math.round(o/n*100));const o=(0,pi.F)(i,t,this.monomerLib);return o.style.fontSize="11px",o.style.marginTop="4px",o}createTooltipContent(e,t,n){const i=[];if(i.push(s.divText(`Position: ${e+1}`,{style:{fontWeight:"bold",marginBottom:"6px",fontSize:"13px"}})),t&&(i.push(s.divText(`Monomer: ${t}`,{style:{marginBottom:"6px",fontSize:"13px"}})),n.has(t)&&i.push(s.divText(`${(100*n.get(t)).toFixed(2)}%`,{style:{marginBottom:"6px",fontSize:"13px"}}))),n&&n.size>0){const e=this.createFrequencyTable(n);i.push(e)}else i.push(s.divText("No data available",{style:{fontStyle:"italic",color:"#666"}}));const o=s.divV(i);return o.style.maxHeight="80vh",o}setMonomerLib(e){this.monomerLib=e}setBiotype(e){this.biotype=e}getMonomerAt(e,t,n){if(!this.ctx||!this.visible||0===this.data.size)return null;const i=this.data.get(n);if(!i||0===i.size)return null;const o=t,r=Array.from(i.entries()).sort((e,t)=>t[1]-e[1]),s=r.reduce((e,[t,n])=>e+n,0),a=this.height;let l=0;for(const[e,t]of r){const n=t*a/s;if(o>=l&&o<l+n)return e;l+=n}return null}updateData(e){this.data=e,this.visible=e.size>0}draw(e,t,n,i,o,r,s,a){if(!this.ctx||!this.visible||0===this.data.size)return;const l=Math.floor(n/r),c=i-4,u=t+2;for(let h=0;h<l;h++)this.drawWebLogoColumn(h,e,t,n,i,o,r,s,a,u,c)}drawWebLogoColumn(e,t,n,i,o,r,s,a,l,c,u){const h=r+e-1;if(h<0||h>=a)return;const d=this.data.get(h);if(!d||0===d.size)return;const m=t+e*s,p=s-2;r+e===l&&(this.ctx.fillStyle=Ji,this.ctx.fillRect(m,n,s,o)),this.ctx.fillStyle=Qi,this.ctx.fillRect(m+1,c,p,u),this.drawLettersInColumn(h,m,p,c,u,d),this.drawColumnBorder(m,c,p,u)}drawLettersInColumn(e,t,n,i,o,r){const s=Array.from(r.entries()).sort((e,t)=>t[1]-e[1]),a=s.reduce((e,[t,n])=>e+n,0),l=Math.min(1,o/(a*o));let c=i;const u=i+o;for(const[i,r]of s){const s=r*o*l,a=Math.max(4,Math.floor(s));if(a<4)continue;const h=e===this.hoveredPosition&&i===this.hoveredMonomer,d=Math.min(a,u-c);if(d<4)break;this.drawLetter(i,t+1,c,n,d,h),c+=d}}drawColumnBorder(e,t,n,i){this.ctx.strokeStyle=eo,this.ctx.lineWidth=1,this.ctx.strokeRect(e+1,t,n,i)}drawLetter(e,t,n,i,o,r=!1){if(!this.ctx)return;const s=this.getMonomerBackgroundColor(e),a=this.getMonomerTextColor(e);this.ctx.fillStyle=s,this.ctx.fillRect(t,n,i,o),r&&(this.ctx.shadowColor="rgba(255, 255, 255, 0.8)",this.ctx.shadowBlur=8,this.ctx.strokeStyle="white",this.ctx.lineWidth=2,this.ctx.strokeRect(t,n,i,o),this.ctx.shadowBlur=0),this.drawLetterSeparators(t,n,i,o),this.drawLetterText(e,t,n,i,o,a)}drawLetterSeparators(e,t,n,i){this.ctx.strokeStyle="rgba(255, 255, 255, 0.4)",this.ctx.lineWidth=1,t+i<t+this.ctx.canvas.height&&(this.ctx.beginPath(),this.ctx.moveTo(e,t+i),this.ctx.lineTo(e+n,t+i),this.ctx.stroke())}drawLetterText(e,t,n,i,o,r){const s=Math.min(.8*o,.8*i);s>=7&&(this.ctx.fillStyle=r,this.ctx.font=`bold ${s}px Roboto, Roboto Local`,this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(e,t+i/2,n+o/2))}getMonomerBackgroundColor(e){if(this.monomerLib)try{const t=this.monomerLib.getMonomerColors(this.biotype,e);if(t&&t.backgroundcolor)return t.backgroundcolor}catch(e){console.warn("Error getting background color from monomerLib:",e)}return"#CCCCCC"}getMonomerTextColor(e){const t=this.getMonomerBackgroundColor(e);try{const e=a.Color.fromHtml(t),n=a.Color.getContrastColor(e);return a.Color.toHtml(n)}catch(e){return console.warn("Error calculating contrast color:",e),"#000000"}}}class io extends to{constructor(e,t=oo.DEFAULT_TRACK_HEIGHT,n="default",i="Conservation"){super(t,oo.MIN_TRACK_HEIGHT,i),this.data=e,this.colorScheme=n,this.visible=e.length>0}updateData(e){this.data=e,this.visible=e.length>0}draw(e,t,n,i,o,r,s,a){if(!this.ctx||!this.visible||0===this.data.length)return;const l=Math.floor(n/r);for(let n=0;n<l;n++){const l=o+n;if(l>s)break;const c=e+n*r,u=r,h=c+u/2;l-1<this.data.length&&(this.drawConservationBar(l-1,c,u,h,t,i),l===a&&(this.ctx.fillStyle=Ji,this.ctx.fillRect(c,t,u,i)))}}drawConservationBar(e,t,n,i,o,r){if(!this.ctx)return;const s=this.data[e];this.ctx.fillStyle=Qi,this.ctx.fillRect(t+2,o,n-4,r);let a="#3CB173";if("default"===this.colorScheme)s<.5?a="#E74C3C":s<.75&&(a="#F39C12");else if("rainbow"===this.colorScheme)a=s<.2?"#E74C3C":s<.4?"#FF7F00":s<.6?"#FFFF00":s<.8?"#00FF00":"#0000FF";else if("heatmap"===this.colorScheme){const e=Math.round(255*s);a=`rgb(255, ${e}, ${e})`}const l=s*r;this.ctx.fillStyle=a,this.ctx.fillRect(t+2,o+r-l,n-4,l),this.ctx.strokeStyle=eo,this.ctx.lineWidth=1,this.ctx.strokeRect(t+2,o,n-4,r),n>20&&(this.ctx.fillStyle=Xi,this.ctx.font="9px monospace",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(`${Math.round(100*s)}%`,i,o+r/2))}}const oo={TITLE_HEIGHT:16,TRACK_GAP:4,DOTTED_CELL_HEIGHT:30,SLIDER_HEIGHT:8,TOP_PADDING:5,DEFAULT_TRACK_HEIGHT:45,MIN_TRACK_HEIGHT:35},ro={BASE:oo.DOTTED_CELL_HEIGHT+oo.SLIDER_HEIGHT,WITH_TITLE:function(){return this.BASE+oo.TITLE_HEIGHT+oo.TRACK_GAP},WITH_WEBLOGO:function(){return this.WITH_TITLE()+oo.DEFAULT_TRACK_HEIGHT+oo.TRACK_GAP},WITH_BOTH:function(){return this.WITH_WEBLOGO()+oo.DEFAULT_TRACK_HEIGHT+oo.TRACK_GAP}};class so{constructor(e,t){this.gridColumn=t,this.canvas=null,this.ctx=null,this.tracks=new Map,this.currentHoverPosition=-1,this.currentHoverTrack=null,this.currentHoverMonomer=null,this.previousHoverPosition=-1,this.previousHoverTrack=null,this.previousHoverMonomer=null,this.dataFrame=null,this.seqHandler=null,this.seqColumn=null,this.onSelectionCallback=null,this.trackButtons=[],this.userSelectedTracks=null,this.config={x:e.x||0,y:e.y||0,width:e.width||0,height:e.height||0,windowStartPosition:e.windowStartPosition||1,positionWidth:e.positionWidth||15,totalPositions:e.totalPositions||5e3,headerHeight:e.headerHeight||ro.BASE,sliderHeight:e.sliderHeight||oo.SLIDER_HEIGHT,currentPosition:e.currentPosition||1,cellBackground:void 0===e.cellBackground||e.cellBackground,sliderColor:e.sliderColor||"rgba(220, 220, 220, 0.4)",onPositionChange:e.onPositionChange||((e,t)=>{}),onHeaderHeightChange:e.onHeaderHeightChange||(()=>{}),...e},this.eventElement=s.div(),this.eventElement.style.position="absolute",this.config.canvas.parentElement?.appendChild(this.eventElement),this.state={isDragging:!1,dragStartX:0},this.setupEventListeners(),this.init()}determineVisibleTracks(){const e=this.config.headerHeight,t=this.getTrack("weblogo"),n=this.getTrack("conservation");if(this.tracks.forEach(e=>{e.setVisible(!1),e.setHeight(oo.DEFAULT_TRACK_HEIGHT)}),!(e<ro.WITH_TITLE()||e<ro.WITH_WEBLOGO()))if(e<ro.WITH_BOTH()){if(t){t.setVisible(!0);const n=e-ro.WITH_WEBLOGO();t.setHeight(oo.DEFAULT_TRACK_HEIGHT+n)}}else{if(t&&t.setVisible(!0),n&&n.setVisible(!0),t&&e>ro.WITH_BOTH()){const n=e-ro.WITH_BOTH();t.setHeight(oo.DEFAULT_TRACK_HEIGHT+n)}this.userSelectedTracks&&(this.tracks.forEach((e,t)=>{this.userSelectedTracks[t]||e.setVisible(!1)}),e<ro.WITH_WEBLOGO()&&t&&t.setVisible(!1),e<ro.WITH_BOTH()&&n&&n.setVisible(!1))}}drawTrackButtons(){if(!this.ctx||this.config.width<280)return;this.trackButtons=[];const e=this.getTrack("conservation"),t=this.getTrack("weblogo"),n=e?.isVisible()??!1,i=t?.isVisible()??!1;let o=this.config.width-16;const r=this.config.headerHeight>=ro.WITH_TITLE()?(oo.TITLE_HEIGHT-14)/2:2;n&&i||(!n&&e&&(o-=70,this.drawTrackButton("conservation","Conservation",o,r,70,14),o-=4),!i&&t&&(o-=70,this.drawTrackButton("weblogo","WebLogo",o,r,70,14)))}drawTrackButton(e,t,n,i,o,r,s=!1){this.ctx&&(this.trackButtons.push({id:e,label:t,x:n,y:i,width:o,height:r}),this.ctx.fillStyle=s?"rgba(100, 150, 200, 0.8)":"rgba(240, 240, 240, 0.8)",this.ctx.fillRect(n,i,o,r),this.ctx.strokeStyle=s?"rgba(70, 120, 170, 0.8)":"rgba(180, 180, 180, 0.8)",this.ctx.lineWidth=1,this.ctx.strokeRect(n,i,o,r),this.ctx.fillStyle=s?"#ffffff":"#666666",this.ctx.font="9px Roboto, Roboto Local",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(t,n+o/2,i+r/2))}handleTrackButtonClick(e,t){for(const n of this.trackButtons)if(e>=n.x&&e<=n.x+n.width&&t>=n.y&&t<=n.y+n.height)return this.snapToTrackHeight(n.id),!0;return!1}isInsideColumnHeaderArea(e,t){return t<(this.config.headerHeight>=ro.WITH_TITLE()?oo.TITLE_HEIGHT:0)}snapToTrackHeight(e){let t;if("weblogo"===e)t=ro.WITH_WEBLOGO();else{if("conservation"!==e)return;t=ro.WITH_BOTH()}this.userSelectedTracks||(this.userSelectedTracks={},this.tracks.forEach((e,t)=>{this.userSelectedTracks[t]=!1})),"conservation"===e?(this.userSelectedTracks.weblogo=!0,this.userSelectedTracks.conservation=!0):"weblogo"===e&&(this.userSelectedTracks.weblogo=!0),this.config.onHeaderHeightChange&&this.config.onHeaderHeightChange(t),window.requestAnimationFrame(()=>this.redraw())}resetToAutoMode(){this.userSelectedTracks=null;const e=this.tracks.size>0?ro.WITH_BOTH():ro.BASE;this.config.onHeaderHeightChange&&this.config.onHeaderHeightChange(e),window.requestAnimationFrame(()=>this.redraw())}drawColumnTitle(e,t,n,i){this.ctx&&i&&this.config.headerHeight>=ro.WITH_TITLE()&&(this.ctx.fillStyle="rgba(255, 255, 255, 0.95)",this.ctx.fillRect(e,t,n,oo.TITLE_HEIGHT),this.ctx.fillStyle=Xi,this.ctx.font="bold 13px Roboto, Roboto Local",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(i,e+n/2,t+oo.TITLE_HEIGHT/2))}clearHoverStates(){(-1!==this.previousHoverPosition||null!==this.previousHoverTrack||null!==this.previousHoverMonomer)&&(this.previousHoverPosition=-1,this.previousHoverTrack=null,this.previousHoverMonomer=null,this.tracks.forEach(e=>{e instanceof no&&e.setHovered(-1,null)}),window.requestAnimationFrame(()=>this.redraw()))}redraw(){this.draw(this.config.x,this.config.y,this.config.width,this.config.height,this.config.currentPosition,this.config.windowStartPosition,{preventDefault:()=>{}},this.seqColumn?.name)}setSelectionData(e,t,n,i){this.dataFrame=e,this.seqColumn=t,this.seqHandler=n,this.onSelectionCallback=i||null}setupTooltipHandling(){this.eventElement.addEventListener("mousemove",this.handleTooltipMouseMove.bind(this)),this.eventElement.addEventListener("mouseleave",this.handleTooltipMouseLeave.bind(this))}handleTooltipMouseMove(e){if(!this.isValid)return;const{x:t,y:n}=this.getCoords(e),i=this.config.positionWidth,o=Math.floor(t/i),r=this.config.windowStartPosition+o-1;if(r<0||r>=this.config.totalPositions)return this.hideTooltip(),void this.clearHoverStates();const a=this.config.headerHeight>=ro.WITH_TITLE()?oo.TITLE_HEIGHT:0,l=this.config.headerHeight-oo.SLIDER_HEIGHT-oo.DOTTED_CELL_HEIGHT,c=l-oo.TRACK_GAP;if(n>=l||n<a)return this.hideTooltip(),void this.clearHoverStates();let u=null,h=0;const d=[],m=this.getTrack("weblogo");m&&m.isVisible()&&d.push({id:"weblogo",track:m});const p=this.getTrack("conservation");p&&p.isVisible()&&d.push({id:"conservation",track:p});let g=c;for(const{id:e,track:t}of d){const i=g-t.getHeight();if(n>=i&&n<g){u=e,h=n-i;break}g=i-oo.TRACK_GAP}let f=null;if(u){const e=this.tracks.get(u);e&&(f=e.getMonomerAt(t,h,r))}if((this.previousHoverPosition!==r||this.previousHoverTrack!==u||this.previousHoverMonomer!==f)&&(this.previousHoverPosition=r,this.previousHoverTrack=u,this.previousHoverMonomer=f,u)){const e=this.tracks.get(u);e instanceof no&&(e.setHovered(r,f),window.requestAnimationFrame(()=>this.redraw()))}if((r!==this.currentHoverPosition||u!==this.currentHoverTrack||f!==this.currentHoverMonomer)&&(this.currentHoverPosition=r,this.currentHoverTrack=u,this.currentHoverMonomer=f,u)){const t=this.tracks.get(u);if(t){const n=t.getTooltipContent(r,f);if(n)return void s.tooltip.show(n,e.clientX+16,e.clientY+16)}}u&&f||(this.hideTooltip(),this.clearHoverStates())}handleTooltipMouseLeave(){this.hideTooltip(),this.clearHoverStates(),window.requestAnimationFrame(()=>this.draw(this.config.x,this.config.y,this.config.width,this.config.height,this.config.currentPosition,this.config.windowStartPosition,{preventDefault:()=>{}},this.seqColumn?.name))}hideTooltip(){this.currentHoverPosition=-1,this.currentHoverTrack=null,s.tooltip.hide()}draw(e,t,n,i,o,r,s,a){if(Object.assign(this.config,{x:e,y:t,width:n,height:i,currentPosition:o,windowStartPosition:r}),!this.isValid)return void(this.eventElement.style.display="none");this.ctx.save(),this.ctx.clearRect(e,t,n,i),this.ctx.translate(e,t),this.ctx.rect(0,0,n,i),this.ctx.clip(),this.determineVisibleTracks();const l=this.config.headerHeight>=ro.WITH_TITLE();l&&oo.TITLE_HEIGHT,a&&l&&this.drawColumnTitle(0,0,n,a);const c=i-oo.SLIDER_HEIGHT,u=c-oo.DOTTED_CELL_HEIGHT,h=u-oo.TRACK_GAP,d=[],m=[],p=this.getTrack("weblogo");p&&p.isVisible()&&m.push({id:"weblogo",track:p});const g=this.getTrack("conservation");g&&g.isVisible()&&m.push({id:"conservation",track:g});let f=h;for(const{track:e}of m){const t=e.getHeight(),i=f-t;e.draw(0,i,n,t,this.config.windowStartPosition,this.config.positionWidth,this.config.totalPositions,this.config.currentPosition),d.unshift({y:i,height:t}),f=i-oo.TRACK_GAP}if(this.drawDottedCells(0,u,n,oo.DOTTED_CELL_HEIGHT,c),d.push({y:u,height:oo.DOTTED_CELL_HEIGHT}),this.config.currentPosition>=1&&this.config.currentPosition<=this.config.totalPositions){const e=this.config.positionWidth,t=this.config.currentPosition-this.config.windowStartPosition;if(t>=0&&t<Math.floor(n/e)){const n=t*e+e/2;for(let e=0;e<d.length-1;e++){const t=d[e],i=d[e+1];this.ctx.strokeStyle="rgba(60, 177, 115, 0.4)",this.ctx.lineWidth=1,this.ctx.beginPath(),this.ctx.moveTo(n,t.y+t.height),this.ctx.lineTo(n,i.y),this.ctx.stroke()}}}this.drawTrackButtons(),this.ctx.restore(),s.preventDefault(),this.setupEventElement()}drawDottedCells(e,t,n,i,o){if(!this.ctx)return;const r=this.config.totalPositions,s=this.config.positionWidth,a=this.config.currentPosition,l=this.config.windowStartPosition,c=Math.floor(n/s),u=t+oo.TOP_PADDING;this.drawSlider(e,o,n);for(let n=0;n<c;n++){const c=l+n;if(c>r)break;const h=e+n*s,d=s,m=h+d/2;this.config.cellBackground&&(this.ctx.fillStyle=n%2==0?"rgba(248, 248, 248, 0.3)":"rgba(242, 242, 242, 0.2)",this.ctx.fillRect(h,t,d,i),this.ctx.strokeStyle="rgba(220, 220, 220, 0.7)",this.ctx.beginPath(),this.ctx.moveTo(h,t),this.ctx.lineTo(h,o),this.ctx.stroke()),this.ctx.fillStyle="#999999",this.ctx.beginPath(),this.ctx.arc(m,u+5,1,0,2*Math.PI),this.ctx.fill(),(c===a||(1===c||c%10==0)&&Math.abs(c-a)>1)&&(this.ctx.fillStyle=Xi,this.ctx.font="12px monospace",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(c.toString(),m,u+15)),c===a&&(this.ctx.fillStyle="rgba(60, 177, 115, 0.2)",this.ctx.fillRect(h,t,d,i))}}drawSlider(e,t,n){if(!this.ctx)return;this.ctx.fillStyle=this.config.sliderColor,this.ctx.fillRect(e,t,n,oo.SLIDER_HEIGHT);const i=Math.floor(n/this.config.positionWidth),o=this.config.windowStartPosition,r=this.config.totalPositions-i,s=this.sliderWidth,a=r<=0?0:(o-1)/r*(n-s),l=r<=0?n:s;if(this.ctx.fillStyle="rgba(150, 150, 150, 0.5)",this.ctx.fillRect(e+a,t,l,oo.SLIDER_HEIGHT),this.config.currentPosition>=1&&this.config.currentPosition<=this.config.totalPositions){const i=(this.config.currentPosition-1)/(this.config.totalPositions-1),o=Math.round(i*n);this.ctx.fillStyle="#3CB173",this.ctx.fillRect(e+o-1,t-2,3,oo.SLIDER_HEIGHT+4)}}setupEventElement(){this.eventElement.style.display="block",this.eventElement.style.left=`${this.config.x}px`,this.eventElement.style.top=`${this.config.y}px`,this.eventElement.style.width=`${this.config.width}px`,this.eventElement.style.height=`${this.config.height}px`}getCoords(e){const t=this.canvas.getBoundingClientRect();return{x:e.clientX-t.left-this.config.x,y:e.clientY-t.top-this.config.y}}isInHeaderArea(e){const{x:t,y:n}=this.getCoords(e);return t>=0&&t<=this.config.width&&n>=0&&n<=this.config.headerHeight}get positionWidth(){return this.config.positionWidth}set positionWidth(e){this.config.positionWidth=e}isInSliderArea(e){const{y:t}=this.getCoords(e),n=this.config.headerHeight-oo.SLIDER_HEIGHT;return t>n&&t<n+oo.SLIDER_HEIGHT}get sliderWidth(){const e=this.config.width/this.config.totalPositions*(this.config.width/this.config.positionWidth);return Math.max(e,20)}isInSliderDraggableArea(e){const{x:t,y:n}=this.getCoords(e),i=this.config.headerHeight-oo.SLIDER_HEIGHT,o=Math.floor(this.config.width/this.config.positionWidth),r=this.config.windowStartPosition,s=this.config.totalPositions-o,a=s<=0?0:(r-1)/s*(this.config.width-this.sliderWidth);return n>i&&n<i+oo.SLIDER_HEIGHT&&t>=a&&t<a+this.sliderWidth}setupEventListeners(){this.eventElement.addEventListener("mousemove",e=>{this.isValid&&(this.isInSliderDraggableArea(e)?this.eventElement.style.cursor="grab":this.isInSliderArea(e)||this.isInHeaderArea(e)?this.eventElement.style.cursor="pointer":this.eventElement.style.cursor="default")}),this.eventElement.addEventListener("mousedown",this.handleMouseDown.bind(this)),this.eventElement.addEventListener("mousemove",this.handleMouseMove.bind(this)),this.eventElement.addEventListener("mouseup",this.handleMouseUp.bind(this)),this.eventElement.addEventListener("mouseleave",this.handleMouseUp.bind(this)),this.eventElement.addEventListener("click",this.handleSelectionClick.bind(this)),this.eventElement.addEventListener("click",this.handleClick.bind(this)),this.eventElement.addEventListener("wheel",this.handleMouseWheel.bind(this)),window.addEventListener("keydown",this.handleKeyDown.bind(this))}handleSelectionClick(e){if(!(this.isValid&&this.dataFrame&&this.seqColumn&&this.seqHandler))return;const{x:t,y:n}=this.getCoords(e);if(this.handleTrackButtonClick(t,n))return;if(this.isInsideColumnHeaderArea(t,n))return;const i=this.config.positionWidth,o=Math.floor(t/i),r=this.config.windowStartPosition+o-1;if(r<0||r>=this.config.totalPositions)return;const s=this.config.headerHeight>=ro.WITH_TITLE()?oo.TITLE_HEIGHT:0,a=this.config.headerHeight-oo.SLIDER_HEIGHT-oo.DOTTED_CELL_HEIGHT,l=a-oo.TRACK_GAP;if(n>=a||n<s)return;let c=null,u=0;const h=[],d=this.getTrack("weblogo");d&&d.isVisible()&&h.push({id:"weblogo",track:d});const m=this.getTrack("conservation");m&&m.isVisible()&&h.push({id:"conservation",track:m});let p=l;for(const{id:e,track:t}of h){const i=p-t.getHeight();if(n>=i&&n<p){c=e,u=n-i;break}p=i-oo.TRACK_GAP}if(c){const n=this.tracks.get(c);if(n){const i=n.getMonomerAt(t,u,r);if(i){if(this.onSelectionCallback)return void this.onSelectionCallback(r,i);this.selectRowsWithMonomerAtPosition(r,i),e.stopPropagation(),e.stopImmediatePropagation()}}}}selectRowsWithMonomerAtPosition(e,t){if(this.dataFrame&&this.seqHandler)try{const n=this.dataFrame.selection,i=this.seqHandler.getMonomersAtPosition(e,!0);n.init(e=>i[e]===t)}catch(e){console.error("Error selecting rows:",e)}}init(){if(this.canvas=this.config.canvas,!this.canvas)return void console.error("Canvas not found");const e=this.canvas.getContext("2d");e?(this.ctx=e,this.tracks.forEach(t=>t.init(e))):console.error("Failed to get 2D context from canvas")}addTrack(e,t){this.ctx&&t.init(this.ctx),this.tracks.set(e,t)}removeTrack(e){this.tracks.delete(e)}getTrack(e){return this.tracks.get(e)}updateTrack(e,t){const n=this.getTrack(e);n&&t(n)}get isValid(){const e=this.gridColumn,t=e?.grid,n=t?.horzScroll?.min||0,i=t?.horzScroll?.max||1e7;return!!this.canvas&&!!this.ctx&&this.config.height>=ro.WITH_TITLE()&&t&&(ao(e.left??0,n,i)||ao(e.right??1/0,n,i))}handleMouseDown(e){if(!this.isValid)return;const{x:t}=this.getCoords(e);this.isInSliderDraggableArea(e)&&(this.state.isDragging=!0,this.state.dragStartX=t,this.handleSliderDrag(t),e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation())}handleMouseWheel(e){if(this.isValid&&this.isInHeaderArea(e)){e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation();const t=e.shiftKey?Math.sign(e.deltaY):Math.sign(e.deltaX||e.deltaY),n=e.shiftKey?3:1,i=this.config.windowStartPosition+t*n,o=Math.floor(this.config.width/this.config.positionWidth),r=this.config.totalPositions-o+1;this.config.windowStartPosition=Math.max(1,Math.min(r,i)),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}}handleMouseMove(e){if(!this.state.isDragging||!this.isValid)return;const t=this.canvas.getBoundingClientRect(),n=e.clientX-t.left-this.config.x;this.handleSliderDrag(n),e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation()}handleKeyDown(e){if(this.isValid&&!(this.config.currentPosition<1)&&document.activeElement?.contains(this.eventElement)&&"block"===this.eventElement.style.display){if("ArrowLeft"===e.key||"ArrowRight"===e.key){e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation();const t="ArrowLeft"===e.key?-1:1,n=Math.min(Math.max(this.config.currentPosition+t,1),this.config.totalPositions);if(n===this.config.currentPosition)return;this.config.currentPosition=n;const i=Math.floor(this.config.width/this.config.positionWidth),o=this.config.windowStartPosition;(n<o||n>o+i-1)&&(this.config.windowStartPosition=t<0?n:Math.max(1,n-i+1))}else{if("Escape"!==e.key)return;this.config.currentPosition=-2,e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation()}"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}}handleMouseUp(){this.state.isDragging=!1}handleSliderDrag(e){if(!this.isValid)return;const t=this.sliderWidth,n=this.config.width-t,i=Math.max(0,Math.min(this.config.width,e)),o=Math.floor(this.config.width/this.config.positionWidth),r=Math.floor(this.config.width/this.config.positionWidth),s=this.config.totalPositions-r,a=Math.max(0,i-t/2)/n*s;this.config.windowStartPosition=Math.max(1,Math.min(a,this.config.totalPositions-o+1)),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}get headerHeight(){return this.config.headerHeight}set headerHeight(e){this.config.headerHeight=e}handleClick(e){if(!this.isValid)return;e.clientX,this.canvas.getBoundingClientRect().left,e.clientY,this.canvas.getBoundingClientRect().top;const{x:t,y:n}=this.getCoords(e);if(this.handleTrackButtonClick(t,n))return e.preventDefault(),void e.stopPropagation();if(!this.isInsideColumnHeaderArea(t,n)&&n<this.config.headerHeight-oo.SLIDER_HEIGHT&&n>=0){const e=this.config.positionWidth,n=Math.round(t/e-.5),i=this.config.windowStartPosition+n;i>=1&&i<=this.config.totalPositions&&(this.config.currentPosition=i,"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange()))}}getWindowRange(){return{start:this.config.windowStartPosition,end:Math.min(this.config.totalPositions,this.config.windowStartPosition+Math.floor(this.config.width/this.config.positionWidth))}}updateConfig(e){Object.assign(this.config,e),this.config.currentPosition=Math.min(this.config.currentPosition,this.config.totalPositions),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}getCurrentPosition(){return this.config.currentPosition}setCurrentPosition(e){this.config.currentPosition=Math.max(1,Math.min(this.config.totalPositions,e)),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}getHeightThresholds(){return{BASE:ro.BASE,WITH_TITLE:ro.WITH_TITLE(),WITH_WEBLOGO:ro.WITH_WEBLOGO(),WITH_BOTH:ro.WITH_BOTH()}}}function ao(e,t,n){return e>=t&&e<=n}class lo{static conservationCache=new a.LruCache(100);static webLogoCache=new a.LruCache(100);static lastInvalidationTime=0;static CHUNK_SIZE=50;static clearAllCaches(){lo.conservationCache=new a.LruCache(100),lo.webLogoCache=new a.LruCache(100),lo.lastInvalidationTime=Date.now()}static getLastInvalidationTime(){return lo.lastInvalidationTime}static getChunkCacheKey(e,t,n){const i=e.dataFrame;return`${i.id}_${e.name}_f${i.filter.version}_${t}_${n}`}static getConservationChunk(e,t,n,i){return lo.conservationCache.getOrCreate(i,()=>{const o=lo.getWebLogoChunk(e,t,n,i),r=new Array(n-t).fill(0);for(let i=t;i<n;i++){const n=o.get(i);if(!n||0===n.size)continue;let s=0,a=0;const l=e.defaultGapOriginal;for(const[e,t]of n.entries())e&&e!==l&&(s+=t,t>a&&(a=t));r[i-t]=s>0?a/s:0}return r})}static getWebLogoChunk(e,t,n,i){return lo.webLogoCache.getOrCreate(i,()=>{const i=e.column.dataFrame,o=new Map,r=i.filter.trueCount;if(r<=1)return o;for(let e=t;e<n;e++)o.set(e,new Map);const s=i.filter,a=1/r;for(let i=-1;-1!==(i=s.findNext(i,!0));){const r=e.getSplitted(i).getOriginalRegion(t,n);if(0!==r.length)for(let e=0;e<r.length;e++){const n=r[e],i=o.get(t+e);i.set(n,(i.get(n)||0)+a)}}return o})}static getConservationForViewport(e,t,n,i){const o=new Array(i).fill(0),r=Math.floor(t/lo.CHUNK_SIZE)*lo.CHUNK_SIZE,s=Math.ceil(n/lo.CHUNK_SIZE)*lo.CHUNK_SIZE;for(let t=r;t<s;t+=lo.CHUNK_SIZE){const n=Math.min(t+lo.CHUNK_SIZE,i),r=lo.getChunkCacheKey(e.column,t,n),s=lo.getConservationChunk(e,t,n,r);for(let e=0;e<s.length&&t+e<i;e++)o[t+e]=s[e]}return o}static getWebLogoForViewport(e,t,n,i){const o=new Map,r=Math.floor(t/lo.CHUNK_SIZE)*lo.CHUNK_SIZE,s=Math.ceil(n/lo.CHUNK_SIZE)*lo.CHUNK_SIZE;for(let t=r;t<s;t+=lo.CHUNK_SIZE){const n=Math.min(t+lo.CHUNK_SIZE,i),r=lo.getChunkCacheKey(e.column,t,n),s=lo.getWebLogoChunk(e,t,n,r);for(const[e,t]of s.entries())e<i&&o.set(e,t)}return o}}class co extends no{seqHandler;maxLength;lastViewportStart=-1;lastViewportEnd=-1;lastInvalidationTime=0;forceNextUpdate=!1;constructor(e,t,n=45,i="WebLogo"){super(new Map,n,"",i),this.seqHandler=e,this.maxLength=t,this.visible=e.column.dataFrame.filter.trueCount>1}forceUpdate(){this.forceNextUpdate=!0}resetViewportTracking(){this.lastViewportStart=-1,this.lastViewportEnd=-1}updateForViewport(e,t){const n=lo.getLastInvalidationTime(),i=n>this.lastInvalidationTime;if(!(Math.abs(this.lastViewportStart-e)>=10||Math.abs(this.lastViewportEnd-t)>=10||i||this.forceNextUpdate))return;this.forceNextUpdate=!1,this.lastViewportStart=e,this.lastViewportEnd=t,this.lastInvalidationTime=n;const o=Math.max(0,e-20),r=Math.min(this.maxLength,t+20),s=lo.getWebLogoForViewport(this.seqHandler,o,r,this.maxLength);this.updateData(s)}draw(e,t,n,i,o,r,s,a){const l=Math.ceil(n/r)+2,c=Math.min(o+l,s);this.updateForViewport(o-1,c-1),super.draw(e,t,n,i,o,r,s,a)}}class uo extends io{seqHandler;maxLength;lastViewportStart=-1;lastViewportEnd=-1;lastInvalidationTime=0;forceNextUpdate=!1;constructor(e,t,n=45,i="default",o="Conservation"){super([],n,i,o),this.seqHandler=e,this.maxLength=t,this.visible=e.column.dataFrame.filter.trueCount>1}forceUpdate(){this.forceNextUpdate=!0}resetViewportTracking(){this.lastViewportStart=-1,this.lastViewportEnd=-1}updateForViewport(e,t){const n=lo.getLastInvalidationTime(),i=n>this.lastInvalidationTime;if(!(Math.abs(this.lastViewportStart-e)>=10||Math.abs(this.lastViewportEnd-t)>=10||i||this.forceNextUpdate))return;this.forceNextUpdate=!1,this.lastViewportStart=e,this.lastViewportEnd=t,this.lastInvalidationTime=n;const o=Math.max(0,e-20),r=Math.min(this.maxLength,t+20),s=lo.getConservationForViewport(this.seqHandler,o,r,this.maxLength);this.updateData(s)}draw(e,t,n,i,o,r,s,a){const l=Math.ceil(n/r)+2,c=Math.min(o+l,s);this.updateForViewport(o-1,c-1),super.draw(e,t,n,i,o,r,s,a)}}const ho="__msa-scroller-initialized",mo="__msa-scroller-subscription";class po{separator;seqHelper;seqCol;splitter;get defaultGapOriginal(){return""}constructor(e,t,n){this.separator=e,this.seqHelper=t,this.seqCol=n,this.splitter=ke.bR.bind(this)}setUnits(){}getHelm(e,t){const n=this.splitter(e);return this.seqHelper.getSeqHandler(this.seqCol).getJoiner({notation:we.Hi.HELM})(n)}createCellRendererBack(e,t){const n=To.properties.maxMonomerLength||4,i=new go(e,t,n,this.seqHelper);return i.init().then(()=>{}),i}}class go extends De.Jy{constructor(e,t,n,i){super(e,t,To.logger,n,()=>{const e=i.getSeqHandler(t),{font:n,fontWidth:o}=De.Jy.getFontSettings(t);return{seqHandler:e,font:n,fontCharWidth:o,separatorWidth:0,monomerToShort:ke.zS}})}}var fo,yo;!function(e){e.embed=async function(e){return await r.functions.call("Bio:Embed",{molecule:e})},e.molToHelmConverterPy=async function(e,t,n){return await r.functions.call("Bio:MolToHelmConverterPy",{moleculesDataframe:e,moleculesColumn:t,libraryJSON:n})},e.sequenceGenerator=async function(e,t,n,i,o,s,a,l,c,u,h,d,m,p,g,f,y){return await r.functions.call("Bio:SequenceGenerator",{clusters:e,num_sequences:t,alphabet_key:n,motif_length:i,max_variants_position:o,random_length:s,dispersion:a,activity_range:l,cliff_probability:c,cliff_strength:u,cliff_strength_dispersion:h,assay_noise_levels:d,assay_scales:m,disable_negatives:p,fasta_separator:g,helm_library_file:f,helm_connection_mode:y})}}(fo||(fo={})),function(e){e.test1=async function(){return await r.functions.call("Bio:Test1",{})},e.getMonomerLibHelper=async function(){return await r.functions.call("Bio:GetMonomerLibHelper",{})},e.initBio=async function(){return await r.functions.call("Bio:InitBio",{})},e.sequenceTooltip=async function(e){return await r.functions.call("Bio:SequenceTooltip",{col:e})},e.standardiseMonomerLibrary=async function(e){return await r.functions.call("Bio:StandardiseMonomerLibrary",{library:e})},e.matchWithMonomerLibrary=async function(e,t,n){return await r.functions.call("Bio:MatchWithMonomerLibrary",{table:e,molecules:t,polymerType:n})},e.getBioLib=async function(){return await r.functions.call("Bio:GetBioLib",{})},e.getSeqHandler=async function(e){return await r.functions.call("Bio:GetSeqHandler",{sequence:e})},e.getRegionPanel=async function(e){return await r.functions.call("Bio:GetRegionPanel",{seqCol:e})},e.libraryPanel=async function(e){return await r.functions.call("Bio:LibraryPanel",{seqColumn:e})},e.getRegionEditor=async function(e){return await r.functions.call("Bio:GetRegionEditor",{call:e})},e.splitToMonomersEditor=async function(e){return await r.functions.call("Bio:SplitToMonomersEditor",{call:e})},e.sequenceSpaceEditor=async function(e){return await r.functions.call("Bio:SequenceSpaceEditor",{call:e})},e.seqActivityCliffsEditor=async function(e){return await r.functions.call("Bio:SeqActivityCliffsEditor",{call:e})},e.customSequenceCellRenderer=async function(){return await r.functions.call("Bio:CustomSequenceCellRenderer",{})},e.fastaSequenceCellRenderer=async function(){return await r.functions.call("Bio:FastaSequenceCellRenderer",{})},e.separatorSequenceCellRenderer=async function(){return await r.functions.call("Bio:SeparatorSequenceCellRenderer",{})},e.bilnSequenceCellRenderer=async function(){return await r.functions.call("Bio:BilnSequenceCellRenderer",{})},e.refineNotationProviderForBiln=async function(e,t,n){return await r.functions.call("Bio:RefineNotationProviderForBiln",{col:e,stats:t,separator:n})},e.macroMolColumnPropertyPanel=async function(e){return await r.functions.call("Bio:MacroMolColumnPropertyPanel",{molColumn:e})},e.compositionAnalysisWidget=async function(e){return await r.functions.call("Bio:CompositionAnalysisWidget",{sequence:e})},e.macromoleculeDifferenceCellRenderer=async function(){return await r.functions.call("Bio:MacromoleculeDifferenceCellRenderer",{})},e.sequenceAlignment=async function(e,t,n,i,o){return await r.functions.call("Bio:SequenceAlignment",{alignType:e,alignTable:t,gap:n,seq1:i,seq2:o})},e.webLogoViewer=async function(){return await r.functions.call("Bio:WebLogoViewer",{})},e.vdRegionsViewer=async function(){return await r.functions.call("Bio:VdRegionsViewer",{})},e.getRegion=async function(e,t,n,i){return await r.functions.call("Bio:GetRegion",{sequence:e,start:t,end:n,name:i})},e.getRegionTopMenu=async function(e,t,n,i,o){return await r.functions.call("Bio:GetRegionTopMenu",{table:e,sequence:t,start:n,end:i,name:o})},e.activityCliffs=async function(e,t,n,i,o,s,a,l,c){return await r.functions.call("Bio:ActivityCliffs",{table:e,molecules:t,activities:n,similarity:i,methodName:o,similarityMetric:s,preprocessingFunction:a,options:l,demo:c})},e.macromoleculePreprocessingFunction=async function(e,t,n,i,o){return await r.functions.call("Bio:MacromoleculePreprocessingFunction",{col:e,metric:t,gapOpen:n,gapExtend:i,fingerprintType:o})},e.helmPreprocessingFunction=async function(e,t){return await r.functions.call("Bio:HelmPreprocessingFunction",{col:e,_metric:t})},e.sequenceSpaceTopMenu=async function(e,t,n,i,o,s,a,l,c){return await r.functions.call("Bio:SequenceSpaceTopMenu",{table:e,molecules:t,methodName:n,similarityMetric:i,plotEmbeddings:o,preprocessingFunction:s,options:a,clusterEmbeddings:l,isDemo:c})},e.moleculesToHelmTopMenu=async function(e,t){return await r.functions.call("Bio:MoleculesToHelmTopMenu",{table:e,molecules:t})},e.toAtomicLevel=async function(e,t,n,i){return await r.functions.call("Bio:ToAtomicLevel",{table:e,seqCol:t,nonlinear:n,highlight:i})},e.toAtomicLevelAction=async function(e){return await r.functions.call("Bio:ToAtomicLevelAction",{seqCol:e})},e.toAtomicLevelPanel=async function(e){return await r.functions.call("Bio:ToAtomicLevelPanel",{sequence:e})},e.sequence3dStructureWidget=async function(e){return await r.functions.call("Bio:Sequence3dStructureWidget",{sequence:e})},e.multipleSequenceAlignmentDialog=async function(){return await r.functions.call("Bio:MultipleSequenceAlignmentDialog",{})},e.alignSequences=async function(e,t,n){return await r.functions.call("Bio:AlignSequences",{sequenceCol:e,clustersCol:t,options:n})},e.compositionAnalysis=async function(){return await r.functions.call("Bio:CompositionAnalysis",{})},e.importFasta=async function(e){return await r.functions.call("Bio:ImportFasta",{fileContent:e})},e.importBam=async function(e){return await r.functions.call("Bio:ImportBam",{fileContent:e})},e.convertDialog=async function(){return await r.functions.call("Bio:ConvertDialog",{})},e.convertColumnAction=async function(e){return await r.functions.call("Bio:ConvertColumnAction",{col:e})},e.monomerCellRenderer=async function(){return await r.functions.call("Bio:MonomerCellRenderer",{})},e.testDetectMacromolecule=async function(e){return await r.functions.call("Bio:TestDetectMacromolecule",{path:e})},e.splitToMonomersTopMenu=async function(e,t){return await r.functions.call("Bio:SplitToMonomersTopMenu",{table:e,sequence:t})},e.getHelmMonomers=async function(e){return await r.functions.call("Bio:GetHelmMonomers",{sequence:e})},e.similaritySearchViewer=async function(){return await r.functions.call("Bio:SimilaritySearchViewer",{})},e.similaritySearchTopMenu=async function(){return await r.functions.call("Bio:SimilaritySearchTopMenu",{})},e.diversitySearchViewer=async function(){return await r.functions.call("Bio:DiversitySearchViewer",{})},e.diversitySearchTopMenu=async function(){return await r.functions.call("Bio:DiversitySearchTopMenu",{})},e.searchSubsequenceEditor=async function(e){return await r.functions.call("Bio:SearchSubsequenceEditor",{call:e})},e.subsequenceSearchTopMenu=async function(e){return await r.functions.call("Bio:SubsequenceSearchTopMenu",{macromolecules:e})},e.sequenceIdentityScoring=async function(e,t,n){return await r.functions.call("Bio:SequenceIdentityScoring",{table:e,macromolecule:t,reference:n})},e.sequenceSimilarityScoring=async function(e,t,n){return await r.functions.call("Bio:SequenceSimilarityScoring",{table:e,macromolecule:t,reference:n})},e.manageMonomerLibraries=async function(){return await r.functions.call("Bio:ManageMonomerLibraries",{})},e.manageLibrariesView=async function(){return await r.functions.call("Bio:ManageLibrariesView",{})},e.manageMonomersView=async function(){return await r.functions.call("Bio:ManageMonomersView",{})},e.manageMonomerLibrariesView=async function(){return await r.functions.call("Bio:ManageMonomerLibrariesView",{})},e.manageMonomerLibrariesViewTreeBrowser=async function(e){return await r.functions.call("Bio:ManageMonomerLibrariesViewTreeBrowser",{treeNode:e})},e.saveAsFasta=async function(){return await r.functions.call("Bio:SaveAsFasta",{})},e.bioSubstructureFilter=async function(){return await r.functions.call("Bio:BioSubstructureFilter",{})},e.bioSubstructureFilterTest=async function(){return await r.functions.call("Bio:BioSubstructureFilterTest",{})},e.webLogoLargeApp=async function(){return await r.functions.call("Bio:WebLogoLargeApp",{})},e.webLogoAggApp=async function(){return await r.functions.call("Bio:WebLogoAggApp",{})},e.getRegionApp=async function(){return await r.functions.call("Bio:GetRegionApp",{})},e.getRegionHelmApp=async function(){return await r.functions.call("Bio:GetRegionHelmApp",{})},e.longSeqTableSeparator=async function(){return await r.functions.call("Bio:LongSeqTableSeparator",{})},e.longSeqTableFasta=async function(){return await r.functions.call("Bio:LongSeqTableFasta",{})},e.longSeqTableHelm=async function(){return await r.functions.call("Bio:LongSeqTableHelm",{})},e.addCopyMenu=async function(e,t){return await r.functions.call("Bio:AddCopyMenu",{cell:e,menu:t})},e.demoBioSimilarityDiversity=async function(){return await r.functions.call("Bio:DemoBioSimilarityDiversity",{})},e.demoBioSequenceSpace=async function(){return await r.functions.call("Bio:DemoBioSequenceSpace",{})},e.demoBioActivityCliffs=async function(){return await r.functions.call("Bio:DemoBioActivityCliffs",{})},e.demoBioAtomicLevel=async function(){return await r.functions.call("Bio:DemoBioAtomicLevel",{})},e.sdfToJsonLib=async function(e){return await r.functions.call("Bio:SdfToJsonLib",{table:e})},e.seq2atomic=async function(e,t){return await r.functions.call("Bio:Seq2atomic",{seq:e,nonlinear:t})},e.seqIdentity=async function(e,t){return await r.functions.call("Bio:SeqIdentity",{seq:e,ref:t})},e.detectMacromoleculeProbe=async function(e,t,n){return await r.functions.call("Bio:DetectMacromoleculeProbe",{file:e,colName:t,probeCount:n})},e.getSeqHelper=async function(){return await r.functions.call("Bio:GetSeqHelper",{})},e.getMolFromHelm=async function(e,t,n){return await r.functions.call("Bio:GetMolFromHelm",{df:e,helmCol:t,chiralityEngine:n})}}(yo||(yo={}));var bo=function(e,t,n,i){var o,r=arguments.length,s=r<3?t:null===i?i=Object.getOwnPropertyDescriptor(t,n):i;if("object"==typeof Reflect&&"function"==typeof Reflect.decorate)s=Reflect.decorate(e,t,n,i);else for(var a=e.length-1;a>=0;a--)(o=e[a])&&(s=(r<3?o(s):r>3?o(t,n,s):o(t,n))||s);return r>3&&s&&Object.defineProperty(t,n,s),s},wo=function(e,t){if("object"==typeof Reflect&&"function"==typeof Reflect.metadata)return Reflect.metadata(e,t)},vo=function(e,t){return function(n,i){t(n,i,e)}};const To=new mi;let Co=null;r.decorators||(r.decorators={}),["func","init","param","panel","editor","demo","app","appTreeBrowser","fileHandler","fileExporter","model","viewer","filter","cellRenderer","autostart","dashboard","folderViewer","semTypeDetector","packageSettingsEditor","functionAnalysis","converter","fileViewer","model","treeBrowser","polyfill"].forEach(e=>{r.decorators[e]||(r.decorators[e]=function(e){return function(e,t,n){}})});class Ao{static async getMonomerLibHelper(){return await kn.getInstance()}static async initBio(){null==Co&&(Co=async function(){const e="Bio: _package.initBio()";To.logger.debug(`${e}, start`);const t=window.performance.now(),n=await(0,Re.j)(),i=await To.getProperties(),o=new di(i);To.properties=o;const s=await kn.getInstance(),l=await(0,Ne.u)();l.explicit&&(l.explicit=[],await(0,Ne.E)(l)),await s.awaitLoaded(1/0),s.initialLoadCompleted||await s.loadMonomerLib(),s.loadMonomerSets();const c=s.getMonomerLib(),h=s.getMonomerSets(),d=window.performance.now();To.logger.debug(`${e}, loading ET: ${d-t} ms`);const m=new zi(s,n);To.completeInit(m,c,h,n),To.logger.debug(`${e}, end`),function(){const e=t=>{setTimeout(()=>{if(t.isDetached)return;const n=t.dataFrame;if(!n)return;const i=n.columns.bySemTypeAll(a.SEMTYPE.MACROMOLECULE);t.temp[mo]?.unsubscribe(),t.temp[mo]=a.debounce(u.merge(n.onColumnsAdded,n.onSemanticTypeDetected),200).subscribe(()=>e(t)),t.sub(t.temp[mo]);for(const e of i){const i=t.col(e.name);if(!i)continue;if(i.temp[ho])continue;i.temp[ho]=!0;let o=null;try{o=To.seqHelper.getSeqHandler(e)}catch(t){console.warn(`Failed to get SeqHandler for column ${e.name}`);continue}if(!o)continue;if(o.isHelm()||o.alphabet===pe.YI.UN)continue;let s=!!t.tableView&&Array.from(t.tableView.viewers).some(e=>"Sequence Position Statistics"===e.type);const l=(e,t)=>Number.isNaN(e)||null==e?t:e,c=()=>l(Math.max(Number.parseInt(e.getTag(pe.gp.positionShift)??"0"),0),0)+1,h=()=>l(Number.parseInt(e.getTag(pe.gp.selectedPosition)??"-2"),-2),d=()=>De.Jy.getFontSettings(e).fontWidth;let m=0,p=0;const g=e.categories;for(let e=0;e<g.length;e++){const t=g[e];t&&t.length>p&&(p=t.length,m=e)}const f=g[m],y=o.splitter(f),b=y?y.length:30,w={WITH_TITLE:58,WITH_WEBLOGO:107,WITH_BOTH:156};let v;v=e.length>1e5||b<50?w.WITH_TITLE:e.length>5e4?w.WITH_WEBLOGO:w.WITH_BOTH;let T=null,C=null;const A=a.debounce(u.merge(n.onFilterChanged,n.onDataChanged.pipe((0,$.filter)(t=>t?.args?.column===e))),100).subscribe(()=>{lo.clearAllCaches(),T&&(T.resetViewportTracking(),T.forceUpdate()),C&&(C.resetViewportTracking(),C.forceUpdate()),setTimeout(()=>{t.isDetached||t.invalidate()},50)});t.sub(A);const E=r=>{const l=[],u=new uo(o,b,45,"default","Conservation");C=u,l.push({id:"conservation",track:u,priority:1});const m=new co(o,b,45,"WebLogo");T=m,r&&(m.setMonomerLib(r),m.setBiotype(o.defaultBiotype||"HELM_AA")),m.setupDefaultTooltip(),l.push({id:"weblogo",track:m,priority:2});const p=new so({canvas:t.overlay,headerHeight:v,totalPositions:b+1,onPositionChange:(n,i)=>{setTimeout(()=>{const o=c(),r=h();if(o!==i.start&&e.setTag(pe.gp.positionShift,(i.start-1).toString()),r!==n&&(e.setTag(pe.gp.selectedPosition,n.toString()),n>=0&&!s&&t.tableView&&oe()(t.dataFrame?.columns.numerical).find(e=>!0))){s=!0;const n=t.tableView.addViewer("Sequence Position Statistics",{sequenceColumnName:e.name});t.tableView.dockManager.dock(n,a.DOCK_TYPE.DOWN,null,"Sequence Position Statistics",.4)}})},onHeaderHeightChange:e=>{t.isDetached||e<w.WITH_TITLE||setTimeout(()=>t.props.colHeaderHeight=e)}},i);p.setupTooltipHandling(),l.forEach(({id:e,track:t})=>{p.addTrack(e,t)}),p.setSelectionData(n,e,o),b>50&&(t.props.colHeaderHeight=v,setTimeout(()=>{t.isDetached||(i.width=400)},300)),t.sub(t.onCellRender.subscribe(t=>{const n=t.cell;if(!n||!n.isColHeader||n?.gridColumn?.name!==i?.name)return;const o=t.bounds;if(!o)return;p.headerHeight=o.height;const r=d();p.positionWidth=r+8;const s=c();p.draw(o.x,o.y,o.width,o.height,h(),s,t,e.name)}))};(0,ve.pj)().then(e=>{const t=e.getMonomerLib();E(t)}).catch(e=>{r.shell.warning("Failed to initialize monomer library"),console.error("Failed to initialize monomer library:",e)})}},1e3)},t=(r.events.onViewerAdded.subscribe(t=>{if(!(t.args&&t.args.viewer instanceof a.Grid))return;const n=t.args.viewer;e(n)}),r.shell.tableViews);for(const n of t){const t=n?.grid;t&&e(t)}}()}()),await Co}static sequenceTooltip(e){const t=new yi(e,To.seqHelper);return t.init().then(()=>{}).catch(e=>{const t=e instanceof Error?e.message:e.toString();r.shell.error(t)}),t}static async standardiseMonomerLibrary(e){return await async function(e){const t=JSON.parse(e);if(!t||!Array.isArray(t)||0===t.length)throw new Error("Invalid library format, expected an array of monomers");const n=(await tn(t)).map(e=>({...e,lib:void 0,wem:void 0}));return JSON.stringify(n,null,2)}(e)}static async matchWithMonomerLibrary(e,t,n="PEPTIDE"){const i=await async function(e,t,n,i="PEPTIDE"){const o=n.duplicateMonomers?.[i]??{},s=a.Func.find({package:"Chem",name:"convertMoleculeNotation"})[0];if(!s)throw new Error("Function convertMoleculeNotation not found, please install Chem package");const l=n.getMonomerSymbolsByType(i).map(e=>n.getMonomer(i,e)).filter(e=>e&&(e.smiles||e.molfile)),c=await tn(l);c.forEach((e,t)=>{e.lib=l[t].lib});const u=c.filter(e=>!!e.smiles).reduce((e,t)=>(e[t.smiles]={symbol:t.symbol,smiles:t.smiles,original:t.smiles,source:t.lib?.source},e),{}),h=c.map((e,t)=>({symbol:e.symbol,smiles:dn(e.smiles??"",e.rgroups??[]),original:e.smiles,source:l[t]?.lib?.source})).filter(e=>!!e?.smiles&&!e.smiles.includes("[*:")),d=a.Column.fromList(a.COLUMN_TYPE.STRING,"MonomerSmiles",h.map(e=>e.smiles));d.semType=a.SEMTYPE.MOLECULE;const m=await s.apply({molecule:d,targetNotation:a.chem.Notation.Smiles});if(!m||m.length!==d.length)throw new Error("Error canonicalizing monomer smiles");m.toList().forEach((e,t)=>h[t].smiles=e);const p=h.reduce((e,t)=>(e[t.smiles]=t,e),{}),g=e.col(t).toList().map(e=>{if(!e)return e;try{const t=e.includes("\n");return un([],t?void 0:e,t?e:void 0)}catch(t){return e}}),f=a.Column.fromList(a.COLUMN_TYPE.STRING,"MoleculesOriginalCorrected",g);f.semType=a.SEMTYPE.MOLECULE,a.DataFrame.fromColumns([f]);const y=await s.apply({molecule:f,targetNotation:a.chem.Notation.Smiles});if(!y||y.length!==f.length)throw new Error("Error canonicalizing molecules");const b=y.toList(),w=e.clone(),v=w.columns.addNewString(w.columns.getUnusedName("Matched monomer smiles"));v.semType=a.SEMTYPE.MOLECULE;const T=w.columns.addNewString(w.columns.getUnusedName("Matched monomer symbol"));T.semType="Monomer";const C=w.columns.addNewString(w.columns.getUnusedName("Matched monomer source"));w.columns.setOrder([t,T.name,v.name,C.name]);for(let e=0;e<b.length;e++){const t=b[e];if(!t)continue;let n=p[t]??u[t];if(!n){const e=dn(t,Jt);if(e!==t){const t=r.chem.convert(e,a.chem.Notation.Unknown,a.chem.Notation.Smiles);n=p[t]??u[t]}}if(n){const t=n.symbol,i=(o[t]?.length??0)>0?o[t].map(e=>e?.lib?.source).filter(e=>!!e).join(", "):n.source??"",r=n.original??n.smiles;v.set(e,r,!1),T.set(e,t,!1),C.set(e,i,!1)}}return w}(e,t.name,To.monomerLib,n);r.shell.addTableView(i)}static getBioLib(){return To.monomerLib}static getSeqHandler(e){return To.seqHelper.getSeqHandler(e)}static getRegionPanel(e){const t="getRegionTopMenu",n=a.Func.find({package:To.name,name:t});if(1!==n.length)throw new Error(`Package '${To.name}' func '${t}' not found`);const i=n[0].prepare({table:e.dataFrame,sequence:e});return new Ti(i,To.seqHelper).widget()}static async libraryPanel(e){return async function(){const e=s.label("Manage monomer libraries");return Gn()(e).addClass("d4-link-action"),e.onclick=async()=>await Yn(),new a.Widget(e)}()}static GetRegionEditor(e){try{new Ti(e,To.seqHelper).dialog()}catch(e){const t=e instanceof Error?e.message:e.toString(),n=e instanceof Error?e.stack:void 0;r.shell.error(`Get region editor error: ${t}`),To.logger.error(t,void 0,n)}}static SplitToMonomersEditor(e){const t=new si;s.dialog({title:"Split to Monomers"}).add(t.paramsUI).onOK(async()=>e.func.prepare(t.funcParams).call(!0)).show()}static SequenceSpaceEditor(e){const t=new R({semtype:a.SEMTYPE.MACROMOLECULE}),n=s.dialog({title:"Sequence Space"}).add(t.getEditor()).onOK(async()=>{const n=t.getParams();return e.func.prepare({molecules:n.col,table:n.table,methodName:n.methodName,similarityMetric:n.similarityMetric,plotEmbeddings:n.plotEmbeddings,options:n.options,preprocessingFunction:n.preprocessingFunction,clusterEmbeddings:n.clusterEmbeddings}).call()});n.history(()=>({editorSettings:t.getStringInput()}),e=>t.applyStringInput(e.editorSettings)),n.show()}static SeqActivityCliffsEditor(e){const t=new Ee({semtype:a.SEMTYPE.MACROMOLECULE}),n=s.dialog({title:"Activity Cliffs"}).add(t.getEditor()).onOK(async()=>{const n=t.getParams();return e.func.prepare({table:n.table,molecules:n.col,activities:n.activities,similarity:n.similarityThreshold,methodName:n.methodName,similarityMetric:n.similarityMetric,preprocessingFunction:n.preprocessingFunction,options:n.options}).call()});n.history(()=>({editorSettings:t.getStringInput()}),e=>t.applyStringInput(e.editorSettings)),n.show()}static customSequenceCellRenderer(){return new Ke}static fastaSequenceCellRenderer(){return new Ke}static separatorSequenceCellRenderer(){return new Ke}static bilnSequenceCellRenderer(){return new Ke}static refineNotationProviderForBiln(e,t,n){return"-"===n&&(!(!Object.keys(t.freq).some(e=>e.match(/^.+\(\d{1,2},\d{1,2}\)$/))&&!Object.keys(t.freq).some(e=>e.includes("[")||e.includes("]")))&&(e.setTag("aligned","SEQ"),e.setTag("alphabet","UN"),e.setTag(".alphabetIsMultichar","true"),e.meta.units=pe.Hi.BILN,e.temp[$e.j.notationProvider]=new po(n,To.seqHelper,e),!0))}static macroMolColumnPropertyPanel(e){return function(e){const t=Array.from(e.dataFrame.columns).filter(e=>e.semType===a.SEMTYPE.MOLECULE).map(e=>e.name);new Set(t).delete(e.name);let n=To.properties?To.properties.maxMonomerLength:4;if(Oe.gp.maxMonomerLength in e.tags){const t=parseInt(e.getTag(Oe.gp.maxMonomerLength));n=isNaN(t)?n:t}if(".mm.cellRenderer.maxMonomerLength"in e.temp){const t=parseInt(e.temp[".mm.cellRenderer.maxMonomerLength"]);n=isNaN(t)?n:t}const i=s.input.int("Max Monomer Length",{value:n,nullable:!0,min:1,max:50,step:1,onValueChanged:t=>{if(0==t)setTimeout(()=>{i.value=null},0);else{const n=t??"",i=null==n?"":n.toString();e.temp[".mm.cellRenderer.maxMonomerLength"]=i,e.temp[".mm.cellRenderer.settingsChanged"]=Ve.s.true,e.dataFrame.fireValuesChanged()}},tooltipText:"The max length of monomer symbol displayed without shortening, empty to no limit"});let o=To.properties?To.properties.fontSize:12;".mm.cellRenderer.fontSize"in e.temp&&e.temp[".mm.cellRenderer.fontSize"]&&!isNaN(e.temp[".mm.cellRenderer.fontSize"])&&(o=e.temp[".mm.cellRenderer.fontSize"]);const r=s.input.int("Font Size",{value:o,nullable:!0,min:1,max:50,step:1,onValueChanged:t=>{if(t&&t>0){const n=t??12;e.temp[".mm.cellRenderer.fontSize"]=n,e.temp[".mm.cellRenderer.settingsChanged"]=Ve.s.true,e.dataFrame.fireValuesChanged()}},tooltipText:"The font size of monomer symbol in sequence renderer"}),l=s.input.int("Monomer Margin",{value:e.temp[".mm.cellRenderer.gapLength"]??0,onValueChanged:t=>{e.temp[".mm.cellRenderer.gapLength"]=t,e.temp[".mm.cellRenderer.settingsChanged"]=Ve.s.true,e.dataFrame.fireValuesChanged()},tooltipText:"The size of margin between monomers (in pixels)"}),c=s.input.bool("Color Code",{value:null==e?.temp["color-code"]||e.temp["color-code"],onValueChanged:t=>{e.temp["color-code"]=t,e.dataFrame.fireValuesChanged()},tooltipText:"Color code"}),u=s.input.string("Reference Sequence",{value:null!=e?.temp["reference-sequence"]?e?.temp["reference-sequence"]:"",nullable:!0,onValueChanged:t=>{e.temp["reference-sequence"]=t,e.dataFrame.fireValuesChanged()},tooltipText:"Reference sequence is not empty, then the sequence will be render \nas a difference from the reference sequence"}),h=s.input.bool("Compare with current",{value:null==e?.temp["compare-with-current"]||e.temp["compare-with-current"],onValueChanged:t=>{e.temp["compare-with-current"]=t,e.dataFrame.fireValuesChanged()},tooltipText:'When on, all sequences get rendered in the "diff" mode'});let d=null;e.meta.units!==pe.Hi.HELM&&(d=s.input.bool("Multiline Rendering",{value:"true"===e.getTag("renderMultiline"),onValueChanged:t=>{e.tags.renderMultiline=t?"true":"false",e.dataFrame.fireValuesChanged()},tooltipText:"Render sequences across multiple lines when they exceed cell width"}));const m=[r,i,l,u,c,h];d&&m.push(d);const p=s.inputs(m);return new a.Widget(p)}(e)}static compositionAnalysisWidget(e){return function(e,t,n){const i=s.div();i.classList.add("macromolecule-cell-comp-analysis-host");const o=e.cell.column.tags[pe.gp.alphabet],r=o===pe.YI.DNA||o===pe.YI.RNA?Be.o.NUCLEOTIDE:Be.o.AA,l={},c=n.getSeqHandler(e.cell.column),u=e.cell.rowIndex,h=c.getSplitted(u),d={};oe().count(0).take(h.length).filter(e=>!h.isGap(e)).forEach(e=>{let t=h.getCanonical(e);r===Be.o.NUCLEOTIDE&&c.isHelm()&&"("===t[1]&&")"===t[t.length-2]&&(t=t.substring(2,t.length-2));const n=l[t]||0;if(l[t]=n+1,!d[t]&&h.graphInfo?.polymerTypes){const n=h.graphInfo.polymerTypes[e];d[t]=(0,ke.MD)(n)}});const m=(0,pi.F)(l,r,t,Object.keys(d).length?d:void 0);return Array.from(m.rows).forEach(e=>{const t=e.getElementsByClassName("macromolecule-cell-comp-analysis-bar")[0].style.backgroundColor;e.cells[0].style.color=t}),i.appendChild(m),new a.Widget(i)}(e,To.monomerLib,To.seqHelper)}static macromoleculeDifferenceCellRenderer(){return new Ze}static sequenceAlignment(e,t,n,i,o){const r=new dt(i,o,n,t);return"Local alignment"==e?r.smithWaterman():r.needlemanWunsch()}static webLogoViewer(){return new ot.oP}static vdRegionsViewer(){return new ct}static getRegion(e,t,n,i){return bi(e,t??null,n??null,i??null)}static async getRegionTopMenu(e,t,n,i,o){const s=bi(t,n??null,i??null,o??null);t.dataFrame.columns.add(s),await r.data.detectSemanticTypes(t.dataFrame)}static async activityCliffs(e,t,n,i,o,u,h,d,m){if(e.name!==r.shell.tv.dataFrame.name)return void r.shell.error(`Table ${e.name} is not a current table view`);if(!(0,ni.V)(t,"Activity Cliffs"))return;const p=_e(e),g={units:t.meta.units,aligned:t.getTag(pe.gp.aligned),separator:t.getTag(pe.gp.separator),alphabet:t.getTag(pe.gp.alphabet)},f=u,y=t,b=async()=>await de(e,y,p,"Activity cliffs",n,i,f,o,{...d??{}},a.SEMTYPE.MACROMOLECULE,g,h,gt,ft,vt,void 0,m),w=o===c.c.UMAP?2e5:2e4,v=o===c.c.UMAP?5e3:2e3;if(e.rowCount>w)return void r.shell.warning(`Too many rows, maximum for sequence activity cliffs is ${w}`);const T=a.TaskBarProgressIndicator.create("Running sequence activity cliffs ..."),C=await new Promise((t,n)=>{e.rowCount>v&&!d?.[l.vb]?s.dialog().add(s.divText("Activity cliffs analysis might take several minutes.\n Do you want to continue?")).onOK(async()=>{b().then(e=>t(e)).catch(e=>n(e))}).onCancel(()=>{t(void 0)}).show():b().then(e=>t(e)).catch(e=>n(e))}).catch(e=>{const[t,n]=(0,Ce.AP)(e);throw To.logger.error(t,void 0,n),e}).finally(()=>{T.close()});return C?.props?.xColumnName&&C?.props?.yColumnName&&e.col(C.props.xColumnName)&&e.col(C.props.yColumnName)&&(e.col(C.props.xColumnName).set(0,e.col(C.props.xColumnName).get(0)),e.col(C.props.yColumnName).set(0,e.col(C.props.yColumnName).get(0))),C}static async macromoleculePreprocessingFunction(e,t,n=1,i=.6,o="Morgan"){if(e.semType!==a.SEMTYPE.MACROMOLECULE)return{entries:e.toList(),options:{}};const{seqList:r,options:s}=await mt(e,t,o,n,i);return{entries:r,options:s}}static async helmPreprocessingFunction(e,t){e.version!==e.temp["last-invalidated-version"]&&await(0,pt.BQ)(e,To.seqHelper,!1);const n=e.temp["monomeric-mols"],i=await r.functions.call("Chem:getMorganFingerprints",{molColumn:n}),o=new Array(i.length).fill(null);for(let e=0;e<i.length;e++){if(i.isNone(e)||!i.get(e))continue;const t=i.get(e);o[e]=V.A.fromUint32Array(t.length,new Uint32Array(t.getBuffer().buffer))}return{entries:o,options:{}}}static async sequenceSpaceTopMenu(e,t,n,i,o,s,c,u,h){if(e.name!==r.shell.tv.dataFrame.name)return void r.shell.error(`Table ${e.name} is not a current table view`);const d=r.shell.tv.dataFrame==e?r.shell.tv:void 0;return(0,ni.V)(t,"Sequence Space")?(s||(s=a.Func.find({name:"macromoleculePreprocessingFunction",package:"Bio"})[0]),c??={},await Le(e,[t],n,[i],[1],[s],"MANHATTAN",o,u??!1,{...c,preprocessingFuncArgs:[c.preprocessingFuncArgs??{}]},{fastRowCount:1e4,scatterPlotName:"Sequence space",bypassLargeDataWarning:c?.[l.vb],tableView:d})):void 0}static async moleculesToHelmTopMenu(e,t){const n=To.monomerLib,i=JSON.stringify(n.toJSON());await fo.molToHelmConverterPy(e,t,i);const o=e.columns.toList().find(e=>e.name.toLowerCase().includes("regenerated sequence")&&e.semType!==a.SEMTYPE.MACROMOLECULE);o&&(o.meta.units=pe.Hi.HELM,o.semType=a.SEMTYPE.MACROMOLECULE,o.setTag("cell.renderer","helm"))}static async toAtomicLevel(e,t,n,i=!1){const o=a.TaskBarProgressIndicator.create("Converting to atomic level ...");try{await Co;const o=t.temp[".mm.cellRenderer.overriddenLibrary"]??To.monomerLib,r=To.seqHelper,s=To.rdKitModule;await(0,Ci.V)(e,t,n,i,o,r,s)}finally{o.close()}}static async toAtomicLevelAction(e){if(!e?.dataFrame)throw new Error("Sequence column is not found or its data frame is not empty");const t=a.Func.find({name:"toAtomicLevel",package:"Bio"})[0];if(!t)throw new Error("To Atomic level Function not found");t.prepare({table:e.dataFrame,seqCol:e}).edit()}static async toAtomicLevelPanel(e){return async function(e){const t=await Zi(e);if(t.errorText||!t.mol)return a.Widget.fromRoot(s.divText(t.errorText??"No structure generated"));try{const e=a.SemanticValue.fromValueType(t.mol,a.SEMTYPE.MOLECULE),n=s.panels.infoPanel(e);let i=null;n&&(i=a.Widget.fromRoot(n.root));const o=r.chem.drawMolecule(t.mol,300,300,!1);return o.style.cursor="pointer",s.tooltip.bind(o,"Click to expand"),o.onclick=()=>{const e=window.innerWidth-200,n=window.innerHeight-200,i=r.chem.drawMolecule(t.mol,e,n,!1);s.dialog({title:"Molecule"}).add(i).showModal(!0)},i&&i.root.prepend(o),i??a.Widget.fromRoot(o)}catch(e){To.logger.error(e)}return a.Widget.fromRoot(s.divText("No structure generated"))}(e)}static async sequence3dStructureWidget(e){return async function(e){const t=a.TaskBarProgressIndicator.create("Creating 3D view");let n,i="";try{await(a.Func.find({name:"getPdbHelper"})[0]?.apply({}));try{const o=await Zi(e);if(o.errorText||!o.mol)return n=s.divText(o.errorText??"No structure generated"),t.close(),new a.Widget(n);const l=o.mol;i=await r.functions.call("Bio:Embed",{molecule:l});const c=Mi.Molecule.fromMolfile(i);c?i=c.toMolfile():console.warn("Failed to convert molv3 to molv2")}catch(e){console.warn(e)}try{i=i.replaceAll("\\n","\n");const e=new Blob([i],{type:"text/plain"}),t=s.div([],{classes:"d4-ngl-viewer",id:"ngl-3d-host"});t.style.setProperty("height","100%","important");const o=new NGL.Stage(t,{backgroundColor:"white"});o.loadFile(e,{ext:"sdf"}).then(function(e){o.setSize(300,300),e.addRepresentation("ball+stick"),e.autoView()}),n=s.div([t],{style:{aspectRatio:"1"}})}catch(e){n=s.divText("Couldn't get 3D structure")}}catch(e){n=s.divText("Couldn't get 3D structure")}return t.close(),new a.Widget(n)}(e)}static multipleSequenceAlignmentDialog(){(0,oi.D)({},To.seqHelper).catch(e=>{const[t,n]=(0,Ce.AP)(e);if(e instanceof ii.Ap)return r.shell.warning(e.element),void To.logger.warning(t);r.shell.error(t),To.logger.error(t,void 0,n)})}static async alignSequences(e=null,t=null,n){return(0,oi.D)({col:e,clustersCol:t,...n},To.seqHelper)}static async compositionAnalysis(){const e=r.shell.tv,t=e.dataFrame.columns.toList().filter(e=>e.semType==a.SEMTYPE.MACROMOLECULE&&(To.seqHelper.getSeqHandler(e),!0)),n=async t=>{if(!(0,ni.V)(t,"Composition"))return;const n=e.addViewer("WebLogo",{sequenceColumnName:t.name});r.shell.tv.dockManager.dock(n,a.DOCK_TYPE.DOWN,null,"Composition analysis",.25)};let i=null;if(0!=t.length){if(t.length>1){const e=t.map(e=>e.name),i=t.find(e=>To.seqHelper.getSeqHandler(e).isMsa()),o=s.input.choice("Column",{value:i?i.name:e[0],items:e});s.dialog({title:"Composition Analysis",helpUrl:"https://datagrok.ai/help/datagrok/solutions/domains/bio/#sequence-composition"}).add(s.div([o])).onOK(async()=>{const e=t.find(e=>e.name==o.value)??null;e&&await n(e)}).show()}else i=t[0];i&&await n(i)}else r.shell.error("Current table does not contain sequences")}static importFasta(e){return new ge.m(e).importFasta()}static importBam(e){return console.log(e),[]}static convertDialog(){const e=(0,He.me)()[0];(0,Pt.C)(e,To.seqHelper)}static convertColumnAction(e){(0,Pt.C)(e,To.seqHelper)}static monomerCellRenderer(){return new ui}static async testDetectMacromolecule(e){const t=a.TaskBarProgressIndicator.create("Test detectMacromolecule..."),n=(await r.dapi.files.list(e,!0,"")).filter(e=>e.fileName.endsWith(".csv"));let i=0;const o=[];for(const s of n)try{const t=await r.dapi.files.readAsText(e+s.fullPath),n=a.DataFrame.fromCsv(t);for(const e of n.columns)await r.functions.call("Bio:detectMacromolecule",{col:e})===a.SEMTYPE.MACROMOLECULE&&o.push({file:s.path,result:"detected",column:e.name,message:`units: ${e.meta.units}`})}catch(e){o.push({file:s.path,result:"error",column:null,message:e instanceof Error?e.message:e.toString()})}finally{i+=1,t.update(100*i/n.length,`Test ${s.fileName}`)}r.shell.info("Test Demo:Files for detectMacromolecule finished."),t.close();const s=a.DataFrame.fromObjects(o);return s.name=`datasets_detectMacromolecule_${e}`,s}static async splitToMonomersTopMenu(e,t){return await async function(e,t){if(await(0,et.cb)(10),!(0,ni.V)(t,"Sequence space"))return e;const n=ye(t,To.seqHelper);n.name="splitToMonomers";const i=t.dataFrame;for(const e of n.columns)e.semType=qe.uF.MONOMER,e.setTag(we.gp.alphabet,t.getTag(we.gp.alphabet));const o=/(\d+)(?: \((\d+)\))?/,s=e=>{o.lastIndex=0;const t=e.match(o);return t?`${t[1]} (${parseInt(t[2]??"0")+1})`:e};for(let e=0;e<n.columns.length;e++){const o=n.columns.byIndex(e);o.semType=qe.uF.MONOMER,o.setTag(we.gp.alphabet,t.getTag(we.gp.alphabet));const r=100;let a=0;for(;i.columns.byName(o.name)&&a<r;)o.name=s(o.name),a++;i.columns.add(o)}await r.data.detectSemanticTypes(i);for(let e=0;e<n.columns.length;e++){const t=n.columns.byIndex(e);t.setTag(a.TAGS.CELL_RENDERER,"Monomer"),t.setTag(".use-as-filter","false")}return i}(e,t)}static getHelmMonomers(e){return To.seqHelper.getSeqMonomers(e)}static similaritySearchViewer(){return new Et(To.seqHelper)}static similaritySearchTopMenu(){const e=r.shell.v,t=e.addViewer("Sequence Similarity Search");e.dockManager.dock(t,"down")}static diversitySearchViewer(){return new St(To.seqHelper)}static diversitySearchTopMenu(){const e=r.shell.v,t=e.addViewer("Sequence Diversity Search");e.dockManager.dock(t,"down")}static searchSubsequenceEditor(e){const t=(0,He.me)();1===t.length?e.func.prepare({macromolecules:t[0]}).call(!0):new pt.a7(t,To.seqHelper)}static SubsequenceSearchTopMenu(e){r.shell.tv.getFiltersGroup({createDefaultFilters:!1}).updateOrAdd({type:"Bio:bioSubstructureFilter",column:e.name,columnName:e.name}),r.shell.tv.grid.scrollToCell(e,0)}static async sequenceIdentityScoring(e,t,n){const i=To.seqHelper;return Ai(e,t,n,be.IDENTITY,i)}static async sequenceSimilarityScoring(e,t,n){const i=To.seqHelper;return Ai(e,t,n,be.SIMILARITY,i)}static async manageMonomerLibraries(){Yn()}static async manageLibrariesView(){await jn()}static async manageMonomersView(){const e=await on.getInstance();await e.getViewRoot()}static async manageMonomerLibrariesView(){return await jn(!1)}static async manageMonomerLibrariesViewTreeBrowser(e){(await(await kn.getInstance()).getAvaliableLibraryNames()).forEach(t=>{const n=t.endsWith(".json")?t.substring(0,t.length-5):t;e.item(n).onSelected.subscribe(async()=>{const e=await on.getInstance();await e.getViewRoot(t,!0),e.resetCurrentRowFollowing()})})}static saveAsFasta(){(0,_t.TE)()}static bioSubstructureFilter(){return new It._i(To.seqHelper,To.logger)}static bioSubstructureFilterTest(){return new It._i(To.seqHelper,To.logger)}static async webLogoLargeApp(){const e=a.TaskBarProgressIndicator.create("WebLogo");try{const e=new URLSearchParams(window.location.search),t=new ri(e,"webLogoLargeApp"),n=await To.files.readCsv("data/sample_PT_100000x5.csv");await r.data.detectSemanticTypes(n),await t.init(n)}finally{e.close()}}static async webLogoAggApp(){const e=a.TaskBarProgressIndicator.create("WebLogo ...");try{const e=new URLSearchParams(window.location.search),t=new ri(e,"webLogoAggApp"),n=await To.files.readCsv("samples/FASTA_PT_activity.csv");await r.data.detectSemanticTypes(n),await t.init(n)}finally{e.close()}}static async getRegionApp(){const e=a.TaskBarProgressIndicator.create("getRegion ...");try{const e=new URLSearchParams(window.location.search),t=new vi(e,"getRegionApp");await t.init()}finally{e.close()}}static async getRegionHelmApp(){const e=a.TaskBarProgressIndicator.create("getRegion ...");try{const e=new URLSearchParams(window.location.search),t=await To.files.readCsv("samples/HELM_empty_vals.csv"),n=new vi(e,"getRegionHelmApp");await n.init({df:t,colName:"HELM"})}finally{e.close()}}static longSeqTableSeparator(){const e=a.DataFrame.fromColumns((0,xe.dW)());r.shell.addTableView(e)}static longSeqTableFasta(){const e=a.DataFrame.fromColumns([(0,xe.Hx)(To.seqHelper,pe.Hi.FASTA)]);r.shell.addTableView(e)}static longSeqTableHelm(){const e=a.DataFrame.fromColumns([(0,xe.Hx)(To.seqHelper,pe.Hi.HELM)]);r.shell.addTableView(e)}static addCopyMenu(e,t){!function(e,t,n){const i=Object.values(pe.Hi).filter(e=>e!==pe.Hi.CUSTOM);t.group("Copy").items(i,t=>{const i=e.column,o=e.rowIndex,s=n.getSeqHandler(i),a=t===pe.Hi.SEPARATOR?To.properties.defaultSeparator??"-":void 0,l=s.getJoiner({notation:t,separator:a})(s.getSplitted(o));navigator.clipboard?(navigator.clipboard.writeText(l),r.shell.info(`Value of notation '${t}' copied to clipboard`)):r.shell.warning("The clipboard functionality requires a secure origin — either HTTPS or localhost")})}(e,t,To.seqHelper)}static async demoBioSimilarityDiversity(){await async function(){const e=await To.files.readCsv("samples/peptides-non-natural.csv");e.name="Similarity and Diversity Demo",e.col("activity").setTag("format","3 significant digits"),e.col("sequence").temp[".mm.cellRenderer.maxMonomerLength"]=4;const t=r.shell.addTableView(e);await e.meta.detectSemanticTypes(),await r.data.detectSemanticTypes(e);const n=t.addViewer("Sequence Similarity Search",{limit:20}),i=t.dockManager.dock(n,a.DOCK_TYPE.RIGHT,null,"Similarity search",.45);(0,He.Kd)(t.grid,"sequence",500,30);const o=t.addViewer("Sequence Diversity Search",{limit:20});t.dockManager.dock(o,a.DOCK_TYPE.DOWN,i,"Diversity search",.4),r.functions.call("Dendrogram:HierarchicalClustering",{df:r.shell.t,colNameList:["sequence"],distance:"euclidian",linkage:"complete"})}()}static async demoBioSequenceSpace(){await async function(){const e=await r.functions.eval("Bio:SeqSpaceDemo"),t=await r.dapi.projects.find(e.id);await t.open(),r.shell.windows.help.showHelp("/help/datagrok/solutions/domains/bio/bio.md#sequence-space")}()}static async demoBioActivityCliffs(){await async function(){const e=await To.files.readCsv("tests/helm_cyclic_cliffs.csv");e.name="Activity Cliffs Demo",await r.data.detectSemanticTypes(e),await e.meta.detectSemanticTypes();const t=r.shell.addTableView(e);s.setUpdateIndicator(t.root,!0);try{const n=a.Func.find({name:"macromoleculePreprocessingFunction",package:"Bio"})[0],i=await Ao.activityCliffs(e,e.getCol("Sequence"),e.getCol("Activity"),96,c.c.UMAP,me.Z.MONOMER_CHEMICAL_DISTANCE,n,{},!0);t.dockManager.dock(i,a.DOCK_TYPE.RIGHT,null,"Activity Cliffs",.65),await a.delay(100),Gn()(i.root).find("button.scatter_plot_link,cliffs_grid").get()[0].click(),await a.delay(100),t.grid.props.rowHeight=180,t.grid.col("sequence")&&(t.grid.col("sequence").width=300),t.grid.col("structure")&&(t.grid.col("structure").width=300);const o=Array.from(t.viewers).find(e=>e!==t.grid&&e.type===a.VIEWER.GRID);o&&(o.props.rowHeight=40,o.col("seq_diff").width=600,t.dockManager.dock(o,a.DOCK_TYPE.DOWN,null,"Cliffs",.35),t.dockManager.dock(i,a.DOCK_TYPE.RIGHT,null,"Activity Cliffs",.55))}catch(e){!function(e){const t=e instanceof Error?e.message:e.toString(),n=e instanceof Error?e.stack:void 0;r.shell.error(t),To.logger.error(e.message,void 0,n)}(e)}finally{s.setUpdateIndicator(t.root,!1)}r.shell.windows.help.showHelp("/help/datagrok/solutions/domains/bio/bio.md#activity-cliffs")}()}static async demoBioAtomicLevel(){await async function(){const e=await To.files.readCsv("samples/HELM_BI_CYCLIC.csv");e.name="To Atomic Level",await e.meta.detectSemanticTypes(),await r.data.detectSemanticTypes(e);const t=r.shell.addTableView(e),n=e.col("HELM");await Ao.toAtomicLevel(e,n,!0,!1),(0,He.Kd)(t.grid,"molfile(HELM)",500,300,!0),(0,He.Kd)(t.grid,"HELM",500,void 0,!0),r.shell.info("Hover over monomers in HELM column to highlight them in molecular structure.",{timeout:10}),r.shell.windows.help.showHelp("/help/datagrok/solutions/domains/bio/bio.md#convert-to-atomic-level")}()}static async sdfToJsonLib(e){const t=function(e){const t=[];for(let n=0;n<e.rowCount;n++){const i={};Object.keys(fe.Ec).forEach(t=>{if("symbol"===t){const o=e.get(fe.Ec[t],n);i[t]="."===o?e.get(fe.yw,n):o}else if("rgroups"===t){const o=e.get(fe.Ec[t],n).split("\n"),r=[];o.forEach(e=>{const t={},n=e.substring(e.lastIndexOf("]")+1),i=e.match(/\[R(\d+)\]/)[1];t.capGroupSmiles="H"===n?`[*:${i}][H]`:`O[*:${i}]`,t.alternateId="H"===n?`R${i}-H`:`R${i}-OH`,t.capGroupName="H"===n?"H":"OH",t.label=`R${i}`,r.push(t)}),i[t]=r}else fe.Ec[t]&&(i[t]=e.get(fe.Ec[t],n))}),i.author??(i.author=""),i.id??(i.id=0),i.smiles??(i.smiles=""),i.monomerType??(i.monomerType="Backbone"),i.createDate??(i.createDate=null),t.push(i)}return t}(e),n=JSON.stringify(t);a.Utils.download(`${e.name}.json`,n)}static async seq2atomic(e,t){if(!e.trim())return"";try{const n=a.Column.fromList(a.COLUMN_TYPE.STRING,"helm",[e]),i=a.DataFrame.fromColumns([n]),o=await r.functions.call("Bio:detectMacromolecule",{col:n});o&&(n.semType=o);const s=(await Ao.getMonomerLibHelper()).getMonomerLib(),l=To.seqHelper,c=await(0,Re.j)(),u=(await(0,Ci.V)(i,n,t,!1,s,l,c))?.molCol?.get(0);return u??void 0}catch(e){const[t,n]=(0,Ce.AP)(e);throw To.logger.error(t,void 0,n),e}}static async seqIdentity(e,t){if(!e.trim())return null;try{const n=a.Column.fromList(a.COLUMN_TYPE.STRING,"seq",[e]),i=a.DataFrame.fromColumns([n]);if(!await r.functions.call("Bio:detectMacromolecule",{col:n}))throw new Error("Macromolecule required");return(await Ai(i,n,t,be.IDENTITY,To.seqHelper)).get(0)}catch(e){const[t,n]=(0,Ce.AP)(e);throw To.logger.error(t,void 0,n),e}}static async detectMacromoleculeProbe(e,t="",n=100){const i=await e.readAsString();await async function(e,t,n){const i=a.TaskBarProgressIndicator.create("detectMacromolecule probe ...");try{let o=0;const s=await r.functions.call("Bio:detectMacromoleculeEnableStore");let l=0;for(let c=0;c<n;++c){const u=a.DataFrame.fromCsv(e),h=t?u.getCol(t):u.columns.byIndex(0);await r.functions.call("Bio:detectMacromolecule",{col:h})!==a.SEMTYPE.MACROMOLECULE&&(++l,console.warn(`Reject reason: ${s.last.rejectReason}`));const d=c/n;d-o>=.1&&(o=d,i.update(100*d,`detectMacromolecule probe ${l}/${c}/${n} ...`),await(0,et.cb)(0))}l>0?r.shell.warning(`detectMacromolecule failed ${l} / ${n}`):r.shell.info(`detectMacromolecule success ${n}`)}finally{i.close()}}(i,t,n)}static async getSeqHelper(){return await Ao.initBio(),To.seqHelper}static async getMolFromHelm(e,t,n=!0){return async function(e,t,n=!0,i){const o=To.seqHelper,r=(await o.getHelmToMolfileConverter(i)).convertToRdKitBeautifiedMolfileColumn(t,n,To.rdKitModule,i);return r.semType=a.SEMTYPE.MOLECULE,r}(0,t,n,To.monomerLib)}}bo([r.decorators.func({description:"Returns an instance of the monomer library helper",outputs:[{type:"object",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getMonomerLibHelper",null),bo([r.decorators.init({}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"initBio",null),bo([r.decorators.func({tags:["tooltip"]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",a.Widget)],Ao,"sequenceTooltip",null),bo([r.decorators.func({}),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Promise)],Ao,"standardiseMonomerLibrary",null),bo([r.decorators.func({"top-menu":"Bio | Manage | Match with Monomer Library...",description:"Matches molecules in a column with monomers from the selected library(s)"}),vo(1,r.decorators.param({type:"column",options:{semType:"Molecule"}})),vo(2,r.decorators.param({type:"string",options:{choices:["PEPTIDE","RNA","CHEM"],initialValue:"PEPTIDE",caption:"Polymer Type"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String]),wo("design:returntype",Promise)],Ao,"matchWithMonomerLibrary",null),bo([r.decorators.func({outputs:[{type:"object",name:"monomerLib"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Object)],Ao,"getBioLib",null),bo([r.decorators.func({outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Object)],Ao,"getSeqHandler",null),bo([r.decorators.panel({name:"Bioinformatics | Get Region",description:"Creates a new column with sequences of the region between start and end"}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",a.Widget)],Ao,"getRegionPanel",null),bo([r.decorators.panel({name:"Bioinformatics | Manage Monomer Libraries",tags:["exclude-actions-panel"]}),vo(0,r.decorators.param({name:"seqColumn",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Promise)],Ao,"libraryPanel",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"GetRegionEditor",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"SplitToMonomersEditor",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"SequenceSpaceEditor",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"SeqActivityCliffsEditor",null),bo([r.decorators.func({name:"customSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=custom"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",a.GridCellRenderer)],Ao,"customSequenceCellRenderer",null),bo([r.decorators.func({name:"fastaSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=fasta"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ke)],Ao,"fastaSequenceCellRenderer",null),bo([r.decorators.func({name:"separatorSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=separator"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ke)],Ao,"separatorSequenceCellRenderer",null),bo([r.decorators.func({name:"bilnSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=biln"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ke)],Ao,"bilnSequenceCellRenderer",null),bo([r.decorators.func({name:"refineNotationProviderForBiln",tags:["notationRefiner"],outputs:[{type:"bool",name:"result"}]}),vo(0,r.decorators.param({type:"column"})),vo(1,r.decorators.param({type:"object"})),vo(2,r.decorators.param({type:"string",options:{nullable:!0,optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.Column,Object,Object]),wo("design:returntype",Boolean)],Ao,"refineNotationProviderForBiln",null),bo([r.decorators.panel({name:"Bioinformatics | Sequence Renderer"}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",a.Widget)],Ao,"macroMolColumnPropertyPanel",null),bo([r.decorators.panel({name:"Composition analysis",tags:["bio","widgets"]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.SemanticValue]),wo("design:returntype",a.Widget)],Ao,"compositionAnalysisWidget",null),bo([r.decorators.func({name:"MacromoleculeDifferenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"MacromoleculeDifference",columnTags:"quality=MacromoleculeDifference"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ze)],Ao,"macromoleculeDifferenceCellRenderer",null),bo([r.decorators.func({outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({options:{choices:["Local alignment","Global alignment"]}})),vo(1,r.decorators.param({options:{choices:["AUTO","NUCLEOTIDES","BLOSUM45","BLOSUM50","BLOSUM62","BLOSUM80","BLOSUM90","PAM30","PAM70","PAM250","SCHNEIDER","TRANS"]}})),wo("design:type",Function),wo("design:paramtypes",[String,String,Number,String,String]),wo("design:returntype",void 0)],Ao,"sequenceAlignment",null),bo([r.decorators.panel({name:"WebLogo",description:"WebLogo",tags:["viewer"],meta:{icon:"files/icons/weblogo-viewer.svg"},outputs:[{type:"viewer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"webLogoViewer",null),bo([r.decorators.panel({name:"VdRegions",description:"V-Domain regions viewer",tags:["viewer"],meta:{icon:"files/icons/vdregions-viewer.svg"},outputs:[{type:"viewer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"vdRegionsViewer",null),bo([r.decorators.func({name:"getRegion",description:"Gets a new column with sequences of the region between start and end"}),vo(0,r.decorators.param({type:"column"})),vo(1,r.decorators.param({type:"string",options:{optional:!0}})),vo(2,r.decorators.param({type:"string",options:{optional:!0}})),vo(3,r.decorators.param({type:"string",options:{optional:!0,description:"Name of the column to be created"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column,Object,Object,Object]),wo("design:returntype",a.Column)],Ao,"getRegion",null),bo([r.decorators.func({name:"Get Region Top Menu",description:"Get sequences for a region specified from a Macromolecule","top-menu":"Bio | Calculate | Get Region...",editor:"Bio:GetRegionEditor"}),vo(0,r.decorators.param({options:{description:"Input data table"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",description:"Sequence column"}})),vo(2,r.decorators.param({type:"string",options:{optional:!0,description:"Region start position name"}})),vo(3,r.decorators.param({type:"string",options:{optional:!0,description:"Region end position name"}})),vo(4,r.decorators.param({type:"string",options:{optional:!0,description:"Region column name"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,Object,Object,Object]),wo("design:returntype",Promise)],Ao,"getRegionTopMenu",null),bo([r.decorators.func({name:"Sequence Activity Cliffs",description:"Detects pairs of molecules with similar structure and significant difference in any given property","top-menu":"Bio | Analyze | Activity Cliffs...",editor:"Bio:SeqActivityCliffsEditor",outputs:[]}),vo(0,r.decorators.param({options:{description:"Input data table"}})),vo(1,r.decorators.param({type:"string",options:{semType:"Macromolecule",description:"Input data table"}})),vo(3,r.decorators.param({options:{initialValue:"80",description:"Similarity cutoff"}})),vo(4,r.decorators.param({type:"string",options:{choices:["UMAP","t-SNE"]}})),vo(5,r.decorators.param({type:"string",options:{choices:["Hamming","Levenshtein","Monomer chemical distance"]}})),vo(6,r.decorators.param({type:"func"})),vo(7,r.decorators.param({type:"object",options:{optional:!0}})),vo(8,r.decorators.param({options:{optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,a.Column,Number,String,String,a.Func,Object,Boolean]),wo("design:returntype",Promise)],Ao,"activityCliffs",null),bo([r.decorators.func({name:"Encode Sequences",tags:["dim-red-preprocessing-function"],meta:{supportedSemTypes:"Macromolecule",supportedTypes:"string",supportedDistanceFunctions:"Hamming,Levenshtein,Monomer chemical distance,Needlemann-Wunsch"},outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({type:"string"})),vo(2,r.decorators.param({options:{initialValue:"1",caption:"Gap open penalty",optional:!0}})),vo(3,r.decorators.param({options:{initialValue:"0.6",caption:"Gap extension penalty",optional:!0}})),vo(4,r.decorators.param({options:{caption:"Fingerprint type",initialValue:"Morgan",choices:["Morgan","RDKit","Pattern","AtomPair","MACCS","TopologicalTorsion"],optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.Column,String,Number,Number,String]),wo("design:returntype",Promise)],Ao,"macromoleculePreprocessingFunction",null),bo([r.decorators.func({name:"Helm Fingerprints",meta:{supportedSemTypes:"Macromolecule",supportedTypes:"string",supportedUnits:"helm",supportedDistanceFunctions:"Tanimoto,Asymmetric,Cosine,Sokal"},outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({type:"string"})),wo("design:type",Function),wo("design:paramtypes",[a.Column,String]),wo("design:returntype",Promise)],Ao,"helmPreprocessingFunction",null),bo([r.decorators.func({name:"Sequence Space",description:"Creates 2D sequence space with projected sequences by pairwise distance","top-menu":"Bio | Analyze | Sequence Space...",editor:"Bio:SequenceSpaceEditor",outputs:[]}),vo(1,r.decorators.param({options:{semType:"Macromolecule"}})),vo(2,r.decorators.param({type:"string",options:{choices:["UMAP","t-SNE"]}})),vo(3,r.decorators.param({type:"string",options:{choices:["Hamming","Levenshtein","Monomer chemical distance"]}})),vo(4,r.decorators.param({options:{initialValue:"true"}})),vo(5,r.decorators.param({type:"func",options:{optional:!0}})),vo(6,r.decorators.param({type:"object",options:{optional:!0}})),vo(7,r.decorators.param({options:{optional:!0,initialValue:"true"}})),vo(8,r.decorators.param({options:{optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String,String,Boolean,a.Func,Object,Boolean,Boolean]),wo("design:returntype",Promise)],Ao,"sequenceSpaceTopMenu",null),bo([r.decorators.func({name:"Molecules to HELM","top-menu":"Bio | Transform | Molecules to HELM...",description:"Converts Peptide molecules to HELM notation by matching with monomer library"}),vo(0,r.decorators.param({name:"table",options:{description:"Input data table"}})),vo(1,r.decorators.param({name:"molecules",options:{semType:"Molecule",description:"Molecule column"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column]),wo("design:returntype",Promise)],Ao,"moleculesToHelmTopMenu",null),bo([r.decorators.func({name:"To Atomic Level",description:"Converts sequences to molblocks","top-menu":"Bio | Transform | To Atomic Level..."}),vo(0,r.decorators.param({options:{description:"Input data table"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",caption:"Sequence"}})),vo(2,r.decorators.param({options:{initialValue:"false",caption:"Non-linear",description:"Slower mode for cycling/branching HELM structures"}})),vo(3,r.decorators.param({options:{initialValue:"false",caption:"Highlight monomers",description:"Highlight monomers' substructures of the molecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,Boolean,Boolean]),wo("design:returntype",Promise)],Ao,"toAtomicLevel",null),bo([r.decorators.func({name:"To Atomic Level...",meta:{action:"to atomic level"}}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Promise)],Ao,"toAtomicLevelAction",null),bo([r.decorators.panel({name:"Molecular Structure",tags:["bio","widgets"]}),vo(0,r.decorators.param({name:"sequence",type:"semantic_value",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.SemanticValue]),wo("design:returntype",Promise)],Ao,"toAtomicLevelPanel",null),bo([r.decorators.panel({name:"Molecular 3D Structure",tags:["bio","widgets"]}),vo(0,r.decorators.param({type:"semantic_value",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.SemanticValue]),wo("design:returntype",Promise)],Ao,"sequence3dStructureWidget",null),bo([r.decorators.panel({name:"MSA",description:"Performs multiple sequence alignment",tags:["bio"],"top-menu":"Bio | Analyze | MSA..."}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"multipleSequenceAlignmentDialog",null),bo([r.decorators.func({name:"Multiple Sequence Alignment",description:"Multiple sequence alignment",tags:["bio"]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({type:"column"})),vo(2,r.decorators.param({type:"object",options:{optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[Object,Object,Object]),wo("design:returntype",Promise)],Ao,"alignSequences",null),bo([r.decorators.func({name:"Composition Analysis",description:"Visualizes sequence composition on a WebLogo plot","top-menu":"Bio | Analyze | Composition",meta:{icon:"files/icons/composition-analysis.svg"},outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"compositionAnalysis",null),bo([r.decorators.fileHandler({name:"importFasta",description:"Opens FASTA file",ext:"fasta, fna, ffn, faa, frn, fa, fst"}),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Array)],Ao,"importFasta",null),bo([r.decorators.fileHandler({name:"importBam",description:"Opens Bam file",ext:"bam, bai"}),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Array)],Ao,"importBam",null),bo([r.decorators.func({name:"convertDialog","top-menu":"Bio | Transform | Convert Sequence Notation..."}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"convertDialog",null),bo([r.decorators.func({name:"Convert Notation...",meta:{action:"Convert Notation..."}}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",void 0)],Ao,"convertColumnAction",null),bo([r.decorators.func({name:"monomerCellRenderer",tags:["cellRenderer"],meta:{cellType:"Monomer",columnTags:"quality=Monomer"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",ui)],Ao,"monomerCellRenderer",null),bo([r.decorators.func({name:"testDetectMacromolecule"}),vo(0,r.decorators.param({options:{choices:["Demo:Files/","System:AppData/"]}})),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Promise)],Ao,"testDetectMacromolecule",null),bo([r.decorators.func({name:"Split to Monomers","top-menu":"Bio | Transform | Split to Monomers...",editor:"Bio:SplitToMonomersEditor"}),vo(1,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column]),wo("design:returntype",Promise)],Ao,"splitToMonomersTopMenu",null),bo([r.decorators.func({name:"Bio: getHelmMonomers",outputs:[{name:"result",type:"object"}]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Array)],Ao,"getHelmMonomers",null),bo([r.decorators.func({name:"Sequence Similarity Search",tags:["viewer"],meta:{icon:"files/icons/sequence-similarity-viewer.svg"},outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Et)],Ao,"similaritySearchViewer",null),bo([r.decorators.func({name:"similaritySearch",description:"Finds similar sequences","top-menu":"Bio | Search | Similarity Search",outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"similaritySearchTopMenu",null),bo([r.decorators.func({name:"Sequence Diversity Search",tags:["viewer"],meta:{icon:"files/icons/sequence-diversity-viewer.svg"},outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",St)],Ao,"diversitySearchViewer",null),bo([r.decorators.func({name:"diversitySearch",description:"Finds the most diverse sequences","top-menu":"Bio | Search | Diversity Search",outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"diversitySearchTopMenu",null),bo([r.decorators.editor({name:"SearchSubsequenceEditor"}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"searchSubsequenceEditor",null),bo([r.decorators.func({name:"Subsequence Search","top-menu":"Bio | Search | Subsequence Search ...",editor:"Bio:SearchSubsequenceEditor"}),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",void 0)],Ao,"SubsequenceSearchTopMenu",null),bo([r.decorators.func({name:"Identity",description:"Adds a column with fraction of matching monomers","top-menu":"Bio | Calculate | Identity..."}),vo(0,r.decorators.param({options:{description:"Table containing Macromolecule column"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",description:"Sequences to score"}})),vo(2,r.decorators.param({options:{description:"Sequence,matching column format"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String]),wo("design:returntype",Promise)],Ao,"sequenceIdentityScoring",null),bo([r.decorators.func({name:"Similarity",description:"Adds a column with similarity scores, calculated as sum of monomer fingerprint similarities","top-menu":"Bio | Calculate | Similarity..."}),vo(0,r.decorators.param({options:{description:"Table containing Macromolecule column"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",description:"Sequences to score"}})),vo(2,r.decorators.param({options:{description:"Sequence,matching column format"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String]),wo("design:returntype",Promise)],Ao,"sequenceSimilarityScoring",null),bo([r.decorators.func({name:"Manage Monomer Libraries",description:"Manage HELM monomer libraries"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageMonomerLibraries",null),bo([r.decorators.func({name:"Manage Monomer Libraries View","top-menu":"Bio | Manage | Monomer Libraries"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageLibrariesView",null),bo([r.decorators.func({name:"manageMonomersView",description:"Edit and create monomers","top-menu":"Bio | Manage | Monomers"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageMonomersView",null),bo([r.decorators.app({name:"Manage Monomer Libraries",browsePath:"Peptides",icon:"files/icons/monomers.png"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageMonomerLibrariesView",null),bo([r.decorators.func({name:"Monomer Manager Tree Browser",meta:{role:"appTreeBrowser"}}),wo("design:type",Function),wo("design:paramtypes",[a.TreeViewGroup]),wo("design:returntype",Promise)],Ao,"manageMonomerLibrariesViewTreeBrowser",null),bo([r.decorators.fileExporter({description:"As FASTA..."}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"saveAsFasta",null),bo([r.decorators.func({name:"Bio Substructure Filter",description:"Substructure filter for macromolecules",tags:["filter"],meta:{semType:"Macromolecule"},outputs:[{type:"filter",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",It._i)],Ao,"bioSubstructureFilter",null),bo([r.decorators.func({name:"Bio Substructure Filter Test",description:"Substructure filter for Helm package tests",outputs:[{name:"result",type:"object"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",It._i)],Ao,"bioSubstructureFilterTest",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"webLogoLargeApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"webLogoAggApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getRegionApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getRegionHelmApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"longSeqTableSeparator",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"longSeqTableFasta",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"longSeqTableHelm",null),bo([r.decorators.func(),vo(0,r.decorators.param({type:"object"})),vo(1,r.decorators.param({type:"object"})),wo("design:type",Function),wo("design:paramtypes",[a.Cell,a.Menu]),wo("design:returntype",void 0)],Ao,"addCopyMenu",null),bo([r.decorators.demo({description:"Sequence similarity tracking and evaluation dataset diversity",demoPath:"Bioinformatics | Similarity, Diversity",path:"/apps/Tutorials/Demo/Bioinformatics/Similarity,%20Diversity"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioSimilarityDiversity",null),bo([r.decorators.demo({description:"Exploring sequence space of Macromolecules, comparison with hierarchical clustering results",demoPath:"Bioinformatics | Sequence Space",path:"/apps/Tutorials/Demo/Bioinformatics/Sequence%20Space",meta:{isDemoDashboard:"true"}}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioSequenceSpace",null),bo([r.decorators.demo({description:"Activity Cliffs analysis on Macromolecules data",demoPath:"Bioinformatics | Activity Cliffs",path:"/apps/Tutorials/Demo/Bioinformatics/Activity%20Cliffs"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioActivityCliffs",null),bo([r.decorators.demo({description:"Atomic level structure of Macromolecules",demoPath:"Bioinformatics | Atomic Level",path:"/apps/Tutorials/Demo/Bioinformatics/Atomic%20Level"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioAtomicLevel",null),bo([r.decorators.func({name:"SDF to JSON Library"}),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame]),wo("design:returntype",Promise)],Ao,"sdfToJsonLib",null),bo([r.decorators.func({friendlyName:"seq2atomic",description:"Converts a `Macromolecule` sequence to its atomic level `Molecule` representation",outputs:[{name:"molfile",type:"string",options:{semType:"Molecule"}}]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[String,Boolean]),wo("design:returntype",Promise)],Ao,"seq2atomic",null),bo([r.decorators.func({name:"seqIdentity",friendlyName:"seqIdentity",description:"Gets identity to a reference sequence"}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[String,String]),wo("design:returntype",Promise)],Ao,"seqIdentity",null),bo([r.decorators.func(),vo(2,r.decorators.param({options:{initialValue:"100"}})),wo("design:type",Function),wo("design:paramtypes",[a.FileInfo,String,Number]),wo("design:returntype",Promise)],Ao,"detectMacromoleculeProbe",null),bo([r.decorators.func({outputs:[{type:"object",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getSeqHelper",null),bo([r.decorators.func(),vo(1,r.decorators.param({type:"column"})),vo(2,r.decorators.param({options:{initialValue:"true"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,Boolean]),wo("design:returntype",Promise)],Ao,"getMolFromHelm",null)},7216:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/applicator","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/applicator":true},"$dynamicAnchor":"meta","title":"Applicator vocabulary meta-schema","type":["object","boolean"],"properties":{"prefixItems":{"$ref":"#/$defs/schemaArray"},"items":{"$dynamicRef":"#meta"},"contains":{"$dynamicRef":"#meta"},"additionalProperties":{"$dynamicRef":"#meta"},"properties":{"type":"object","additionalProperties":{"$dynamicRef":"#meta"},"default":{}},"patternProperties":{"type":"object","additionalProperties":{"$dynamicRef":"#meta"},"propertyNames":{"format":"regex"},"default":{}},"dependentSchemas":{"type":"object","additionalProperties":{"$dynamicRef":"#meta"},"default":{}},"propertyNames":{"$dynamicRef":"#meta"},"if":{"$dynamicRef":"#meta"},"then":{"$dynamicRef":"#meta"},"else":{"$dynamicRef":"#meta"},"allOf":{"$ref":"#/$defs/schemaArray"},"anyOf":{"$ref":"#/$defs/schemaArray"},"oneOf":{"$ref":"#/$defs/schemaArray"},"not":{"$dynamicRef":"#meta"}},"$defs":{"schemaArray":{"type":"array","minItems":1,"items":{"$dynamicRef":"#meta"}}}}')},7278:(e,t,n)=>{"use strict";n.d(t,{Iv:()=>S,J9:()=>v,MD:()=>$,Mu:()=>g,Qf:()=>_,SM:()=>N,bR:()=>E,dh:()=>C,mn:()=>R,nq:()=>I,p0:()=>x,pc:()=>L,qp:()=>A,tm:()=>T,vZ:()=>w,zS:()=>P});var i=n(6082),o=n(1991),r=n.n(o),s=n(3527),a=n(3629),l=n(2738),c=n(439),u=n(8924),h=n(1093),d=n(4152),m=n(8438),p=n(3599);class g{get length(){return this.mList.length}get graphInfo(){}isGap(e){return this.getOriginal(e)===this.gapOriginalMonomer}getCanonical(e){if(this.length<=e)throw new Error("Index out of bounds");const t=this.mList[e];return t!==this.gapOriginalMonomer?t:c._S}getOriginal(e){if(this.length<=e)throw new Error("Index out of bounds");return this.mList[e]}getCanonicalRegion(e,t){const n=Math.min(Math.max(0,e),this.length),i=Math.max(Math.min(this.length,t),0)-n,o=this.gapOriginalMonomer;return new Array(i).fill(null).map((e,t)=>{const i=this.mList[t+n];return i===o?c._S:i})}getOriginalRegion(e,t){const n=Math.min(Math.max(0,e),this.length),i=Math.max(Math.min(this.length,t),0);return new Array(i-n).fill(null).map((e,t)=>this.mList[t+n])}get gapOriginal(){return this.gapOriginalMonomer}constructor(e,t){this.mList=e,this.gapOriginalMonomer=t}}class f extends g{constructor(e,t,n,i){super(e.flat(),i),this.mListSeparated=e,this.connections=t,this._graphInfo=void 0,this.polymerTypes=e.map((e,t)=>new Array(e.length).fill(n[t])).flat()}get graphInfo(){return this._graphInfo??(this._graphInfo=this.parseConnections()),this._graphInfo}parseConnections(){const e={connections:[],disjointSeqStarts:[],polymerTypes:this.polymerTypes};if((this.connections?.length??0)>0){let t=0;for(let n=0;n<this.mListSeparated.length;++n)e.disjointSeqStarts.push(t),t+=this.mListSeparated[n].length;const n=(this.connections??"").split("|").filter(e=>(e?.length??0)>0),i=/^(PEPTIDE|RNA|BLOB|CHEM)\d{1,2}$/,o=/^\d{1,2}:R\d{1}-\d{1,2}:R\d{1}$/;for(const t of n){const n=t.split(",");if(3!==n.length||!o.test(n[2])||!i.test(n[0])||!i.test(n[1]))continue;const r=parseInt(n[0].replace(/^(PEPTIDE|RNA|BLOB|CHEM)/,""))-1,s=parseInt(n[1].replace(/^(PEPTIDE|RNA|BLOB|CHEM)/,""))-1,a=n[0].replace(/\d{1,2}$/,""),l=n[1].replace(/\d{1,2}$/,"");if(r<0||r>=this.mListSeparated.length||s<0||s>=this.mListSeparated.length)continue;const c=n[2].split("-");if(2!==c.length)continue;const u=c[0].split(":"),h=c[1].split(":");if(2!==u.length||2!==h.length)continue;const d=parseInt(u[0])-1,m=parseInt(h[0])-1;d<0||d>=this.mListSeparated[r].length||m<0||m>=this.mListSeparated[s].length||e.connections.push({seq1Type:a,seq2Type:l,seqIndex1:r,seqIndex2:s,monomerIndex1:d,monomerIndex2:m,rGroup1:parseInt(u[1].substring(1)),rGroup2:parseInt(h[1].substring(1))})}}return e}}class y extends f{getCanonical(e){if(this.isGap(e))return c._S;let t=this.getOriginal(e);const n=/\(\d{1,2},\d{1,2}\)$/;for(;n.test(t);)t=t.replace(n,"");return t}getOriginal(e){return super.getOriginal(e).replace(/^\[(.*)\]/,"$1")}constructor(e,t){super(e,"",e.map(()=>"PEPTIDE"),t)}parseConnections(){const e={connections:[],disjointSeqStarts:[]},t={};let n=0;for(let i=0;i<this.mListSeparated.length;i++){const o=this.mListSeparated[i];e.disjointSeqStarts.push(n),n+=o.length;for(let n=0;n<o.length;n++){const r=/\(\d{1,2},\d{1,2}\)$/;let s=o[n];for(;r.test(s);){const o=/\(\d{1,2},\d{1,2}\)$/.exec(s)?.[0];if(s=s.replace(r,""),null!=o){const r=o.substring(1,o.length-1).split(",").map(e=>parseInt(e,10));if(2!==r.length||r.some(e=>null==e||Number.isNaN(e)))continue;const s=r[0].toString(),a=r[1];if(s in t){const o=t[s];e.connections.push({seq1Type:"PEPTIDE",seq2Type:"PEPTIDE",seqIndex1:o.seqIndex,seqIndex2:i,monomerIndex1:o.monomerIndex,monomerIndex2:n,rGroup1:o.rGroup,rGroup2:a}),delete t[s]}else t[s]={seqIndex:i,monomerIndex:n,rGroup:a}}}}}return e}}class b{get length(){return this.seqS.length}isGap(e){return this.getOriginal(e)===c.b9[c.Hi.FASTA]}getCanonical(e){if(this.length<=e)throw new Error("Index out of bounds");return this.isGap(e)?c._S:this.seqS[e]}getOriginal(e){if(this.length<=e)throw new Error("Index out of bounds");return this.seqS[e]}getCanonicalRegion(e,t){const n=Math.max(0,e),i=Math.min(this.length,t)-n,o=c.b9[c.Hi.FASTA];return new Array(i).fill(null).map((e,t)=>{const i=this.seqS[t+n];return i===o?c._S:i})}getOriginalRegion(e,t){const n=Math.max(0,e),i=Math.min(this.length,t);return this.seqS.slice(n,i)}get gapOriginal(){return c.b9[c.Hi.FASTA]}constructor(e){this.seqS=e}}function w(e,t,n){const i=e.categories;return function(e,t){const n={};let i=!0,o=null;for(const r of e)if(null==o?o=r.length:r.length!==o&&(i=!1),r.length>=t)for(let e=0;e<r.length;++e){const t=r.getCanonical(e);t in n||(n[t]=0),n[t]+=1}return{freq:n,sameLength:i}}(r().enumerate(e.getRawData()).map(([e,t])=>n(i[e])),t)}const v=e=>{const t=r()(e.toString().matchAll(c.B5)).map(e=>e[2]??e[1]).toArray();return new g(t,c.b9[c.Hi.FASTA])},T=e=>e?new b(e):new g([],c.b9[c.Hi.FASTA]);function C(e,t=void 0){return n=>{if(n){let i;const o=new RegExp(`(?<=^|\\${e})("-"|'-'|[^\\${e}]*)(?=\\${e}|$)`,"g");return null!=t?(o.lastIndex=0,i=r()(n.matchAll(o)).take(t).map(e=>e[0]).toArray()):i=n.replaceAll('"-"',"").replaceAll("'-'","").split(e,t),new g(i,c.b9[c.Hi.SEPARATOR])}return new g([],c.b9[c.Hi.SEPARATOR])}}const A=e=>{const t=e.indexOf("}$"),n=e.substring(0,t+1),i=e.indexOf("$",t+2),o=e.substring(t+2,i),r=n.split("}|");for(let e=0;e<r.length-1;e++)r[e]=r[e]+"}";const s=r.map(e=>(e.match(/(?<=\{).+(?=})/)?.[0]?.split(".")??[]).map(e=>(0,m.D)(e))),a=r.map(e=>e.replace(/\d{1,2}\{.+\}/,""));return new f(s,o??"",a,c.b9[c.Hi.HELM])};function E(e){const t=e.split(".").map(e=>e.replaceAll('"-"',"").replaceAll("'-'","")),n="___TEMP___";for(let e=0;e<t.length;e++){const i=/\[([^\]]+)\]/g;let o,r=t[e];for(;null!==(o=i.exec(t[e]));){const e=o[1],t=e.replaceAll("-",n);r=r.replace(e,t)}t[e]=r}const i=t.map(e=>e.split("-").map(e=>e.replaceAll(n,"-")));return new y(i,c.b9[c.Hi.SEPARATOR])}function S(e,t,n=void 0){if(e.toLowerCase().startsWith(c.Hi.FASTA))return v;if(e.toLowerCase().startsWith(c.Hi.SEPARATOR))return C(t,n);if(e.toLowerCase().startsWith(c.Hi.HELM))return A;if(e.toLowerCase().startsWith(c.Hi.BILN))return E;throw new Error(`Unexpected units ${e} .`)}const M=/([^\W_]+)/g;function P(e,t){if(e.length<=t)return e;const n=e.match(M),i=e.length>t||(n?.length??0)>1,o=n?.[0]??" ";return i?o.substring(0,t-1)+"…":o}function _(e){switch(e){case c.YI.DNA:return c.Vl.fasta.dna;case c.YI.RNA:return c.Vl.fasta.rna;case c.YI.PT:return c.Vl.fasta.peptide;default:throw new Error(`Unsupported alphabet '${e}'.`)}}function I(e,t,n="-"){const i=new Set([...new Set(Object.keys(e)),...t]);i.delete(n);const o=[],r=[];for(const n of i)o.push(n in e?e[n]:0),r.push(t.has(n)?1:0);const l=new s.Mi(o),c=new s.Mi(r);return(0,a.KE)(l,c)/((0,a.wQ)(l)*(0,a.wQ)(c))}function L(e,t,n="-"){const i=t.map(t=>{const i=I(e,t.alphabet,n);return new l.X(t,e,i)});let o;const r=Math.max(...i.map(e=>e.similarity>e.cutoff?e.similarity:-1));return o=r>0?i.find(e=>e.similarity===r).name:c.YI.UN,o}function x(e,t,n="-"){const i=Object.keys(e),o=/\(|\)/;return L(i.filter(e=>3===e.split(o).filter(e=>!!e).length).length>.8*i.length?Object.entries(e).reduce((e,[t,n])=>{const i=t.split(o)[1];return i&&(e[i]=n),e},{}):e,t,n)}function N(e,t,n=5){let o;return o=e.semType==i.SEMTYPE.MACROMOLECULE?t.getSeqHandler(e).alphabet:L(w(e,n,v).freq,c.q7),function(e){switch(e){case c.YI.PT:return u.X.GrokGroups;case c.YI.DNA:case c.YI.RNA:return h.A.Chromatogram;default:return d.oT.Color}}(o)}function R(e){const t=e.columns.bySemTypeAll(i.SEMTYPE.MACROMOLECULE);let n=t.find(e=>{const t=e.meta.units;return!!t&&-1!==t.indexOf("MSA")})??null;return!n&&t.length>0&&(n=t[0]),n}function $(e){switch(e){case"PEPTIDE":default:return p.o.AA;case"RNA":return p.o.NUCLEOTIDE;case"CHEM":return p.o.CHEM;case"BLOB":return p.o.BLOB}}},7307:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(3853),s={keyword:["maxLength","minLength"],type:"string",schemaType:"number",$data:!0,error:{message({keyword:e,schemaCode:t}){const n="maxLength"===e?"more":"fewer";return i.str`must NOT have ${n} than ${t} characters`},params:({schemaCode:e})=>i._`{limit: ${e}}`},code(e){const{keyword:t,data:n,schemaCode:s,it:a}=e,l="maxLength"===t?i.operators.GT:i.operators.LT,c=!1===a.opts.unicode?i._`${n}.length`:i._`${(0,o.useFunc)(e.gen,r.default)}(${n})`;e.fail$data(i._`${c} ${l} ${s}`)}};t.default=s},7362:(e,t,n)=>{"use strict";n.d(t,{e:()=>i});class i{static makePalette(e,t=!1,n=i){const o={};return e.forEach(e=>{const n=e[0],i=e[1];n.forEach((e,n)=>{o[e]=this.colourPalette[i][t?0:n]})}),new n(o)}constructor(e){this._palette=e}get(e,t){return this._palette[e]}}i.undefinedColor="rgb(100,100,100)",i.colourPalette={orange:["rgb(255,187,120)","rgb(245,167,100)","rgb(235,137,70)","rgb(205, 111, 71)"],all_green:["rgb(44,160,44)","rgb(74,160,74)","rgb(23,103,57)","rgb(30,110,96)","rgb(60,131,95)","rgb(24,110,79)","rgb(152,223,138)","rgb(182, 223, 138)","rgb(152, 193, 138)"],all_blue:["rgb(31,119,180)","rgb(23,190,207)","rgb(122, 102, 189)","rgb(158,218,229)","rgb(141, 124, 217)","rgb(31, 120, 150)"],magenta:["rgb(162,106,192)","rgb(197,165,224)","rgb(208,113,218)"],red:["rgb(214,39,40)","rgb(255,152,150)"],st_blue:["rgb(23,190,207)","rgb(158,218,229)","rgb(31,119,180)"],dark_blue:["rgb(31,119,180)","rgb(31, 120, 150)"],light_blue:["rgb(23,190,207)","rgb(158,218,229)","rgb(108, 218, 229)","rgb(23,190,227)"],lilac_blue:["rgb(124,102,211)","rgb(149,134,217)","rgb(97, 81, 150)"],dark_green:["rgb(23,103,57)","rgb(30,110,96)","rgb(60,131,95)","rgb(24,110,79)"],green:["rgb(44,160,44)","rgb(74,160,74)"],light_green:["rgb(152,223,138)","rgb(182, 223, 138)","rgb(152, 193, 138)"],st_green:["rgb(44,160,44)","rgb(152,223,138)","rgb(39, 174, 96)","rgb(74,160,74)"],pink:["rgb(247,182,210)"],brown:["rgb(140,86,75)","rgb(102, 62, 54)"],gray:["rgb(127,127,127)","rgb(199,199,199)","rgb(196,156,148)","rgb(222, 222, 180)"],yellow:["rgb(188,189,34)"],white:["rgb(230,230,230)"]}},7389:e=>{"use strict";e.exports=ui},7433:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.MissingRefError=t.ValidationError=t.CodeGen=t.Name=t.nil=t.stringify=t.str=t._=t.KeywordCxt=t.Ajv2020=void 0;const i=n(4042),o=n(6105),r=n(6653),s=n(9572),a="https://json-schema.org/draft/2020-12/schema";class l extends i.default{constructor(e={}){super({...e,dynamicRef:!0,next:!0,unevaluated:!0})}_addVocabularies(){super._addVocabularies(),o.default.forEach(e=>this.addVocabulary(e)),this.opts.discriminator&&this.addKeyword(r.default)}_addDefaultMetaSchema(){super._addDefaultMetaSchema();const{$data:e,meta:t}=this.opts;t&&(s.default.call(this,e),this.refs["http://json-schema.org/schema"]=a)}defaultMeta(){return this.opts.defaultMeta=super.defaultMeta()||(this.getSchema(a)?a:void 0)}}t.Ajv2020=l,e.exports=t=l,e.exports.Ajv2020=l,Object.defineProperty(t,"__esModule",{value:!0}),t.default=l;var c=n(2586);Object.defineProperty(t,"KeywordCxt",{enumerable:!0,get:function(){return c.KeywordCxt}});var u=n(9029);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return u._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return u.str}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return u.stringify}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return u.nil}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return u.Name}}),Object.defineProperty(t,"CodeGen",{enumerable:!0,get:function(){return u.CodeGen}});var h=n(3558);Object.defineProperty(t,"ValidationError",{enumerable:!0,get:function(){return h.default}});var d=n(4551);Object.defineProperty(t,"MissingRefError",{enumerable:!0,get:function(){return d.default}})},7532:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=[n(4737).default];t.default=i},7602:(e,t,n)=>{"use strict";n.d(t,{g:()=>r});var i,o=n(9192);!function(e){e[e.error=0]="error",e[e.warning=1]="warning",e[e.info=2]="info",e[e.debug=3]="debug"}(i||(i={}));class r{constructor(e){this.logger=e,this.promise=Promise.resolve(),this.errors=[],this.syncCounter=0}sync(e,t){const n=++this.syncCounter;this.logger.debug(`${e}, SYNC syncId = ${n}, IN `),this.promise=this.promise.then(async()=>{this.logger.debug(`${e}, SYNC syncId = ${n}, START `),await t(),this.logger.debug(`${e}, SYNC syncId = ${n}, END `)}).catch(t=>{const[i,r]=(0,o.AP)(t);this.logger.error(`${e}, SYNC syncId = ${n}, ERROR:\n${i}`,void 0,r),this.errors.push(t)})}resetErrors(){const e=this.errors;return this.errors=[],e}}},7652:(e,t)=>{"use strict";var n;Object.defineProperty(t,"__esModule",{value:!0}),t.DiscrError=void 0,function(e){e.Tag="tag",e.Mapping="mapping"}(n||(t.DiscrError=n={}))},7659:e=>{"use strict";var t={};e.exports=function(e,n){var i=function(e){if(void 0===t[e]){var n=document.querySelector(e);if(window.HTMLIFrameElement&&n instanceof window.HTMLIFrameElement)try{n=n.contentDocument.head}catch(e){n=null}t[e]=n}return t[e]}(e);if(!i)throw new Error("Couldn't find a style target. This probably means that the value for the 'insert' parameter is invalid.");i.appendChild(n)}},7825:e=>{"use strict";e.exports=function(e){if("undefined"==typeof document)return{update:function(){},remove:function(){}};var t=e.insertStyleElement(e);return{update:function(n){!function(e,t,n){var i="";n.supports&&(i+="@supports (".concat(n.supports,") {")),n.media&&(i+="@media ".concat(n.media," {"));var o=void 0!==n.layer;o&&(i+="@layer".concat(n.layer.length>0?" ".concat(n.layer):""," {")),i+=n.css,o&&(i+="}"),n.media&&(i+="}"),n.supports&&(i+="}");var r=n.sourceMap;r&&"undefined"!=typeof btoa&&(i+="\n/*# sourceMappingURL=data:application/json;base64,".concat(btoa(unescape(encodeURIComponent(JSON.stringify(r))))," */")),t.styleTagTransform(i,e,t.options)}(t,e,n)},remove:function(){!function(e){if(null===e.parentNode)return!1;e.parentNode.removeChild(e)}(t)}}}},7845:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.ValueScope=t.ValueScopeName=t.Scope=t.varKinds=t.UsedValueState=void 0;const i=n(1520);class o extends Error{constructor(e){super(`CodeGen: "code" for ${e} not defined`),this.value=e.value}}var r;!function(e){e[e.Started=0]="Started",e[e.Completed=1]="Completed"}(r||(t.UsedValueState=r={})),t.varKinds={const:new i.Name("const"),let:new i.Name("let"),var:new i.Name("var")};class s{constructor({prefixes:e,parent:t}={}){this._names={},this._prefixes=e,this._parent=t}toName(e){return e instanceof i.Name?e:this.name(e)}name(e){return new i.Name(this._newName(e))}_newName(e){return`${e}${(this._names[e]||this._nameGroup(e)).index++}`}_nameGroup(e){var t,n;if((null===(n=null===(t=this._parent)||void 0===t?void 0:t._prefixes)||void 0===n?void 0:n.has(e))||this._prefixes&&!this._prefixes.has(e))throw new Error(`CodeGen: prefix "${e}" is not allowed in this scope`);return this._names[e]={prefix:e,index:0}}}t.Scope=s;class a extends i.Name{constructor(e,t){super(t),this.prefix=e}setValue(e,{property:t,itemIndex:n}){this.value=e,this.scopePath=i._`.${new i.Name(t)}[${n}]`}}t.ValueScopeName=a;const l=i._`\n`;t.ValueScope=class extends s{constructor(e){super(e),this._values={},this._scope=e.scope,this.opts={...e,_n:e.lines?l:i.nil}}get(){return this._scope}name(e){return new a(e,this._newName(e))}value(e,t){var n;if(void 0===t.ref)throw new Error("CodeGen: ref must be passed in value");const i=this.toName(e),{prefix:o}=i,r=null!==(n=t.key)&&void 0!==n?n:t.ref;let s=this._values[o];if(s){const e=s.get(r);if(e)return e}else s=this._values[o]=new Map;s.set(r,i);const a=this._scope[o]||(this._scope[o]=[]),l=a.length;return a[l]=t.ref,i.setValue(t,{property:o,itemIndex:l}),i}getValue(e,t){const n=this._values[e];if(n)return n.get(t)}scopeRefs(e,t=this._values){return this._reduceValues(t,t=>{if(void 0===t.scopePath)throw new Error(`CodeGen: name "${t}" has no value`);return i._`${e}${t.scopePath}`})}scopeCode(e=this._values,t,n){return this._reduceValues(e,e=>{if(void 0===e.value)throw new Error(`CodeGen: name "${e}" has no value`);return e.value.code},t,n)}_reduceValues(e,n,s={},a){let l=i.nil;for(const c in e){const u=e[c];if(!u)continue;const h=s[c]=s[c]||new Map;u.forEach(e=>{if(h.has(e))return;h.set(e,r.Started);let s=n(e);if(s){const n=this.opts.es5?t.varKinds.var:t.varKinds.const;l=i._`${l}${n} ${e} = ${s};${this.opts._n}`}else{if(!(s=null==a?void 0:a(e)))throw new o(e);l=i._`${l}${s}${this.opts._n}`}h.set(e,r.Completed)})}return l}}},7870:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.assignDefaults=void 0;const i=n(9029),o=n(4227);function r(e,t,n){const{gen:r,compositeRule:s,data:a,opts:l}=e;if(void 0===n)return;const c=i._`${a}${(0,i.getProperty)(t)}`;if(s)return void(0,o.checkStrictMode)(e,`default is ignored for: ${c}`);let u=i._`${c} === undefined`;"empty"===l.useDefaults&&(u=i._`${u} || ${c} === null || ${c} === ""`),r.if(u,i._`${c} = ${(0,i.stringify)(n)}`)}t.assignDefaults=function(e,t){const{properties:n,items:i}=e.schema;if("object"===t&&n)for(const t in n)r(e,t,n[t].default);else"array"===t&&Array.isArray(i)&&i.forEach((t,n)=>r(e,n,t.default))}},7887:(e,t)=>{"use strict";function n(e,t){return t.rules.some(t=>i(e,t))}function i(e,t){var n;return void 0!==e[t.keyword]||(null===(n=t.definition.implements)||void 0===n?void 0:n.some(t=>void 0!==e[t]))}Object.defineProperty(t,"__esModule",{value:!0}),t.shouldUseRule=t.shouldUseGroup=t.schemaHasRulesForType=void 0,t.schemaHasRulesForType=function({schema:e,self:t},i){const o=t.RULES.types[i];return o&&!0!==o&&n(e,o)},t.shouldUseGroup=n,t.shouldUseRule=i},7923:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(4227),o={keyword:"not",schemaType:["object","boolean"],trackErrors:!0,code(e){const{gen:t,schema:n,it:o}=e;if((0,i.alwaysValidSchema)(o,n))return void e.fail();const r=t.name("valid");e.subschema({keyword:"not",compositeRule:!0,createErrors:!1,allErrors:!1},r),e.failResult(r,()=>e.reset(),()=>e.error())},error:{message:"must NOT be valid"}};t.default=o},7935:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(6250),s={keyword:"const",$data:!0,error:{message:"must be equal to constant",params:({schemaCode:e})=>i._`{allowedValue: ${e}}`},code(e){const{gen:t,data:n,$data:s,schemaCode:a,schema:l}=e;s||l&&"object"==typeof l?e.fail$data(i._`!${(0,o.useFunc)(t,r.default)}(${n}, ${a})`):e.fail(i._`${l} !== ${n}`)}};t.default=s},7939:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".scatter_plot_link {\n right: 10px;\n}\n\n.cliffs_div {\n flex-grow: initial!important;\n justify-content: flex-end;\n flex-wrap: wrap;\n}\n\n.cliffs_grid {\n margin: 0!important;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings {\n font-size: 18px;\n position: absolute;\n height: 28px;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings:not(.ml-dim-reduction-column-editor-input-root i) {\n left: -20px;\n}\n.dlg-dimensionality-reduction.ui-form, .dlg-markov-clustering.ui-form, .dlg-markov-clustering.ui-form .ui-form, .dlg-dimensionality-reduction.ui-form .ui-form {\n max-width: unset;\n}\n\n.ml-dim-reduction-column-editor-input-root label {\n display: none !important;\n}\n\n.dim-reduction-dialog-form > .ui-input-root, .dim-reduction-dialog-form > div > .ui-input-root {\n margin-left: 10px;\n}\n\n.ml-dim-reduction-column-editor-input-root input, .ml-dim-reduction-column-editor-input-root select {\n margin-left: 20px !important;\n}\n\nh3.ml-dim-reduction-column-editor-input-root {\n margin: 0 !important;\n}\n\n.ml-dim-reduction-column-editor-root, .ml-dim-reduction-column-editor-header-root {\n display: flex;\n flex-direction: row;\n align-items: center;\n margin-bottom: 10px !important;\n width: 700px !important;\n}\n\n.ml-dim-reduction-column-editor-column-title {\n text-overflow: ellipsis;\n overflow: hidden;\n}\n\n.ml-dim-reduction-column-editor-header-root > h1:not(:first-child) {\n margin-left: 20px !important;\n}\n\n.ml-dim-reduction-column-editor-table-root .header > td:not(:first-child) {\n padding-left: 32px;\n}","",{version:3,sources:["webpack://./node_modules/@datagrok-libraries/ml/css/styles.css"],names:[],mappings:"AAAA;IACI,WAAW;AACf;;AAEA;IACI,4BAA4B;IAC5B,yBAAyB;IACzB,eAAe;AACnB;;AAEA;GACG,mBAAmB;AACtB;;AAEA;IACI,eAAe;IACf,kBAAkB;IAClB,YAAY;AAChB;;AAEA;IACI,WAAW;AACf;AACA;IACI,gBAAgB;AACpB;;AAEA;IACI,wBAAwB;AAC5B;;AAEA;IACI,iBAAiB;AACrB;;AAEA;IACI,4BAA4B;AAChC;;AAEA;IACI,oBAAoB;AACxB;;AAEA;IACI,aAAa;IACb,mBAAmB;IACnB,mBAAmB;IACnB,8BAA8B;IAC9B,uBAAuB;AAC3B;;AAEA;IACI,uBAAuB;IACvB,gBAAgB;AACpB;;AAEA;IACI,4BAA4B;AAChC;;AAEA;IACI,kBAAkB;AACtB",sourcesContent:[".scatter_plot_link {\n right: 10px;\n}\n\n.cliffs_div {\n flex-grow: initial!important;\n justify-content: flex-end;\n flex-wrap: wrap;\n}\n\n.cliffs_grid {\n margin: 0!important;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings {\n font-size: 18px;\n position: absolute;\n height: 28px;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings:not(.ml-dim-reduction-column-editor-input-root i) {\n left: -20px;\n}\n.dlg-dimensionality-reduction.ui-form, .dlg-markov-clustering.ui-form, .dlg-markov-clustering.ui-form .ui-form, .dlg-dimensionality-reduction.ui-form .ui-form {\n max-width: unset;\n}\n\n.ml-dim-reduction-column-editor-input-root label {\n display: none !important;\n}\n\n.dim-reduction-dialog-form > .ui-input-root, .dim-reduction-dialog-form > div > .ui-input-root {\n margin-left: 10px;\n}\n\n.ml-dim-reduction-column-editor-input-root input, .ml-dim-reduction-column-editor-input-root select {\n margin-left: 20px !important;\n}\n\nh3.ml-dim-reduction-column-editor-input-root {\n margin: 0 !important;\n}\n\n.ml-dim-reduction-column-editor-root, .ml-dim-reduction-column-editor-header-root {\n display: flex;\n flex-direction: row;\n align-items: center;\n margin-bottom: 10px !important;\n width: 700px !important;\n}\n\n.ml-dim-reduction-column-editor-column-title {\n text-overflow: ellipsis;\n overflow: hidden;\n}\n\n.ml-dim-reduction-column-editor-header-root > h1:not(:first-child) {\n margin-left: 20px !important;\n}\n\n.ml-dim-reduction-column-editor-table-root .header > td:not(:first-child) {\n padding-left: 32px;\n}"],sourceRoot:""}]);const a=s},8070:(e,t,n)=>{"use strict";n.d(t,{Pl:()=>x,bk:()=>G,gM:()=>L,L1:()=>I,cb:()=>F,E3:()=>S,J6:()=>_,Wj:()=>M,Xk:()=>P,Xb:()=>R,N$:()=>$,t6:()=>E,PE:()=>A,CN:()=>m});var i=n(4328),o=n(6082);n(9982);const r=o.DataFrame.fromCsv('countries,fasta,smiles,molregno,LON,Zip Code,Street Address Line 1,ImageUrl,user_id,error_message,xray,flag,magnitude,CS-id,pdb_id,accel_a,time_offset,chart,fit,Questions,empty_number,empty_string\nBelgium,MSNFHNEHVMQFYRNNLKTKGVFGRQ,CC(C(=O)OCCCc1cccnc1)c2cccc(c2)C(=O)c3ccccc3,1480014,36.276729583740234,995042300,14016 ROUTE 31W,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,1,1,1QBS,1,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[2.497360340644872, 1.7058694986686864, 5.278052678195135, 0.16000320889028383],""points"":[{""x"":0.10000000149011612,""y"":2.374499797821045},{""x"":0.6000000238418579,""y"":2.6242473125457764},{""x"":1.100000023841858,""y"":2.367267608642578},{""x"":1.600000023841858,""y"":2.6723148822784424},{""x"":2.0999999046325684,""y"":2.6537344455718994},{""x"":2.5999999046325684,""y"":2.3651671409606934},{""x"":3.0999999046325684,""y"":2.5654284954071045},{""x"":3.5999999046325684,""y"":2.4160959720611572},{""x"":4.099999904632568,""y"":2.286726713180542},{""x"":4.599999904632568,""y"":2.5100042819976807},{""x"":5.099999904632568,""y"":1.6676985025405884},{""x"":5.599999904632568,""y"":0.680136501789093},{""x"":6.099999904632568,""y"":0.3391543924808502},{""x"":6.599999904632568,""y"":0.09038983285427094},{""x"":7.099999904632568,""y"":0.19802775979042053}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[7.525235855508179, 1.3186911876809984, 5.335672608564294, 0.7860743343958098],""points"":[{""x"":0.10000000149011612,""y"":7.988070487976074},{""x"":0.6000000238418579,""y"":7.018453121185303},{""x"":1.100000023841858,""y"":8.115279197692871},{""x"":1.600000023841858,""y"":7.486658096313477},{""x"":2.0999999046325684,""y"":7.396438121795654},{""x"":2.5999999046325684,""y"":7.477052211761475},{""x"":3.0999999046325684,""y"":6.913095474243164},{""x"":3.5999999046325684,""y"":8.01385498046875},{""x"":4.099999904632568,""y"":6.985900402069092},{""x"":4.599999904632568,""y"":6.970335960388184},{""x"":5.099999904632568,""y"":5.448817253112793},{""x"":5.599999904632568,""y"":2.5534818172454834},{""x"":6.099999904632568,""y"":1.893947958946228},{""x"":6.599999904632568,""y"":0.6340042352676392},{""x"":7.099999904632568,""y"":0.8403874039649963}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,100,abc\nBurundi,MDYKETLLMPKTDFPMRGGLPNKEPQIQEKW,COc1ccc2cc(ccc2c1)C(C)C(=O)Oc3ccc(C)cc3OC,1480015,36.276729583740234,995073444,80 STATE HIGHWAY 310,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,2,2,1ZP8,2,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[4.431460753103398, 2.1691498799246745, 5.266445597102774, 0.7825762827017926],""points"":[{""x"":0.10000000149011612,""y"":4.751083850860596},{""x"":0.6000000238418579,""y"":4.203000068664551},{""x"":1.100000023841858,""y"":4.415858745574951},{""x"":1.600000023841858,""y"":4.68414306640625},{""x"":2.0999999046325684,""y"":4.198400974273682},{""x"":2.5999999046325684,""y"":4.179222106933594},{""x"":3.0999999046325684,""y"":4.638473987579346},{""x"":3.5999999046325684,""y"":4.708553314208984},{""x"":4.099999904632568,""y"":4.291589260101318},{""x"":4.599999904632568,""y"":4.038082599639893},{""x"":5.099999904632568,""y"":3.4349939823150635},{""x"":5.599999904632568,""y"":1.2194708585739136},{""x"":6.099999904632568,""y"":1.1920831203460693},{""x"":6.599999904632568,""y"":0.5352635979652405},{""x"":7.099999904632568,""y"":0.3346920311450958}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[2.339458017970126, -1.0734184310171178, 4.746332950550934, 0.2482416857595658],""points"":[{""x"":0.10000000149011612,""y"":0.2139337658882141},{""x"":0.6000000238418579,""y"":0.4269562065601349},{""x"":1.100000023841858,""y"":0.2441573292016983},{""x"":1.600000023841858,""y"":0.146635964512825},{""x"":2.0999999046325684,""y"":0.08818462491035461},{""x"":2.5999999046325684,""y"":0.2560656666755676},{""x"":3.0999999046325684,""y"":0.42434045672416687},{""x"":3.5999999046325684,""y"":0.37111231684684753},{""x"":4.099999904632568,""y"":0.5581737160682678},{""x"":4.599999904632568,""y"":1.183590054512024},{""x"":5.099999904632568,""y"":1.5629843473434448},{""x"":5.599999904632568,""y"":2.3211288452148438},{""x"":6.099999904632568,""y"":2.229961633682251},{""x"":6.599999904632568,""y"":2.2560226917266846},{""x"":7.099999904632568,""y"":2.2142398357391357}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCameroon,MIEVFLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL,COc1ccc2cc(ccc2c1)C(C)C(=O)OCCCc3cccnc3,1480016,36.26095962524414,995153596,30-56 WHITESTONE EXPY,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,3,3,2BDJ,3,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[4.6760652578642325, 0.9046956320756703, 5.651408971856738, 0.07738846012184185],""points"":[{""x"":0.10000000149011612,""y"":4.32425594329834},{""x"":0.6000000238418579,""y"":4.668442249298096},{""x"":1.100000023841858,""y"":4.379785060882568},{""x"":1.600000023841858,""y"":5.0345139503479},{""x"":2.0999999046325684,""y"":4.878653526306152},{""x"":2.5999999046325684,""y"":4.3451313972473145},{""x"":3.0999999046325684,""y"":4.336992263793945},{""x"":3.5999999046325684,""y"":5.037430286407471},{""x"":4.099999904632568,""y"":5.0092692375183105},{""x"":4.599999904632568,""y"":4.151902675628662},{""x"":5.099999904632568,""y"":3.4066951274871826},{""x"":5.599999904632568,""y"":2.3732759952545166},{""x"":6.099999904632568,""y"":1.673728108406067},{""x"":6.599999904632568,""y"":0.48574790358543396},{""x"":7.099999904632568,""y"":0.2783052325248718}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[2.938395863010111, -1.4658480661392117, 5.462702751996584, 0.3473139023615039],""points"":[{""x"":0.10000000149011612,""y"":0.4941710829734802},{""x"":0.6000000238418579,""y"":0.15323974192142487},{""x"":1.100000023841858,""y"":0.46373432874679565},{""x"":1.600000023841858,""y"":0.3370431363582611},{""x"":2.0999999046325684,""y"":0.5179030299186707},{""x"":2.5999999046325684,""y"":0.27899765968322754},{""x"":3.0999999046325684,""y"":0.22075064480304718},{""x"":3.5999999046325684,""y"":0.5789918899536133},{""x"":4.099999904632568,""y"":0.21169911324977875},{""x"":4.599999904632568,""y"":0.27857646346092224},{""x"":5.099999904632568,""y"":1.0906332731246948},{""x"":5.599999904632568,""y"":1.8520300388336182},{""x"":6.099999904632568,""y"":2.7177059650421143},{""x"":6.599999904632568,""y"":2.8680918216705322},{""x"":7.099999904632568,""y"":3.2413077354431152}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCanada,MMELVLKTIIGPIVVGVVLRIVDKWLNKDK,CC(C(=O)NCCS)c1cccc(c1)C(=O)c2ccccc2,1480017,36.26095962524414,99515,30-56 WHITESTONE EXPY,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,4,4,1IAN,4,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[0.8597390975430008, 1.0957625732481946, 5.260537067987958, 0.07974187998177736],""points"":[{""x"":0.10000000149011612,""y"":0.8190152645111084},{""x"":0.6000000238418579,""y"":0.8421689867973328},{""x"":1.100000023841858,""y"":0.8740922212600708},{""x"":1.600000023841858,""y"":0.8924275040626526},{""x"":2.0999999046325684,""y"":0.8249067664146423},{""x"":2.5999999046325684,""y"":0.9327669143676758},{""x"":3.0999999046325684,""y"":0.8522974252700806},{""x"":3.5999999046325684,""y"":0.8174492716789246},{""x"":4.099999904632568,""y"":0.8394647240638733},{""x"":4.599999904632568,""y"":0.7139387726783752},{""x"":5.099999904632568,""y"":0.5561167597770691},{""x"":5.599999904632568,""y"":0.3276226818561554},{""x"":6.099999904632568,""y"":0.12479474395513535},{""x"":6.599999904632568,""y"":0.13006797432899475},{""x"":7.099999904632568,""y"":0.059702079743146896}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.760930219582546, 1.6591793293833013, 4.667155929720851, 0.7858109544121652],""points"":[{""x"":0.10000000149011612,""y"":6.156993389129639},{""x"":0.6000000238418579,""y"":5.236701965332031},{""x"":1.100000023841858,""y"":6.010560512542725},{""x"":1.600000023841858,""y"":5.495512962341309},{""x"":2.0999999046325684,""y"":6.087770462036133},{""x"":2.5999999046325684,""y"":5.79986572265625},{""x"":3.0999999046325684,""y"":5.597546577453613},{""x"":3.5999999046325684,""y"":5.520902156829834},{""x"":4.099999904632568,""y"":5.360654354095459},{""x"":4.599999904632568,""y"":3.5539746284484863},{""x"":5.099999904632568,""y"":1.577236294746399},{""x"":5.599999904632568,""y"":1.0001264810562134},{""x"":6.099999904632568,""y"":0.9305797815322876},{""x"":6.599999904632568,""y"":0.6033638715744019},{""x"":7.099999904632568,""y"":0.4203685522079468}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nColombia,MDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN,FC(F)(F)c1ccc(OC2CCNCC2)cc1,1480029,36.3309440612793,995152050,1 COURT HOUSE SQUARE,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,5,5,4UJ1,5,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[6.4995088314153655, 2.4270351004539914, 5.178659535348579, 0.625653346241577],""points"":[{""x"":0.10000000149011612,""y"":6.496231555938721},{""x"":0.6000000238418579,""y"":6.42543363571167},{""x"":1.100000023841858,""y"":7.040063858032227},{""x"":1.600000023841858,""y"":6.1115403175354},{""x"":2.0999999046325684,""y"":6.680728435516357},{""x"":2.5999999046325684,""y"":6.406774520874023},{""x"":3.0999999046325684,""y"":6.611269474029541},{""x"":3.5999999046325684,""y"":5.889094352722168},{""x"":4.099999904632568,""y"":6.75344705581665},{""x"":4.599999904632568,""y"":6.361435890197754},{""x"":5.099999904632568,""y"":4.1666975021362305},{""x"":5.599999904632568,""y"":1.172118902206421},{""x"":6.099999904632568,""y"":0.801048994064331},{""x"":6.599999904632568,""y"":0.4640021026134491},{""x"":7.099999904632568,""y"":0.0010357667924836278}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[1.4734381347446401, 1.1649805188074196, 4.82958608866421, 0.09500545496710007],""points"":[{""x"":0.10000000149011612,""y"":1.5279096364974976},{""x"":0.6000000238418579,""y"":1.3559974431991577},{""x"":1.100000023841858,""y"":1.5246378183364868},{""x"":1.600000023841858,""y"":1.5567657947540283},{""x"":2.0999999046325684,""y"":1.4114240407943726},{""x"":2.5999999046325684,""y"":1.4045010805130005},{""x"":3.0999999046325684,""y"":1.4769829511642456},{""x"":3.5999999046325684,""y"":1.4875500202178955},{""x"":4.099999904632568,""y"":1.2991987466812134},{""x"":4.599999904632568,""y"":0.922961413860321},{""x"":5.099999904632568,""y"":0.6520044803619385},{""x"":5.599999904632568,""y"":0.15350978076457977},{""x"":6.099999904632568,""y"":0.1078903079032898},{""x"":6.599999904632568,""y"":0.17276449501514435},{""x"":7.099999904632568,""y"":0.14066608250141144}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCosta Rica,MKSTKEEIQTIKTLLKDSRTAKYHKRLQIVL,CC(C)Cc1ccc(cc1)C(C)C(=O)N2CCCC2C(=O)OCCCc3ccccc3,1480018,36.3309440612793,995084218,4041 SOUTHWESTERN BLVD,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,6,6,2BPW,6,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[2.4833641843311227, -1.8945978742090062, 4.671127708092568, 0.24159861311815153],""points"":[{""x"":0.10000000149011612,""y"":0.0969524160027504},{""x"":0.6000000238418579,""y"":0.028483040630817413},{""x"":1.100000023841858,""y"":0.22087176144123077},{""x"":1.600000023841858,""y"":0.0068915546871721745},{""x"":2.0999999046325684,""y"":0.4305879771709442},{""x"":2.5999999046325684,""y"":0.44774115085601807},{""x"":3.0999999046325684,""y"":0.45346319675445557},{""x"":3.5999999046325684,""y"":0.2370593100786209},{""x"":4.099999904632568,""y"":0.4657953977584839},{""x"":4.599999904632568,""y"":1.155200719833374},{""x"":5.099999904632568,""y"":2.2294070720672607},{""x"":5.599999904632568,""y"":2.4311530590057373},{""x"":6.099999904632568,""y"":2.33846116065979},{""x"":6.599999904632568,""y"":2.608201026916504},{""x"":7.099999904632568,""y"":2.8136143684387207}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.224573521642033, 1.4454033924198528, 5.6014197746076535, 0.2823216054197577],""points"":[{""x"":0.10000000149011612,""y"":4.95027494430542},{""x"":0.6000000238418579,""y"":5.1754679679870605},{""x"":1.100000023841858,""y"":5.276752948760986},{""x"":1.600000023841858,""y"":5.589294910430908},{""x"":2.0999999046325684,""y"":5.616994857788086},{""x"":2.5999999046325684,""y"":5.120813846588135},{""x"":3.0999999046325684,""y"":5.340766906738281},{""x"":3.5999999046325684,""y"":4.876471042633057},{""x"":4.099999904632568,""y"":4.94999361038208},{""x"":4.599999904632568,""y"":5.162564754486084},{""x"":5.099999904632568,""y"":4.399557590484619},{""x"":5.599999904632568,""y"":2.7977969646453857},{""x"":6.099999904632568,""y"":1.0229872465133667},{""x"":6.599999904632568,""y"":0.48275601863861084},{""x"":7.099999904632568,""y"":0.10408931970596313}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCuba,MHAILRYFIRRLFYHIFYKIYSLISKKHQSLPSDVRQF,COc1ccc2c(c1)c(CC(=O)N3CCCC3C(=O)Oc4ccc(C)cc4OC)c(C)n2C(=O)c5ccc(Cl)cc5,1480019,36.33115768432617,995081928,1227 US HIGHWAY 11,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,7,7,1QBS,7,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[3.320838679713925, -1.2421619987316728, 4.831325425225256, 0.3236011098403072],""points"":[{""x"":0.10000000149011612,""y"":0.3727470338344574},{""x"":0.6000000238418579,""y"":0.12365014106035233},{""x"":1.100000023841858,""y"":0.48422467708587646},{""x"":1.600000023841858,""y"":0.2264465093612671},{""x"":2.0999999046325684,""y"":0.16821794211864471},{""x"":2.5999999046325684,""y"":0.3879014551639557},{""x"":3.0999999046325684,""y"":0.5470244884490967},{""x"":3.5999999046325684,""y"":0.3419053554534912},{""x"":4.099999904632568,""y"":0.7655120491981506},{""x"":4.599999904632568,""y"":1.2346516847610474},{""x"":5.099999904632568,""y"":2.453336715698242},{""x"":5.599999904632568,""y"":2.9565491676330566},{""x"":6.099999904632568,""y"":3.335299491882324},{""x"":6.599999904632568,""y"":3.240290880203247},{""x"":7.099999904632568,""y"":3.1107218265533447}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[3.6401853521511094, 1.26211588875013, 5.399028074402744, 0.5089580830068091],""points"":[{""x"":0.10000000149011612,""y"":3.8585598468780518},{""x"":0.6000000238418579,""y"":3.6077206134796143},{""x"":1.100000023841858,""y"":3.855252265930176},{""x"":1.600000023841858,""y"":3.619039297103882},{""x"":2.0999999046325684,""y"":3.839388370513916},{""x"":2.5999999046325684,""y"":3.335283041000366},{""x"":3.0999999046325684,""y"":3.571141481399536},{""x"":3.5999999046325684,""y"":3.4155046939849854},{""x"":4.099999904632568,""y"":3.7316646575927734},{""x"":4.599999904632568,""y"":3.0680155754089355},{""x"":5.099999904632568,""y"":2.891066551208496},{""x"":5.599999904632568,""y"":1.6022753715515137},{""x"":6.099999904632568,""y"":0.7652576565742493},{""x"":6.599999904632568,""y"":0.6875326037406921},{""x"":7.099999904632568,""y"":0.5828871726989746}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nItaly,MSNFHNEHVMQFYRNNLKTKGVFGRQ,CC(C)Cc1ccc(cc1)C(C)C(=O)N2CCCC2C(=O)OCCO[N+](=O)[O-],1480020,36.33115768432617,99502,"168-46 91ST AVE., 2ND FLR",https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,8,8,1ZP8,8,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[2.293592105923809, 1.3781586549141835, 5.1025898038676605, 0.03493851245291291],""points"":[{""x"":0.10000000149011612,""y"":2.1287283897399902},{""x"":0.6000000238418579,""y"":2.267972230911255},{""x"":1.100000023841858,""y"":2.398442506790161},{""x"":1.600000023841858,""y"":2.5130622386932373},{""x"":2.0999999046325684,""y"":2.3255116939544678},{""x"":2.5999999046325684,""y"":2.127340793609619},{""x"":3.0999999046325684,""y"":2.47259783744812},{""x"":3.5999999046325684,""y"":2.131181478500366},{""x"":4.099999904632568,""y"":2.090421438217163},{""x"":4.599999904632568,""y"":2.02299165725708},{""x"":5.099999904632568,""y"":1.1105059385299683},{""x"":5.599999904632568,""y"":0.4494485855102539},{""x"":6.099999904632568,""y"":0.1375635862350464},{""x"":6.599999904632568,""y"":0.036351121962070465},{""x"":7.099999904632568,""y"":0.1619771122932434}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.953125499439879, 1.2528620255306528, 5.187637440149802, 0.3110348753260886],""points"":[{""x"":0.10000000149011612,""y"":5.6585283279418945},{""x"":0.6000000238418579,""y"":5.911152362823486},{""x"":1.100000023841858,""y"":5.924920082092285},{""x"":1.600000023841858,""y"":5.8469438552856445},{""x"":2.0999999046325684,""y"":5.929472923278809},{""x"":2.5999999046325684,""y"":6.190037727355957},{""x"":3.0999999046325684,""y"":6.236179828643799},{""x"":3.5999999046325684,""y"":6.141019344329834},{""x"":4.099999904632568,""y"":5.295210838317871},{""x"":4.599999904632568,""y"":5.265801906585693},{""x"":5.099999904632568,""y"":3.3722851276397705},{""x"":5.599999904632568,""y"":1.8299226760864258},{""x"":6.099999904632568,""y"":0.32690900564193726},{""x"":6.599999904632568,""y"":0.6274543404579163},{""x"":7.099999904632568,""y"":0.8441857099533081}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nRwanda,MPNSEPASLLELFNSIATQGELVRSLKAGNASK,CC(C)Cc1ccc(cc1)C(C)C(=O)N2CCCC2C(=O)OCCO,1480021,36.33137130737305,995037247,"168-46 91ST AVE., 2ND FLR",https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,9,9,2BDJ,9,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[3.8209972202654474, 1.3779216716448506, 5.299882228439686, 0.06040645519069608],""points"":[{""x"":0.10000000149011612,""y"":3.7821109294891357},{""x"":0.6000000238418579,""y"":3.542433023452759},{""x"":1.100000023841858,""y"":3.7008674144744873},{""x"":1.600000023841858,""y"":3.717301607131958},{""x"":2.0999999046325684,""y"":4.024452209472656},{""x"":2.5999999046325684,""y"":4.013899326324463},{""x"":3.0999999046325684,""y"":3.945094347000122},{""x"":3.5999999046325684,""y"":3.866621971130371},{""x"":4.099999904632568,""y"":3.7461626529693604},{""x"":4.599999904632568,""y"":3.3454740047454834},{""x"":5.099999904632568,""y"":2.61944317817688},{""x"":5.599999904632568,""y"":0.999405026435852},{""x"":6.099999904632568,""y"":0.46259793639183044},{""x"":6.599999904632568,""y"":0.054134611040353775},{""x"":7.099999904632568,""y"":0.05711187422275543}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.6318079657726035, 1.8495493770000595, 5.391793312471116, 0.17060707587348442],""points"":[{""x"":0.10000000149011612,""y"":5.458079814910889},{""x"":0.6000000238418579,""y"":5.554427146911621},{""x"":1.100000023841858,""y"":5.799983024597168},{""x"":1.600000023841858,""y"":5.364140033721924},{""x"":2.0999999046325684,""y"":5.864485740661621},{""x"":2.5999999046325684,""y"":5.4509806632995605},{""x"":3.0999999046325684,""y"":5.702574729919434},{""x"":3.5999999046325684,""y"":5.7314534187316895},{""x"":4.099999904632568,""y"":5.5123443603515625},{""x"":4.599999904632568,""y"":5.724395751953125},{""x"":5.099999904632568,""y"":4.354506969451904},{""x"":5.599999904632568,""y"":1.7307666540145874},{""x"":6.099999904632568,""y"":0.6305936574935913},{""x"":6.599999904632568,""y"":0.035183437168598175},{""x"":7.099999904632568,""y"":0.7575169205665588}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nSwitzerland,IRVVGRYLIEVWKAAGMDMDKVLFLWSSDEI,CN1CCC(CC1)Oc2ccc(cc2)C(F)(F)F,1480028,36.33137130737305,99504,92-11 179TH PLACE,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,9,10,1IAN,10,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[1.1190255865097471, 2.3163895161544437, 5.4968866182279195, 0.2035204047289052],""points"":[{""x"":0.10000000149011612,""y"":1.1057683229446411},{""x"":0.6000000238418579,""y"":1.1019697189331055},{""x"":1.100000023841858,""y"":1.0818607807159424},{""x"":1.600000023841858,""y"":1.062997817993164},{""x"":2.0999999046325684,""y"":1.046447515487671},{""x"":2.5999999046325684,""y"":1.1217249631881714},{""x"":3.0999999046325684,""y"":1.2166996002197266},{""x"":3.5999999046325684,""y"":1.215477705001831},{""x"":4.099999904632568,""y"":1.0581893920898438},{""x"":4.599999904632568,""y"":1.1747995615005493},{""x"":5.099999904632568,""y"":1.0181127786636353},{""x"":5.599999904632568,""y"":0.5344523191452026},{""x"":6.099999904632568,""y"":0.2569526433944702},{""x"":6.599999904632568,""y"":0.1912207305431366},{""x"":7.099999904632568,""y"":0.15060538053512573}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[3.1038581025805785, 2.0032224204185245, 5.087602825989163, 0.13277988512492753],""points"":[{""x"":0.10000000149011612,""y"":3.0498509407043457},{""x"":0.6000000238418579,""y"":2.805217742919922},{""x"":1.100000023841858,""y"":3.3415253162384033},{""x"":1.600000023841858,""y"":3.0549843311309814},{""x"":2.0999999046325684,""y"":3.250074863433838},{""x"":2.5999999046325684,""y"":3.0432586669921875},{""x"":3.0999999046325684,""y"":3.265852451324463},{""x"":3.5999999046325684,""y"":2.9475724697113037},{""x"":4.099999904632568,""y"":3.1929898262023926},{""x"":4.599999904632568,""y"":2.7460060119628906},{""x"":5.099999904632568,""y"":1.6175861358642578},{""x"":5.599999904632568,""y"":0.3006608486175537},{""x"":6.099999904632568,""y"":0.3444803059101105},{""x"":6.599999904632568,""y"":0.015537971630692482},{""x"":7.099999904632568,""y"":0.5527358055114746}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\n,,,,,,,,,,,,,,,,,,,,,');r.columns.add(o.Column.fromList(o.TYPE.BYTE_ARRAY,"BinaryImage",Array.from(new Uint8Array(11))));var s=function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})};const a=3e4,l=108e5,c=console.log.bind(console),u=console.info.bind(console),h=console.warn.bind(console),d=console.error.bind(console),m={},p="Auto Tests",g="Demo",f="Detectors",y="Core",b={};let w;var v;!function(e){e.notNull=function(e,t){if(null==e)throw new Error(`${null==t?"Value":t} not defined`)}}(v||(v={}));class T{constructor(e,t){this.catchUnhandled=!0,this.report=!1,void 0!==e&&(this.catchUnhandled=e),void 0!==t&&(this.report=t)}}class C{constructor(e,t,n,i){var r;this.category=e,this.name=t,null!=i||(i={}),null!==(r=i.timeout)&&void 0!==r||(i.timeout=a),this.options=i,this.test=()=>s(this,void 0,void 0,function*(){return new Promise((e,t)=>s(this,void 0,void 0,function*(){var i;let r="";try{o.Test.isInDebug;let e=yield n();try{r=null!==(i=null==e?void 0:e.toString())&&void 0!==i?i:""}catch(e){r="Can't convert test's result to string",console.error(`Can't convert test's result to string in the ${this.category}:${this.name} test`)}}catch(e){t(e)}e(r)}))})}}function A(e,t,n,i=0,o="timeout"){return s(this,void 0,void 0,function*(){return new Promise((r,s)=>{const a=e.subscribe(e=>{try{t(e),r("OK")}catch(e){s(e)}finally{a.unsubscribe(),clearTimeout(l)}}),l=setTimeout(()=>{a.unsubscribe(),s(o)},i);n()})})}function E(e,t,n){null==m[w]&&(m[w]={}),null==m[w].tests&&(m[w].tests=[]),m[w].tests.push(new C(w,e,t,n))}function S(e,t=!0,n){if(n=n?`${n}, `:"",e!==t)throw new Error(`${n}Expected "${t}", got "${e}"`)}function M(e,t,n=.001,i){if(e===Number.POSITIVE_INFINITY&&t===Number.POSITIVE_INFINITY||e===Number.NEGATIVE_INFINITY&&t===Number.NEGATIVE_INFINITY||e===Number.NaN&&t===Number.NaN||isNaN(e)&&isNaN(t))return;const o=Math.abs(e-t)<n;if(S(o,!0,`${null!=i?i:""} (tolerance = ${n})`),!o)throw new Error(`Expected ${t}, got ${e} (tolerance = ${n})`)}function P(e,t){for(const[n,i]of Object.entries(t)){if(!e.hasOwnProperty(n))throw new Error(`Expected property "${n}" not found`);const t=e[n];if(t instanceof Array&&i instanceof Array)_(t,i);else if(t instanceof Object&&i instanceof Object)P(t,i);else if(Number.isFinite(t)&&Number.isFinite(i))M(t,i);else if(t!=i)throw new Error(`Expected (${i}) for key '${n}', got (${t})`)}}function _(e,t){const n=e.length,i=t.length;if(n!=i)throw new Error(`Arrays are of different length: actual array length is ${n} and expected array length is ${i}`);for(let i=0;i<n;i++)if(e[i]instanceof Array&&t[i]instanceof Array)_(e[i],t[i]);else if(e[i]instanceof Object&&t[i]instanceof Object)P(e[i],t[i]);else if(e[i]!=t[i])throw new Error(`Expected ${t[i]} at position ${i}, got ${e[i]}`)}function I(e,t,n){var i;w=e,t(),m[w]&&(m[w].clear=null===(i=null==n?void 0:n.clear)||void 0===i||i,m[w].timeout=null==n?void 0:n.timeout,m[w].benchmarks=null==n?void 0:n.benchmarks,m[w].stressTests=null==n?void 0:n.stressTests,m[w].owner=null==n?void 0:n.owner)}function L(e){null==m[w]&&(m[w]={}),m[w].before=e}function x(e){null==m[w]&&(m[w]={}),m[w].after=e}function N(e,t){return e.replace(new RegExp(t.name,"gi"),t.nqName)}function R(e,t){var n,c,u,h,d,w,v,T,A,E;return s(this,void 0,void 0,function*(){const M=e.id;if(b[M])return;const P=t?t.tests:m;if("DevTools"===e.name||t&&"DevTools"===t._package.name)for(const e of window.dartTests){const t=e.name.split(/\s*\|\s*!/g);let i=null!==(n=t.pop())&&void 0!==n?n:e.name,o=t.length?y+": "+t.join(": "):y,r=i.split(" | ");i=r[r.length-1],r.unshift(o),r.pop(),o=r.join(": "),void 0===P[o]&&(P[o]={tests:[],clear:!0}),P[o].tests.push(new C(o,i,e.test,{isAggregated:!1,timeout:null!==(u=null===(c=e.options)||void 0===c?void 0:c.timeout)&&void 0!==u?u:a,skipReason:null===(h=e.options)||void 0===h?void 0:h.skipReason,owner:null===(d=e.options)||void 0===d?void 0:d.owner,benchmark:null!==(v=null===(w=e.options)||void 0===w?void 0:w.benchmark)&&void 0!==v&&v}))}const _=[],I=[],L=[],x=yield i.dapi.functions.filter(`package.id = "${M}"`).list(),R=new RegExp(/skip:\s*([^,\s]+)|wait:\s*(\d+)|cat:\s*([^,\s]+)|timeout:\s*(\d+)/g);for(const t of x){const n=t.options.test,c=t.options.demoPath;if(n&&Array.isArray(n)&&n.length)for(let e=0;e<n.length;e++){const r=n[e].matchAll(R),c={};Array.from(r).forEach(e=>{e[0].startsWith("skip")?c.skip=e[1]:e[0].startsWith("wait")?c.wait=parseInt(e[2]):e[0].startsWith("cat")?c.cat=e[3]:e[0].startsWith("timeout")&&(c.timeout=parseInt(e[4]))});const u=new C(null!==(T=c.cat)&&void 0!==T?T:p,1===n.length?t.name:`${t.name} ${e+1}`,()=>s(this,void 0,void 0,function*(){const o=yield i.functions.eval(N(n[e],t));if(c.wait&&(yield F(c.wait)),"boolean"==typeof o&&!o)throw`Failed: ${n[e]}, expected true, got ${o}`}),{skipReason:c.skip,timeout:o.Test.isInBenchmark?null!==(A=c.benchmarkTimeout)&&void 0!==A?A:l:null!==(E=c.timeout)&&void 0!==E?E:a});if(c.cat){const e=c.cat;void 0===P[e]&&(P[e]={tests:[],clear:!0}),P[e].tests||(P[e].tests=[]),P[e].tests.push(u)}else _.push(u)}if(c){const e=t.options.demoWait?parseInt(t.options.demoWait):void 0,n=new C(g,t.friendlyName,()=>s(this,void 0,void 0,function*(){yield F(300),i.shell.clearLastError(),yield t.apply(),yield F(e||2e3);const n=yield i.shell.lastError;if(n)throw new Error(n)}),{skipReason:t.options.demoSkip});I.push(n)}if(t.hasTag("semTypeDetector")){let n=r;t.options.testData&&(n=yield i.data.files.openTable(`System:AppData/${e.nqName}/${t.options.testData}`));const o=new C(f,t.friendlyName,()=>s(this,void 0,void 0,function*(){const i=[];console.log(`System:AppData/${e.nqName}/${t.options.testData}`);for(const e of n.clone().columns){const n=yield t.apply([e]);i.push(n||e.semType)}const o=i.filter(e=>e);S(o.length,1),t.options.testDataColumnName&&S(o[0],t.options.testDataColumnName)}),{skipReason:t.options.skipTest});L.push(o)}}b[M]=!0,_.length>0&&(P[p]={tests:_,clear:!0}),I.length>0&&(P[g]={tests:I,clear:!0}),L.length>0&&(P[f]={tests:L,clear:!1})})}function $(e){var t,n,r,p,g,f;return s(this,void 0,void 0,function*(){console.log("--------------------");const y=null===(n=null===(t=i.functions.getCurrentCall())||void 0===t?void 0:t.func)||void 0===n?void 0:n.package,b=(null!==(p=(null!==(r=null==y?void 0:y.packageOwner)&&void 0!==r?r:"").match(new RegExp("[^<]*<([^>]*)>")))&&void 0!==p?p:["",""])[1];yield R(y);const w=[];console.log("Running tests"),console.log(e),null!=e||(e={}),null!==(g=(f=e).testContext)&&void 0!==g||(f.testContext=new T),i.shell.clearLastError();const v=function(){const e=[];return console.log=(...t)=>{e.push(...t),c(...t)},console.info=(...t)=>{e.push(...t),u(...t)},console.warn=(...t)=>{e.push(...t),h(...t)},console.error=(...t)=>{e.push(...t),d(...t)},e}();yield function(e,t){var n,r,a,l,m,p,g;return s(this,void 0,void 0,function*(){try{for(const[i,u]of Object.entries(e)){if(!(null==t?void 0:t.category)||(null===(n=t.exclude)||void 0===n?void 0:n.some(e=>i.startsWith(e))))continue;if((!i.toLowerCase().startsWith(`${null==t?void 0:t.category.toLowerCase().trim()} :`)||t.test)&&i.toLowerCase().trim()!==(null==t?void 0:t.category.toLowerCase().trim()))continue;c(`Started ${i} category`);const e=null===(r=u.tests)||void 0===r?void 0:r.every(e=>{var t;return null===(t=e.options)||void 0===t?void 0:t.skipReason});e||(u.beforeStatus=yield C(u.before,null!==(a=t.category)&&void 0!==a?a:""));let h,d=null!==(l=u.tests)&&void 0!==l?l:[];t.stressTest&&(d=d.filter(e=>{var t;return null===(t=e.options)||void 0===t?void 0:t.stressTest}),d=k(d)),(null!==(p=null===(m=t.tags)||void 0===m?void 0:m.length)&&void 0!==p?p:0)>0&&(d=d.filter(e=>{var n,i;return null===(i=null===(n=e.options)||void 0===n?void 0:n.tags)||void 0===i?void 0:i.some(e=>{var n;return(null!==(n=null==t?void 0:t.tags)&&void 0!==n?n:[]).includes(e)})})),u.beforeStatus?(h=Array.from(d.map(e=>({date:(new Date).toISOString(),category:i,name:e.name,success:!1,result:"before() failed",ms:0,skipped:!1,logs:"",owner:null==y?void 0:y.packageOwner,package:y.name,widgetsDifference:0,flaking:o.Test.isReproducing}))),h.forEach(e=>s(this,void 0,void 0,function*(){return H("package",e)}))):h=yield A(u,t);const f=h.filter(e=>"skipped"!=e.result);e||(u.afterStatus=yield C(u.after,null!==(g=t.category)&&void 0!==g?g:"")),u.afterStatus&&f.push({date:(new Date).toISOString(),category:i,name:"after",success:!1,result:u.afterStatus,ms:0,skipped:!1,logs:"",owner:null==y?void 0:y.packageOwner,package:y.name,widgetsDifference:0,flaking:o.Test.isReproducing}),u.beforeStatus&&f.push({date:(new Date).toISOString(),category:i,name:"before",success:!1,result:u.beforeStatus,ms:0,skipped:!1,logs:"",owner:null==y?void 0:y.packageOwner,package:y.name,widgetsDifference:0,flaking:o.Test.isReproducing}),w.push(...f)}}finally{console.log=c,console.info=u,console.warn=h,console.error=d}if(t.testContext.catchUnhandled&&!o.Test.isInBenchmark){yield F(1e3);const e=yield i.shell.lastError,t={logs:"",date:(new Date).toISOString(),category:"Unhandled exceptions",name:"Exception",result:null!=e?e:"",success:!e,ms:0,skipped:!1,owner:null!=b?b:"",package:y.name,widgetsDifference:0};w.push(Object.assign(Object.assign({},t),{flaking:o.Test.isReproducing&&!e})),t.package=y.name,yield H("package",t)}})}(m,e);for(let e of w)e.result=e.result.toString().replace(/"/g,"'"),null!=e.logs&&(e.logs=e.logs.toString().replace(/"/g,"'"));return w;function C(e,t){return s(this,void 0,void 0,function*(){let n;try{void 0!==e&&(yield B(()=>s(this,void 0,void 0,function*(){yield e()}),1e5,`before ${t}: timeout error`))}catch(e){n=yield O(e)}return n})}function A(e,t){var n,r,c,u,h,d,m,p,g,f,w,T,C,A,S,M,P,_;return s(this,void 0,void 0,function*(){let s=null!==(n=e.tests)&&void 0!==n?n:[];const I=[],L=E();if(e.clear)for(let n=0;n<s.length;n++){s[n].options&&void 0===(null===(r=s[n].options)||void 0===r?void 0:r.benchmark)&&(s[n].options||(s[n].options={}),s[n].options.benchmark=null!==(c=e.benchmarks)&&void 0!==c&&c);let T=s[n];if(t.test&&t.test.toLowerCase()!==T.name.toLowerCase())continue;(null==T?void 0:T.options)&&(T.options.owner=null!==(m=null!==(d=null!==(h=null===(u=s[n].options)||void 0===u?void 0:u.owner)&&void 0!==h?h:null==e?void 0:e.owner)&&void 0!==d?d:b)&&void 0!==m?m:"");let C=yield D(T,null==t?void 0:t.test,v,o.Test.isInBenchmark?null!==(g=null===(p=s[n].options)||void 0===p?void 0:p.benchmarkTimeout)&&void 0!==g?g:l:null!==(w=null===(f=s[n].options)||void 0===f?void 0:f.timeout)&&void 0!==w?w:a,y.name,t.verbose);C&&I.push(Object.assign(Object.assign({},C),{widgetsDifference:E()-L})),i.shell.closeAll(),o.Balloon.closeAll()}else for(let n=0;n<s.length;n++){let i=s[n];if(t.test&&t.test.toLowerCase()!==i.name.toLowerCase())continue;(null==i?void 0:i.options)&&(i.options.owner=null!==(S=null!==(A=null!==(C=null===(T=s[n].options)||void 0===T?void 0:T.owner)&&void 0!==C?C:null==e?void 0:e.owner)&&void 0!==A?A:b)&&void 0!==S?S:"");let r=yield D(i,null==t?void 0:t.test,v,o.Test.isInBenchmark?null!==(P=null===(M=s[n].options)||void 0===M?void 0:M.benchmarkTimeout)&&void 0!==P?P:l:null===(_=s[n].options)||void 0===_?void 0:_.timeout,y.name,t.verbose);r&&I.push(Object.assign(Object.assign({},r),{widgetsDifference:E()-L}))}return I})}function E(){var e;let t=-1;try{t=o.Widget.getAll().length}catch(t){console.warn(null!==(e=t.message)&&void 0!==e?e:t)}return t}})}function H(e,t){return s(this,void 0,void 0,function*(){null!=i.shell.reportTest?yield i.shell.reportTest(e,t):yield fetch(`${i.dapi.root}/log/tests/${e}`,{method:"POST",headers:{"Content-Type":"application/json"},credentials:"same-origin",body:JSON.stringify(t)})})}function O(e){return s(this,void 0,void 0,function*(){return`${e.toString()}\n${e.stack?yield o.Logger.translateStackTrace(e.stack):""}`})}function D(e,t,n,r,l,u){var h,m,p,g,f,y,b,w,v,T,C,A,S,M;return s(this,void 0,void 0,function*(){let s;n.length=0;const P=null!=t&&e.name.toLowerCase()!==t.toLowerCase();let _=(null===(h=e.options)||void 0===h?void 0:h.skipReason)||P,I=P?"skipped":null===(m=e.options)||void 0===m?void 0:m.skipReason;if(console.log(E.name,_),o.Test.isInBenchmark&&!(null===(p=e.options)||void 0===p?void 0:p.benchmark))return void c(`SKIPPED: ${e.category} ${e.name} doesnt available in benchmark mode`);_||c(`Started ${e.category} ${e.name}`);const L=Date.now(),x=new Date(L).toISOString();try{if(_)s={name:e.name,owner:null!==(f=null===(g=e.options)||void 0===g?void 0:g.owner)&&void 0!==f?f:"",category:e.category,logs:"",date:x,success:!0,result:I,ms:0,skipped:!0,package:null!=l?l:"",flaking:o.Test.isReproducing};else{let t=null!=r?r:a;o.Test.isProfiling&&console.profile(`${e.category}: ${e.name}`),s={name:e.name,owner:null!==(b=null===(y=e.options)||void 0===y?void 0:y.owner)&&void 0!==b?b:"",category:e.category,logs:"",date:x,success:!0,result:null!==(w=(yield B(e.test,t)).toString())&&void 0!==w?w:"OK",ms:0,skipped:!1,package:null!=l?l:"",flaking:o.Test.isReproducing},o.Test.isProfiling&&(console.profileEnd(`${e.category}: ${e.name}`),i.shell.info(`Profiling of ${e.category}: ${e.name} finished \n Please ensure that you have opened DevTools (F12) / Performance panel before test starts.`))}}catch(t){d(t),s={name:e.name,owner:null!==(T=null===(v=e.options)||void 0===v?void 0:v.owner)&&void 0!==T?T:"",category:e.category,logs:"",date:x,success:!1,result:yield O(t),ms:0,skipped:!1,package:null!=l?l:"",flaking:!1}}if((null===(C=e.options)||void 0===C?void 0:C.isAggregated)&&s.result.constructor===o.DataFrame){const e=s.result.col("success");if(e&&(s.success=e.stats.sum===e.length),!u){const e=s.result;e.columns.remove("stack"),e.rows.removeWhere(e=>e.get("success")),s.result=e}s.result=s.result.toCsv()}if(s.logs=n.join("\n"),s.ms=Date.now()-L,_||c(`Finished ${e.category} ${e.name} for ${s.ms} ms`),s.category=e.category,s.name=e.name,s.owner=null!==(S=null===(A=e.options)||void 0===A?void 0:A.owner)&&void 0!==S?S:"",!P){let t={success:s.success,result:s.result,ms:s.ms,date:s.date,skipped:s.skipped,category:e.category,name:e.name,logs:s.logs,owner:s.owner,flaking:o.Test.isReproducing&&s.success,package:s.package};if(s.result.constructor==Object){const e=Object.keys(s.result).reduce((e,t)=>Object.assign(Object.assign({},e),{["result."+t]:s.result[t]}),{});t=Object.assign(Object.assign({},t),e)}t.result instanceof o.DataFrame&&(t.result=JSON.stringify(null===(M=t.result)||void 0===M?void 0:M.toJson())||""),yield H("package",t)}return s})}function k(e){const t=e.slice();return t.sort(()=>Math.random()-.5),t}function F(e){return s(this,void 0,void 0,function*(){yield new Promise(t=>setTimeout(t,e))})}function G(e,t="Timeout exceeded",n=500,i=50){return s(this,void 0,void 0,function*(){return new Promise((o,r)=>{setTimeout(()=>{clearInterval(s),r(new Error(t))},n);const s=setInterval(()=>{e()&&(clearInterval(s),o(null))},i)})})}function B(e,t,n="EXECUTION TIMEOUT"){return s(this,void 0,void 0,function*(){let i=null;const o=new Promise((e,o)=>{i=setTimeout(()=>{o(n)},t)});try{return yield Promise.race([e(),o])}finally{i&&clearTimeout(i)}})}o.DataFrame.fromColumns([o.Column.fromStrings("col",["val1","val2","val3"])])},8123:(e,t,n)=>{"use strict";n.d(t,{u:()=>i});const i={V2K_RGP_SHIFT:8,V2K_RGP_LINE:"M RGP",V2K_A_LINE:"A ",V3K_COUNTS_SHIFT:14,V3K_IDX_SHIFT:7,V3K_HEADER_FIRST_LINE:"\nDatagrok macromolecule handler\n\n",V3K_HEADER_SECOND_LINE:" 0 0 0 0 0 0 999 V3000\n",V3K_BEGIN_CTAB_BLOCK:"M V30 BEGIN CTAB\n",V3K_END_CTAB_BLOCK:"M V30 END CTAB\n",V3K_BEGIN_COUNTS_LINE:"M V30 COUNTS ",V3K_COUNTS_LINE_ENDING:" 0 0 0\n",V3K_BEGIN_ATOM_BLOCK:"M V30 BEGIN ATOM\n",V3K_END_ATOM_BLOCK:"M V30 END ATOM\n",V3K_BEGIN_BOND_BLOCK:"M V30 BEGIN BOND\n",V3K_END_BOND_BLOCK:"M V30 END BOND\n",V3K_BOND_CONFIG:" CFG=",V3K_BEGIN_DATA_LINE:"M V30 ",V3K_END:"M END",PRECISION_FACTOR:1e4,DEOXYRIBOSE:{polymerType:"RNA",symbol:"d"},RIBOSE:{polymerType:"RNA",symbol:"r"},PHOSPHATE:{polymerType:"RNA",symbol:"p"},OXYGEN:"O",HYDROGEN:"H"}},8152:(e,t,n)=>{"use strict";n.d(t,{GD:()=>d,ZY:()=>u});var i=n(4328),o=n(6082),r=n(2003),s=n(608),a=n(4139),l=n(7150);const c=new class{dcName="bio";async getDockerContainer(){return await i.dapi.docker.dockerContainers.filter(this.dcName).first()}},u=["mafft --auto","mafft","linsi","ginsi","einsi","fftns","fftnsi","nwns","nwnsi"],h=["AlignedSeq","AlignedSubpeptide","HELM","ID","PolymerID"];async function d(e,t,n,i="ginsi",l=1.53,u=0,d=null,p,g=!1){const f=await c.getDockerContainer(),y=t.length;d??=o.Column.int("Clusters",y).init(0),d.type!=o.COLUMN_TYPE.STRING&&(d=d.convertTo(o.TYPE.STRING));const b=d.categories,w=d.getRawData(),v=new Array(b.length),T=new Array(b.length);if(g){const n=e.selection;for(let e=-1;-1!==(e=n.findNext(e,!0));){const n=w[e];if(!b[n])continue;const i=n,o=t.get(e);o&&((v[i]??=[]).push({ID:e.toString(),HELM:o}),(T[n]??=[]).push(e))}}else for(let e=0;e<y;++e){const n=w[e];if(!b[n])continue;const i=n,o=t.get(e);o&&((v[i]??=[]).push({ID:e.toString(),HELM:o}),(T[n]??=[]).push(e))}(0,s.aZ)(T,b);const C=new Array(y).fill(null);for(const e of v){if(!e||0===e.length)continue;const t=(await m(f.id,e,i,l,u,p)).Alignment;for(const e of t)C[parseInt(e.ID)]=Object.entries(e).filter(e=>!h.includes(e[0])).map(e=>"-"!==e[1]?e[1]:"").join(a.J.SEPARATOR)}const A=o.Column.fromStrings(n,C);return A.meta.units=r.Hi.SEPARATOR,A.setTag(r.gp.separator,a.J.SEPARATOR),A.setTag(r.gp.aligned,"SEQ.MSA"),A.setTag(r.gp.alphabet,r.YI.UN),A.setTag(r.gp.alphabetIsMultichar,"true"),A.semType=o.SEMTYPE.MACROMOLECULE,A}async function m(e,t,n,o,r,s){const a={method:"POST",headers:{Accept:"application/json","Content-Type":"application/json"},body:JSON.stringify(t)},c=`/align?method=${n}&gap_open=${o}&gap_extend=${r}`,u=window.performance.now(),h=await i.dapi.docker.dockerContainers.fetchProxy(e,c,a),d=window.performance.now();l._package.logger.debug(`Bio: requestAlignedObjects() dockerContainers.fetchProxy(), ET: ${d-u} ms`);const m="application/json"===h.headers.get("content-type");if(!h.ok&&m){const e=await h.json(),t=e["pepsea-error"];if(t)throw new Error(`PepSeA error: ${t}`);const n=e["datagrok-error"];if(n)throw new Error(`Datagrok error: ${n}`);throw new Error(h.statusText)}if(!h.ok&&!m){const e=await h.text();throw new Error(`Error: ${e}`)}if(!m){const e=await h.text();throw new Error(`Error: PepSeA expected JSON response, got '${e}'.`)}const p=await h.json();if("pepsea-stderr"in p){const e=p["pepsea-stderr"];s?.warning(e)}return p}},8153:(e,t)=>{function n(e){return"number"!=typeof e||isNaN(e)?1:e}t.Fd=function(e){return function(e,t){var n={},i=function(e){return void 0===e?t:e};"function"==typeof t&&(i=t);var o=function(t){return i(t[e])},r=function(){return i(void 0)};return"string"==typeof e?(n.fromAttributes=o,n.fromGraph=function(e,t){return o(e.getEdgeAttributes(t))},n.fromEntry=function(e,t){return o(t)},n.fromPartialEntry=n.fromEntry,n.fromMinimalEntry=n.fromEntry):"function"==typeof e?(n.fromAttributes=function(){throw new Error("graphology-utils/getters/createEdgeValueGetter: irrelevant usage.")},n.fromGraph=function(t,n){var o=t.extremities(n);return i(e(n,t.getEdgeAttributes(n),o[0],o[1],t.getNodeAttributes(o[0]),t.getNodeAttributes(o[1]),t.isUndirected(n)))},n.fromEntry=function(t,n,o,r,s,a,l){return i(e(t,n,o,r,s,a,l))},n.fromPartialEntry=function(t,n,o,r){return i(e(t,n,o,r))},n.fromMinimalEntry=function(t,n){return i(e(t,n))}):(n.fromAttributes=r,n.fromGraph=r,n.fromEntry=r,n.fromMinimalEntry=r),n}(e,n)}},8226:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/content","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/content":true},"$dynamicAnchor":"meta","title":"Content vocabulary meta-schema","type":["object","boolean"],"properties":{"contentEncoding":{"type":"string"},"contentMediaType":{"type":"string"},"contentSchema":{"$dynamicRef":"#meta"}}}')},8312:(e,t,n)=>{"use strict";n.d(t,{Q:()=>o});var i=n(6082);async function o(){const e=i.Func.find({package:"Bio",name:"getSeqHelper"});if(0===e.length)throw new Error("Package 'Bio' must be installed for SeqHelper.");return(await e[0].prepare().call()).getOutputParamValue()}},8343:(e,t,n)=>{"use strict";const{normalizeIPv6:i,normalizeIPv4:o,removeDotSegments:r,recomposeAuthority:s,normalizeComponentEncoding:a}=n(4834),l=n(343);function c(e,t,n,i){const o={};return i||(e=m(u(e,n),n),t=m(u(t,n),n)),!(n=n||{}).tolerant&&t.scheme?(o.scheme=t.scheme,o.userinfo=t.userinfo,o.host=t.host,o.port=t.port,o.path=r(t.path||""),o.query=t.query):(void 0!==t.userinfo||void 0!==t.host||void 0!==t.port?(o.userinfo=t.userinfo,o.host=t.host,o.port=t.port,o.path=r(t.path||""),o.query=t.query):(t.path?("/"===t.path.charAt(0)?o.path=r(t.path):(void 0===e.userinfo&&void 0===e.host&&void 0===e.port||e.path?e.path?o.path=e.path.slice(0,e.path.lastIndexOf("/")+1)+t.path:o.path=t.path:o.path="/"+t.path,o.path=r(o.path)),o.query=t.query):(o.path=e.path,void 0!==t.query?o.query=t.query:o.query=e.query),o.userinfo=e.userinfo,o.host=e.host,o.port=e.port),o.scheme=e.scheme),o.fragment=t.fragment,o}function u(e,t){const n={host:e.host,scheme:e.scheme,userinfo:e.userinfo,port:e.port,path:e.path,query:e.query,nid:e.nid,nss:e.nss,uuid:e.uuid,fragment:e.fragment,reference:e.reference,resourceName:e.resourceName,secure:e.secure,error:""},i=Object.assign({},t),o=[],a=l[(i.scheme||n.scheme||"").toLowerCase()];a&&a.serialize&&a.serialize(n,i),void 0!==n.path&&(i.skipEscape?n.path=unescape(n.path):(n.path=escape(n.path),void 0!==n.scheme&&(n.path=n.path.split("%3A").join(":")))),"suffix"!==i.reference&&n.scheme&&o.push(n.scheme,":");const c=s(n);if(void 0!==c&&("suffix"!==i.reference&&o.push("//"),o.push(c),n.path&&"/"!==n.path.charAt(0)&&o.push("/")),void 0!==n.path){let e=n.path;i.absolutePath||a&&a.absolutePath||(e=r(e)),void 0===c&&(e=e.replace(/^\/\//u,"/%2F")),o.push(e)}return void 0!==n.query&&o.push("?",n.query),void 0!==n.fragment&&o.push("#",n.fragment),o.join("")}const h=Array.from({length:127},(e,t)=>/[^!"$&'()*+,\-.;=_`a-z{}~]/u.test(String.fromCharCode(t))),d=/^(?:([^#/:?]+):)?(?:\/\/((?:([^#/?@]*)@)?(\[[^#/?\]]+\]|[^#/:?]*)(?::(\d*))?))?([^#?]*)(?:\?([^#]*))?(?:#((?:.|[\n\r])*))?/u;function m(e,t){const n=Object.assign({},t),r={scheme:void 0,userinfo:void 0,host:"",port:void 0,path:"",query:void 0,fragment:void 0},s=-1!==e.indexOf("%");let a=!1;"suffix"===n.reference&&(e=(n.scheme?n.scheme+":":"")+"//"+e);const c=e.match(d);if(c){if(r.scheme=c[1],r.userinfo=c[3],r.host=c[4],r.port=parseInt(c[5],10),r.path=c[6]||"",r.query=c[7],r.fragment=c[8],isNaN(r.port)&&(r.port=c[5]),r.host){const e=o(r.host);if(!1===e.isIPV4){const t=i(e.host);r.host=t.host.toLowerCase(),a=t.isIPV6}else r.host=e.host,a=!0}void 0!==r.scheme||void 0!==r.userinfo||void 0!==r.host||void 0!==r.port||void 0!==r.query||r.path?void 0===r.scheme?r.reference="relative":void 0===r.fragment?r.reference="absolute":r.reference="uri":r.reference="same-document",n.reference&&"suffix"!==n.reference&&n.reference!==r.reference&&(r.error=r.error||"URI is not a "+n.reference+" reference.");const e=l[(n.scheme||r.scheme||"").toLowerCase()];if(!(n.unicodeSupport||e&&e.unicodeSupport)&&r.host&&(n.domainHost||e&&e.domainHost)&&!1===a&&function(e){let t=0;for(let n=0,i=e.length;n<i;++n)if(t=e.charCodeAt(n),t>126||h[t])return!0;return!1}(r.host))try{r.host=URL.domainToASCII(r.host.toLowerCase())}catch(e){r.error=r.error||"Host's domain name can not be converted to ASCII: "+e}(!e||e&&!e.skipNormalize)&&(s&&void 0!==r.scheme&&(r.scheme=unescape(r.scheme)),s&&void 0!==r.host&&(r.host=unescape(r.host)),r.path&&(r.path=escape(unescape(r.path))),r.fragment&&(r.fragment=encodeURI(decodeURIComponent(r.fragment)))),e&&e.parse&&e.parse(r,n)}else r.error=r.error||"URI can not be parsed.";return r}const p={SCHEMES:l,normalize:function(e,t){return"string"==typeof e?e=u(m(e,t),t):"object"==typeof e&&(e=m(u(e,t),t)),e},resolve:function(e,t,n){const i=Object.assign({scheme:"null"},n);return u(c(m(e,i),m(t,i),i,!0),{...i,skipEscape:!0})},resolveComponents:c,equal:function(e,t,n){return"string"==typeof e?(e=unescape(e),e=u(a(m(e,n),!0),{...n,skipEscape:!0})):"object"==typeof e&&(e=u(a(e,!0),{...n,skipEscape:!0})),"string"==typeof t?(t=unescape(t),t=u(a(m(t,n),!0),{...n,skipEscape:!0})):"object"==typeof t&&(t=u(a(t,!0),{...n,skipEscape:!0})),e.toLowerCase()===t.toLowerCase()},serialize:u,parse:m};e.exports=p,e.exports.default=p,e.exports.fastUri=p},8438:(e,t,n)=>{"use strict";function i(e){return e.startsWith("[")&&e.endsWith("]")?e.slice(1,-1):e}n.d(t,{D:()=>i})},8498:(e,t,n)=>{"use strict";var i,o,r,s,a,l,c;n.d(t,{EG:()=>a,Pn:()=>o,RR:()=>l,Wn:()=>c,aT:()=>r,m6:()=>s,xL:()=>i}),function(e){e.Levenshtein="Levenshtein",e.JaroWinkler="Jaro-Winkler",e.Manhattan="Manhattan String",e.Onehot="One-Hot"}(i||(i={})),function(e){e.Euclidean="Euclidean",e.Manhattan="Manhattan",e.Cosine="Vector Cosine"}(o||(o={})),function(e){e.Tanimoto="Tanimoto",e.Dice="Dice",e.Asymmetric="Asymmetric",e.BraunBlanquet="Braun-Blanquet",e.Cosine="Cosine",e.Kulczynski="Kulczynski",e.McConnaughey="Mc-Connaughey",e.RogotGoldberg="Rogot-Goldberg",e.Russel="Russel",e.Sokal="Sokal",e.Hamming="Hamming",e.Euclidean="Euclidean BitArray"}(r||(r={})),function(e){e.TanimotoIntArray="TanimotoIntArray"}(s||(s={})),function(e){e.Vector="Vector",e.String="String",e.BitArray="BitArray",e.MacroMolecule="MacroMolecule",e.Number="Number",e.IntArray="IntArray",e.NumberArray="NumberArray"}(a||(a={})),function(e){e.Difference="Difference"}(l||(l={})),function(e){e.CommonItems="Common Items"}(c||(c={}))},8604:(e,t,n)=>{"use strict";n.d(t,{G:()=>i,V:()=>o});const i={explicit:["HELMCoreLibrary.json","polytool-lib.json"],exclude:[],duplicateMonomerPreferences:{}},o={PEPTIDE:334,RNA:383,CHEM:0}},8643:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(6250),s={keyword:"enum",schemaType:"array",$data:!0,error:{message:"must be equal to one of the allowed values",params:({schemaCode:e})=>i._`{allowedValues: ${e}}`},code(e){const{gen:t,data:n,$data:s,schema:a,schemaCode:l,it:c}=e;if(!s&&0===a.length)throw new Error("enum must have non-empty array");const u=a.length>=c.opts.loopEnum;let h;const d=()=>null!=h?h:h=(0,o.useFunc)(t,r.default);let m;if(u||s)m=t.let("valid"),e.block$data(m,function(){t.assign(m,!1),t.forOf("v",l,e=>t.if(i._`${d()}(${n}, ${e})`,()=>t.assign(m,!0).break()))});else{if(!Array.isArray(a))throw new Error("ajv implementation error");const e=t.const("vSchema",l);m=(0,i.or)(...a.map((t,o)=>function(e,t){const o=a[t];return"object"==typeof o&&null!==o?i._`${d()}(${n}, ${e}[${t}])`:i._`${n} === ${o}`}(e,o)))}e.pass(m)}};t.default=s},8660:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5765),o=n(9029),r=n(2023),s=n(4227),a={keyword:"additionalProperties",type:["object"],schemaType:["boolean","object"],allowUndefined:!0,trackErrors:!0,error:{message:"must NOT have additional properties",params:({params:e})=>o._`{additionalProperty: ${e.additionalProperty}}`},code(e){const{gen:t,schema:n,parentSchema:a,data:l,errsCount:c,it:u}=e;if(!c)throw new Error("ajv implementation error");const{allErrors:h,opts:d}=u;if(u.props=!0,"all"!==d.removeAdditional&&(0,s.alwaysValidSchema)(u,n))return;const m=(0,i.allSchemaProperties)(a.properties),p=(0,i.allSchemaProperties)(a.patternProperties);function g(e){t.code(o._`delete ${l}[${e}]`)}function f(i){if("all"===d.removeAdditional||d.removeAdditional&&!1===n)g(i);else{if(!1===n)return e.setParams({additionalProperty:i}),e.error(),void(h||t.break());if("object"==typeof n&&!(0,s.alwaysValidSchema)(u,n)){const n=t.name("valid");"failing"===d.removeAdditional?(y(i,n,!1),t.if((0,o.not)(n),()=>{e.reset(),g(i)})):(y(i,n),h||t.if((0,o.not)(n),()=>t.break()))}}}function y(t,n,i){const o={keyword:"additionalProperties",dataProp:t,dataPropType:s.Type.Str};!1===i&&Object.assign(o,{compositeRule:!0,createErrors:!1,allErrors:!1}),e.subschema(o,n)}t.forIn("key",l,n=>{m.length||p.length?t.if(function(n){let r;if(m.length>8){const e=(0,s.schemaRefOrVal)(u,a.properties,"properties");r=(0,i.isOwnProperty)(t,e,n)}else r=m.length?(0,o.or)(...m.map(e=>o._`${n} === ${e}`)):o.nil;return p.length&&(r=(0,o.or)(r,...p.map(t=>o._`${(0,i.usePattern)(e,t)}.test(${n})`))),(0,o.not)(r)}(n),()=>f(n)):f(n)}),e.ok(o._`${c} === ${r.default.errors}`)}};t.default=a},8708:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.extendErrors=t.resetErrorsCount=t.reportExtraError=t.reportError=t.keyword$DataError=t.keywordError=void 0;const i=n(9029),o=n(4227),r=n(2023);function s(e,t){const n=e.const("err",t);e.if(i._`${r.default.vErrors} === null`,()=>e.assign(r.default.vErrors,i._`[${n}]`),i._`${r.default.vErrors}.push(${n})`),e.code(i._`${r.default.errors}++`)}function a(e,t){const{gen:n,validateName:o,schemaEnv:r}=e;r.$async?n.throw(i._`new ${e.ValidationError}(${t})`):(n.assign(i._`${o}.errors`,t),n.return(!1))}t.keywordError={message:({keyword:e})=>i.str`must pass "${e}" keyword validation`},t.keyword$DataError={message:({keyword:e,schemaType:t})=>t?i.str`"${e}" keyword must be ${t} ($data)`:i.str`"${e}" keyword is invalid ($data)`},t.reportError=function(e,n=t.keywordError,o,r){const{it:l}=e,{gen:u,compositeRule:h,allErrors:d}=l,m=c(e,n,o);(null!=r?r:h||d)?s(u,m):a(l,i._`[${m}]`)},t.reportExtraError=function(e,n=t.keywordError,i){const{it:o}=e,{gen:l,compositeRule:u,allErrors:h}=o;s(l,c(e,n,i)),u||h||a(o,r.default.vErrors)},t.resetErrorsCount=function(e,t){e.assign(r.default.errors,t),e.if(i._`${r.default.vErrors} !== null`,()=>e.if(t,()=>e.assign(i._`${r.default.vErrors}.length`,t),()=>e.assign(r.default.vErrors,null)))},t.extendErrors=function({gen:e,keyword:t,schemaValue:n,data:o,errsCount:s,it:a}){if(void 0===s)throw new Error("ajv implementation error");const l=e.name("err");e.forRange("i",s,r.default.errors,s=>{e.const(l,i._`${r.default.vErrors}[${s}]`),e.if(i._`${l}.instancePath === undefined`,()=>e.assign(i._`${l}.instancePath`,(0,i.strConcat)(r.default.instancePath,a.errorPath))),e.assign(i._`${l}.schemaPath`,i.str`${a.errSchemaPath}/${t}`),a.opts.verbose&&(e.assign(i._`${l}.schema`,n),e.assign(i._`${l}.data`,o))})};const l={keyword:new i.Name("keyword"),schemaPath:new i.Name("schemaPath"),params:new i.Name("params"),propertyName:new i.Name("propertyName"),message:new i.Name("message"),schema:new i.Name("schema"),parentSchema:new i.Name("parentSchema")};function c(e,t,n){const{createErrors:o}=e.it;return!1===o?i._`{}`:function(e,t,n={}){const{gen:o,it:s}=e,a=[u(s,n),h(e,n)];return function(e,{params:t,message:n},o){const{keyword:s,data:a,schemaValue:c,it:u}=e,{opts:h,propertyName:d,topSchemaRef:m,schemaPath:p}=u;o.push([l.keyword,s],[l.params,"function"==typeof t?t(e):t||i._`{}`]),h.messages&&o.push([l.message,"function"==typeof n?n(e):n]),h.verbose&&o.push([l.schema,c],[l.parentSchema,i._`${m}${p}`],[r.default.data,a]),d&&o.push([l.propertyName,d])}(e,t,a),o.object(...a)}(e,t,n)}function u({errorPath:e},{instancePath:t}){const n=t?i.str`${e}${(0,o.getErrorPath)(t,o.Type.Str)}`:e;return[r.default.instancePath,(0,i.strConcat)(r.default.instancePath,n)]}function h({keyword:e,it:{errSchemaPath:t}},{schemaPath:n,parentSchema:r}){let s=r?t:i.str`${t}/${e}`;return n&&(s=i.str`${s}${(0,o.getErrorPath)(n,o.Type.Str)}`),[l.schemaPath,s]}},8727:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.boolOrEmptySchema=t.topBoolOrEmptySchema=void 0;const i=n(8708),o=n(9029),r=n(2023),s={message:"boolean schema is false"};function a(e,t){const{gen:n,data:o}=e,r={gen:n,keyword:"false schema",data:o,schema:!1,schemaCode:!1,schemaValue:!1,params:{},it:e};(0,i.reportError)(r,s,void 0,t)}t.topBoolOrEmptySchema=function(e){const{gen:t,schema:n,validateName:i}=e;!1===n?a(e,!1):"object"==typeof n&&!0===n.$async?t.return(r.default.data):(t.assign(o._`${i}.errors`,null),t.return(!0))},t.boolOrEmptySchema=function(e,t){const{gen:n,schema:i}=e;!1===i?(n.var(t,!1),a(e)):n.var(t,!0)}},8754:(e,t,n)=>{"use strict";n.d(t,{V:()=>u});var i=n(4328),o=n(6077),r=n(2003),s=n(8312),a=n(5553),l=n(966),c=n(330);async function u(e,t,n,u,h,d,m){let p;if(n){const n=await(0,s.Q)(),i=n.getSeqHandler(t);let o,a;i.isHelm()?o=t:(a=t.name,t.name=`__${a}`,o=i.convert(r.Hi.HELM),o.name=a,e.columns.add(o,!1));try{p=await n.helmToAtomicLevel(o,!0,!0,h)}finally{o!==t&&(e.columns.remove(o.name),t.name=a)}}else{if(!(0,l.l)(t,"To Atomic Level",d)[0])return{molCol:null,warnings:["Column is not suitable"]};p=await(0,o.C4)(e,t,h,d,m)}if(p.molCol){const o=(0,c.qj)(e,t.name);p.molCol.name=o,e.columns.add(p.molCol,!0),await(0,a.Qc)(t,p.molCol,h,d,m,n),p.molCol.setTag(".sequence-src-highlight-monomers",String(u)),await i.data.detectSemanticTypes(e)}return p}},8774:(e,t,n)=>{"use strict";n.d(t,{A:()=>i});class i{constructor(e,t=!1){if(this._length=0,this._version=0,this._updateLevel=0,this._selectedCount=0,this._selectedCountVersion=-1,this._selectedIndexesVersion=-1,this._versionedName="",this._versionedNameVersion=-1,this.SHRINK_THRESHOLD=256,"number"==typeof e){const n=e,o=i._createBuffer(n);if(t)for(let e=0;e<o.length;e++)o[e]=-1;this._data=o,this._length=n}else{if(!(e instanceof Uint32Array))throw new Error("Invalid constructor");this._data=e,this._length=t}}getRawData(){return this._data}assureGoez(e,t){if(e<0)throw new Error(`${t} should be greater than zero`)}assureInRange(e,t,n,i){if(e<t||e>n)throw new Error(`Argument ${i} (${e}) out of range (${t}, ${n})`)}copy(e,t,n){for(let i=0;i<n;i++)t[i]=e[i]}copyFrom(e){if(this._length!=e._length)throw new Error(`Lengths differ (${this._length} != ${e._length})`);this.copy(e._data,this._data,this.lengthInInts),this._version++}get length(){return this._length}get buffer(){return this._data}set buffer(e){this._data=e,this._version++}get version(){return this._version}set version(e){this._version=e}incrementVersion(e=!0){this._version++}get lengthInInts(){return Math.floor((this._length+31)/32)}get versionedName(){return this._version==this._versionedNameVersion?this._versionedName:""}set versionedName(e){this._versionedName=e,this._versionedNameVersion=this._version}get self(){return this}setLength(e){if(e<0)throw new Error("should be >= 0");if(e==this._length)return;const t=Math.floor((e+31)/32);if(t>this._data.length||t+this.SHRINK_THRESHOLD<this._data.length){const e=new Uint32Array(t);this.copy(this._data,e,t>this._data.length?this._data.length:t),this._data=e}e>this._length&&(this._length%32>0&&(this._data[this.lengthInInts-1]&=(1<<(this._length%32&31))-1),this._data.fill(0,this.lengthInInts,t)),this._length=e,this._version++}static fromAnd(e,t){if(e._length!=t._length)throw new Error(`Lengths differ (${e._length} != ${t._length})`);const n=new i(e._length);n._length=e._length,n._data=i._createBuffer(n._length),n._version=0;const o=e.lengthInInts;for(let i=0;i<o;i++)n._data[i]=e._data[i]&t._data[i];return n}static _createBuffer(e){return new Uint32Array(Math.floor((e+31)/32))}static fromValues(e){const t=new i(e.length);t._version=0;for(let n=0;n<t._length;n++)e[n]&&(t._data[Math.floor(n/32)]|=1<<(n%32&31));return t}static fromSeq(e,t){const n=new i(e);for(let i=0;i<e;++i)n.setBit(i,t(i));return n._version=0,n}static fromString(e){return i.fromSeq(e.length,t=>"1"==e.charAt(t))}static fromUint32Array(e,t){const n=new i(e);return n._data=t,n}static fromBytes(e){const t=e.length,n=new i(8*t);n._data=new Uint32Array(Math.floor((t+3)/4)),n._length=8*t;let o=0,r=0;for(;t-r>=4;)n._data[o++]=255&e[r]|(255&e[r+1])<<8|(255&e[r+2])<<16|(255&e[r+3])<<24,r+=4;return t-r==3&&(n._data[o]=(255&e[r+2])<<16),t-r==2&&(n._data[o]|=(255&e[r+1])<<8),t-r==1&&(n._data[o]|=255&e[r]),n._version=0,n}toString(){return`${this._length} bits, ${this.countBits(!0)} set`}equals(e){if(this==e)return!0;if(null==e)return!1;if(this._length!=e._length)return!1;if(0==this._length)return!0;for(let t=0;t<this._data.length-1;t++)if(this._data[t]!=e._data[t])return!1;for(let t=8*(this._data.length-1);t<this._length;t++)if(this.getBit(t)!=e.getBit(t))return!1;return!0}clone(){const e=new i(0,!1);return e._data=Uint32Array.from(this._data),e._length=this._length,e._version=this._version,e}init(e,t){this.setAll(!1,!1);for(let t=0;t<this._length;t++)e(t)&&(this._data[Math.floor(t/32)]|=1<<(t%32&31));return this.incrementVersion(t),this}invert(e=!0){for(let e=0;e<this._data.length;e++)this._data[e]^=-1;this.incrementVersion(e)}setAll(e,t=!1){const n=e?-1:0,i=this.lengthInInts;for(let e=0;e<i;e++)this._data[e]=n;this.incrementVersion(t)}setIndexes(e,t=!0,n=!0,i=!0){n&&this.setAll(!t,!1);for(const n of e)this.setFast(n,t);this.incrementVersion(i)}everyIndex(e,t=!0){for(const n of e)if(this.getBit(n)!=t)return!1;return!0}anyIndex(e,t=!0){for(const n of e)if(this.getBit(n)==t)return!0;return!1}setWhere(e,t=!0,n=!0,i=!0,o=!0){if(n&&o&&this.setAll(!t,!1),o)for(let n=0;n<this._length;n++)e(n)&&this.setFast(n,t);else for(let n=0;n<this._length;n++)this.setFast(n,e(n)?t:!t);this.incrementVersion(i)}getRange(e,t){this.assureInRange(e,0,this._length-1,"from"),this.assureInRange(t,0,this._length,"to");const n=[];for(let i=e;i<t;++i)n.push(this.getBit(i));return i.fromValues(n)}getRangeAsList(e,t){this.assureInRange(e,0,this._length-1,"from"),this.assureInRange(t,0,this._length,"to");const n=[];for(let i=e;i<t;++i)n.push(this.getBit(i));return n}setRange(e,t,n,i=!0){this.assureInRange(e,0,this._length-1,"from"),this.assureInRange(t,0,this._length-1,"to");const o=Math.min(e,t),r=Math.max(e,t);if(n)for(let e=o;e<=r;e++)this.setTrue(e);else for(let e=o;e<=r;e++)this.setFalse(e);return this.incrementVersion(i),this}setRandom(e,t,n=!0){if(e<0||e>this._length)throw new Error("n must be >= 0 && <= Count");e>this._length/2&&this.setRandom(this._length-e,!t),this.setAll(!t);for(let n=0;n<e;){const e=Math.floor(Math.random()*this._length);this.getBit(e)!=t&&(this.setFast(e,t),n++)}this.incrementVersion(n)}and(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]&=e._data[t];return this.incrementVersion(t),this}andNot(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");const n=this.lengthInInts;for(let t=0;t<n;t++)this._data[t]&=~e._data[t];return this.incrementVersion(t),this}notAnd(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]=~this._data[t]&e._data[t];return this.incrementVersion(t),this}not(e=!0){for(let e=0,t=this.lengthInInts;e<t;e++)this._data[e]=~this._data[e];return this.incrementVersion(e),this}or(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]|=e._data[t];return this.incrementVersion(t),this}xor(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]^=e._data[t];return this.incrementVersion(t),this}insertAt(e,t,n=!1){if(this.assureInRange(e,0,this._length,"pos"),0==t)return;const i=this._length;this.setLength(this._length+t);for(let n=i-1;n>=e;n--)this.setBit(n+t,this.getBit(n));for(let i=e;i<e+t;i++)this.setBit(i,n)}removeAt(e,t=1){if(t<0)throw new Error("n cannot be negative");if(this.assureInRange(e,0,this._length-t,"pos"),this.contains(!0))for(let n=e;n<this._length-t;n++)this.setBit(n,this.getBit(n+t));this.setLength(this._length-t)}removeByMask(e,t=!0){if(this._length!=e.length)throw new Error("length != mask.length");if(e==this)this.setLength(e.countBits(!t)),this.setAll(!t);else{let n=0;for(let i=-1;-1!=(i=e.findNext(i,!t));)this.setFast(n++,this.getBit(i));this._length=n,this._version++}return this}getBit(e){return!!(this._data[Math.floor(e/32)]&1<<(31&e))}setBit(e,t,n=!0){this.setFast(e,t),this._version++}setFast(e,t){t?this._data[Math.floor(e/32)]|=1<<(31&e):this._data[Math.floor(e/32)]&=~(1<<(31&e))}setTrue(e){this._data[Math.floor(e/32)]|=1<<(31&e)}setFalse(e){this._data[Math.floor(e/32)]&=~(1<<(31&e))}trueCount(){return this.countBits(!0)}falseCount(){return this.countBits(!1)}countBits(e){if(0==this._length)return 0;if(this._selectedCountVersion!=this._version){this._selectedCount=0;const e=this.lengthInInts;let t=0;for(;t<e-1;t++)for(let e=this._data[t];0!=e;e>>>=8)this._selectedCount+=i._onBitCount[255&e];let n=this._data[t];const o=31&this._length;for(0!=o&&(n&=~(4294967295<<o));0!=n;n>>>=8)this._selectedCount+=i._onBitCount[255&n];this._selectedCountVersion=this._version}return e?this._selectedCount:this._length-this._selectedCount}countWhere(e){let t=0;if(this.trueCount()==this._length)for(let n=0;n<this._length;n++)t+=e(n)?1:0;else for(let n=-1;-1!=(n=this.findNext(n,!0));)t+=e(n)?1:0;return t}andWithCountBits(e,t){if(0==this._length)return 0;let n=0;const o=this.lengthInInts;let r=0;for(;r<o-1;r++)for(let t=this._data[r]&e._data[r];0!=t;t>>>=8)n+=i._onBitCount[255&t];let s=this._data[r]&e._data[r];const a=31&this._length;for(0!=a&&(s&=~(4294967295<<a));0!=s;s>>>=8)n+=i._onBitCount[255&s];return t?n:this._length-n}clear(){this.setLength(0)}contains(e){return this.findNext(-1,e)>=0}get allTrue(){return this.countBits(!0)==this._length}get allFalse(){return this.countBits(!1)==this._length}get anyTrue(){return this.countBits(!0)>0}get anyFalse(){return this.countBits(!1)>0}findNext(e,t=!0){if(this.assureInRange(e,-1,this._length,"index"),e>=this._length-1)return-1;let n=31&(e=e<0?0:e+1);const o=this.lengthInInts;for(let r=Math.floor(e/32);r<o;r++){let o=t?this._data[r]:~this._data[r];if(0!=n)o&=4294967295<<n&4294967295,n=0;else if(!t&&-4294967296==o)continue;for(let t=0;0!=o;t+=8,o>>>=8){const n=i._firstOnBit[255&o];if(n>=0)return(e=n+32*r+t)>=this._length?-1:e}}return-1}findPrev(e,t=!0){if(0==e)return-1;this.assureInRange(e,-1,this._length,"index");let n=1+(e=e<0?this._length-1:e-1)&31;for(let o=Math.floor(e/32);o>=0;o--){let e=t?this._data[o]:~this._data[o];0!=n&&(e&=~(4294967295<<n),n=0);for(let t=24;0!=e;t-=8,e<<=8){const n=i._lastOnBit[e>>>24];if(n>=0)return n+32*o+t}}return-1}}i._onBitCount=Int8Array.from([0,1,1,2,1,2,2,3,1,2,2,3,2,3,3,4,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,4,5,5,6,5,6,6,7,5,6,6,7,6,7,7,8]),i._firstOnBit=Int8Array.from([-1,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,6,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,7,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,6,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0]),i._lastOnBit=Int8Array.from([-1,0,1,1,2,2,2,2,3,3,3,3,3,3,3,3,4,4,4,4,4,4,4,4,4,4,4,4,4,4,4,4,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7])},8903:(e,t,n)=>{var i=n(1736),o=n(8153).Fd,r=n(2561),s=n(1782),a=n(9937);function l(e,t,n){if(!i(t))throw new Error("graphology-layout-forceatlas2: the given graph is not a valid graphology instance.");"number"==typeof n&&(n={iterations:n});var l=n.iterations;if("number"!=typeof l)throw new Error("graphology-layout-forceatlas2: invalid number of iterations.");if(l<=0)throw new Error("graphology-layout-forceatlas2: you should provide a positive number of iterations.");var c=o("getEdgeWeight"in n?n.getEdgeWeight:"weight").fromEntry,u="function"==typeof n.outputReducer?n.outputReducer:null,h=s.assign({},a,n.settings),d=s.validateSettings(h);if(d)throw new Error("graphology-layout-forceatlas2: "+d.message);var m,p=s.graphToByteArrays(t,c);for(m=0;m<l;m++)r(h,p.nodes,p.edges);if(!e)return s.collectLayoutChanges(t,p.nodes);s.assignLayoutChanges(t,p.nodes,u)}var c=l.bind(null,!1);c.assign=l.bind(null,!0),c.inferSettings=function(e){var t="number"==typeof e?e:e.order;return{barnesHutOptimize:t>2e3,strongGravityMode:!0,gravity:.05,scalingRatio:10,slowDown:1+Math.log(t)}},e.exports=c},8924:(e,t,n)=>{"use strict";n.d(t,{X:()=>o});var i=n(7362);class o extends i.e{static get Lesk(){return void 0===this.lesk&&(this.lesk=this.makePalette([[["G","A","S","T"],"orange"],[["C","V","I","L","P","F","Y","M","W"],"all_green"],[["N","Q","H"],"magenta"],[["D","E"],"red"],[["K","R"],"all_blue"]],!1,o)),this.lesk}static get GrokGroups(){return void 0===this.grokGroups&&(this.grokGroups=this.makePalette([[["C","U"],"yellow"],[["G","P"],"red"],[["A","V","I","L","M","F","Y","W"],"all_green"],[["R","H","K"],"light_blue"],[["D","E"],"dark_blue"],[["S","T","N","Q"],"orange"]],!1,o)),this.grokGroups}static get RasMol(){return void 0===this.rasMol&&(this.rasMol=new o({D:"#E60A0A",E:"#E60A0A",C:"#E6E600",M:"#E6E600",K:"#145AFF",R:"#145AFF",S:"#FA9600",T:"#FA9600",F:"#3232AA",Y:"#3232AA",N:"#00DCDC",Q:"#00DCDC",G:"#EBEBEB",L:"#0F820F",V:"#0F820F",I:"#0F820F",A:"#C8C8C8",W:"#B45AB4",H:"#8282D2",P:"#DC9682",others:"#BEA06E"})),this.rasMol}get(e){const t=e in o.aaSynonyms?o.aaSynonyms[e]:e;return super.get(t)}}o.aaSynonyms={MeNle:"L",MeA:"A",MeG:"G",MeF:"F"};class r{static getPalette(e="grok"){switch(e){case"grok":return o.GrokGroups;case"lesk":return o.Lesk;default:throw new Error(`ChemPalette: scheme \`${e}\` does not exist`)}}static getInnerOuter(e){let t=0,n="",i="";for(const o of e)"("==o?t++:")"==o?t--:t?n+=o:i+=o;return isNaN(parseInt(n))?[i,n]:[i,""]}static getColorAAPivot(e="",t="grok"){const n=this.getPalette(t);let[i,o]=this.getInnerOuter(e);if(i=i.length>6?`${i.slice(0,3)}...`:i,o=o.length>6?`${o.slice(0,3)}...`:o,1==e.length||"("==e[1]){const t=e[0]?.toUpperCase();return t in n?[n.get(t),t,o,1]:[this.undefinedColor,i,o,1]}if("d"==e[0]&&e[1]in n&&(2==e.length||"("==e[2])){const t=e[1]?.toUpperCase();return t in n?[n.get(t),t,o,2]:[this.undefinedColor,i,o,2]}if(e.substring(0,3)in this.AAFullNames&&(3==e.length||"("==e[3])){const t=this.AAFullNames[e.substring(0,3)];return t in n?[n.get(t),t,o,3]:[this.undefinedColor,i,o,3]}if(e[0]?.toLowerCase()==e[0]&&e.substring(1,3)in this.AAFullNames&&(4==e.length||"("==e[4])){const t=this.AAFullNames[e.substring(1,3)];return t in n?[n.get(t),t,o,4]:[this.undefinedColor,i,o,4]}return[this.undefinedColor,i,o,0]}}r.SemType="Aminoacids",r.SemTypeMultipleAlignment="AminoacidsMultipleAlignment",r.undefinedColor="rgb(100,100,100)",r.Names={G:"Glycine",L:"Leucine",Y:"Tyrosine",S:"Serine",E:"Glutamic acid",Q:"Glutamine",D:"Aspartic acid",N:"Asparagine",F:"Phenylalanine",A:"Alanine",K:"Lysine",R:"Arginine",H:"Histidine",C:"Cysteine",V:"Valine",P:"Proline",W:"Tryptophan",I:"Isoleucine",M:"Methionine",T:"Threonine"},r.AASmiles={G:"NCC(=O)O",L:"N[C@H](CC(C)C)C(=O)O",Y:"NC(CC1=CC=C(O)C=C1)C(=O)O",S:"NC(CO)C(=O)O",E:"N[C@@H](CCC(O)=O)C(=O)O",Q:"N[C@@H](CCC(N)=O)C(=O)O",D:"N[C@@H](CC(O)=O)C(=O)O",N:"N[C@@H](CC(N)=O)C(=O)O",F:"NC(CC1=CC=CC=C1)C(=O)O",A:"N[C@H](C)C(=O)O",K:"NC(CCCCN)C(=O)O",R:"N[C@H](CCCNC(=N)C)C(=O)O",H:"NC(CC1=CN=C[N]1)C(=O)O",C:"N[C@@H](CS)C(=O)O",V:"NC(C(C)C)C(=O)O",P:"N(CCC1)C1C(=O)O",W:"N[C@@H](Cc1c2ccccc2n([H])c1)C(=O)O",I:"N[C@H]([C@H](C)CC)C(=O)O",M:"NC(CCSC)C(=O)O",T:"NC(C(O)C)C(=O)O"},r.AASmilesTruncated={G:"*C*",L:"CC(C)C[C@H](*)*",Y:"C1=CC(=CC=C1CC(*)*)O",S:"OCC(*)C*",E:"*[C@@H](CCC(O)=O)*",Q:"*N[C@@H](CCC(N)=O)*",D:"*[C@@H](CC(O)=O)*",N:"*[C@@H](CC(N)=O)*",F:"C1=CC=C(C=C1)CC(*)*",A:"C[C@H](*)*",K:"C(CCN)CC(*)*",R:"*[C@H](CCCNC(=N)C)*",H:"C1=C(NC=N1)CC(*)*",C:"C([C@@H](*)*)S",V:"CC(C)C(*)*",P:"C1CCN(*)C1*",W:"*[C@@H](Cc1c2ccccc2n([H])c1)*",I:"CC[C@H](C)[C@H](*)*",M:"CSCCC(*)*",T:"CC(O)C(*)*"},r.AAFullNames={Ala:"A",Arg:"R",Asn:"N",Asp:"D",Cys:"C",Gln:"Q",Glu:"E",Gly:"G",His:"H",Ile:"I",Leu:"L",Lys:"K",Met:"M",Phe:"F",Pro:"P",Ser:"S",Thr:"T",Trp:"W",Tyr:"Y",Val:"V"}},9029:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.or=t.and=t.not=t.CodeGen=t.operators=t.varKinds=t.ValueScopeName=t.ValueScope=t.Scope=t.Name=t.regexpCode=t.stringify=t.getProperty=t.nil=t.strConcat=t.str=t._=void 0;const i=n(1520),o=n(7845);var r=n(1520);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return r._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return r.str}}),Object.defineProperty(t,"strConcat",{enumerable:!0,get:function(){return r.strConcat}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return r.nil}}),Object.defineProperty(t,"getProperty",{enumerable:!0,get:function(){return r.getProperty}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return r.stringify}}),Object.defineProperty(t,"regexpCode",{enumerable:!0,get:function(){return r.regexpCode}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return r.Name}});var s=n(7845);Object.defineProperty(t,"Scope",{enumerable:!0,get:function(){return s.Scope}}),Object.defineProperty(t,"ValueScope",{enumerable:!0,get:function(){return s.ValueScope}}),Object.defineProperty(t,"ValueScopeName",{enumerable:!0,get:function(){return s.ValueScopeName}}),Object.defineProperty(t,"varKinds",{enumerable:!0,get:function(){return s.varKinds}}),t.operators={GT:new i._Code(">"),GTE:new i._Code(">="),LT:new i._Code("<"),LTE:new i._Code("<="),EQ:new i._Code("==="),NEQ:new i._Code("!=="),NOT:new i._Code("!"),OR:new i._Code("||"),AND:new i._Code("&&"),ADD:new i._Code("+")};class a{optimizeNodes(){return this}optimizeNames(e,t){return this}}class l extends a{constructor(e,t,n){super(),this.varKind=e,this.name=t,this.rhs=n}render({es5:e,_n:t}){const n=e?o.varKinds.var:this.varKind,i=void 0===this.rhs?"":` = ${this.rhs}`;return`${n} ${this.name}${i};`+t}optimizeNames(e,t){if(e[this.name.str])return this.rhs&&(this.rhs=x(this.rhs,e,t)),this}get names(){return this.rhs instanceof i._CodeOrName?this.rhs.names:{}}}class c extends a{constructor(e,t,n){super(),this.lhs=e,this.rhs=t,this.sideEffects=n}render({_n:e}){return`${this.lhs} = ${this.rhs};`+e}optimizeNames(e,t){if(!(this.lhs instanceof i.Name)||e[this.lhs.str]||this.sideEffects)return this.rhs=x(this.rhs,e,t),this}get names(){return L(this.lhs instanceof i.Name?{}:{...this.lhs.names},this.rhs)}}class u extends c{constructor(e,t,n,i){super(e,n,i),this.op=t}render({_n:e}){return`${this.lhs} ${this.op}= ${this.rhs};`+e}}class h extends a{constructor(e){super(),this.label=e,this.names={}}render({_n:e}){return`${this.label}:`+e}}class d extends a{constructor(e){super(),this.label=e,this.names={}}render({_n:e}){return`break${this.label?` ${this.label}`:""};`+e}}class m extends a{constructor(e){super(),this.error=e}render({_n:e}){return`throw ${this.error};`+e}get names(){return this.error.names}}class p extends a{constructor(e){super(),this.code=e}render({_n:e}){return`${this.code};`+e}optimizeNodes(){return`${this.code}`?this:void 0}optimizeNames(e,t){return this.code=x(this.code,e,t),this}get names(){return this.code instanceof i._CodeOrName?this.code.names:{}}}class g extends a{constructor(e=[]){super(),this.nodes=e}render(e){return this.nodes.reduce((t,n)=>t+n.render(e),"")}optimizeNodes(){const{nodes:e}=this;let t=e.length;for(;t--;){const n=e[t].optimizeNodes();Array.isArray(n)?e.splice(t,1,...n):n?e[t]=n:e.splice(t,1)}return e.length>0?this:void 0}optimizeNames(e,t){const{nodes:n}=this;let i=n.length;for(;i--;){const o=n[i];o.optimizeNames(e,t)||(N(e,o.names),n.splice(i,1))}return n.length>0?this:void 0}get names(){return this.nodes.reduce((e,t)=>I(e,t.names),{})}}class f extends g{render(e){return"{"+e._n+super.render(e)+"}"+e._n}}class y extends g{}class b extends f{}b.kind="else";class w extends f{constructor(e,t){super(t),this.condition=e}render(e){let t=`if(${this.condition})`+super.render(e);return this.else&&(t+="else "+this.else.render(e)),t}optimizeNodes(){super.optimizeNodes();const e=this.condition;if(!0===e)return this.nodes;let t=this.else;if(t){const e=t.optimizeNodes();t=this.else=Array.isArray(e)?new b(e):e}return t?!1===e?t instanceof w?t:t.nodes:this.nodes.length?this:new w(R(e),t instanceof w?[t]:t.nodes):!1!==e&&this.nodes.length?this:void 0}optimizeNames(e,t){var n;if(this.else=null===(n=this.else)||void 0===n?void 0:n.optimizeNames(e,t),super.optimizeNames(e,t)||this.else)return this.condition=x(this.condition,e,t),this}get names(){const e=super.names;return L(e,this.condition),this.else&&I(e,this.else.names),e}}w.kind="if";class v extends f{}v.kind="for";class T extends v{constructor(e){super(),this.iteration=e}render(e){return`for(${this.iteration})`+super.render(e)}optimizeNames(e,t){if(super.optimizeNames(e,t))return this.iteration=x(this.iteration,e,t),this}get names(){return I(super.names,this.iteration.names)}}class C extends v{constructor(e,t,n,i){super(),this.varKind=e,this.name=t,this.from=n,this.to=i}render(e){const t=e.es5?o.varKinds.var:this.varKind,{name:n,from:i,to:r}=this;return`for(${t} ${n}=${i}; ${n}<${r}; ${n}++)`+super.render(e)}get names(){const e=L(super.names,this.from);return L(e,this.to)}}class A extends v{constructor(e,t,n,i){super(),this.loop=e,this.varKind=t,this.name=n,this.iterable=i}render(e){return`for(${this.varKind} ${this.name} ${this.loop} ${this.iterable})`+super.render(e)}optimizeNames(e,t){if(super.optimizeNames(e,t))return this.iterable=x(this.iterable,e,t),this}get names(){return I(super.names,this.iterable.names)}}class E extends f{constructor(e,t,n){super(),this.name=e,this.args=t,this.async=n}render(e){return`${this.async?"async ":""}function ${this.name}(${this.args})`+super.render(e)}}E.kind="func";class S extends g{render(e){return"return "+super.render(e)}}S.kind="return";class M extends f{render(e){let t="try"+super.render(e);return this.catch&&(t+=this.catch.render(e)),this.finally&&(t+=this.finally.render(e)),t}optimizeNodes(){var e,t;return super.optimizeNodes(),null===(e=this.catch)||void 0===e||e.optimizeNodes(),null===(t=this.finally)||void 0===t||t.optimizeNodes(),this}optimizeNames(e,t){var n,i;return super.optimizeNames(e,t),null===(n=this.catch)||void 0===n||n.optimizeNames(e,t),null===(i=this.finally)||void 0===i||i.optimizeNames(e,t),this}get names(){const e=super.names;return this.catch&&I(e,this.catch.names),this.finally&&I(e,this.finally.names),e}}class P extends f{constructor(e){super(),this.error=e}render(e){return`catch(${this.error})`+super.render(e)}}P.kind="catch";class _ extends f{render(e){return"finally"+super.render(e)}}function I(e,t){for(const n in t)e[n]=(e[n]||0)+(t[n]||0);return e}function L(e,t){return t instanceof i._CodeOrName?I(e,t.names):e}function x(e,t,n){return e instanceof i.Name?r(e):(o=e)instanceof i._Code&&o._items.some(e=>e instanceof i.Name&&1===t[e.str]&&void 0!==n[e.str])?new i._Code(e._items.reduce((e,t)=>(t instanceof i.Name&&(t=r(t)),t instanceof i._Code?e.push(...t._items):e.push(t),e),[])):e;var o;function r(e){const i=n[e.str];return void 0===i||1!==t[e.str]?e:(delete t[e.str],i)}}function N(e,t){for(const n in t)e[n]=(e[n]||0)-(t[n]||0)}function R(e){return"boolean"==typeof e||"number"==typeof e||null===e?!e:i._`!${D(e)}`}_.kind="finally",t.CodeGen=class{constructor(e,t={}){this._values={},this._blockStarts=[],this._constants={},this.opts={...t,_n:t.lines?"\n":""},this._extScope=e,this._scope=new o.Scope({parent:e}),this._nodes=[new y]}toString(){return this._root.render(this.opts)}name(e){return this._scope.name(e)}scopeName(e){return this._extScope.name(e)}scopeValue(e,t){const n=this._extScope.value(e,t);return(this._values[n.prefix]||(this._values[n.prefix]=new Set)).add(n),n}getScopeValue(e,t){return this._extScope.getValue(e,t)}scopeRefs(e){return this._extScope.scopeRefs(e,this._values)}scopeCode(){return this._extScope.scopeCode(this._values)}_def(e,t,n,i){const o=this._scope.toName(t);return void 0!==n&&i&&(this._constants[o.str]=n),this._leafNode(new l(e,o,n)),o}const(e,t,n){return this._def(o.varKinds.const,e,t,n)}let(e,t,n){return this._def(o.varKinds.let,e,t,n)}var(e,t,n){return this._def(o.varKinds.var,e,t,n)}assign(e,t,n){return this._leafNode(new c(e,t,n))}add(e,n){return this._leafNode(new u(e,t.operators.ADD,n))}code(e){return"function"==typeof e?e():e!==i.nil&&this._leafNode(new p(e)),this}object(...e){const t=["{"];for(const[n,o]of e)t.length>1&&t.push(","),t.push(n),(n!==o||this.opts.es5)&&(t.push(":"),(0,i.addCodeArg)(t,o));return t.push("}"),new i._Code(t)}if(e,t,n){if(this._blockNode(new w(e)),t&&n)this.code(t).else().code(n).endIf();else if(t)this.code(t).endIf();else if(n)throw new Error('CodeGen: "else" body without "then" body');return this}elseIf(e){return this._elseNode(new w(e))}else(){return this._elseNode(new b)}endIf(){return this._endBlockNode(w,b)}_for(e,t){return this._blockNode(e),t&&this.code(t).endFor(),this}for(e,t){return this._for(new T(e),t)}forRange(e,t,n,i,r=(this.opts.es5?o.varKinds.var:o.varKinds.let)){const s=this._scope.toName(e);return this._for(new C(r,s,t,n),()=>i(s))}forOf(e,t,n,r=o.varKinds.const){const s=this._scope.toName(e);if(this.opts.es5){const e=t instanceof i.Name?t:this.var("_arr",t);return this.forRange("_i",0,i._`${e}.length`,t=>{this.var(s,i._`${e}[${t}]`),n(s)})}return this._for(new A("of",r,s,t),()=>n(s))}forIn(e,t,n,r=(this.opts.es5?o.varKinds.var:o.varKinds.const)){if(this.opts.ownProperties)return this.forOf(e,i._`Object.keys(${t})`,n);const s=this._scope.toName(e);return this._for(new A("in",r,s,t),()=>n(s))}endFor(){return this._endBlockNode(v)}label(e){return this._leafNode(new h(e))}break(e){return this._leafNode(new d(e))}return(e){const t=new S;if(this._blockNode(t),this.code(e),1!==t.nodes.length)throw new Error('CodeGen: "return" should have one node');return this._endBlockNode(S)}try(e,t,n){if(!t&&!n)throw new Error('CodeGen: "try" without "catch" and "finally"');const i=new M;if(this._blockNode(i),this.code(e),t){const e=this.name("e");this._currNode=i.catch=new P(e),t(e)}return n&&(this._currNode=i.finally=new _,this.code(n)),this._endBlockNode(P,_)}throw(e){return this._leafNode(new m(e))}block(e,t){return this._blockStarts.push(this._nodes.length),e&&this.code(e).endBlock(t),this}endBlock(e){const t=this._blockStarts.pop();if(void 0===t)throw new Error("CodeGen: not in self-balancing block");const n=this._nodes.length-t;if(n<0||void 0!==e&&n!==e)throw new Error(`CodeGen: wrong number of nodes: ${n} vs ${e} expected`);return this._nodes.length=t,this}func(e,t=i.nil,n,o){return this._blockNode(new E(e,t,n)),o&&this.code(o).endFunc(),this}endFunc(){return this._endBlockNode(E)}optimize(e=1){for(;e-- >0;)this._root.optimizeNodes(),this._root.optimizeNames(this._root.names,this._constants)}_leafNode(e){return this._currNode.nodes.push(e),this}_blockNode(e){this._currNode.nodes.push(e),this._nodes.push(e)}_endBlockNode(e,t){const n=this._currNode;if(n instanceof e||t&&n instanceof t)return this._nodes.pop(),this;throw new Error(`CodeGen: not in block "${t?`${e.kind}/${t.kind}`:e.kind}"`)}_elseNode(e){const t=this._currNode;if(!(t instanceof w))throw new Error('CodeGen: "else" without "if"');return this._currNode=t.else=e,this}get _root(){return this._nodes[0]}get _currNode(){const e=this._nodes;return e[e.length-1]}set _currNode(e){const t=this._nodes;t[t.length-1]=e}},t.not=R;const $=O(t.operators.AND);t.and=function(...e){return e.reduce($)};const H=O(t.operators.OR);function O(e){return(t,n)=>t===i.nil?n:n===i.nil?t:i._`${D(t)} ${e} ${D(n)}`}function D(e){return e instanceof i.Name?e:i._`(${e})`}t.or=function(...e){return e.reduce(H)}},9039:(e,t,n)=>{"use strict";var i;n.d(t,{c:()=>i}),function(e){e.UMAP="UMAP",e.T_SNE="t-SNE"}(i||(i={}))},9124:(e,t,n)=>{"use strict";n.d(t,{b2:()=>r,fA:()=>s});var i=n(7389),o=n(6082);async function r(){const e="Helm",t=o.Func.find({package:e,name:"getHelmHelper"});if(0===t.length)throw new Error(`Package '${e}' must be installed for HelmHelper.`);return(await t[0].prepare().call()).getOutputParamValue()}function s(e,t){if(!e)throw new Error("Argument 'a' of type Atom or HelmType is mandatory.");let n,i;const o=e;return"ATOM"===o.T?(n=o.biotype(),i=o.elem):(n=e,i=t),[n,i]}o.JsInputBase,Error,i.input.helmAsync=async function(e,t){return(await r()).createHelmInput(e,t)}},9192:(e,t,n)=>{"use strict";function i(e){return"string"==typeof e||e instanceof String?e:"StateError"===e.constructor.name?e.message:"StateError"===e.constructor.name&&"$thrownJsError"in e?i(e.$thrownJsError):e instanceof Error?e.message:e.toString()}function o(e){return e instanceof Error?e.stack:"StateError"===e.constructor.name&&"$thrownJsError"in e?o(e.$thrownJsError):void 0}function r(e){return[i(e),o(e)]}n.d(t,{AP:()=>r})},9235:(e,t,n)=>{"use strict";n.d(t,{H:()=>c,R:()=>l});var i=n(6082),o=n(1991),r=n.n(o),s=n(330),a=n(3599);async function l(e,t,o,l,c,u,h){const d=e.length,m=e.dataFrame,p=Math.max(navigator.hardwareConcurrency-2,1),g=new Array(p).fill(null).map(()=>new Worker(new URL(n.p+n.u(455),n.b))),f=d/p,y=new Array(p),b=u.getSeqHandler(e),w="RNA"==l?a.o.NUCLEOTIDE:a.o.AA,v=r().count(0).take(e.length).map(e=>{const t=b.getSplitted(e);return r().count(0).take(t.length).map(e=>({position:e,symbol:t.getCanonical(e),biotype:w})).toArray()}).toArray();for(let e=0;e<p;e++){const n=g[e],i=Math.floor(e*f),r=e===p-1?d:Math.floor((e+1)*f);y[e]=new Promise(e=>{n.onmessage=t=>{e(t.data)}}),n.postMessage({seqList:v,monomersDict:t,alphabet:o,polymerType:l,start:i,end:r})}const T=[],C=[];await Promise.all(y).then(e=>{for(const t of e)T.push(...t.molfiles),C.push(...t.warnings)}),setTimeout(()=>{g.forEach(e=>{e.terminate()})},0);const A=(0,s.qj)(m,e.name),E=i.Column.fromType(i.COLUMN_TYPE.STRING,A,e.length).init(e=>T[e]?.molfile);return E.semType=i.SEMTYPE.MOLECULE,E.meta.units=i.UNITS.Molecule.MOLBLOCK,E.setTag(".sequence-src-col",e.name),{molCol:E,warnings:C}}function c(e,t){const n={},o={};for(const r of e){const e=t.getWebEditorMonomer(r.biotype,r.symbol).backgroundcolor,a=(0,s.vG)(e??i.Color.toRgb(i.Color.mouseOverRows))??[1,0,0,.7];for(const e of r.atoms)n[e]=a;for(const e of r.bonds)o[e]=a}return{atoms:Object.keys(n).map(e=>parseInt(e)),bonds:Object.keys(o).map(e=>parseInt(e)),highlightAtomColors:n,highlightBondColors:o}}},9336:(e,t,n)=>{"use strict";var i=n(2787),o=n(944),r=n(6295),s=n(6863),a=n(8498);const l={[a.Pn.Euclidean]:r.jL,[a.Pn.Manhattan]:r.Hf,[a.Pn.Cosine]:r.w_},c={[a.xL.Levenshtein]:i.I,[a.xL.JaroWinkler]:o.Vb,[a.xL.Manhattan]:function(e,t){if(e.length!==t.length)return 1;{let n=0;for(let i=1;i<e.length;i++)n+=e[i]==t[i]?0:1;return n/e.length}},[a.xL.Onehot]:function(e,t){return e===t?0:1}},u={[a.aT.Tanimoto]:r.tO,[a.aT.Dice]:r.zn,[a.aT.Asymmetric]:r.gt,[a.aT.BraunBlanquet]:r.ij,[a.aT.Cosine]:r.lO,[a.aT.Kulczynski]:r.rR,[a.aT.McConnaughey]:r.lP,[a.aT.RogotGoldberg]:r.TK,[a.aT.Russel]:r.yK,[a.aT.Sokal]:r.Ii,[a.aT.Hamming]:r.be,[a.aT.Euclidean]:r.Qj},h={[a.m6.TanimotoIntArray]:r.v_},d={[a.RR.Difference]:r.T6},m={[a.Wn.CommonItems]:r.Hr},p={[a.EG.Vector]:{[a.Pn.Euclidean]:l[a.Pn.Euclidean],[a.Pn.Manhattan]:l[a.Pn.Manhattan],[a.Pn.Cosine]:l[a.Pn.Cosine]},[a.EG.String]:{[a.xL.Levenshtein]:c[a.xL.Levenshtein],[a.xL.JaroWinkler]:c[a.xL.JaroWinkler],[a.xL.Manhattan]:c[a.xL.Manhattan],[a.xL.Onehot]:c[a.xL.Onehot]},[a.EG.BitArray]:{[a.aT.Tanimoto]:u[a.aT.Tanimoto],[a.aT.Dice]:u[a.aT.Dice],[a.aT.Asymmetric]:u[a.aT.Asymmetric],[a.aT.BraunBlanquet]:u[a.aT.BraunBlanquet],[a.aT.Cosine]:u[a.aT.Cosine],[a.aT.Kulczynski]:u[a.aT.Kulczynski],[a.aT.McConnaughey]:u[a.aT.McConnaughey],[a.aT.RogotGoldberg]:u[a.aT.RogotGoldberg],[a.aT.Russel]:u[a.aT.Russel],[a.aT.Sokal]:u[a.aT.Sokal]},[a.EG.MacroMolecule]:{[s.Z.HAMMING]:s.V[s.Z.HAMMING],[s.Z.LEVENSHTEIN]:s.V[s.Z.LEVENSHTEIN],[s.Z.NEEDLEMANN_WUNSCH]:s.V[s.Z.NEEDLEMANN_WUNSCH],[s.Z.MONOMER_CHEMICAL_DISTANCE]:s.V[s.Z.MONOMER_CHEMICAL_DISTANCE]},[a.EG.Number]:{[a.RR.Difference]:d[a.RR.Difference]},[a.EG.IntArray]:{[a.m6.TanimotoIntArray]:h[a.m6.TanimotoIntArray]},[a.EG.NumberArray]:{[a.Wn.CommonItems]:m[a.Wn.CommonItems]}};Object.keys(p).reduce((e,t)=>{for(const n of Object.keys(p[t]))e[n]=t;return e},{})},9547:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/unevaluated","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/unevaluated":true},"$dynamicAnchor":"meta","title":"Unevaluated applicator vocabulary meta-schema","type":["object","boolean"],"properties":{"unevaluatedItems":{"$dynamicRef":"#meta"},"unevaluatedProperties":{"$dynamicRef":"#meta"}}}')},9572:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(1678),o=n(7216),r=n(9547),s=n(8226),a=n(518),l=n(4588),c=n(5707),u=n(7082),h=["/properties"];t.default=function(e){return[i,o,r,s,a,t(this,l),c,t(this,u)].forEach(e=>this.addMetaSchema(e,void 0,!1)),this;function t(t,n){return e?t.$dataMetaSchema(n,h):n}}},9713:e=>{"use strict";e.exports=rxjs.operators},9857:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.contentVocabulary=t.metadataVocabulary=void 0,t.metadataVocabulary=["title","description","default","deprecated","readOnly","writeOnly","examples"],t.contentVocabulary=["contentMediaType","contentEncoding","contentSchema"]},9937:e=>{e.exports={linLogMode:!1,outboundAttractionDistribution:!1,adjustSizes:!1,edgeWeightInfluence:1,scalingRatio:1,strongGravityMode:!1,gravity:1,slowDown:1,barnesHutOptimize:!1,barnesHutTheta:.5}},9982:function(e,t,n){var i;!function(){var t={};!function(e){"use strict";e.__esModule=!0,e.digestLength=32,e.blockSize=64;var t=new Uint32Array([1116352408,1899447441,3049323471,3921009573,961987163,1508970993,2453635748,2870763221,3624381080,310598401,607225278,1426881987,1925078388,2162078206,2614888103,3248222580,3835390401,4022224774,264347078,604807628,770255983,1249150122,1555081692,1996064986,2554220882,2821834349,2952996808,3210313671,3336571891,3584528711,113926993,338241895,666307205,773529912,1294757372,1396182291,1695183700,1986661051,2177026350,2456956037,2730485921,2820302411,3259730800,3345764771,3516065817,3600352804,4094571909,275423344,430227734,506948616,659060556,883997877,958139571,1322822218,1537002063,1747873779,1955562222,2024104815,2227730452,2361852424,2428436474,2756734187,3204031479,3329325298]);function n(e,n,i,o,r){for(var s,a,l,c,u,h,d,m,p,g,f,y,b;r>=64;){for(s=n[0],a=n[1],l=n[2],c=n[3],u=n[4],h=n[5],d=n[6],m=n[7],g=0;g<16;g++)f=o+4*g,e[g]=(255&i[f])<<24|(255&i[f+1])<<16|(255&i[f+2])<<8|255&i[f+3];for(g=16;g<64;g++)y=((p=e[g-2])>>>17|p<<15)^(p>>>19|p<<13)^p>>>10,b=((p=e[g-15])>>>7|p<<25)^(p>>>18|p<<14)^p>>>3,e[g]=(y+e[g-7]|0)+(b+e[g-16]|0);for(g=0;g<64;g++)y=(((u>>>6|u<<26)^(u>>>11|u<<21)^(u>>>25|u<<7))+(u&h^~u&d)|0)+(m+(t[g]+e[g]|0)|0)|0,b=((s>>>2|s<<30)^(s>>>13|s<<19)^(s>>>22|s<<10))+(s&a^s&l^a&l)|0,m=d,d=h,h=u,u=c+y|0,c=l,l=a,a=s,s=y+b|0;n[0]+=s,n[1]+=a,n[2]+=l,n[3]+=c,n[4]+=u,n[5]+=h,n[6]+=d,n[7]+=m,o+=64,r-=64}return o}var i=function(){function t(){this.digestLength=e.digestLength,this.blockSize=e.blockSize,this.state=new Int32Array(8),this.temp=new Int32Array(64),this.buffer=new Uint8Array(128),this.bufferLength=0,this.bytesHashed=0,this.finished=!1,this.reset()}return t.prototype.reset=function(){return this.state[0]=1779033703,this.state[1]=3144134277,this.state[2]=1013904242,this.state[3]=2773480762,this.state[4]=1359893119,this.state[5]=2600822924,this.state[6]=528734635,this.state[7]=1541459225,this.bufferLength=0,this.bytesHashed=0,this.finished=!1,this},t.prototype.clean=function(){for(var e=0;e<this.buffer.length;e++)this.buffer[e]=0;for(e=0;e<this.temp.length;e++)this.temp[e]=0;this.reset()},t.prototype.update=function(e,t){if(void 0===t&&(t=e.length),this.finished)throw new Error("SHA256: can't update because hash was finished.");var i=0;if(this.bytesHashed+=t,this.bufferLength>0){for(;this.bufferLength<64&&t>0;)this.buffer[this.bufferLength++]=e[i++],t--;64===this.bufferLength&&(n(this.temp,this.state,this.buffer,0,64),this.bufferLength=0)}for(t>=64&&(i=n(this.temp,this.state,e,i,t),t%=64);t>0;)this.buffer[this.bufferLength++]=e[i++],t--;return this},t.prototype.finish=function(e){if(!this.finished){var t=this.bytesHashed,i=this.bufferLength,o=t/536870912|0,r=t<<3,s=t%64<56?64:128;this.buffer[i]=128;for(var a=i+1;a<s-8;a++)this.buffer[a]=0;this.buffer[s-8]=o>>>24&255,this.buffer[s-7]=o>>>16&255,this.buffer[s-6]=o>>>8&255,this.buffer[s-5]=o>>>0&255,this.buffer[s-4]=r>>>24&255,this.buffer[s-3]=r>>>16&255,this.buffer[s-2]=r>>>8&255,this.buffer[s-1]=r>>>0&255,n(this.temp,this.state,this.buffer,0,s),this.finished=!0}for(a=0;a<8;a++)e[4*a+0]=this.state[a]>>>24&255,e[4*a+1]=this.state[a]>>>16&255,e[4*a+2]=this.state[a]>>>8&255,e[4*a+3]=this.state[a]>>>0&255;return this},t.prototype.digest=function(){var e=new Uint8Array(this.digestLength);return this.finish(e),e},t.prototype._saveState=function(e){for(var t=0;t<this.state.length;t++)e[t]=this.state[t]},t.prototype._restoreState=function(e,t){for(var n=0;n<this.state.length;n++)this.state[n]=e[n];this.bytesHashed=t,this.finished=!1,this.bufferLength=0},t}();e.Hash=i;var o=function(){function e(e){this.inner=new i,this.outer=new i,this.blockSize=this.inner.blockSize,this.digestLength=this.inner.digestLength;var t=new Uint8Array(this.blockSize);if(e.length>this.blockSize)(new i).update(e).finish(t).clean();else for(var n=0;n<e.length;n++)t[n]=e[n];for(n=0;n<t.length;n++)t[n]^=54;for(this.inner.update(t),n=0;n<t.length;n++)t[n]^=106;for(this.outer.update(t),this.istate=new Uint32Array(8),this.ostate=new Uint32Array(8),this.inner._saveState(this.istate),this.outer._saveState(this.ostate),n=0;n<t.length;n++)t[n]=0}return e.prototype.reset=function(){return this.inner._restoreState(this.istate,this.inner.blockSize),this.outer._restoreState(this.ostate,this.outer.blockSize),this},e.prototype.clean=function(){for(var e=0;e<this.istate.length;e++)this.ostate[e]=this.istate[e]=0;this.inner.clean(),this.outer.clean()},e.prototype.update=function(e){return this.inner.update(e),this},e.prototype.finish=function(e){return this.outer.finished?this.outer.finish(e):(this.inner.finish(e),this.outer.update(e,this.digestLength).finish(e)),this},e.prototype.digest=function(){var e=new Uint8Array(this.digestLength);return this.finish(e),e},e}();function r(e){var t=(new i).update(e),n=t.digest();return t.clean(),n}function s(e,t){var n=new o(e).update(t),i=n.digest();return n.clean(),i}function a(e,t,n,i){var o=i[0];if(0===o)throw new Error("hkdf: cannot expand more");t.reset(),o>1&&t.update(e),n&&t.update(n),t.update(i),t.finish(e),i[0]++}e.HMAC=o,e.hash=r,e.default=r,e.hmac=s;var l=new Uint8Array(e.digestLength);e.hkdf=function(e,t,n,i){void 0===t&&(t=l),void 0===i&&(i=32);for(var r=new Uint8Array([1]),c=s(t,e),u=new o(c),h=new Uint8Array(u.digestLength),d=h.length,m=new Uint8Array(i),p=0;p<i;p++)d===h.length&&(a(h,u,n,r),d=0),m[p]=h[d++];return u.clean(),h.fill(0),r.fill(0),m},e.pbkdf2=function(e,t,n,i){for(var r=new o(e),s=r.digestLength,a=new Uint8Array(4),l=new Uint8Array(s),c=new Uint8Array(s),u=new Uint8Array(i),h=0;h*s<i;h++){var d=h+1;a[0]=d>>>24&255,a[1]=d>>>16&255,a[2]=d>>>8&255,a[3]=d>>>0&255,r.reset(),r.update(t),r.update(a),r.finish(c);for(var m=0;m<s;m++)l[m]=c[m];for(m=2;m<=n;m++){r.reset(),r.update(c).finish(c);for(var p=0;p<s;p++)l[p]^=c[p]}for(m=0;m<s&&h*s+m<i;m++)u[h*s+m]=l[m]}for(h=0;h<s;h++)l[h]=c[h]=0;for(h=0;h<4;h++)a[h]=0;return r.clean(),u}}(t);var o=t.default;for(var r in t)o[r]=t[r];"object"==typeof e.exports?e.exports=o:void 0===(i=function(){return o}.call(t,n,t,e))||(e.exports=i)}()}},t={};function n(i){var o=t[i];if(void 0!==o)return o.exports;var r=t[i]={id:i,loaded:!1,exports:{}};return e[i].call(r.exports,r,r.exports,n),r.loaded=!0,r.exports}n.m=e,n.amdO={},n.n=e=>{var t=e&&e.__esModule?()=>e.default:()=>e;return n.d(t,{a:t}),t},n.d=(e,t)=>{for(var i in t)n.o(t,i)&&!n.o(e,i)&&Object.defineProperty(e,i,{enumerable:!0,get:t[i]})},n.u=e=>e+".js",n.g=function(){if("object"==typeof globalThis)return globalThis;try{return this||new Function("return this")()}catch(e){if("object"==typeof window)return window}}(),n.hmd=e=>((e=Object.create(e)).children||(e.children=[]),Object.defineProperty(e,"exports",{enumerable:!0,set:()=>{throw new Error("ES Modules may not assign module.exports or exports.*, Use ESM export syntax, instead: "+e.id)}}),e),n.o=(e,t)=>Object.prototype.hasOwnProperty.call(e,t),n.r=e=>{"undefined"!=typeof Symbol&&Symbol.toStringTag&&Object.defineProperty(e,Symbol.toStringTag,{value:"Module"}),Object.defineProperty(e,"__esModule",{value:!0})},(()=>{var e;n.g.importScripts&&(e=n.g.location+"");var t=n.g.document;if(!e&&t&&(t.currentScript&&"SCRIPT"===t.currentScript.tagName.toUpperCase()&&(e=t.currentScript.src),!e)){var i=t.getElementsByTagName("script");if(i.length)for(var o=i.length-1;o>-1&&(!e||!/^http(s?):/.test(e));)e=i[o--].src}if(!e)throw new Error("Automatic publicPath is not supported in this browser");e=e.replace(/^blob:/,"").replace(/#.*$/,"").replace(/\?.*$/,"").replace(/\/[^\/]+$/,"/"),n.p=e})(),n.b=document.baseURI||self.location.href,n.nc=void 0;var i={};(()=>{"use strict";n.r(i),n.d(i,{_package:()=>Le,initAutoTests:()=>Ne,test:()=>xe,tests:()=>t.CN});var e=n(6082),t=n(8070);(0,t.L1)("_first",()=>{(0,t.t6)("_first",async()=>{})});var o=n(8924),r=n(7362),s=n(1093);(0,t.L1)("Palettes",()=>{(0,t.t6)("testPaletteN",async()=>{await async function(){const e=s.A.Chromatogram;(0,t.E3)(e instanceof r.e,!0),(0,t.E3)(e instanceof s.A,!0)}()}),(0,t.t6)("testPaletteAA",async()=>{await async function(){const e=o.X.Lesk,n=o.X.RasMol,i=o.X.GrokGroups;(0,t.E3)(e instanceof r.e,!0),(0,t.E3)(n instanceof r.e,!0),(0,t.E3)(i instanceof r.e,!0),(0,t.E3)(e instanceof o.X,!0),(0,t.E3)(n instanceof o.X,!0),(0,t.E3)(i instanceof o.X,!0)}()}),(0,t.t6)("testPalettePtMe",async()=>{const e=o.X.GrokGroups.get("MeNle"),n=o.X.GrokGroups.get("MeA"),i=o.X.GrokGroups.get("MeG"),r=o.X.GrokGroups.get("MeF"),s=o.X.GrokGroups.get("L"),a=o.X.GrokGroups.get("A"),l=o.X.GrokGroups.get("G"),c=o.X.GrokGroups.get("F");(0,t.E3)(e,s),(0,t.E3)(n,a),(0,t.E3)(i,l),(0,t.E3)(r,c)})});var a=n(4328),l=n(2003),c=n(8312);class u{units;aligned;alphabet;alphabetSize;alphabetIsMultichar;separator;constructor(e,t,n,i,o,r){this.units=e,this.aligned=t,this.alphabet=n,this.alphabetSize=i,this.alphabetIsMultichar=o,this.separator=r}}async function h(t,n){const i=(await t()).getCol(n),o=await a.functions.call("Bio:detectMacromolecule",{col:i});if(o&&(i.semType=o),i.semType===e.SEMTYPE.MACROMOLECULE){const e=`Negative test detected semType='${i.semType}', units='${i.meta.units}'.`;throw new Error(e)}}async function d(n,i,o,r,s,c,u,h,d=null){const m=(await n()).col(i),p=await a.functions.call("Bio:detectMacromolecule",{col:m});p&&(m.semType=p),(0,t.E3)(m.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(m.meta.units,r),(0,t.E3)(m.getTag(l.gp.aligned),s),(0,t.E3)(m.getTag(l.gp.alphabet),c),d&&(0,t.E3)(m.getTag(l.gp.separator),d);const g=o.getSeqHandler(m);(0,t.E3)(g.getAlphabetSize(),u),(0,t.E3)(g.getAlphabetIsMultichar(),h),g.isHelm()||((0,t.E3)(g.aligned,s),(0,t.E3)(g.alphabet,c))}var m=n(4025);async function p(n,i){const o=e.Column.fromList(e.TYPE.STRING,"seq",n),r=await a.functions.call("Bio:detectMacromolecule",{col:o});r&&(o.semType=r),(0,t.E3)(o.semType,e.SEMTYPE.MACROMOLECULE);const s=i.getSeqHandler(o);return await s.refinerPromise,i.getSeqHandler(o),o}async function g(e,n,i=!1){const o=await p(e,n);(0,t.E3)(o.meta.units===l.Hi.BILN,!i,`Incorrectly detected as ${o.meta.units}`),(0,t.E3)(null!=o.temp[m.j.notationProvider],!i,"No notation provider for BILN")}async function f(e,n,i){const o=await p(e,i),r=i.getSeqHandler(o);for(let i=0;i<e.length;i++){const o=r.getHelm(i);(0,t.E3)(o===n[i],!0,`Incorrect HELM conversion for ${e[i]}: Expected ${n[i]} \n Got ${o}`)}const s=r.getConverter(l.Hi.HELM);for(let i=0;i<e.length;i++){const o=s(e[i]);(0,t.E3)(o===n[i],!0,`Incorrect HELM conversion for ${e[i]}: Expected ${n[i]} \n Got ${o}`)}}async function y(n,i,o){const r=e.Column.fromList(e.TYPE.STRING,"helm",n),s=e.DataFrame.fromColumns([r]);await s.meta.detectSemanticTypes(),await a.data.detectSemanticTypes(s),(0,t.E3)(r.semType===e.SEMTYPE.MACROMOLECULE,!0,`Incorrectly detected as ${r.semType}`),(0,t.E3)(r.meta.units===l.Hi.HELM,!0,`Incorrectly detected as ${r.meta.units}`);const c=o.getSeqHandler(r).getConverter(l.Hi.BILN);for(let e=0;e<n.length;e++){const o=c(n[e]);(0,t.E3)(o===i[e],!0,`Incorrect BILN conversion for ${n[e]}: Expected ${i[e]} \n Got ${o}`)}}const b=[{name:"Valid Biln",seqs:["A-C(1,3)-G-G-H-A-V-E-A-K-Y-L-V-C(3,3)-S.G-I-V-E-A-C(2,3)-C(1,3)-T-S-I-C(2,3)-S-L-Y-Q-L-E-N-Y-C(3,3)-Y","A-C(1,3)-G-G-H-A-V-E-A-K-Y-L-V-C(3,3)-S.G-I-V-E-A-C(2,3)-C(1,3)-T-S-I-C(2,3)-S-L-Y-Q-L-E-N-Y-C(3,3)-Y","C-C(1,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(3,3)-NH2.C(1,1)(2,2)(3,3)","C-C(1,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(3,3)-NH2.[C](1,1)(2,2)(3,3)","D-T-H-F-P-I-C(1,3)-I-F-C(2,3)-C(3,3)-G-C(2,3)-C(4,3)-H-R-S-K-C(3,3)-G-M-C(4,3)-C(1,3)-K-T"],negative:!1},{name:"Simple Separator Neg",seqs:["meI/hHis/Aca/N/T/dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe/dV/E/N/D-Orn/D-aThr//Phe_4Me","meI/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Phe_ab-dehydro/N/D-Orn/D-aThr//Phe_4Me","Lys_Boc/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Thr_PO3H2/N/D-Orn/D-aThr//Phe_4Me","meI/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Thr_PO3H2/N/D-Orn/D-aThr//Phe_4Me","meI/hHis/Aca/N/T/dK/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe/dV/Chg/N/D-Orn/D-aThr//Phe_4Me"],negative:!0},{name:"Valid Biln without cyclization",seqs:["meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-E-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-[Phe_ab-dehydro]-N-[D-Orn]-[D-aThr]--Phe_4Me","Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-Chg-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-Tyr_Bn-dV-E-N-dV---Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-Aze-dV-E-N-dV---Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-meQ-dV-E-N-dV---Phe_4Me"],negative:!1}],w=[{name:"Linear",biln:["meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-E-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-[Phe_ab-dehydro]-N-[D-Orn]-[D-aThr]--Phe_4Me","Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-Chg-N-[D-Orn]-[D-aThr]--Phe_4Me"],helm:["PEPTIDE1{[meI].[hHis].[Aca].N.T.[dE].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].E.N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Phe_ab-dehydro].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[Lys_Boc].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].N.T.[dK].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].[Chg].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$"]},{name:"Cyclic",biln:["C-C(1,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(3,3)-NH2.[C](1,1)(2,2)(3,3)","D-T-H-F-P-I-C(1,3)-I-F-C(2,3)-C(3,3)-G-C(2,3)-C(4,3)-H-R-S-K-C(3,3)-G-M-C(4,3)-C(1,3)-K-T","L-C(1,3)-G-S-H-L-V-E-A-L-Y-L-V-C(2,3)-G.G-I-V-E-Q-C(3,3)-C(1,3)-T-S-I-C(3,3)-S-L-Y-Q-L-E-N-Y-C(2,3)-N","H-Aib-E-G-T-F-T-S-D(2,3)-V-S-S-Y-L-E-G-Q-A-A-K(1,3)-E-F-I-A-W-L-V-R-G-R-G.C(2,3)-gGlu-G-G(1,2)","F(4,2).dI(1,1)(3,3)-Trp_Ome-Asp_OMe-Cys_Bn-meG-Phe_3Cl-dD-T-dI(4,3)-T-dK-aG-3Pal-xiIle-meD-Ala_tBu(1,2).L(2,1)-Pro_4Me3OH-S-NMe2Abz-Q-3Pal-xiIle-D-Hyp-Ala_tBu-dI(3,3)-Trp_Ome-Asp_OMe-N-meG-Phe_34diCl-Phe_34diCl(2,2)"],helm:["PEPTIDE1{C.C.S.W.P.A.R.C.L.H.Q.D.L.C.[NH2]}|PEPTIDE2{C}$PEPTIDE1,PEPTIDE2,14:R3-1:R3|PEPTIDE1,PEPTIDE2,8:R3-1:R2|PEPTIDE1,PEPTIDE2,2:R3-1:R1$$$V2.0","PEPTIDE1{D.T.H.F.P.I.C.I.F.C.C.G.C.C.H.R.S.K.C.G.M.C.C.K.T}$PEPTIDE1,PEPTIDE1,10:R3-13:R3|PEPTIDE1,PEPTIDE1,11:R3-19:R3|PEPTIDE1,PEPTIDE1,14:R3-22:R3|PEPTIDE1,PEPTIDE1,7:R3-23:R3$$$V2.0","PEPTIDE1{L.C.G.S.H.L.V.E.A.L.Y.L.V.C.G}|PEPTIDE2{G.I.V.E.Q.C.C.T.S.I.C.S.L.Y.Q.L.E.N.Y.C.N}$PEPTIDE1,PEPTIDE2,2:R3-7:R3|PEPTIDE2,PEPTIDE2,6:R3-11:R3|PEPTIDE1,PEPTIDE2,14:R3-20:R3$$$V2.0","PEPTIDE1{H.[Aib].E.G.T.F.T.S.D.V.S.S.Y.L.E.G.Q.A.A.K.E.F.I.A.W.L.V.R.G.R.G}|PEPTIDE2{C.[gGlu].G.G}$PEPTIDE1,PEPTIDE2,9:R3-1:R3|PEPTIDE1,PEPTIDE2,20:R3-4:R2$$$V2.0","PEPTIDE1{F}|PEPTIDE2{[dI].[Trp_Ome].[Asp_OMe].[Cys_Bn].[meG].[Phe_3Cl].[dD].T.[dI].T.[dK].[aG].[3Pal].[xiIle].[meD].[Ala_tBu]}|PEPTIDE3{L.[Pro_4Me3OH].S.[NMe2Abz].Q.[3Pal].[xiIle].D.[Hyp].[Ala_tBu].[dI].[Trp_Ome].[Asp_OMe].N.[meG].[Phe_34diCl].[Phe_34diCl]}$PEPTIDE1,PEPTIDE2,1:R2-9:R3|PEPTIDE2,PEPTIDE2,1:R1-16:R2|PEPTIDE2,PEPTIDE3,1:R3-11:R3|PEPTIDE3,PEPTIDE3,1:R1-17:R2$$$V2.0"]}],v=[{name:"Linear",biln:["meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-E-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-[Phe_ab-dehydro]-N-[D-Orn]-[D-aThr]--Phe_4Me","Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-Chg-N-[D-Orn]-[D-aThr]--Phe_4Me"],helm:["PEPTIDE1{[meI].[hHis].[Aca].N.T.[dE].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].E.N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Phe_ab-dehydro].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[Lys_Boc].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].N.T.[dK].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].[Chg].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$"]},{name:"Cyclic",biln:["C-C(3,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(1,3)-NH2.C(1,3)(2,2)(3,1)","D-T-H-F-P-I-C(4,3)-I-F-C(1,3)-C(2,3)-G-C(1,3)-C(3,3)-H-R-S-K-C(2,3)-G-M-C(3,3)-C(4,3)-K-T","L-C(1,3)-G-S-H-L-V-E-A-L-Y-L-V-C(3,3)-G.G-I-V-E-Q-C(2,3)-C(1,3)-T-S-I-C(2,3)-S-L-Y-Q-L-E-N-Y-C(3,3)-N","H-Aib-E-G-T-F-T-S-D(1,3)-V-S-S-Y-L-E-G-Q-A-A-K(2,3)-E-F-I-A-W-L-V-R-G-R-G.C(1,3)-gGlu-G-G(2,2)","F(1,2).dI(2,1)(3,3)-Trp_Ome-Asp_OMe-Cys_Bn-meG-Phe_3Cl-dD-T-dI(1,3)-T-dK-aG-3Pal-xiIle-meD-Ala_tBu(2,2).L(4,1)-Pro_4Me3OH-S-NMe2Abz-Q-3Pal-xiIle-D-Hyp-Ala_tBu-dI(3,3)-Trp_Ome-Asp_OMe-N-meG-Phe_34diCl-Phe_34diCl(4,2)"],helm:["PEPTIDE1{C.C.S.W.P.A.R.C.L.H.Q.D.L.C.[NH2]}|PEPTIDE2{C}$PEPTIDE1,PEPTIDE2,14:R3-1:R3|PEPTIDE1,PEPTIDE2,8:R3-1:R2|PEPTIDE1,PEPTIDE2,2:R3-1:R1$$$V2.0","PEPTIDE1{D.T.H.F.P.I.C.I.F.C.C.G.C.C.H.R.S.K.C.G.M.C.C.K.T}$PEPTIDE1,PEPTIDE1,10:R3-13:R3|PEPTIDE1,PEPTIDE1,11:R3-19:R3|PEPTIDE1,PEPTIDE1,14:R3-22:R3|PEPTIDE1,PEPTIDE1,7:R3-23:R3$$$V2.0","PEPTIDE1{L.C.G.S.H.L.V.E.A.L.Y.L.V.C.G}|PEPTIDE2{G.I.V.E.Q.C.C.T.S.I.C.S.L.Y.Q.L.E.N.Y.C.N}$PEPTIDE1,PEPTIDE2,2:R3-7:R3|PEPTIDE2,PEPTIDE2,6:R3-11:R3|PEPTIDE1,PEPTIDE2,14:R3-20:R3$$$V2.0","PEPTIDE1{H.[Aib].E.G.T.F.T.S.D.V.S.S.Y.L.E.G.Q.A.A.K.E.F.I.A.W.L.V.R.G.R.G}|PEPTIDE2{C.[gGlu].G.G}$PEPTIDE1,PEPTIDE2,9:R3-1:R3|PEPTIDE1,PEPTIDE2,20:R3-4:R2$$$V2.0","PEPTIDE1{F}|PEPTIDE2{[dI].[Trp_Ome].[Asp_OMe].[Cys_Bn].[meG].[Phe_3Cl].[dD].T.[dI].T.[dK].[aG].[3Pal].[xiIle].[meD].[Ala_tBu]}|PEPTIDE3{L.[Pro_4Me3OH].S.[NMe2Abz].Q.[3Pal].[xiIle].D.[Hyp].[Ala_tBu].[dI].[Trp_Ome].[Asp_OMe].N.[meG].[Phe_34diCl].[Phe_34diCl]}$PEPTIDE1,PEPTIDE2,1:R2-9:R3|PEPTIDE2,PEPTIDE2,1:R1-16:R2|PEPTIDE2,PEPTIDE3,1:R3-11:R3|PEPTIDE3,PEPTIDE3,1:R1-17:R2$$$V2.0"]}];async function T(t){const n=e.Column.fromList(e.TYPE.STRING,"col1",t);if(await a.functions.call("Bio:detectMacromolecule",{col:n}),n.semType===e.SEMTYPE.MACROMOLECULE){const e=`Negative test detected semType='${n.semType}', units='${n.meta.units}'.`;throw new Error(e)}}async function C(n,i,o,r,s,c,u,h=null){const d=e.Column.fromList(e.TYPE.STRING,"seq",n),m=await a.functions.call("Bio:detectMacromolecule",{col:d});m&&(d.semType=m),(0,t.E3)(d.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(d.meta.units,o),(0,t.E3)(d.getTag(l.gp.aligned),r),(0,t.E3)(d.getTag(l.gp.alphabet),s),h&&(0,t.E3)(d.getTag(l.gp.separator),h);const p=i.getSeqHandler(d);(0,t.E3)(p.getAlphabetSize(),c),(0,t.E3)(p.getAlphabetIsMultichar(),u),p.isHelm()||((0,t.E3)(p.aligned,r),(0,t.E3)(p.alphabet,s))}async function A(e,t,n){const i=await e(),o=[];for(const r of i.columns.names())if(r in t){const i=t[r];try{await d(e,r,n,i.units,i.aligned,i.alphabet,i.alphabetSize,i.alphabetIsMultichar,i.separator)}catch(e){const t=e.toString();o.push(`Positive col '${r}' failed: ${t}`)}}else try{await h(e,r)}catch(e){const t=e.toString();o.push(`Negative col '${r}' failed: ${t}`)}if(o.length>0)throw new Error(o.join("\n"))}(0,t.L1)("detectors",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i={negEmpty:{csv:"id,col1\n1,\n2,\n3,\n4,\n5,",neg:["col1"]},negNum1:{csv:"col1\n1\n2\n3",neg:["col1"]},negNum2:{csv:"col1\n4\n5\n6\n7",neg:["col1"]},negNum3:{csv:"col1\n8\n9\n10\n11\n12",neg:["col1"]},negSmiles:{csv:"col1\nCCCCN1C(=O)CN=C(c2cc(F)ccc12)C3CCCCC3\nC1CCCCC1\nCCCCCC",neg:["col1"]},negSmilesWithSquareBrackets:{csv:"col1\nCl.c1ccc2nc3ccccc3cc2c1\nOc1cccc2cc3ccccc3cc12\n[SeH]c1ccc2ccccc2c1",neg:["col1"]},negFastaUnSingleChar:{csv:"col1\nAlanine\nCysteine\nAspartic acid\nGlutamic acid\nPhenylalanine",neg:["col1"]},fastaMsaSameLength:{csv:"seq\nFWPHEYFWPHEYYV\nYNRQWYVYNRQWYV\nMKPSEYVMKPSEYV",pos:{seq:new u(l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1,void 0)}},fastaExtSameLength:{csv:"seq\nFW[Ac]PHEYFWPH\nYN[Re]VYNRQWYV\n[Me]EYVMPS[Et]",pos:{seq:new u(l.Hi.FASTA,"SEQ",l.YI.UN,16,!0,void 0)}},fastaMsaExtSameLength:{csv:"seq\nFW[Ac]PHEY[Re]WPH\nYN[Re]VYNR[Ac]WYV\n[Me]EYVMPSFW[Me]H",pos:{seq:new u(l.Hi.FASTA,"SEQ.MSA",l.YI.UN,14,!0,void 0)}},fastaMsaExtManyMinus:{csv:"seq\n[D-Tic]-------[D-Tyr_Et][Tyr_ab-dehydroMe][dV][Cys_SEt]N[D-Orn][D-aThr]-[Phe_4Me]\n[Phe_2F]--------[Tyr_ab-dehydroMe][dV][Aca]N[D-Orn][D-aThr]-[Phe_4Me]\n[D-Tic]-[Hcy]QTWQ[Phe_4NH2][D-Tyr_Et][Tyr_ab-dehydroMe][dV][Cys_SEt]----[Phe_4Me]",pos:{seq:new u(l.Hi.FASTA,"SEQ.MSA",l.YI.UN,17,!0,void 0)}},sepSameLength:{csv:"seq\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-C-G-NH2\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-C-G-NH2\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-C-G-NH2",pos:{seq:new u(l.Hi.SEPARATOR,"SEQ.MSA",l.YI.UN,5,!0,"-")}},sepMsaSameLength:{csv:"seq\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-Aca-G-NH2\nAca-A-Aca-A-A-A-meI-A-A-A-A-A-Aca-G-NH2\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-Aca-G-NH2",pos:{seq:new u(l.Hi.SEPARATOR,"SEQ",l.YI.UN,5,!0,"-")}},helmSameLength:{csv:"seq\nPEPTIDE1{Ac(1).A.A.A.A.A.A.A.A.A.A.A.A.A.C(1).G.NH2}$$$$\nPEPTIDE1{Ab(1).Y.V.K.H.P.F.W.R.W.Y.A.A.A.C(1).G.NH2}$$$$\nPEPTIDE1{Ad(1).S.W.Y.C.K.H.P.M.W.A.A.A.A.C(1)-G-NH2}$$$$",pos:{seq:new u(l.Hi.HELM,null,null,19,void 0,void 0)}},fastaNonDigitAlphabet:{csv:'flagC\n"NMe-pyridazineH"\n"Pyrrolo[2,3-c]pyridazineH"',neg:["flagC"]}};for(const[o,r]of Object.entries(i))(0,t.t6)(`csvData2-${o}`,async()=>{const t=(s=o,async()=>{const t=i[s].csv,n=e.DataFrame.fromCsv(t);return await a.data.detectSemanticTypes(n),n});var s;for(const e of r.neg??[])await h(t,e);for(const[e,i]of Object.entries(r.pos??{}))await d(t,e,n,i.units,i.aligned,i.alphabet,i.alphabetSize,i.alphabetIsMultichar,i.separator)});const o=new class{csvFastaDna1="seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC";fastaRna1="seq\nACGUCACGUC\nCAGUGUCAGUGU\nUUCAACUUCAAC";fastaPt1="seq\nFWPHEY\nYNRQWYV\nMKPSEYV";fastaUn="seq\n[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]DN\n[meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Aca]\n[Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Aca]";sepDna="seq\nA*C*G*T*C*A*C*G*T*C\nC*A*G*T*G*T*C*A*G*T*G*T\nT*T*C*A*A*C*T*T*C*A*A*C";sepRna="seq\nA*C*G*U*C*A*C*G*U*C\nC*A*G*U*G*U*C*A*G*U*G*U\nU*U*C*A*A*C*U*U*C*A*A*C";sepPt="seq\nF-W-P-H-E-Y-F-W-P-H-E-Y\nY-N-R-Q-W-Y-V-Y-N-R-Q-W-Y-V\nM-K-P-S-E-Y-V-M-K-P-S-E-Y-V";sepUn1="seq\nabc-dfgg-abc1-cfr3-rty-wert-cfr3-rty-wert\nrut12-her2-rty-wert-abc-abc1-dfgg-abc-abc1-dfgg\nrut12-rty-her2-abc-cfr3-wert-rut12-cfr3-wert-rut12";sepUn2="seq\nabc/dfgg/abc1/cfr3/rty/wert/abc/dfgg/abc1/cfr3/rty/wert\nrut12/her2/rty/wert//abc/abc1/dfgg/rut12/her2/rty/wert//abc/abc1/dfgg\nrut12/rty/her2/abc/cfr3//wert/rut12/rut12/rty/her2/abc/cfr3//wert/rut12";sepMsaDna1="seq\nA-C--G-T--C-T-A-C--G-T--C-T\nC-A-C--T--G-T-C-A-C--T--G-T\nA-C-C-G-T-A-C-T-A-C-C-G-T-A-C-T";sepMsaUnWEmpty="seq\nm1-M-m3-mon4-mon5-N-T-MON8-N9-m1-M-m3-mon4-mon5-N-T-MON8-N9\nm1-mon2-m3-mon4-mon5-Num--MON8-N9-m1-mon2-m3-mon4-mon5-Num--MON8-N9\n\nmon1-M-mon3-mon4-mon5---MON8-N9-mon1-M-mon3-mon4-mon5---MON8-N9";sepComplex="seq\nAca-F-K(AEEA-AEEA-R-Ac)-L-mF-V-Y-mNle-D-W-N-mF-Aca-G-NH2\nAca-F-K(AEEA-ARRA-W-Ac)-L-mF-V-Y-mNle-D-W-N-mF-Aca-G-NH2\nAca-F-K(AEEA-AEEA-Ac)-L-mF-V-Y-mNle-D-W-N-mF-Aca-G-NH2";fastaMsaDna1="seq\nAC-GT-CTAC-GT-CT\nCAC-T-GTCAC-T-GT\nACCGTACTACCGTACT";fastaMsaPt1="seq\nFWR-WYV-KHPFWR-WYV-KHP\nYNR-WYV-KHPYNR-WYV-KHP\nMWRSWY-CKHPMWRSWY-CKHP"},r={fastaPtCsv:"System:AppData/Bio/samples/FASTA_PT.csv",msaComplex:"System:AppData/Bio/samples/MSA.csv",fastaCsv:"System:AppData/Bio/samples/FASTA.csv",helmCsv:"System:AppData/Bio/samples/HELM.csv",peptidesComplex:"System:AppData/Bio/tests/peptides_complex_msa.csv",peptidesSimple:"System:AppData/Bio/tests/peptides_simple_msa.csv",testDemogCsv:"System:AppData/Bio/tests/testDemog.csv",testHelmCsv:"System:AppData/Bio/tests/testHelm.csv",testIdCsv:"System:AppData/Bio/tests/testId.csv",testSmilesCsv:"System:AppData/Bio/tests/testSmiles.csv",testSmiles2Csv:"System:AppData/Bio/tests/testSmiles2.csv",testSmilesShort:"System:AppData/Bio/tests/testSmilesShort.csv",testActivityCliffsCsv:"System:AppData/Bio/tests/testActivityCliffs.csv",testCerealCsv:"System:AppData/Bio/tests/testCereal.csv",testUnichemSources:"System:AppData/Bio/tests/testUnichemSources.csv",testDmvOffices:"System:AppData/Bio/tests/testDmvOffices.csv",testAlertCollection:"System:AppData/Bio/tests/testAlertCollection.csv",testSpgi100:"System:AppData/Bio/tests/testSpgi100.csv",testSpgi:"System:AppData/Bio/tests/SPGI-derived.csv",testUrl:"System:AppData/Bio/tests/testUrl.csv",fasta_negative_words:"System:AppData/Bio/tests/fasta_negative_words.csv"},s={};function m(e,t=p){return async()=>(e in s||(s[e]=(async()=>await t(r[e]))().catch(t=>{throw delete s[e],t})),s[e])}async function p(t){const n=await a.dapi.files.readAsText(t);return e.DataFrame.fromCsv(n)}const f=t=>async()=>{const n=o[t],i=e.DataFrame.fromCsv(n);return await a.data.detectSemanticTypes(i),i};(0,t.t6)("NegativeStartEnd",async()=>{await T(["START","END"])}),(0,t.t6)("NegativeStartEndIntermediate",async()=>{await T(["START","END","INTERMEDIATE"])}),(0,t.t6)("FastaDna1",async()=>{await d(f("csvFastaDna1"),"seq",n,l.Hi.FASTA,"SEQ",l.YI.DNA,4,!1)}),(0,t.t6)("FastaRna1",async()=>{await d(f("fastaRna1"),"seq",n,l.Hi.FASTA,"SEQ",l.YI.RNA,4,!1)}),(0,t.t6)("FastaPt1",async()=>{await d(f("fastaPt1"),"seq",n,l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)}),(0,t.t6)("FastaPtGaps",()=>C(["FW-PH-EYY","FYNRQWYV-","FKP-Q-SEYV"],n,l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)),(0,t.t6)("FastaPtGapsMsa",()=>C(["FW-PH-EYY","FYNRQWYV-","FKP-Q-SEY"],n,l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1)),(0,t.t6)("FastaUn",async()=>{await d(f("fastaUn"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.UN,12,!0)}),(0,t.t6)("FastaMsaDna1",async()=>{await d(f("fastaMsaDna1"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.DNA,4,!1)}),(0,t.t6)("FastaMsaPt1",async()=>{await d(f("fastaMsaPt1"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1)}),(0,t.t6)("SepDna",async()=>{await d(f("sepDna"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.DNA,4,!1,"*")}),(0,t.t6)("SepRna",async()=>{await d(f("sepRna"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.RNA,4,!1,"*")}),(0,t.t6)("SepPt",async()=>{await d(f("sepPt"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.PT,20,!1,"-")}),(0,t.t6)("SepUn1",async()=>{await d(f("sepUn1"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.UN,8,!0,"-")}),(0,t.t6)("SepUn2",async()=>{await d(f("sepUn2"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.UN,9,!0,"/")}),(0,t.t6)("SepMsaN1",async()=>{await d(f("sepMsaDna1"),"seq",n,l.Hi.SEPARATOR,"SEQ.MSA",l.YI.DNA,4,!1,"-")}),(0,t.t6)("SepMsaUnWEmpty",async()=>{await d(f("sepMsaUnWEmpty"),"seq",n,l.Hi.SEPARATOR,"SEQ.MSA",l.YI.UN,14,!0)}),(0,t.t6)("SepComplex",async()=>{await d(f("sepComplex"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.UN,17,!0)}),(0,t.t6)("samplesFastaCsv",async()=>{await A(m("fastaCsv"),{Sequence:new u(l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)},n)});for(const e of b)(0,t.t6)(e.name,async()=>{await g(e.seqs,n,e.negative)});(0,t.t6)("samplesPeptidesComplex",async()=>{await A(m("peptidesComplex"),{},n)}),(0,t.t6)("samplesMsaComplex",async()=>{await A(m("msaComplex"),{MSA:new u(l.Hi.SEPARATOR,"SEQ.MSA",l.YI.UN,161,!0,"/")},n)}),(0,t.t6)("samplesIdCsv",async()=>{await A(m("testIdCsv"),{},n)}),(0,t.t6)("samplesSarSmallCsv",async()=>{await A(m("testSmilesCsv"),{},n)}),(0,t.t6)("samplesHelmCsv",async()=>{await A(m("helmCsv"),{HELM:new u(l.Hi.HELM,null,null,160,!0)},n)}),(0,t.t6)("samplesTestHelmCsv",async()=>{await A(m("testHelmCsv"),{"HELM string":new u(l.Hi.HELM,null,null,9,!0)},n)}),(0,t.t6)("samplesTestDemogCsv",async()=>{await A(m("testDemogCsv"),{},n)}),(0,t.t6)("samplesTestSmiles2Csv",async()=>{await A(m("testSmiles2Csv"),{},n)}),(0,t.t6)("samplesTestSmilesShort",async()=>{await A(m("testSmilesShort"),{},n)}),(0,t.t6)("samplesTestActivityCliffsNegativeSmiles",async()=>{await A(m("testActivityCliffsCsv"),{},n)}),(0,t.t6)("samplesFastaPtCsv",async()=>{await A(m("fastaPtCsv"),{sequence:new u(l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)},n)}),(0,t.t6)("samplesTestCerealCsv",async()=>{await A(m("testCerealCsv"),{},n)}),(0,t.t6)("samplesTestUnichemSources",async()=>{await A(m("testUnichemSources"),{},n)}),(0,t.t6)("samplesTestDmvOffices",async()=>{await A(m("testDmvOffices"),{},n)}),(0,t.t6)("samplesTestAlertCollection",async()=>{await A(m("testAlertCollection"),{},n)}),(0,t.t6)("samplesTestSpgi",async()=>{await A(m("testSpgi"),{},n)}),(0,t.t6)("samplesTestSpgi100",async()=>{await A(m("testSpgi100"),{},n)}),(0,t.t6)("samplesTestUrl",async()=>{await A(m("testUrl"),{},n)}),(0,t.t6)("samplesFastaNegativeWords",async()=>{await A(m("fasta_negative_words"),{},n)})}),(0,t.L1)("detectors.weak-and-likely",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i={fastaDnaWeak1:"id,colName\n1,TTTTTTTTTT\n2,TTTTTTTTTT\n3,TTTTTTTTTT\n4,TTTTTTTTTT",fastaDnaWeak1LikelyName:"id,seq\n1,TTTTTTT\n2,TTTTTTT\n3,TTTTTTT\n4,TTTTTTT",fastaRnaWeak1:"id,colName\n1,UUUUUUUUUU\n2,UUUUUUUUUU\n3,UUUUUUUUUU\n4,UUUUUUUUUU",fastaRnaWeak1LikelyName:"id,seq\n1,UUUUUUU\n2,UUUUUUU\n3,UUUUUUU\n4,UUUUUUU",fastaPtWeak1:"id,colName\n1,SLSLSPGKSLSLSPGK\n2,SLSLSPGKSLSLSPGK\n3,SLSLSPGKSLSLSPGK\n4,SLSLSPGKSLSLSPGK",fastaPtWeak1LikelyName:"id,seq\n1,SLSLSPGKSLSLSPGK\n2,SLSLSPGKSLSLSPGK\n3,SLSLSPGKSLSLSPGK\n4,SLSLSPGKSLSLSPGK",fastaUn1:"id,colName\n1,word\n2,other\n3,some\n4,another",fastaUn1LikelyName:"id,seq\n1,word\n2,other\n3,some\n4,another",fastaUn2LikelyName:'protein\nBoombastic\nMegafantastic\n"just-a-random-thought,oy!"',fastaUnMsa1LikelyName:"id,seq\n1,word\n2,male\n3,bare\n4,core"},o=t=>async()=>{const n=i[t],o=e.DataFrame.fromCsv(n);return await a.data.detectSemanticTypes(o),o};(0,t.t6)("fastaDnaWeak1",async()=>{await h(o("fastaDnaWeak1"),"colName")}),(0,t.t6)("fastaDnaWeak1LikelyName",async()=>{await d(o("fastaDnaWeak1LikelyName"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.DNA,4,!1)}),(0,t.t6)("fastaRnaWeak1",async()=>{await h(o("fastaRnaWeak1"),"colName")}),(0,t.t6)("fastaRnaWeak1LikelyName",async()=>{await d(o("fastaRnaWeak1LikelyName"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.RNA,4,!1)}),(0,t.t6)("fastaPtWeak1",async()=>{await h(o("fastaPtWeak1"),"colName")}),(0,t.t6)("fastaPtWeak1LikelyName",async()=>{await d(o("fastaPtWeak1LikelyName"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1)}),(0,t.t6)("fastaUn1",async()=>{await h(o("fastaUn1"),"colName")}),(0,t.t6)("fastaUn1LikelyName",async()=>{await h(o("fastaUn1LikelyName"),"seq")}),(0,t.t6)("fastaUn2LikelyName",async()=>{await h(o("fastaUn2LikelyName"),"protein")}),(0,t.t6)("fastaUnMsa1LikelyName",async()=>{await h(o("fastaUnMsa1LikelyName"),"seq")})}),(0,t.L1)("detectorsBenchmark",()=>{let n,i;async function o(o,s,a,c,u,h){return await async function(o){const d=await(async()=>{const t=function(t,n,i,o,r){let s;switch(t){case l.Hi.FASTA:s=e=>{let t="";for(let n=0;n<e.length;n++){const i=e[n];t+=1==i.length?i:`[${i}]`}return t};break;case l.Hi.SEPARATOR:s=(e,t)=>e.join(t);break;default:throw new Error(`Not supported notation '${t}'.`)}const a=(e,t)=>{const n=new Array(t);for(let i=0;i<t;i++)n[i]=e[Math.floor(Math.random()*e.length)];return s(n,r)},c=Array(o);for(let e=0;e<o;e++)c[e]=a(n,i);return e.Column.fromStrings("seq",c)}(s,[...(0,l.Qf)(a)],c,u,h),n=i.prepare({col:t});return r(n),n})(),m=Date.now(),p=r(d),g=Date.now();(function(e,i){const o=n.getSeqHandler(e);(0,t.E3)(e.semType===i.semType,!0),(0,t.E3)(o.notation===i.notation,!0),(0,t.E3)(o.alphabet===i.alphabet,!0),(0,t.E3)(o.separator===i.separator,!0)})(p,{semType:e.SEMTYPE.MACROMOLECULE,notation:s,alphabet:a,separator:h});const f=g-m;if(f>o){const e=`ET ${f} ms is more than max allowed ${o} ms.`;throw console.error(e),new Error(e)}return console.log(`ET ${f} ms is OK.`),f}(o)}function r(e){e.callSync();const t=e.getOutputParamValue(),n=e.inputs.col;return t&&(n.semType=t),n}(0,t.gM)(async()=>{n=await(0,c.Q)();const t=e.Func.find({package:"Bio",name:"detectMacromolecule"});i=t[0];const o=e.Column.fromStrings("seq",["ACGT","ACGT","ACGT"]);await i.prepare({col:o}).call()}),(0,t.t6)("fastaDnaShorts50Few50",async()=>{await o(20,l.Hi.FASTA,l.YI.DNA,50,50)}),(0,t.t6)("fastaDnaShorts50Many1E6",async()=>{await o(20,l.Hi.FASTA,l.YI.DNA,50,1e6)}),(0,t.t6)("fastaDnaLong1e6Few50",async()=>{await o(20,l.Hi.FASTA,l.YI.DNA,1e6,50)}),(0,t.t6)("separatorDnaShorts50Few50",async()=>{await o(20,l.Hi.SEPARATOR,l.YI.DNA,50,50,"/")}),(0,t.t6)("separatorDnaShorts50Many1E6",async()=>{await o(20,l.Hi.SEPARATOR,l.YI.DNA,50,1e6,"/")}),(0,t.t6)("separatorDnaLong1e6Few50",async()=>{await o(20,l.Hi.SEPARATOR,l.YI.DNA,1e6,50,"/")})});var E=n(608),S=n(1619);async function M(n,i){const o=e.DataFrame.fromCsv(n);await a.data.detectSemanticTypes(o);const r=e.DataFrame.fromCsv(i),s=o.getCol("seq");(0,t.E3)(s.semType,e.SEMTYPE.MACROMOLECULE);const l=r.getCol("seq"),c=await(0,E.eE)(o,s,!0);(0,t.J6)(c.toList(),l.toList())}(0,t.L1)("MSA",async()=>{let n;async function i(i,o,r,s,c,u){const h=e.DataFrame.fromCsv(i);await a.data.detectSemanticTypes(h);const d=e.DataFrame.fromCsv(o).getCol("seq"),m=h.getCol("seq");(0,t.E3)(m.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(m.meta.units,r),c&&(0,t.E3)(m.getTag(l.gp.alphabet),c);const p=await(0,S.D)({col:m,pepsea:{method:u}},n);(0,t.E3)(p.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(p.meta.units,s),(0,t.E3)(p.getTag(l.gp.aligned),"SEQ.MSA"),c&&(0,t.E3)(p.getTag(l.gp.alphabet),c),(0,t.J6)(p.toList(),d.toList())}(0,t.gM)(async()=>{n=await(0,c.Q)()}),(0,t.t6)("isCorrect",async()=>{await M("seq\nFWRWYVKHP\nYNRWYVKHP\nMWRSWYCKHP","seq\nFWR-WYVKHP\nYNR-WYVKHP\nMWRSWYCKHP")}),(0,t.t6)("isCorrectLong",async()=>{await M("seq\nFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHP\nYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHP\nMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHP","seq\nFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHP\nYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHP\nMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHP")}),(0,t.t6)("isCorrectHelm",async()=>{await i("seq\n PEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2}$$$$\n PEPTIDE1{meI.Aca.N.T.dE.Thr_PO3H2}$$$$\n PEPTIDE1{hHis.Aca.N.T.dE.Thr_PO3H2}$$$$","seq\n meI.hHis.Aca.N.T.dE.Thr_PO3H2\n .meI.Aca.N.T.dE.Thr_PO3H2\n .hHis.Aca.N.T.dE.Thr_PO3H2",l.Hi.HELM,l.Hi.SEPARATOR,void 0,"mafft")},{timeout:8e4,skipReason:"Fails in docker"}),(0,t.t6)("isCorrectHelmLong",async()=>{await i("seq\n PEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.dV.E.N.D-Orn.D-aThr.Phe_4Me.Thr_PO3H2}$$$$\n PEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Tyr_PO3H2.D-Chg.dV.Phe_ab-dehydro.N.D-Orn.D-aThr.Phe_4Me}$$$$\n PEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me}$$$$","seq\n meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.dV.E.N.D-Orn.D-aThr.Phe_4Me.Thr_PO3H2\n meI.hHis.Aca.Cys_SEt.T.dK..Tyr_PO3H2.D-Chg.dV.Phe_ab-dehydro.N.D-Orn.D-aThr.Phe_4Me.\n Lys_Boc.hHis.Aca.Cys_SEt.T.dK..Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me.",l.Hi.HELM,l.Hi.SEPARATOR,void 0,"mafft")},{timeout:8e4,skipReason:"Fails in docker"}),(0,t.t6)("isCorrectSeparator",async()=>{await i("seq\n F-W-P-H-E-Y\n Y-N-R-Q-W-Y-V\n M-K-P-S-E-Y-V","seq\n FWPHEY-\n YNRQWYV\n MKPSEYV",l.Hi.SEPARATOR,l.Hi.FASTA,l.YI.PT)}),(0,t.t6)("isCorrectSeparatorLong",async()=>{await i("seq\n M-I-E-V-F-L-F-G-I-V-L-G-L-I-P-I-T-L-A-G-L-F-V-T-A-Y-L-Q-Y-R-R-G-D-Q-L-D-L\n M-M-E-L-V-L-K-T-I-I-G-P-I-V-V-G-V-V-L-R-I-V-D-K-W-L-N-K-D-K\n M-D-R-T-D-E-V-S-N-H-T-H-D-K-P-T-L-T-W-F-E-E-I-F-E-E-Y-H-S-P-F-H-N","seq\n MIEV-FLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL\n MMEL-VLKTII-GPIVVGVVLRIVDKWLNKDK------\n MDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN-----",l.Hi.SEPARATOR,l.Hi.FASTA,l.YI.PT)})});var P=n(1991),_=n.n(P),I=n(7278),L=n(4971);function x(e){return(t=e)&&void 0!==t.onRendered&&void 0!==t.invalidate&&void 0!==t.awaitRendered?e:null;var t}var N=n(6642);async function R(t){const n=await async function(e){return await Le.files.readAsText(e)}(t),i=e.DataFrame.fromCsv(n);return i.name=t.replace(".csv",""),i}async function $(e,n=5e3){await(0,t.cb)(0),await(0,t.PE)(e.onAfterDrawContent,()=>{},()=>{e.invalidate()},n);const i=e.columns.length;for(let t=0;t<i;++t){const n=e.columns.byIndex(t);if(n){const t=e.cell(n.name,0),[i,o,r]=(0,N.BG)(t),s=x(r.rendererBack);s&&await s.awaitRendered()}}}var H=n(4139),O=n(4356);async function D(e,n){const i=(0,l.J9)(e);console.debug(`Bio: tests: splitters: src=${JSON.stringify(e)}, res=${JSON.stringify(i)} .`),(0,t.J6)(_().count(0).take(i.length).map(e=>i.getOriginal(e)).toArray(),n)}async function k(e,n){const i=(0,I.qp)(e);console.debug(`Bio: tests: splitters: src=${JSON.stringify(e)}, res=${JSON.stringify(i)} .`),(0,t.J6)(_().count(0).take(i.length).map(e=>i.getOriginal(e)).toArray(),n)}(0,t.L1)("splitters",async()=>{(0,t.gM)(async()=>{}),(0,t.Pl)(async()=>{});const e=["M[MeI]YKETLL[MeF]PKTDFPMRGGL[MeA]",["M","MeI","Y","K","E","T","L","L","MeF","P","K","T","D","F","P","M","R","G","G","L","MeA"]],n=["[meI][Pip][dK][Thr_PO3H2][L-hArg(Et,Et)][D-Tyr_Et][Tyr_ab-dehydroMe][dV]EN[D-Orn][D-aThr][Phe_4Me]",["meI","Pip","dK","Thr_PO3H2","L-hArg(Et,Et)","D-Tyr_Et","Tyr_ab-dehydroMe","dV","E","N","D-Orn","D-aThr","Phe_4Me"]],i=["PEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.Tyr_ab-dehydroMe.dV.E.N.D-Orn.D-aThr.Phe_4Me}$$$",["meI","hHis","Aca","N","T","dE","Thr_PO3H2","Aca","D-Tyr_Et","Tyr_ab-dehydroMe","dV","E","N","D-Orn","D-aThr","Phe_4Me"]],o=["PEPTIDE1{meI.hHis.Aca.N.T.dK.Thr_PO3H2.Aca.D-Tyr_Et.D-Dap.dV.E.N.pnG.Phe_4Me}$$$",["meI","hHis","Aca","N","T","dK","Thr_PO3H2","Aca","D-Tyr_Et","D-Dap","dV","E","N","pnG","Phe_4Me"]],r=["PEPTIDE1{[meI].[hHis].[Aca].N.T.[dK].[Thr_PO3H2].[Aca].[D-Tyr_Et].[D-Dap].[dV].E.N.[pnG].[Phe_4Me]}$$$",["meI","hHis","Aca","N","T","dK","Thr_PO3H2","Aca","D-Tyr_Et","D-Dap","dV","E","N","pnG","Phe_4Me"]],s=["RNA1{R(U)P.R(T)P.R(G)P.R(C)P.R(A)}$$$$",["R(U)P","R(T)P","R(G)P","R(C)P","R(A)"]],a=["RNA1{P.R(U)P.R(T)}$$$$",["P","R(U)P","R(T)"]],l=["RNA1{P.R(U).P.R(T)}$$$$",["P","R(U)","P","R(T)"]];(0,t.t6)("fastaMulti",async()=>{await D(e[0],e[1])}),(0,t.t6)("fastaFromHelm",async()=>{await D(n[0],n[1])}),(0,t.t6)("helm1",async()=>{await k(i[0],i[1])}),(0,t.t6)("helm2",async()=>{await k(o[0],o[1])}),(0,t.t6)("helm3-multichar",async()=>{await k(r[0],r[1])}),(0,t.t6)("testHelm1",async()=>{await k(s[0],s[1])}),(0,t.t6)("testHelm2",async()=>{await k(a[0],a[1])}),(0,t.t6)("testHelm3",async()=>{await k(l[0],l[1])})}),(0,t.L1)("splitters",()=>{let n,i,o;(0,t.gM)(async()=>{n=await(0,c.Q)(),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)}),(0,t.t6)("splitToMonomers",async()=>{const e=await a.dapi.files.readCsv("System:AppData/Bio/samples/MSA.csv"),n=e.getCol("MSA"),i=await a.functions.call("Bio:detectMacromolecule",{col:n});i&&(n.semType=i),n.setTag(l.gp.aligned,H.gN);const o=await a.functions.call("Bio:splitToMonomersTopMenu",{table:e,sequence:n});(0,t.E3)(o.columns.names().includes("17"),!0),await a.data.detectSemanticTypes(o);const r=a.shell.addTableView(o);await $(r.grid),(0,t.E3)(r.grid.dataFrame.id,e.id)}),(0,t.t6)("getHelmMonomers",async()=>{const t=e.DataFrame.fromCsv("HELM,Activity\nPEPTIDE1{hHis.N.T}$$$,5.30751\nPEPTIDE1{hHis.Aca.Cys_SEt}$$$,5.72388\n");await a.data.detectSemanticTypes(t);const n=["hHis","Aca","Cys_SEt","N","T"],i=t.getCol("HELM"),o=await a.functions.call("Bio:getHelmMonomers",{sequence:i}),r=n.filter(e=>!o.includes(e)),s=o.filter(e=>!n.includes(e));if(r.length>0||s.length){const e=[];throw r.length>0&&e.push(`Missed monomers ${JSON.stringify(r)}.`),s.length>0&&e.push(`Unexpected monomers ${JSON.stringify(s)}.`),new Error(e.join(" "))}})});var F=n(8604);(0,t.L1)("monomerLibraries",()=>{let e,n=null;(0,t.gM)(async()=>{e=await(0,L.pj)(),n=(0,O.u)()}),(0,t.Pl)(async()=>{await(0,O.E)(n)}),(0,t.t6)("default",async()=>{await(0,O.E)({exclude:[],explicit:[],duplicateMonomerPreferences:{}}),await e.loadMonomerLib(!0);const n=e.getMonomerLib();(0,t.E3)(n.getPolymerTypes().length>0,!0)}),(0,t.t6)("forTests",async()=>{await e.loadMonomerLibForTests(),function(e,n){const i=n,o=e.getSummaryObj();for(const e in i)i[e]||delete i[e];for(const e in o)o[e]||delete o[e];if(0==Object.keys(i).length&&0!=Object.keys(o).length)throw new Error("Expected empty monomer lib, actual is not.");if(0!=Object.keys(i).length&&0==Object.keys(o).length)throw new Error("Expected non-empty monomer lib, actual is empty.");try{(0,t.Xk)(o,i),(0,t.Xk)(i,o)}catch(e){throw new Error(`Expected monomer lib ${JSON.stringify(i)} does not match actual ${JSON.stringify(o)}.`)}}(e.getMonomerLib(),F.V)}),(0,t.t6)("empty",async()=>{const n=await(0,O.u)();let i=await e.getAvaliableLibraryNames();0===i.length&&(await e.refreshValidLibraryLists(),i=await e.getAvaliableLibraryNames()),n.exclude=i,n.explicit=[],await(0,O.E)(n),await e.loadMonomerLib(!0);const o=e.getMonomerLib().getPolymerTypes();(0,t.E3)(0===o.length,!0)}),(0,t.t6)("override",async()=>{const n={symbol:"over1",name:"Test override monomer 1",molfile:"",author:"Test Author",id:0,rgroups:[],smiles:"",polymerType:"PEPTIDE",monomerType:"Backbone",createDate:null},i=e.getMonomerLib(),o=i.getMonomer(n.polymerType,n.symbol);(0,t.E3)(null==o,!0,`Unexpectedly found monomer '${n.symbol}' `);const r=i.override({[n.polymerType]:{[n.symbol]:n}},"test").getMonomer(n.polymerType,n.symbol);r&&(r.lib=void 0),(0,t.Xk)(r,n)})});var G=n(7389),B=n(1757),V=n.n(B),U=n(1858),W=n(6873),q=n(5433);async function Y(n,i){const o=n(),r=e.DataFrame.fromColumns(o);await a.data.detectSemanticTypes(r);const s=Date.now(),l=(r.columns.byName("MSA"),a.shell.addTableView(r));await $(l.grid),(0,t.E3)(l.grid.dataFrame.id,r.id);const c=Date.now()-s;console.log(`Performance test: ${i}: ${c}ms`)}(0,t.L1)("renderers",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()}),(0,t.t6)("long sequence performance ",async()=>{await Y(()=>(0,W.dW)(1e4),"Long sequences")}),(0,t.t6)("many sequence performance",async()=>{await Y(W.fD,"Many sequences")}),(0,t.t6)("rendererMacromoleculeFasta",async()=>{await async function(){const n=await a.dapi.files.readAsText("System:AppData/Bio/samples/FASTA.csv"),i=e.DataFrame.fromCsv(n),o=i.getCol("Sequence"),r=await a.functions.call("Bio:detectMacromolecule",{col:o});r&&(o.semType=r);const s=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await $(s.grid),(0,t.E3)(s.grid.dataFrame.id,i.id);const l=o.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(l,"sequence")}()}),(0,t.t6)("rendererMacromoleculeSeparator",async()=>{await async function(){const n=await a.dapi.files.readAsText("System:AppData/Bio/samples/SEPARATOR_PT.csv"),i=e.DataFrame.fromCsv(n),o=i.getCol("sequence"),r=await a.functions.call("Bio:detectMacromolecule",{col:o});r&&(o.semType=r);const s=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await $(s.grid),(0,t.E3)(s.grid.dataFrame.id,i.id);const l=o.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(l,"sequence")}()}),(0,t.t6)("rendererMacromoleculeDifference",async()=>{await async function(){const n=e.Column.fromStrings("SequencesDiff",["meI/hHis/Aca/N/T/dK/Thr_PO3H2/Aca#D-Tyr_Et/Tyr_ab-dehydroMe/meN/E/N/dV"]);n.meta.units=l.Hi.SEPARATOR,n.setTag(l.gp.separator,"/"),n.setTag(l.gp.aligned,"SEQ"),n.setTag(l.gp.alphabet,"UN"),n.setTag(l.gp.alphabetIsMultichar,"true"),n.semType=H.uF.MACROMOLECULE_DIFFERENCE;const i=e.DataFrame.fromColumns([n]),o=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await $(o.grid),(0,t.E3)(o.grid.dataFrame.id,i.id);const r=n.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(r,H.uF.MACROMOLECULE_DIFFERENCE)}()}),(0,t.t6)("afterMsa",async()=>{await async function(){const i=await a.dapi.files.readAsText("System:AppData/Bio/samples/FASTA.fasta"),o=(await a.functions.call("Bio:importFasta",{fileContent:i}))[0],r=o.getCol("sequence"),s=await a.functions.call("Bio:detectMacromolecule",{col:r});s&&(r.semType=s);const c=a.shell.addTableView(o);await a.data.detectSemanticTypes(o),console.log("Bio: tests/renderers/afterMsa, table view"),await $(c.grid),(0,t.E3)(c.grid.dataFrame.id,o.id),console.log(`Bio: tests/renderers/afterMsa, src before test semType="${r.semType}", units="${r.meta.units}", cell.renderer="${r.getTag(e.TAGS.CELL_RENDERER)}"`),(0,t.E3)(r.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(r.meta.units,l.Hi.FASTA),(0,t.E3)(r.getTag(l.gp.aligned),"SEQ"),(0,t.E3)(r.getTag(l.gp.alphabet),l.YI.PT),(0,t.E3)(r.getTag(e.TAGS.CELL_RENDERER),"sequence");const u=await(0,S.D)({col:r},n);await $(c.grid),(0,t.E3)(c.grid.dataFrame.id,o.id),(0,t.E3)(u.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(u.meta.units,l.Hi.FASTA),(0,t.E3)(u.getTag(l.gp.aligned),"SEQ.MSA"),(0,t.E3)(u.getTag(l.gp.alphabet),l.YI.PT),(0,t.E3)(u.getTag(e.TAGS.CELL_RENDERER),"sequence"),n.getSeqHandler(u)}()}),(0,t.t6)("afterConvert",async()=>{await async function(){const i=await a.dapi.files.readAsText("System:AppData/Bio/samples/FASTA_PT.csv"),o=e.DataFrame.fromCsv(i),r=o.getCol("sequence"),s=await a.functions.call("Bio:detectMacromolecule",{col:r});s&&(r.semType=s);const c=a.shell.addTableView(o);await a.data.detectSemanticTypes(o);const u=await(0,q.r)(r,n,l.Hi.SEPARATOR,"/");await $(c.grid),(0,t.E3)(c.grid.dataFrame.id,o.id);const h=u.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(h,"sequence"),n.getSeqHandler(u)}()}),(0,t.t6)("afterConvertToHelm",async()=>{await async function(){const i=await a.dapi.files.readCsv("System:AppData/Bio/samples/FASTA_PT.csv"),o=a.shell.addTableView(i);await $(o.grid),await i.meta.detectSemanticTypes(),await a.data.detectSemanticTypes(i);const r=i.getCol("sequence"),s=n.getSeqHandler(r).convert(l.Hi.HELM);i.columns.add(s),await $(o.grid),(0,t.E3)(s.getTag(e.TAGS.CELL_RENDERER),"helm")}()}),(0,t.t6)("selectRendererBySemType",async()=>{await async function(){const n=e.Column.fromStrings("SequencesDiff",["meI/hHis/Aca/N/T/dK/Thr_PO3H2/Aca#D-Tyr_Et/Tyr_ab-dehydroMe/meN/E/N/dV"]);n.meta.units=l.Hi.SEPARATOR,n.setTag(l.gp.separator,"/"),n.setTag(l.gp.aligned,"SEQ"),n.setTag(l.gp.alphabet,"UN"),n.setTag(l.gp.alphabetIsMultichar,"true"),n.semType=H.uF.MACROMOLECULE_DIFFERENCE;const i=e.DataFrame.fromColumns([n]);a.shell.addTableView(i),await(0,t.cb)(100);const o=n.getTag(e.TAGS.CELL_RENDERER);if("MacromoleculeDifference"!==o)throw new Error(`Units 'separator', separator '/' and semType 'MacromoleculeDifference' have been manually set on column but after df was added as table, view renderer has set to '${o}' instead of correct 'MacromoleculeDifference'.`)}()}),(0,t.t6)("scatterPlotTooltip",async()=>{await async function(){const n=e.DataFrame.fromCsv(i);n.currentRowIdx=0;const o=a.shell.addTableView(n);await n.meta.detectSemanticTypes(),await a.data.detectSemanticTypes(n);const r=n.plot.scatter({x:"x",y:"y"});o.dockManager.dock(r,e.DOCK_TYPE.RIGHT,null),await Promise.all([(0,t.PE)(r.onAfterDrawScene,()=>{},()=>{r.invalidateCanvas()},1e3),$(o.grid,500)]);const s=r.root.getBoundingClientRect(),l=r.worldToScreen(1,0),c=new MouseEvent("mousemove",{cancelable:!0,bubbles:!0,view:window,button:0,clientX:s.left+l.x,clientY:s.top+l.y}),u=V()(r.root).find("canvas").get()[0];await(0,t.PE)(e.debounce((0,U.fromEvent)(u,"mousemove"),200),()=>{Le.logger.debug(`Test: event, currentRowIdx=${n.currentRowIdx}`),(0,t.E3)(V()(G.tooltip.root).find("div table.d4-row-tooltip-table tr td canvas").length,1),(0,t.E3)(r.hitTest(l.x,l.y),1)},()=>{u.dispatchEvent(c)},500),await $(o.grid,500)}()});const i="seq,x,y\nACGGTGTCGT,0,0\nCGGTATCCCT,1,0\nCTCGGCATGC,2,0\n"});var j=n(6882);(0,t.L1)("renderers: monomerPlacer",()=>{let n,i;(0,t.gM)(async()=>{n=await(0,L.pj)(),i=await(0,O.u)(),await n.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(i),await n.loadMonomerLib(!0)});const o={splitter:{csv:"id,seq\nid1,m1-M-m3-mon4-mon5-N-T-MON8-N9\nid2,m1-mon2-m3-mon4-mon5-Num-MON8-N9\nid3,mon1-M-mon3-mon4-mon5-MON8-N9\n",testList:[{src:{row:0,x:-1},tgt:{pos:null}},{src:{row:1,x:0},tgt:{pos:null}},{src:{row:1,x:5},tgt:{pos:0}},{src:{row:1,x:6},tgt:{pos:0}},{src:{row:1,x:26},tgt:{pos:1}},{src:{row:1,x:160},tgt:{pos:6}},{src:{row:1,x:190},tgt:{pos:7}},{src:{row:2,x:140},tgt:{pos:5}},{src:{row:2,x:145},tgt:{pos:5}}]},splitterMsa:{csv:"id,seq\nid1,m1-M-m3-mon4-mon5-N-T-MON8-N9\nid2,m1-mon2-m3-mon4-mon5-Num--MON8-N9\nid3,\nid4,mon1-M-mon3-mon4-mon5---MON8-N9\n",testList:[{src:{row:0,x:-1},tgt:{pos:null}},{src:{row:1,x:0},tgt:{pos:null}},{src:{row:1,x:1},tgt:{pos:null}},{src:{row:1,x:4},tgt:{pos:null}},{src:{row:1,x:5},tgt:{pos:0}},{src:{row:1,x:37},tgt:{pos:0}},{src:{row:1,x:38},tgt:{pos:1}},{src:{row:1,x:170},tgt:{pos:5}},{src:{row:1,x:200},tgt:{pos:5}},{src:{row:2,x:20},tgt:{pos:null}},{src:{row:3,x:170},tgt:{pos:5}},{src:{row:3,x:200},tgt:{pos:5}},{src:{row:3,x:297},tgt:{pos:null}}]},fastaMsa:{csv:"id,seq\nid1,QQYNIYPLT\nid2,QQWSSFPYT\nid3,\nid3,QHIRE--LT\n",testList:[{src:{row:1,x:-1},tgt:{pos:null}},{src:{row:1,x:0},tgt:{pos:null}},{src:{row:1,x:1},tgt:{pos:null}},{src:{row:1,x:19},tgt:{pos:0}},{src:{row:1,x:170},tgt:{pos:8}},{src:{row:1,x:171},tgt:{pos:8}},{src:{row:2,x:5},tgt:{pos:null}},{src:{row:3,x:170},tgt:{pos:8}},{src:{row:3,x:181},tgt:{pos:null}}]}};for(const[n,i]of Object.entries(o))(0,t.t6)(`getPosition-${n}`,async()=>{const t=e.DataFrame.fromCsv(i.csv);await a.data.detectSemanticTypes(t);const n=t.getCol("seq"),o=new j.Jy(null,n,Le.logger,3,()=>({font:"12px monospace",fontCharWidth:7,separatorWidth:12,monomerToShort:l.zS}));await o.init();const r=i.testList;for(let e=0;e<n.length;++e)o.getCellMonomerLengths(e,1e4);const s=[];for(const[e,t]of _().enumerate(r)){const t={pos:o.getPosition(e.src.row,e.src.x,1e4)};e.tgt.pos!=t.pos&&s.push(`Test src ${JSON.stringify(e.src)} expected tgt ${JSON.stringify(e.tgt)}, but get ${JSON.stringify({res:t})}`)}if(s.length>0)throw new Error("Test failed error(s):\n"+s.join(", \n"))});const r=[10,20,30,40,50,60],s={left:{x:3,tgt:null},c0left:{x:10,tgt:0},c0mid:{x:12,tgt:0},c0right:{x:19,tgt:0},c1left:{x:20,tgt:1},c2right:{x:39,tgt:2},c4left:{x:50,tgt:4},c4right:{x:59,tgt:4},max:{x:60,tgt:null},right:{x:65,tgt:null}};for(const[e,n]of Object.entries(s))(0,t.t6)("hitBounds-"+e,async()=>{const e=(0,j.Bb)(r,n.x);(0,t.E3)(e,n.tgt)});const c={mono1:{src:{csv:"seq\nm1/m2/m3/m4/m5/m6/m7/m8/m9\nn1/m2/n3/m4/n5/m6/n7/m8/n9\nm1/n2/m3/n4/m5/n6/m7/n8/m9\n"},tgt:{lengths:[5,31,57,83,109,135,161,187,213,239]}},monoWithGaps:{src:{csv:"seq\nm1/m2/m3/m4/m5/m6//m8/m9\nn1/m2/n3/m4/n5/m6//m8/n9\nm1/n2/m3/n4/m5/n6/m7/n8/m9\n"},tgt:{lengths:[5,31,57,83,109,135,161,187,213,239]}},monoWithGapColumn:{src:{csv:"seq\nm1/m2/m3/m4/m5/m6//m8/m9\nn1/m2/n3/m4/n5/m6//m8/n9\nm1/n2/m3/n4/m5///n8/m9\n"},tgt:{lengths:[5,31,57,83,109,135,161,180,206,232]}}};for(const[n,i]of Object.entries(c))(0,t.t6)(`getCellMonomerLengths-${n}`,async()=>{const n=e.DataFrame.fromCsv(i.src.csv);await a.data.detectSemanticTypes(n);const o=n.getCol("seq"),r=new j.Jy(null,o,Le.logger,3,()=>({fontCharWidth:7,font:"12px monospace",separatorWidth:12,monomerToShort:l.zS}));await r.init();const s=r.getCellMonomerLengths(0,1e3)[1];(0,t.J6)(s,i.tgt.lengths)})}),(0,t.L1)("converters",()=>{let n,i;(0,t.gM)(async()=>{n=await(0,c.Q)()}),function(e){e.fastaPt="fastaPt",e.separatorPt="separatorPt",e.helmPt="helmPt",e.fastaDna="fastaDna",e.separatorDna="separatorDna",e.helmDna="helmDna",e.fastaRna="fastaRna",e.separatorRna="separatorRna",e.helmRna="helmRna",e.fastaGaps="fastaGaps",e.separatorGaps="separatorGaps",e.helmGaps="helmGaps",e.fastaUn="fastaUn",e.separatorUn="separatorUn",e.helmUn="helmUn",e.helmLoneDeoxyribose="helmLoneDeoxyribose",e.helmLoneRibose="helmLoneRibose",e.helmLonePhosphorus="helmLonePhosphorus",e.fastaLoneDeoxyribose="fastaLoneDeoxyribose",e.fastaLoneRibose="fastaLoneRibose",e.fastaLonePhosphorus="fastaLonePhosphorus"}(i||(i={}));const o={[i.fastaPt]:"seq\nFWPHEYFWPHEY\nYNRQWYVYNRQWYV\nMKPSEYVMKPSEYV",[i.separatorPt]:"seq\nF-W-P-H-E-Y-F-W-P-H-E-Y\nY-N-R-Q-W-Y-V-Y-N-R-Q-W-Y-V\nM-K-P-S-E-Y-V-M-K-P-S-E-Y-V",[i.helmPt]:"seq\nPEPTIDE1{F.W.P.H.E.Y.F.W.P.H.E.Y}$$$$\nPEPTIDE1{Y.N.R.Q.W.Y.V.Y.N.R.Q.W.Y.V}$$$$\nPEPTIDE1{M.K.P.S.E.Y.V.M.K.P.S.E.Y.V}$$$$",[i.fastaDna]:"seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC",[i.separatorDna]:"seq\nA/C/G/T/C/A/C/G/T/C\nC/A/G/T/G/T/C/A/G/T/G/T\nT/T/C/A/A/C/T/T/C/A/A/C",[i.helmDna]:"seq\nRNA1{d(A)p.d(C)p.d(G)p.d(T)p.d(C)p.d(A)p.d(C)p.d(G)p.d(T)p.d(C)p}$$$$\nRNA1{d(C)p.d(A)p.d(G)p.d(T)p.d(G)p.d(T)p.d(C)p.d(A)p.d(G)p.d(T)p.d(G)p.d(T)p}$$$$\nRNA1{d(T)p.d(T)p.d(C)p.d(A)p.d(A)p.d(C)p.d(T)p.d(T)p.d(C)p.d(A)p.d(A)p.d(C)p}$$$$",[i.fastaRna]:"seq\nACGUCACGUC\nCAGUGUCAGUGU\nUUCAACUUCAAC",[i.separatorRna]:"seq\nA*C*G*U*C*A*C*G*U*C\nC*A*G*U*G*U*C*A*G*U*G*U\nU*U*C*A*A*C*U*U*C*A*A*C",[i.helmRna]:"seq\nRNA1{r(A)p.r(C)p.r(G)p.r(U)p.r(C)p.r(A)p.r(C)p.r(G)p.r(U)p.r(C)p}$$$$\nRNA1{r(C)p.r(A)p.r(G)p.r(U)p.r(G)p.r(U)p.r(C)p.r(A)p.r(G)p.r(U)p.r(G)p.r(U)p}$$$$\nRNA1{r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p.r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p}$$$$",[i.fastaGaps]:"seq\nFW-PH-EYYFW-PH-EYY\nFYNRQWYV-FYNRQWYV-\nFKP-Q-SEYVFKP-Q-SEYV",[i.separatorGaps]:"seq\nF/W//P/H//E/Y/Y/F/W//P/H//E/Y/Y\nF/Y/N/R/Q/W/Y/V//F/Y/N/R/Q/W/Y/V/\nF/K/P//Q//S/E/Y/V/F/K/P//Q//S/E/Y/V",[i.helmGaps]:"seq\nPEPTIDE1{F.W.*.P.H.*.E.Y.Y.F.W.*.P.H.*.E.Y.Y}$$$$\nPEPTIDE1{F.Y.N.R.Q.W.Y.V.*.F.Y.N.R.Q.W.Y.V.*}$$$$\nPEPTIDE1{F.K.P.*.Q.*.S.E.Y.V.F.K.P.*.Q.*.S.E.Y.V}$$$$",[i.fastaUn]:"seq\n[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D\n[meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2]\n[Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca]",[i.separatorUn]:"seq\nmeI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D-meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D\nmeI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2\nLys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca",[i.helmUn]:"seq\nPEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D.meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2}$$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca}$$$$",[i.helmLoneDeoxyribose]:"seq\nRNA1{d(A).d(C).d(G).d(T).d(C).d(A).d(C).d(G).d(T).d(C)}$$$$\nRNA1{d(C).d(A).d(G).d(T).d(G).d(T)p.d(C).d(A).d(G).d(T).d(G).d(T)p}$$$$\nRNA1{d(T).d(T).d(C).d(A).d(A).d(C)p.d(T).d(T).d(C).d(A).d(A).d(C)p}$$$$",[i.helmLoneRibose]:"seq\nRNA1{r(A).r(C).r(G).r(U).r(C).r(A).r(C).r(G).r(U).r(C)}$$$$\nRNA1{r(C).r(A).r(G).r(U).r(G).r(U)p.r(C).r(A).r(G).r(U).r(G).r(U)p}$$$$\nRNA1{r(U).r(U).r(C).r(A).r(A).r(C)p.r(U).r(U).r(C).r(A).r(A).r(C)p}$$$$",[i.helmLonePhosphorus]:"seq\nRNA1{p.p.r(A)p.r(C)p.r(G)p.r(U)p.r(C)p.r(A)p.r(C)p.r(G)p.r(U)p.r(C)p}$$$$\nRNA1{p.p.r(C)p.r(A)p.p.r(G)p.r(U)p.r(G)p.r(U)p.r(C)p.r(A)p.p.r(G)p.r(U)p.r(G)p.r(U)p}$$$$\nRNA1{p.r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p.r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p.p.p}$$$$"},r=new Set(Object.values(l.gp));async function s(t){const n=o[t],i=e.DataFrame.fromCsv(n);return await a.data.detectSemanticTypes(i),i}function u(e,i){if(e===l.Hi.SEPARATOR&&!i)throw new Error(`Argument 'separator' is mandatory for target notation '${e.toString()}'.`);return function(o){const r=n.getSeqHandler(o).convert(e,i);return(0,t.E3)(r.meta.units,e),r}}async function h(e,i,o){const a=(await s(e)).getCol("seq"),c=i(a),u=(await s(o)).getCol("seq");(0,t.J6)(c.toList(),u.toList());const h=n.getSeqHandler(a),d=n.getSeqHandler(c);for(const[e,n]of Object.entries(u.tags)){if(!r.has(e)||h.notation===l.Hi.HELM&&[l.gp.alphabet,l.gp.alphabetIsMultichar].includes(e)||d.notation===l.Hi.HELM&&[l.gp.alphabet,l.gp.alphabetIsMultichar].includes(e))continue;const i=c.getTag(e);(0,t.E3)(i,n,`Tag '${e}' expected value '${n}' is not equal to actual '${i}'.`)}}(0,t.t6)("testFastaPtToSeparator",async()=>{await h(i.fastaPt,u(l.Hi.SEPARATOR,"-"),i.separatorPt)}),(0,t.t6)("testFastaDnaToSeparator",async()=>{await h(i.fastaDna,u(l.Hi.SEPARATOR,"/"),i.separatorDna)}),(0,t.t6)("testFastaRnaToSeparator",async()=>{await h(i.fastaRna,u(l.Hi.SEPARATOR,"*"),i.separatorRna)}),(0,t.t6)("testFastaGapsToSeparator",async()=>{await h(i.fastaGaps,u(l.Hi.SEPARATOR,"/"),i.separatorGaps)}),(0,t.t6)("testFastaUnToSeparator",async()=>{await h(i.fastaUn,u(l.Hi.SEPARATOR,"-"),i.separatorUn)}),(0,t.t6)("testFastaPtToHelm",async()=>{await h(i.fastaPt,u(l.Hi.HELM),i.helmPt)}),(0,t.t6)("testFastaDnaToHelm",async()=>{await h(i.fastaDna,u(l.Hi.HELM),i.helmDna)}),(0,t.t6)("testFastaRnaToHelm",async()=>{await h(i.fastaRna,u(l.Hi.HELM),i.helmRna)}),(0,t.t6)("testFastaGapsToHelm",async()=>{await h(i.fastaGaps,u(l.Hi.HELM),i.helmGaps)}),(0,t.t6)("testSeparatorPtToFasta",async()=>{await h(i.separatorPt,u(l.Hi.FASTA),i.fastaPt)}),(0,t.t6)("testSeparatorDnaToFasta",async()=>{await h(i.separatorDna,u(l.Hi.FASTA),i.fastaDna)}),(0,t.t6)("testSeparatorRnaToFasta",async()=>{await h(i.separatorRna,u(l.Hi.FASTA),i.fastaRna)}),(0,t.t6)("testSeparatorGapsToFasta",async()=>{await h(i.separatorGaps,u(l.Hi.FASTA),i.fastaGaps)}),(0,t.t6)("testSeparatorUnToFasta",async()=>{await h(i.separatorUn,u(l.Hi.FASTA),i.fastaUn)}),(0,t.t6)("testSeparatorPtToHelm",async()=>{await h(i.separatorPt,u(l.Hi.HELM),i.helmPt)}),(0,t.t6)("testSeparatorDnaToHelm",async()=>{await h(i.separatorDna,u(l.Hi.HELM),i.helmDna)}),(0,t.t6)("testSeparatorRnaToHelm",async()=>{await h(i.separatorRna,u(l.Hi.HELM),i.helmRna)}),(0,t.t6)("testSeparatorGapsToHelm",async()=>{await h(i.separatorGaps,u(l.Hi.HELM),i.helmGaps)}),(0,t.t6)("testHelmDnaToFasta",async()=>{await h(i.helmDna,u(l.Hi.FASTA),i.fastaDna)}),(0,t.t6)("testHelmRnaToFasta",async()=>{await h(i.helmRna,u(l.Hi.FASTA),i.fastaRna)}),(0,t.t6)("testHelmPtToFasta",async()=>{await h(i.helmPt,u(l.Hi.FASTA),i.fastaPt)}),(0,t.t6)("testHelmUnToFasta",async()=>{await h(i.helmUn,u(l.Hi.FASTA),i.fastaUn)}),(0,t.t6)("testHelmDnaToSeparator",async()=>{await h(i.helmDna,u(l.Hi.SEPARATOR,"/"),i.separatorDna)}),(0,t.t6)("testHelmRnaToSeparator",async()=>{await h(i.helmRna,u(l.Hi.SEPARATOR,"*"),i.separatorRna)}),(0,t.t6)("testHelmPtToSeparator",async()=>{await h(i.helmPt,u(l.Hi.SEPARATOR,"-"),i.separatorPt)}),(0,t.t6)("testHelmUnToSeparator",async()=>{await h(i.helmUn,u(l.Hi.SEPARATOR,"-"),i.separatorUn)}),(0,t.t6)("testHelmLoneRibose",async()=>{await h(i.helmLoneRibose,u(l.Hi.FASTA),i.fastaRna)}),(0,t.t6)("testHelmLoneDeoxyribose",async()=>{await h(i.helmLoneDeoxyribose,u(l.Hi.SEPARATOR,"/"),i.separatorDna)}),(0,t.t6)("testHelmLonePhosphorus",async()=>{await h(i.helmLonePhosphorus,u(l.Hi.FASTA),i.fastaRna)});for(const e of w)(0,t.t6)(`testBilnToHelm_${e.name}`,async()=>{await f(e.biln,e.helm,n)});for(const e of v)(0,t.t6)(`testHelmToBiln_${e.name}`,async()=>{await y(e.helm,e.biln,n)})});var K=n(3516);(0,t.L1)("fastaFileHandler",()=>{const n=["description:1","description:2","description:3","description:4"],i=(e.Column.fromStrings("description",n),["MDYKETLLMPKTDFPMRGGLPNKEPQIQEKW","MIEVFLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL","MMELVLKTIIGPIVVGVVLRIVDKWLNKDK","MDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN"]);function o(e){const o=new K.m(e),r=o.descriptionsArray,s=o.sequencesArray;(0,t.J6)([r,s],[n,i])}(0,t.t6)("testNormalFormatting",async()=>{o(">description:1\nMDYKETLLMPKTDFPMRGGLPNKEPQIQEKW\n\n>description:2\nMIEVFLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL\n\n>description:3\nMMELVLKTIIGPIVVGVVLRIVDKWLNKDK\n\n>description:4\nMDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN\n")}),(0,t.t6)("testExtraSpaces",async()=>{o(">description:1\n MDYKETLLMPKTDFPMRGGLPNKEPQIQEKW\n\n>description:2\nMI EVF LFGIVLGLI PITLAGLFVTAY LQYRRGDQLDL\n\n>description:3\nM MELVLKTI IGPI VVGVVLR IVDKWLNKDK\n\n>description:4\nMDR TDEVSNHTHDKP TLTWFEEIFEEYHSPFHN\n ")}),(0,t.t6)("testExtraNewlines",async()=>{o(">description:1\n\nMDYKETLLMPKTDFPMRGGLPNKEPQIQEKW\n\n>description:2\nMIEVF\nLFGIVLGLI\nPITLAGLFVTA\nYLQYRRGDQLDL\n\n>description:3\nM\nME\n\nLVLKTIIG\n\nPIVVGVVLRI\nVDKWLNKDK\n\n\n>description:4\n\nMDRT\n\nDEVSNHTHDKP\n\nTLTWFEEIFEE\n\n\n\nYHSPFHN\n")})});var z=n(3890);(0,t.L1)("fastaExport",()=>{let n,i;(0,t.gM)(async()=>{n=await(0,c.Q)()}),function(e){e.single="single",e.multi="multi"}(i||(i={}));const o={[i.single]:{src:"MDYKETLLMPKTDFPMRGGLP",tgt:["MDYKETLLMP","KTDFPMRGGL","P"]},[i.multi]:{src:"M[MeI]YKETLL[MeF]PKTDFPMRGGL[MeA]",tgt:["M[MeI]YKETLL[MeF]P","KTDFPMRGGL","[MeA]"]}};let r;!function(e){e.test1="test1",e.test2="test2"}(r||(r={}));const s={[r.test1]:{srcCsv:"id,seq\n1,MDYKETLLMP\n2,KTDFPMRGGL\n3,P",idCols:["id"],seqCol:"seq",lineWidth:10,tgtFasta:">1\nMDYKETLLMP\n>2\nKTDFPMRGGL\n>3\nP\n"},[r.test2]:{srcCsv:"id,id2,seq\n1,seqA,M[MeI]YKETLL[MeF]P\n2,seqB,KTDFPMRGGL\n3,seqC,[MeA]\n",idCols:["id2","id"],seqCol:"seq",lineWidth:5,tgtFasta:">seqA|1\nM[MeI]YKE\nTLL[MeF]P\n>seqB|2\nKTDFP\nMRGGL\n>seqC|3\n[MeA]\n"}};function a(i,r=10){const s=o[i].src,a=e.Column.fromStrings("src",[s]);a.semType=e.SEMTYPE.MACROMOLECULE,a.meta.units=l.Hi.FASTA;const c=n.getSeqHandler(a).getSplitted(0),u=(0,z.aS)(c,r),h=o[i].tgt;(0,t.J6)(u,h)}async function u(i){const o=e.DataFrame.fromCsv(i.srcCsv),r=o.getCol(i.seqCol);r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=l.Hi.FASTA;const s=i.idCols.map(e=>o.getCol(e)),a=n.getSeqHandler(r),c=(0,z.wz)(s,a,i.lineWidth);(0,t.E3)(c,i.tgtFasta)}(0,t.t6)("wrapSequenceSingle",async()=>{a(i.single,10)}),(0,t.t6)("wrapSequenceMulti",async()=>{a(i.multi,10)}),(0,t.t6)("saveAsFastaTest1",async()=>{u(s[r.test1])}),(0,t.t6)("saveAsFastaTest2",async()=>{u(s[r.test2])})});var Z=n(4152),X=n(439);const J=X._S;(0,t.L1)("bio",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i="seq\nACGTCT\nCAGTGT\nTTCAAC";(0,t.t6)("testGetStatsHelm1",async()=>{const n=e.DataFrame.fromCsv("seq\nPEPTIDE1{meI}$$$$").getCol("seq");n.semType=e.SEMTYPE.MACROMOLECULE,n.meta.units=l.Hi.HELM;const i=(0,I.vZ)(n,1,l.qp);(0,t.Xk)(i.freq,{meI:1}),(0,t.E3)(i.sameLength,!0)}),(0,t.t6)("testGetStatsN1",async()=>{await function(n){const i=e.DataFrame.fromCsv(n).col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const o=(0,I.vZ)(i,5,l.J9);(0,t.Xk)(o.freq,{A:4,C:5,G:3,T:6}),(0,t.E3)(o.sameLength,!0)}(i)}),(0,t.t6)("testGetAlphabetSimilarity",async()=>{await async function(){const e={A:2041,C:3015,G:3015,T:2048,[J]:1e3},n=new Set(Object.keys(s.Q.Names)),i=(0,l.nq)(e,n);(0,t.E3)(i>.6,!0)}()}),(0,t.t6)("testPickupPaletteN1",async()=>{await async function(i){const o=e.DataFrame.fromCsv(i).col("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA;const r=(0,l.SM)(o,n);(0,t.E3)(r instanceof s.A,!0)}(i)}),(0,t.t6)("testPickupPaletteN1e",async()=>{await async function(){const i=e.DataFrame.fromCsv("seq\nACGTAT\nCAGTTG\nTTCG2C").col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const o=(0,l.SM)(i,n);(0,t.E3)(o instanceof s.A,!0)}()}),(0,t.t6)("testPickupPaletteAA1",async()=>{await async function(){const i=e.DataFrame.fromCsv("seq\nFWPHEYV\nYNRQWYV\nMKPSEYV").col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const r=(0,l.SM)(i,n);(0,t.E3)(r instanceof o.X,!0)}()}),(0,t.t6)("testPickupPaletteX",async()=>{await async function(){const i=e.DataFrame.fromCsv("seq\nXZJ{}2\n5Z4733\n3Z6></\n675687").col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const o=(0,l.SM)(i,n);(0,t.E3)(o instanceof Z.$u,!0)}()})}),(0,t.L1)("WebLogo.monomerToShort",()=>{(0,t.t6)("longMonomerSingle",async()=>{(0,t.E3)((0,l.zS)("S",5),"S")}),(0,t.t6)("longMonomerShort",async()=>{(0,t.E3)((0,l.zS)("Short",5),"Short")}),(0,t.t6)("longMonomerLong56",async()=>{(0,t.E3)((0,l.zS)("Long56",6),"Long56")}),(0,t.t6)("longMonomerComplexFirstPartShort",async()=>{(0,t.E3)((0,l.zS)("Long-long",5),"Long…")}),(0,t.t6)("longMonomerComplexFirstPartLong56",async()=>{(0,t.E3)((0,l.zS)("Long56-long",6),"Long5…")}),(0,t.t6)("monomerToShort",async()=>{const e=[["AbC","AbC"],["AbCd","Ab…"],["ABc","ABc"],["ABcd","AB…"],["A_b","A_b"],["A_bc","A…"],["Ab_c","Ab…"],["A1_b","A1…"],["Abc_d","Ab…"],["Abcd_e","Ab…"],["A-b","A-b"],["A-bc","A…"],["Ab-c","Ab…"],["A1-b","A1…"],["Abc-d","Ab…"],["Abcd-e","Ab…"],["A","A"],["Ab","Ab"],["Abc","Abc"],["Ab…","Ab…"],["Abcd","Ab…"],["Abcde","Ab…"]],n=e.map(e=>e[0]),i=e.map(e=>e[1]),o=n.map(e=>(0,l.zS)(e,3));(0,t.J6)(o,i)})});var Q=n(250);const ee=X._S;function te(e,n){(0,t.E3)(e.name,n.name),(0,t.J6)(e.getMonomers(),n.getMonomers());for(const i of e.getMonomers())(0,t.E3)(e.getFreq(i).rowCount,n.getFreq(i).rowCount)}(0,t.L1)("WebLogo.positions",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i="seq\nATC-G-TTGC--\nATC-G-TTGC--\n-TC-G-TTGC--\n-TC-GCTTGC--\n-TC-GCTTGC--";(0,t.t6)("allPositions",async()=>{const n=e.DataFrame.fromCsv(i),o=a.shell.addTableView(n),r=n.getCol("seq");r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=l.Hi.FASTA,r.setTag(l.gp.alphabet,l.YI.DNA),r.setTag(l.gp.aligned,"SEQ.MSA");const s=await n.plot.fromType("WebLogo");await(0,t.PE)(s.onLayoutCalculated,()=>{},()=>{o.dockManager.dock(s.root,e.DOCK_TYPE.DOWN)},500,"Layout calculate timeout");const c=s.positions,u=[new Q.Ue(0,"1",{A:new Q.Tc(2),[ee]:new Q.Tc(3)}),new Q.Ue(1,"2",{T:new Q.Tc(5)}),new Q.Ue(2,"3",{C:new Q.Tc(5)}),new Q.Ue(3,"4",{[ee]:new Q.Tc(5)}),new Q.Ue(4,"5",{G:new Q.Tc(5)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(3),C:new Q.Tc(2)}),new Q.Ue(6,"7",{T:new Q.Tc(5)}),new Q.Ue(7,"8",{T:new Q.Tc(5)}),new Q.Ue(8,"9",{G:new Q.Tc(5)}),new Q.Ue(9,"10",{C:new Q.Tc(5)}),new Q.Ue(10,"11",{[ee]:new Q.Tc(5)}),new Q.Ue(11,"12",{[ee]:new Q.Tc(5)})];(0,t.E3)(c.length,u.length);for(let e=0;e<c.length;e++){(0,t.E3)(c[e].name,u[e].name);for(const n of c[e].getMonomers())(0,t.E3)(c[e].getFreq(n).rowCount,u[e].getFreq(n).rowCount)}await s.awaitRendered()}),(0,t.t6)("positions with shrinkEmptyTail option true (filtered)",async()=>{const n=e.DataFrame.fromCsv("seq\n-TC-G-TTGC--\n-TC-GCTTGC--\n-T--C-GT-\n-T--C-GT-\n-T--C-GT-\n-T--CCGT-"),i=a.shell.addTableView(n),o=n.getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,l.YI.DNA),o.setTag(l.gp.aligned,"SEQ"),n.filter.init(e=>e>2),n.filter.fireChanged();const r=await n.plot.fromType("WebLogo",{shrinkEmptyTail:!0});await(0,t.PE)(r.onLayoutCalculated,()=>{},()=>{i.dockManager.dock(r.root,e.DOCK_TYPE.DOWN)},500);const s=r.positions,c=[new Q.Ue(0,"1",{[ee]:new Q.Tc(3)}),new Q.Ue(1,"2",{T:new Q.Tc(3)}),new Q.Ue(2,"3",{[ee]:new Q.Tc(3)}),new Q.Ue(3,"4",{[ee]:new Q.Tc(3)}),new Q.Ue(4,"5",{C:new Q.Tc(3)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(2),C:new Q.Tc(1)}),new Q.Ue(6,"7",{G:new Q.Tc(3)}),new Q.Ue(7,"8",{T:new Q.Tc(3)}),new Q.Ue(8,"9",{[ee]:new Q.Tc(3)})];(0,t.E3)(s.length,c.length);for(let e=0;e<s.length;e++){(0,t.E3)(s[e].name,c[e].name);for(const n of s[e].getMonomers())(0,t.E3)(s[e].getFreq(n).rowCount,c[e].getFreq(n).rowCount)}await r.awaitRendered()}),(0,t.t6)("positions with skipEmptyPositions option",async()=>{const n=e.DataFrame.fromCsv(i),o=a.shell.addTableView(n),r=n.getCol("seq");r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=l.Hi.FASTA,r.setTag(l.gp.alphabet,l.YI.DNA),r.setTag(l.gp.aligned,"SEQ.MSA");const s=await n.plot.fromType("WebLogo",{skipEmptyPositions:!0});await(0,t.PE)(s.onLayoutCalculated,()=>{},()=>{o.dockManager.dock(s.root,e.DOCK_TYPE.DOWN)},500);const c=s.positions,u=[new Q.Ue(0,"1",{A:new Q.Tc(2),[ee]:new Q.Tc(3)}),new Q.Ue(1,"2",{T:new Q.Tc(5)}),new Q.Ue(2,"3",{C:new Q.Tc(5)}),new Q.Ue(4,"5",{G:new Q.Tc(5)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(3),C:new Q.Tc(2)}),new Q.Ue(6,"7",{T:new Q.Tc(5)}),new Q.Ue(7,"8",{T:new Q.Tc(5)}),new Q.Ue(8,"9",{G:new Q.Tc(5)}),new Q.Ue(9,"10",{C:new Q.Tc(5)})];(0,t.E3)(c.length,u.length);for(let e=0;e<c.length;e++)te(c[e],u[e]);await s.awaitRendered()}),(0,t.t6)("count sequences for monomer at position",async()=>{const o=function(t,n,i){const o=e.DataFrame.fromCsv(t),r=o.getCol("seq");return r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=n,r.setTag(l.gp.alphabet,i),r.setTag(l.gp.aligned,"SEQ.MSA"),o}(i,l.Hi.FASTA,l.YI.DNA),r=o.getCol("seq"),s=a.shell.addTableView(o),c=await o.plot.fromType("WebLogo",{startPositionName:"3",endPositionName:"7",skipEmptyPositions:!0});await(0,t.PE)(c.onLayoutCalculated,()=>{},()=>{s.dockManager.dock(c.root,e.DOCK_TYPE.DOWN)},500);const u=c.positions,h=[new Q.Ue(2,"3",{C:new Q.Tc(5)}),new Q.Ue(4,"5",{G:new Q.Tc(5)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(3),C:new Q.Tc(2)}),new Q.Ue(6,"7",{T:new Q.Tc(5)})];(0,t.E3)(u.length,h.length);for(let e=0;e<u.length;e++)te(u[e],h[e]);const d=u[1],m=n.getSeqHandler(r),p=(0,Q.eN)(o,m,o.filter,"G",d);(0,t.E3)(p,5),await c.awaitRendered()}),(0,t.t6)("empty",async()=>{const n=e.DataFrame.fromColumns([(()=>{const t=e.Column.fromStrings("seq",[]);return t.semType=e.SEMTYPE.MACROMOLECULE,t.meta.units=l.Hi.FASTA,t.setTag(l.gp.alphabet,l.YI.DNA),t})()]),i=a.shell.addTableView(n),o=await n.plot.fromType("WebLogo");await(0,t.PE)(o.onLayoutCalculated,()=>{},()=>{i.dockManager.dock(o.root,e.DOCK_TYPE.DOWN)},500),o.positions,await o.awaitRendered()})}),(0,t.L1)("WebLogo.project",()=>{(0,t.t6)("fasta",async()=>{const n="Tests.Bio.WebLogo-project.fasta",i=await Le.files.readCsv("tests/filter_FASTA.csv"),o=i.name,r=i.getCol("fasta");await a.data.detectSemanticTypes(i);const s=a.shell.addTableView(i),l=await i.plot.fromType("WebLogo",{sequenceColumnName:r.name});s.dockManager.dock(l),await l.awaitRendered(),await $(s.grid),await async function(t,n,i,o){const r=e.Project.create(),s=i.saveLayout();r.name=t,r.addChild(n),r.addChild(s),await a.dapi.layouts.save(i.saveLayout()),await a.dapi.tables.uploadDataFrame(o),await a.dapi.tables.save(n),await a.dapi.projects.save(r)}(n,i.getTableInfo(),s,i),a.shell.closeAll(),await(0,t.cb)(500),await a.dapi.projects.open(n);const c=a.shell.getTableView(o),u=_()(c.viewers).toArray();(0,t.E3)(u.length,2),(0,t.E3)(u.filter(e=>"Grid"===e.type).length,1);const h=u.find(e=>"WebLogo"===e.type);(0,t.E3)(!!h,!0),await $(s.grid),await h.awaitRendered()},{skipReason:"depends on 1.18"})}),(0,t.L1)("WebLogo.layout",()=>{(0,t.t6)("fasta",async()=>{const e=await Le.files.readCsv("tests/filter_FASTA.csv"),n=e.getCol("fasta");await a.data.detectSemanticTypes(e);const i=a.shell.addTableView(e),o=await e.plot.fromType("WebLogo",{sequenceColumnName:n.name});i.dockManager.dock(o),await(0,t.cb)(2*Q.VN.render),await o.awaitRendered(),await $(i.grid);const r=i.saveLayout();r.toJson(),i.loadLayout(r),await(0,t.cb)(2*Q.VN.render),await o.awaitRendered(),await $(i.grid);const s=_()(i.viewers).toArray();(0,t.E3)(s.length,2),(0,t.E3)(s.filter(e=>"Grid"===e.type).length,1),(0,t.E3)(s.filter(e=>"WebLogo"===e.type).length,1)})});var ne=n(966);function ie(e,t){let n=null;for(const i of e.viewers)i.type===t&&(n=i);return n}(0,t.L1)("checkInputColumn",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i="seq\nseq1,\nseq2,\nseq3,\nseq4";(0,t.t6)("testMsaPos",async()=>{const o=e.DataFrame.fromCsv(i).getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,l.YI.DNA),o.setTag(l.gp.aligned,"SEQ");const[r,s]=(0,ne.l)(o,"Test",n,[l.Hi.FASTA],[l.YI.DNA,l.YI.RNA,l.YI.PT]);(0,t.E3)(r,!0)}),(0,t.t6)("testMsaNegHelm",async()=>{const o=e.DataFrame.fromCsv(i).getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.HELM,o.setTag(l.gp.alphabetIsMultichar,"true");const[r,s]=(0,ne.l)(o,"Test",n,[l.Hi.FASTA],[l.YI.DNA,l.YI.RNA,l.YI.PT]);(0,t.E3)(r,!1)}),(0,t.t6)("testMsaNegUN",async()=>{const o=e.DataFrame.fromCsv(i).getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,"UN"),o.setTag(l.gp.alphabetSize,"11"),o.setTag(l.gp.alphabetIsMultichar,"true"),o.setTag(l.gp.aligned,"SEQ");const[r,s]=(0,ne.l)(o,"Test",n,[l.Hi.FASTA],[l.YI.DNA,l.YI.RNA,l.YI.PT]);(0,t.E3)(r,!1)}),(0,t.t6)("testGetActionFunctionMeta",async()=>{e.Func.find({package:"Bio",name:"multipleSequenceAlignmentDialog"})[0].inputs.find(e=>"sequence"==e.name)})}),(0,t.L1)("similarity/diversity",async()=>{(0,t.t6)("similaritySearchViewer",async()=>{await async function(){const n=await Le.files.readAsText("tests/sample_MSA_data.csv"),i=e.DataFrame.fromCsv(n);await a.data.detectSemanticTypes(i);const o=a.shell.addTableView(i),r=o.dataFrame.getCol("MSA");(0,t.E3)(r.semType,e.SEMTYPE.MACROMOLECULE);const s=await o.dataFrame.plot.fromType("Sequence Similarity Search");let l=!1;if(s.computeCompleted.subscribe(e=>{e&&(l=!0)}),o.dockManager.dock(s,e.DOCK_TYPE.RIGHT,null,"Similarity"),await s.renderPromise,await(0,t.bk)(()=>void 0!==ie(o,"Sequence Similarity Search"),"Sequence Similarity Search viewer has not been created",100),!s.initialized)throw new Error("The viewer is not initialized.");if(!s.targetColumn)throw new Error("The viewer has not molecule column (onTableAttached).");if(!s.beforeRender())throw new Error("The viewer is not able to render.");if(!s.computeRequested)throw new Error("The viewer has not compute requested even.");if(!l)throw new Error("The viewer has not compute completed.");const c=s;await(0,t.bk)(()=>0!==c.root.getElementsByClassName("d4-grid").length,"Sequence Similarity Search viewer grid has not been created",100);(0,t.E3)(c.fingerprint,"Morgan"),(0,t.E3)(c.distanceMetric,"Hamming"),(0,t.E3)(c.scores.get(0),e.FLOAT_NULL),(0,t.E3)(c.idxs.get(0),0),(0,t.E3)(c.molCol.get(0),"D-Tyr_Et/Tyr_ab-dehydroMe/dV/E/N/D-Orn/D-aThr//Phe_4Me"),(0,t.E3)(c.scores.get(1).toFixed(2),"0.10"),(0,t.E3)(c.idxs.get(1),7),(0,t.E3)(c.molCol.get(1),"/D-Tyr_Et/meQ/dV/E/N/dV///Phe_4Me"),o.dataFrame.currentRowIdx=1,await(0,t.bk)(()=>1===c.targetMoleculeIdx,"Target molecule has not been changed",5e3),await(0,t.bk)(()=>"meI/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Phe_ab-dehydro/N/D-Orn/D-aThr//Phe_4Me"===c.molCol.get(0),"Incorrect first similar molecule",5e3)}()}),(0,t.t6)("diversitySearchViewer",async()=>{await async function(){const n=await Le.files.readAsText("tests/sample_MSA_data.csv"),i=e.DataFrame.fromCsv(n),o=a.shell.addTableView(i);await a.data.detectSemanticTypes(i);const r=o.dataFrame.getCol("MSA");(0,t.E3)(r.semType,e.SEMTYPE.MACROMOLECULE);const s=await o.dataFrame.plot.fromType("Sequence Diversity Search");let l=!1;if(s.computeCompleted.subscribe(e=>{e&&(l=!0)}),o.dockManager.dock(s,e.DOCK_TYPE.DOWN,null,"Diversity"),await s.renderPromise,await(0,t.bk)(()=>void 0!==ie(o,"Sequence Diversity Search"),"Sequence Diversity Search viewer has not been created",100),!s.initialized)throw new Error("The viewer is not initialized.");if(!s.targetColumn)throw new Error("The viewer has not molecule column (onTableAttached).");if(!s.beforeRender())throw new Error("The viewer is not able to render.");if(!s.computeRequested)throw new Error("The viewer has not compute requested even.");if(!l)throw new Error("The viewer has not compute completed.");const c=s;await(0,t.bk)(()=>0!==c.root.getElementsByClassName("d4-grid").length,"Sequence Diversity Search viewer grid has not been created",100),(0,t.E3)(c.fingerprint,"Morgan"),(0,t.E3)(c.distanceMetric,"Hamming"),(0,t.E3)(c.initialized,!0),(0,t.E3)(c.renderMolIds.length>0,!0)}()})});var oe=n(1687),re=n(4574);(0,t.L1)("bio-substructure-filters",async()=>{let n,i,o;async function r(e,t){if(!t.columns.names().includes(e))throw new Error(`The column '${e}' not found. Available in data frame are ${JSON.stringify(t.columns.names())}`);const i=new oe._i(n,Le.logger);return i.attach(t),i.applyState({columnName:e}),i.column=t.col(e),i.columnName=e,i}(0,t.gM)(async()=>{n=await(0,c.Q)(),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)}),(0,t.t6)("fasta",async()=>{const e=await R("tests/filter_FASTA.csv");await a.data.detectSemanticTypes(e);const i=new oe._i(n,Le.logger);i.attach(e),await i.awaitRendered();try{(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(i.bioFilter.type,"FastaBioFilter");const n=i.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new re.n("MD",void 0,Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,3),(0,t.E3)(i.dataFrame?.filter.toBinaryString(),"10010000100000")}finally{i.detach()}await i.awaitRendered()}),(0,t.t6)("separator",async()=>{const e=await R("tests/filter_MSA.csv"),i=new oe._i(n,Le.logger);await a.data.detectSemanticTypes(e),i.attach(e),await i.awaitRendered();try{(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(i.bioFilter.type,"SeparatorBioFilter");const n=i.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new oe.AR("meI",void 0,Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,7),(0,t.E3)(i.dataFrame.filter.get(2),!1),await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new oe.AR("/meI",void 0,Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,0),await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new oe.AR("meI-hHis","-",Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,7),(0,t.E3)(i.dataFrame.filter.get(2),!1)}finally{i.detach()}await i.awaitRendered()}),(0,t.t6)("helm-dialog",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e="Bio tests: substructureFilters/helm-dialog",i=await R("tests/filter_HELM.csv"),o=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await i.meta.detectSemanticTypes(),Le.logger.debug(`${e}, filter attaching.`);const r=new oe._i(n,Le.logger);r.attach(i);const s=G.dialog("Test filters").add(r.root).show();await r.awaitRendered();try{const n=r.bioFilter;(0,t.E3)(null!==r.bioFilter,!0,"bioFilter is not created"),Le.logger.debug(`${e}, filter 1 change awaiting...`),await(0,t.PE)(i.onRowsFiltered,()=>{},()=>{n.props=new re.n("PEPTIDE1{A.C}$$$$V2.0",void 0,Le.logger)},2e4),Le.logger.debug(`${e}, filter 1 changed.`),(0,t.E3)(r.dataFrame.filter.trueCount,1),(0,t.E3)(r.dataFrame.filter.toBinaryString(),"0001"),Le.logger.debug(`${e}, filter 2 change awaiting...`),await(0,t.PE)(i.onRowsFiltered,()=>{},()=>{n.props=new re.n("PEPTIDE1{C}$$$$V2.0",void 0,Le.logger)},2e4),setTimeout(()=>o.grid.invalidate(),500),await $(o.grid),await(0,t.cb)(1e3),Le.logger.debug(`${e}, filter 2 changed.`),(0,t.E3)(r.dataFrame.filter.trueCount,2),(0,t.E3)(r.dataFrame.filter.toBinaryString(),"1001")}finally{s.close()}await r.awaitRendered(),await(0,t.cb)(3e3)}},{}),(0,t.t6)("helm-view",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e=await R("tests/filter_HELM.csv");e.getCol("HELM string"),await a.data.detectSemanticTypes(e);const t=a.shell.addTableView(e);t.getFiltersGroup(),await $(t.grid)}}),(0,t.t6)("sync-fasta",async()=>{const e=await Le.files.readCsv("tests/filter_FASTA.csv");await a.data.detectSemanticTypes(e);const n=await r("fasta",e),i=await r("fasta",e);await Promise.all([n.awaitRendered(),i.awaitRendered()]);try{(0,t.E3)(!!n.bioFilter,!0),(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(n.bioFilter.type,"FastaBioFilter"),(0,t.E3)(i.bioFilter.type,"FastaBioFilter");const o=n.bioFilter,r=i.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{o.props=new re.n("MD",void 0,Le.logger)},1e4,"await onRowsFiltered"),(0,t.E3)(e.filter.trueCount,3),await n.awaitRendered(),(0,t.E3)(r.props.substructure,"MD")}finally{n.detach(),i.detach()}await Promise.all([n.awaitRendered(),i.awaitRendered()])}),(0,t.t6)("sync-msa",async()=>{const e=await Le.files.readCsv("tests/filter_MSA.csv");await a.data.detectSemanticTypes(e);const n="hHis-Aca",i=await r("MSA",e),o=await r("MSA",e);await Promise.all([i.awaitRendered(),o.awaitRendered()]);try{(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(!!o.bioFilter,!0),(0,t.E3)(i.bioFilter.type,"SeparatorBioFilter"),(0,t.E3)(o.bioFilter.type,"SeparatorBioFilter");const r=i.bioFilter,s=o.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{r.props=new oe.AR(n,"-",Le.logger)},1e4,"await onRowsFiltered"),(0,t.E3)(e.filter.trueCount,8),(0,t.E3)(s.props.substructure,n),(0,t.E3)(s.props.separator,"-")}finally{i.detach(),o.detach()}await Promise.all([i.awaitRendered(),o.awaitRendered()])}),(0,t.t6)("sync-helm",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e=await Le.files.readCsv("tests/filter_HELM.csv");await a.data.detectSemanticTypes(e);const n=a.shell.addTableView(e),i="PEPTIDE1{A.C}$$$$V2.0",o=1,s=await r("HELM string",e),l=await r("HELM string",e),c=G.dialog("Test filters").add(s.root).add(l.root).show();await Promise.all([s.awaitRendered(),l.awaitRendered()]);try{(0,t.E3)(!!s.bioFilter,!0),(0,t.E3)(!!l.bioFilter,!0),(0,t.E3)(s.bioFilter.type,"HelmBioFilter"),(0,t.E3)(l.bioFilter.type,"HelmBioFilter");const r=s.bioFilter,a=l.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{r.props=new re.n(i,void 0,Le.logger)},6e4,"await onRowsFiltered"),await $(n.grid),Le.logger.debug("Bio tests: substructureFilters/sync-helm, before changed event"),await(0,t.cb)(2*s.debounceTime),Le.logger.debug("Bio tests: substructureFilters/sync-helm, after changed event"),(0,t.E3)(e.filter.trueCount,o),await s.awaitRendered(),(0,t.E3)(a.props.substructure,i)}finally{s.detach(),l.detach(),c.close()}await Promise.all([s.awaitRendered(),l.awaitRendered()]),await $(n.grid),await(0,t.cb)(3e3)}}),(0,t.t6)("two-columns-fasta",async()=>{const n=e.DataFrame.fromCsv("id,seq1,seq2,trueSeq1,trueSeq2\n0,CGGCTACGGC,ATTGCATTCG,0,1,\n1,CGGCTGCCGC,ATAGCATTCG,1,1,\n2,CGGCTGCGCC,AATGCATACG,1,0,\n3,CGGCTGCATT,TTTGCATTCG,1,1,\n4,CGGCTGCATT,AAAGCATACG,1,0,\n");await a.data.detectSemanticTypes(n);const i=a.shell.addTableView(n),o="seq1",r="CGGCTG",s=n.getCol("trueSeq1").toList(),l="seq2",c="GCATT",u=n.getCol("trueSeq2").toList(),h=[{type:"Bio:bioSubstructureFilter",columnName:o},{type:"Bio:bioSubstructureFilter",columnName:l}],d=await n.plot.fromType(e.VIEWER.FILTERS,{filters:h});i.dockManager.dock(d,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid);const m=d.filters[0],p=d.filters[1];(0,t.E3)(m.column.name,o),(0,t.E3)(p.column.name,l);const g=m.bioFilter,f=p.bioFilter;await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n(r,void 0,Le.logger)},1e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n("",void 0,Le.logger)},1e3,"testEvent onRowsFiltered on seq1"),(0,t.E3)(n.filter.trueCount,s.filter(e=>1===e).length),(0,t.E3)(n.filter.toBinaryString(),s.map(e=>e.toString()).join("")),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n("",void 0,Le.logger)},1e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n(c,void 0,Le.logger)},1e3,"testEvent onRowsFiltered on seq2"),(0,t.E3)(n.filter.trueCount,u.filter(e=>1===e).length),(0,t.E3)(n.filter.toBinaryString(),u.map(e=>e.toString()).join("")),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n("",void 0,Le.logger)},1e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n("",void 0,Le.logger)},1e3,"testEvent onRowsFiltered on neither"),(0,t.E3)(n.filter.trueCount,n.rowCount),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n(r,void 0,Le.logger)},5e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n(c,void 0,Le.logger)},5e3,"testEvent onRowsFiltered on both");const y=_().count(0).take(n.rowCount).map(e=>s[e]*u[e]).toArray();(0,t.E3)(n.filter.trueCount,y.filter(e=>1===e).length),(0,t.E3)(n.filter.toBinaryString(),y.map(e=>e.toString()).join("")),await Promise.all([m.awaitRendered(),p.awaitRendered(),$(i.grid)])},{skipReason:"Inconsistent behavior of test"}),(0,t.t6)("reset-fasta",async()=>{const n=await R("tests/filter_FASTA.csv"),i=a.shell.addTableView(n);await a.data.detectSemanticTypes(n),await n.meta.detectSemanticTypes();const o="MD",r=await n.plot.fromType(e.VIEWER.FILTERS,{filters:[{type:"Bio:bioSubstructureFilter",columnName:"fasta"}]});i.dockManager.dock(r,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid);const s=r.filters[0].bioFilter;await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{s.props=new re.n(o,void 0,Le.logger)},1e3,"testEvent onRowsFiltered"),(0,t.E3)(n.filter.trueCount,3),(0,t.E3)(s.props.substructure,o),(0,t.E3)(s.substructureInput.value,o),V()(r.root).find('i[name="icon-arrow-rotate-left"]')[0].click(),await(0,t.cb)(100),await $(i.grid),(0,t.E3)(s.props.substructure,""),(0,t.E3)(s.substructureInput.value,"")}),(0,t.t6)("reopen",async()=>{const n=await Le.files.readCsv("tests/filter_FASTA.csv"),i=a.shell.addTableView(n);await a.data.detectSemanticTypes(n),await n.meta.detectSemanticTypes();const o=[{type:"Bio:bioSubstructureFilter",columnName:"fasta"}],r=await n.plot.fromType(e.VIEWER.FILTERS,{filters:o});i.dockManager.dock(r,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid),r.close(),await $(i.grid);const s=await n.plot.fromType(e.VIEWER.FILTERS,{filters:o});i.dockManager.dock(s,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid)},{})});var se=n(8152);class ae{errorList=[];warningList=[];infoList=[];debugList=[];error(e,t,n){this.errorList.push({message:e,params:t,stackTrace:n})}warning(e,t){this.warningList.push({message:e,params:t})}info(e,t){this.infoList.push({message:e,params:t})}debug(e,t){this.debugList.push({message:e,params:t})}}var le=n(9192);(0,t.L1)("PepSeA",()=>{(0,t.t6)("Basic alignment",async()=>{const n=e.DataFrame.fromCsv('HELM,MSA\n"PEPTIDE1{F.L.R.G.W.[MeF].Y.S.N.N.C}$$$$","F.L.R.G.W.MeF.Y..S.N.N.C"\n"PEPTIDE1{F.L.R.G.Y.[MeF].Y.W.N.C}$$$$","F.L.R.G.Y.MeF.Y.W...N.C"\n"PEPTIDE1{F.G.Y.[MeF].Y.W.S.D.N.C}$$$$","F...G.Y.MeF.Y.W.S.D.N.C"\n"PEPTIDE1{F.L.R.G.Y.[MeF].Y.W.S.N.D.C}$$$$","F.L.R.G.Y.MeF.Y.W.S.N.D.C"\n"PEPTIDE1{F.V.R.G.Y.[MeF].Y.W.S.N.C}$$$$","F.V.R.G.Y.MeF.Y.W.S..N.C"\n'),i=await(0,se.GD)(n,n.getCol("HELM"),"msa(HELM)"),o=n.getCol("MSA");for(let e=0;e<i.length;++e)(0,t.E3)(i.get(e)==o.get(e),!0)},{timeout:6e4,skipReason:"Fails in docker"}),(0,t.t6)("stderr",async()=>{const n=new ae,i=e.DataFrame.fromCsv('HELM,MSA\n"PEPTIDE1{F.L.Mis.G.W.[MeF].Y.S.N.N.C}$$$$","F.L.Mis.G.W.MeF.Y..S.N.N.C"\n"PEPTIDE1{F.L.Mis.G.Y.[MeF].Y.W.N.C}$$$$","F.L.Mis.G.Y.MeF.Y...W.N.C"\n"PEPTIDE1{F.G.Y.[MeF].Y.W.S.D.N.C}$$$$","F...G.Y.MeF.Y.W.S.D.N.C"\n'),o=await(0,se.GD)(i,i.getCol("HELM"),"msa(HELM)",void 0,void 0,void 0,void 0,n),r=i.getCol("MSA");(0,t.J6)(o.toList(),r.toList()),(0,t.E3)(n.warningList[0].message,"Mis not found in Monomer Map\nMeF not found in Monomer Map\n")},{timeout:6e4,skipReason:"Fails in docker"}),(0,t.t6)("error",async()=>{const n=new ae;try{const t=e.DataFrame.fromCsv('HELM\n"PEPTIDE1{[NH2].*.A.Q.T.T.Y.K.N.Y.R.R.N.L.L.*.[COOH]}$$$$"\n"PEPTIDE1{[NH2].M.A.N.T.T.Y.K.N.Y.R.N.N.L.L.*.[COOH]}$$$$"\n"PEPTIDE1{[NH2].*.A.N.T.T.Y.K.C.Y.R.R.N.L.L.*.[COOH]}$$$$"\n"PEPTIDE1{[NH2].*.A.N.T.T.Y.K.F.Y.R.R.N.L.L.*.[COOH]}$$$$"\n');await(0,se.GD)(t,t.getCol("HELM"),"msa(HELM)",void 0,void 0,void 0,void 0,n)}catch(e){const[t,i]=(0,le.AP)(e);n.error(t,void 0,i)}(0,t.E3)(n.errorList[0].message,"PepSeA error: The pair (*,M) couldn't be found in the substitution matrix")},{skipReason:"Fails in docker"})});const ce="seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC",ue="seq\nAC-GT-CTAC-GT-CT\nCAC-T-GTCAC-T-GT\nACCGTACTACCGTACT",he="seq\nabc-dfgg-abc1-cfr3-rty-wert-abc-dfgg-abc1-cfr3-rty-wert\nrut12-her2-rty-wert-abc-abc1-dfgg-rut12-her2-rty-wert-abc-abc1-dfgg\nrut12-rty-her2-abc-cfr3-wert-rut12-rut12-rty-her2-abc-cfr3-wert-rut12";var de;(0,t.L1)("SeqHandler",()=>{let n;async function i(t){const i=e.DataFrame.fromCsv(t);await a.data.detectSemanticTypes(i);const o=n.getSeqHandler(i.getCol("seq"));return[i,o]}(0,t.gM)(async()=>{n=await(0,c.Q)()}),(0,t.t6)("Seq-Fasta",async()=>{const[e,n]=await i(ce);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!1)}),(0,t.t6)("Seq-Fasta-MSA",async()=>{const[e,n]=await i(ue);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!0)}),(0,t.t6)("Seq-Fasta-units",async()=>{const[e,n]=await i(ce);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!1)}),(0,t.t6)("Seq-Fasta-MSA-units",async()=>{const[e,n]=await i(ue);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!0)}),(0,t.t6)("Seq-Helm",async()=>{const[e,n]=await i("seq\nPEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.Tyr_ab-dehydroMe.dV.E.N.D-Orn.D-aThr.Phe_4Me}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.D-Chg.dV.Phe_ab-dehydro.N.D-Orn.D-aThr.Phe_4Me}$$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me}$$$$");(0,t.E3)(n.notation,l.Hi.HELM),(0,t.E3)(n.isHelm(),!0)}),(0,t.t6)("Seq-UN",async()=>{const[e,n]=await i(he);(0,t.E3)(n.notation,l.Hi.SEPARATOR),(0,t.E3)(n.separator,"-"),(0,t.E3)(n.alphabet,l.YI.UN)}),(0,t.t6)("Seq-UN-auto",async()=>{const[e,n]=await i(he);(0,t.E3)(n.notation,l.Hi.SEPARATOR),(0,t.E3)(n.separator,"-"),(0,t.E3)(n.alphabet,l.YI.UN)}),(0,t.t6)("column-version",async()=>{const i=e.DataFrame.fromCsv(ce);await a.data.detectSemanticTypes(i);const o=i.getCol("seq"),r=n.getSeqHandler(o),s=o.version,l=n.getSeqHandler(o),c=o.version;(0,t.E3)(s,c,"Unexpected column version changed"),(0,t.E3)(r,l,"Unexpected SeqHandler object changed"),i.rows.addNew(["TACCCCTTCAAC"]);const u=n.getSeqHandler(o),h=o.version;(0,t.E3)(c<h,!0,"Stalled column version on add row"),(0,t.E3)(l!==u,!0,"Stalled SeqHandler object on add row"),o.set(1,"CAGTGTCCCCGT");const d=n.getSeqHandler(o),m=o.version;(0,t.E3)(h<m,!0,"Stalled column version on change data"),(0,t.E3)(u!==d,!0,"Stalled SeqHandler object on change data"),o.setTag("testTag","testValue");const p=n.getSeqHandler(o),g=o.version;(0,t.E3)(m<g,!0,"Stalled column version on set tag"),(0,t.E3)(d!==p,!0,"Stalled SeqHandler object on set tag")})}),function(e){e.fasta="fasta",e.fastaMsa="fastaMsa",e.separator="separator",e.separatorMsa="separatorMsa",e.helm="helm"}(de||(de={})),(0,t.L1)("SeqHandler: splitted",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()}),X.b9[l.Hi.FASTA],X.b9[l.Hi.HELM];const i=X.b9[l.Hi.SEPARATOR],o={[de.fasta]:{src:{csv:"seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC"},tgt:{notation:l.Hi.FASTA,splitted:[["A","C","G","T","C","A","C","G","T","C"],["C","A","G","T","G","T","C","A","G","T","G","T"],["T","T","C","A","A","C","T","T","C","A","A","C"]]}},[de.fastaMsa]:{src:{csv:"seq\nAC-GT-CTAC-GT-CT\nCAC-T-GTCAC-T-GT\nACCGTACTACCGTACT"},tgt:{notation:l.Hi.FASTA,splitted:[["A","C","-","G","T","-","C","T","A","C","-","G","T","-","C","T"],["C","A","C","-","T","-","G","T","C","A","C","-","T","-","G","T"],["A","C","C","G","T","A","C","T","A","C","C","G","T","A","C","T"]]}},[de.separator]:{src:{csv:"seq\nabc-dfgg-abc1-cfr3-rty-wert-abc-dfgg-abc1-cfr3-rty-wert\nrut12-her2-rty-wert-abc-abc1-dfgg-rut12-her2-rty-wert-abc\nrut12-rty-her2-abc-cfr3-wert-rut12-rut12-rty-her2-abc-cfr3"},tgt:{notation:l.Hi.SEPARATOR,separator:"-",splitted:[["abc","dfgg","abc1","cfr3","rty","wert","abc","dfgg","abc1","cfr3","rty","wert"],["rut12","her2","rty","wert","abc","abc1","dfgg","rut12","her2","rty","wert","abc"],["rut12","rty","her2","abc","cfr3","wert","rut12","rut12","rty","her2","abc","cfr3"]]}},[de.separatorMsa]:{src:{csv:'seq\nrut0-dfgg-abc1-cfr3-rty-wert-abc-dfgg-abc1-cfr3-rty-wert\nrut1-her2-rty--abc1-dfgg-rut12-her2-rty--abc1-dfgg\nrut2-rty-her2---wert-rut12-rty-her2---wert\n"rut3-rty-her2-""-""-""-""-wert-rut12-rty-her2-""-""-""-""-wert"\n"""-""-rut4-her2-wert-rut12-rty-her2-wert"\n"rut5-rty-her2-wert-rut12-rty-her2-wert-""-"""'},tgt:{notation:l.Hi.SEPARATOR,separator:"-",splitted:[["rut0","dfgg","abc1","cfr3","rty","wert","abc","dfgg","abc1","cfr3","rty","wert"],["rut1","her2","rty",i,"abc1","dfgg","rut12","her2","rty",i,"abc1","dfgg"],["rut2","rty","her2",i,i,"wert","rut12","rty","her2",i,i,"wert"],["rut3","rty","her2",i,i,"wert","rut12","rty","her2",i,i,"wert"],[i,"rut4","her2","wert","rut12","rty","her2","wert"],["rut5","rty","her2","wert","rut12","rty","her2","wert",i]]}},[de.helm]:{src:{csv:"seq\nPEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.Thr_PO3H2.Aca.D-Tyr_Et}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.dK.Thr_PO3H2.Aca}$$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.dK.Thr_PO3H2.Aca}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.T.dK.Thr_PO3H2}$$$$,\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.T.dK}|PEPTIDE2{Thr_PO3H2}$$$$"},tgt:{notation:l.Hi.HELM,splitted:[["meI","hHis","Aca","N","T","dE","Thr_PO3H2","Aca","D-Tyr_Et","Thr_PO3H2","Aca","D-Tyr_Et"],["meI","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","Aca","dK","Thr_PO3H2","Aca"],["Lys_Boc","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","Aca","dK","Thr_PO3H2","Aca"],["meI","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","T","dK","Thr_PO3H2"],["meI","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","T","dK","Thr_PO3H2"]]}}};for(const[i,r]of Object.entries(o))(0,t.t6)(`${i}`,async()=>{const i=e.DataFrame.fromCsv(r.src.csv).getCol("seq"),o=await a.functions.call("Bio:detectMacromolecule",{col:i});o&&(i.semType=o),(0,t.E3)(i.semType,e.SEMTYPE.MACROMOLECULE);const s=n.getSeqHandler(i);(0,t.E3)(s.notation,r.tgt.notation),(0,t.E3)(s.separator===r.tgt.separator,!0);const l=_().count(0).take(s.length).map(e=>{const t=s.getSplitted(e);return _().count(0).take(t.length).map(e=>t.getOriginal(e)).toArray()}).toArray();(0,t.J6)(l,r.tgt.splitted)})}),(0,t.L1)("SeqHandler: getRegion",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i={fastaDna:{srcCsv:"seq\nATTCGT\nACTGCTC\nATTCCGTA",startIdx:2,endIdx:4,tgtCsv:"seq\nTCG\nTGC\nTCC",units:l.Hi.FASTA,alphabet:l.YI.DNA,positionNames:{tag:"a, b, c, d, e, f, g, h",start:"c",end:"e"}},separatorPt:{srcCsv:"seq\nM-D-Y-K-E-T-L\nM-I-E-V-F-L-F-G-I\nM-M-",startIdx:5,endIdx:null,tgtCsv:"seq\nT-L--\nL-F-G-I\n---",units:l.Hi.SEPARATOR,alphabet:l.YI.PT,positionNames:{tag:"1, 1A, 1B, 2, 3, 4, 4A, 4A, 4C",start:"4",end:null}},helm:{srcCsv:"seq\nPEPTIDE1{[meI].[hHis].[Aca].N.T.[dE].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].E.N.[D-Orn]}$$$$\nPEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Phe_ab-dehydro]}$$$$\nPEPTIDE1{[Lys_Boc].[hHis].[Aca].[Cys_SEt].T}$$$$",startIdx:3,endIdx:6,tgtCsv:"seq\nPEPTIDE1{N.T.[dE].[Thr_PO3H2]}$$$$\nPEPTIDE1{[Cys_SEt].T.[dK].[Thr_PO3H2]}$$$$\nPEPTIDE1{[Cys_SEt].T.*.*}$$$$",units:l.Hi.HELM,alphabet:l.YI.UN,positionNames:{tag:null,start:"4",end:"7"}}};for(const[o,r]of Object.entries(i))(0,t.t6)(`${o}-idx`,async()=>{const i=e.DataFrame.fromCsv(r.srcCsv).getCol("seq"),o=await a.functions.call("Bio:detectMacromolecule",{col:i});o&&(i.semType=o);const s=n.getSeqHandler(i).getRegion(r.startIdx,r.endIdx,"regSeq"),c=e.DataFrame.fromCsv(r.tgtCsv).getCol("seq");(0,t.E3)(i.meta.units,r.units),(0,t.E3)(s.meta.units,r.units),(0,t.E3)(i.getTag(l.gp.alphabet),r.alphabet),(0,t.E3)(s.getTag(l.gp.alphabet),r.alphabet),(0,t.J6)(s.toList(),c.toList())}),r.positionNames&&(0,t.t6)(`${o}-positionNames`,async()=>{const n=e.DataFrame.fromCsv(r.srcCsv).getCol("seq");r.positionNames.tag&&n.setTag(l.gp.positionNames,r.positionNames.tag);const i=await a.functions.call("Bio:detectMacromolecule",{col:n});i&&(n.semType=i);const o=await a.functions.call("Bio:getRegion",{sequence:n,start:r.positionNames.start,end:r.positionNames.end}),s=e.DataFrame.fromCsv(r.tgtCsv).getCol("seq");(0,t.E3)(n.meta.units,r.units),(0,t.E3)(o.meta.units,r.units),(0,t.E3)(n.getTag(l.gp.alphabet),r.alphabet),(0,t.E3)(o.getTag(l.gp.alphabet),r.alphabet),(0,t.J6)(o.toList(),s.toList())})}),(0,t.L1)("SeqHandler: getHelm",()=>{let n,i,o;(0,t.gM)(async()=>{n=await(0,c.Q)(),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)});const r={fasta:{src:{seq:"MDYKETMDYKET",notation:l.Hi.FASTA},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T.M.D.Y.K.E.T}$$$$"}},separator:{src:{seq:"M-D-Y-K-E-T-M-D-Y-K-E-T",notation:l.Hi.SEPARATOR,separator:"-"},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T.M.D.Y.K.E.T}$$$$"}},helm:{src:{seq:"PEPTIDE1{M.D.Y.K.E.T}$$$$",notation:l.Hi.HELM},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T}$$$$"}},"helm-cyclic":{src:{seq:"PEPTIDE1{M.D.Y.K.E.T}$PEPTIDE1,PEPTIDE1,6:R2-1:R1$$$V2.0",notation:l.Hi.HELM},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T}$PEPTIDE1,PEPTIDE1,6:R2-1:R1$$$V2.0"}}};for(const[e,n]of Object.entries(r))(0,t.t6)(e,async()=>{await s(n.src.seq,n.src.notation,n.src.separator,n.tgt.helm)});async function s(i,o,r,s){const l=e.Column.fromStrings("seq",[i]),c=e.DataFrame.fromColumns([l]);await a.data.detectSemanticTypes(c);const u=n.getSeqHandler(l),h=(await u.getValue(0)).helm;(0,t.E3)(h,s)}});var me=n(2582);(0,t.L1)("helm",()=>{const e={"single-linear":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz].T.[meI]}$$$$"},tgt:{simplePolymers:[6],connections:[],bondedRGroups:[1,2,2,2,2,1]}},"single-cyclized-C-2-2":{src:{helm:"PEPTIDE1{R.F.C.Y.G.H.[GGaz].C.T.[meI]}$PEPTIDE1,PEPTIDE1,3:R3-8:R3$$$"},tgt:{simplePolymers:[10],connections:[[["PEPTIDE1",3,"R3"],["PEPTIDE1",8,"R3"]]],bondedRGroups:[1,2,3,2,2,2,2,3,2,1]}},"single-cyclized-C-1-1":{src:{helm:"PEPTIDE1{F.C.Y.G.H.[GGaz].C.[meI]}$PEPTIDE1,PEPTIDE1,2:R3-7:R3$$$"},tgt:{simplePolymers:[8],connections:[[["PEPTIDE1",2,"R3"],["PEPTIDE1",7,"R3"]]],bondedRGroups:[1,3,2,2,2,1,3,1]}},"single-cyclized-C-0-0":{src:{helm:"PEPTIDE1{C.Y.G.H.[GGaz].C}$PEPTIDE1,PEPTIDE1,1:R3-6:R3$$$"},tgt:{simplePolymers:[6],connections:[[["PEPTIDE1",1,"R3"],["PEPTIDE1",6,"R3"]]],bondedRGroups:[2,2,2,2,2,2]}},"two-separated-5-1":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz].T}|PEPTIDE2{[meI]}$$$$"},tgt:{simplePolymers:[5,1],connections:[],bondedRGroups:[1,2,2,2,1,0]}},"two-separated-1-5":{src:{helm:"PEPTIDE1{[meI]}|PEPTIDE2{R.F.Y.[GGaz].T}$$$$"},tgt:{simplePolymers:[1,5],connections:[],bondedRGroups:[0,1,2,2,2,1]}},"two-separated-4-2":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz]}|PEPTIDE2{T.[meI]}$$$$"},tgt:{simplePolymers:[4,2],connections:[],bondedRGroups:[1,2,2,1,1,1]}},"two-connected-1":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz].T}|PEPTIDE2{[meI]}$PEPTIDE1,PEPTIDE2,5:R2-1:R1$$$"},tgt:{simplePolymers:[5,1],connections:[[["PEPTIDE1",5,"R2"],["PEPTIDE2",1,"R1"]]],bondedRGroups:[1,2,2,2,2,1]}},"two-connected-2":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz]}|PEPTIDE2{T.[meI]}$PEPTIDE1,PEPTIDE2,4:R2-1:R1$$$"},tgt:{simplePolymers:[4,2],connections:[[["PEPTIDE1",4,"R2"],["PEPTIDE2",1,"R1"]]],bondedRGroups:[1,2,2,2,2,1]}},"two-cyclized-1-9":{src:{helm:"PEPTIDE1{[meI]}|PEPTIDE2{R.F.[GGaz].T.G.H.F.Y.P}$PEPTIDE2,PEPTIDE2,3:R3-9:R2|PEPTIDE2,PEPTIDE1,3:R4-1:R1$$$V2.0"},tgt:{simplePolymers:[1,9],connections:[[["PEPTIDE2",3,"R3"],["PEPTIDE2",9,"R2"]],[["PEPTIDE2",3,"R4"],["PEPTIDE1",1,"R1"]]],bondedRGroups:[1,1,2,4,2,2,2,2,2,1]}}};for(const[n,{src:i,tgt:o}]of Object.entries(e))(0,t.t6)(n,async()=>{const e=new me.f(i.helm),n=e.simplePolymers.map(e=>e.monomers.length),r=n.reduce((e,t)=>e+t,0);(0,t.J6)(n,o.simplePolymers);const s=e.connectionList.getConnectionData().map(e=>[[e[0].polymerId,e[0].bond.monomerIdx+1,`R${e[0].bond.rGroupId}`],[e[1].polymerId,e[1].bond.monomerIdx+1,`R${e[1].bond.rGroupId}`]]);(0,t.J6)(s,o.connections);const a=_().count(0).take(e.bondedRGroupsMap.length).map(t=>e.bondedRGroupsMap[t].length).toArray();(0,t.E3)(r,a.length)})});var pe=n(6077),ge=n(6717);const fe=new e.FileSource("System:AppData/Bio"),ye={"peptides-fasta":{inPath:"tests/to-atomic-level-peptides-fasta-input.csv",outPath:"tests/to-atomic-level-peptides-fasta-output.csv"},"dna-fasta":{inPath:"tests/to-atomic-level-dna-fasta-input.csv",outPath:"tests/to-atomic-level-dna-fasta-output.csv"},"msa-separator":{inPath:"tests/to-atomic-level-msa-separator-input.csv",outPath:"tests/to-atomic-level-msa-separator-output.csv"},"msa-fasta":{inPath:"tests/to-atomic-level-msa-fasta-input.csv",outPath:"tests/to-atomic-level-msa-fasta-output.csv"}},be="molfile(sequence)";function we(e){return e.replaceAll("\r\n","\n").replace(/\n$/,"").split("\n").map(e=>e.trimEnd()).join("\n")}(0,t.L1)("toAtomicLevel",async()=>{const n={},i={};let o,r,s,u,h,d;async function m(e,n){const i=e.getCol("sequence");await a.functions.call("Bio:toAtomicLevel",{table:e,seqCol:i,nonlinear:!1});const o=e.getCol(be),r=n.getCol(be),s=_()(o.values()).map(e=>we(e)).toArray(),l=_()(r.values()).map(e=>we(e)).toArray();(0,t.J6)(s,l)}(0,t.gM)(async()=>{h=await(0,ge.j)(),s=await(0,c.Q)(),o=await(0,L.pj)(),r=await(0,O.u)(),await o.loadMonomerLibForTests(),u=o.getMonomerLib();for(const[t,o]of Object.entries(ye))o.inPath,n[t]=e.DataFrame.fromCsv((await fe.readAsText(o.inPath)).replace(/\n$/,"")),n[t].name=o.inPath.split("/").pop(),await a.data.detectSemanticTypes(n[t]),i[t]=e.DataFrame.fromCsv((await fe.readAsText(o.outPath)).replace(/\n$/,""))}),(0,t.Pl)(async()=>{await(0,O.E)(r),await o.loadMonomerLib(!0)});for(const[e,o]of Object.entries(ye))(0,t.t6)(`${e}`,async()=>{await m(n[e],i[e])});!function(e){e.fastaDna="fastaDna",e.fastaRna="fastaRna",e.fastaPt="fastaPt",e.fastaUn="fastaUn",e.separatorDna="separatorDna",e.separatorRna="separatorRna",e.separatorPt="separatorPt",e.separatorUn="separatorUn",e.helm="helm"}(d||(d={}));const p={[d.fastaDna]:"seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC",[d.fastaRna]:"seq\nACGUCACGUC\nCAGUGUCAGUGU\nUUCAACUUCAAC",[d.fastaPt]:"seq\nFWPHEYFWPHEY\nYNRQWYVYNRQWYV\nMKPSEYVMKPSEYV",[d.fastaUn]:"seq\n[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D\n[meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2]\n[Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2]",[d.separatorDna]:"seq\nA/C/G/T/C/A/C/G/T/C\nC/A/G/T/G/T/C/A/G/T/G/T\nT/T/C/A/A/C/T/T/C/A/A/C",[d.separatorRna]:"seq\nA*C*G*U*C*A*C*G*U*C\nC*A*G*U*G*U*C*A*G*U*G*U\nU*U*C*A*A*C*U*U*C*A*A*C",[d.separatorPt]:"seq\nF-W-P-H-E-Y-F-W-P-H-E-Y\nY-N-R-Q-W-Y-V-Y-N-R-Q-W-Y-V\nM-K-P-S-E-Y-V-M-K-P-S-E-Y-V",[d.separatorUn]:"seq\nmeI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D-meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D\nmeI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2\nLys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2",[d.helm]:"seq\nPEPTIDE1{meI.D-gGlu.Aca.N.T.dE.Thr_PO3H2.Aca.D.Thr_PO3H2.Aca.D}$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.Thr_PO3H2.Aca.Tyr_PO3H2}$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.Thr_PO3H2.Aca.Tyr_PO3H2}$$$"};async function g(t){const n=p[t],i=e.DataFrame.fromCsv(n.replace(/\n$/,""));return await a.data.detectSemanticTypes(i),i}async function f(e,t="seq",n){const i=e.getCol(t),o=await(0,pe.C4)(e,i,u,s,h);return o.warnings.length>0&&Le.logger.warning(`_toAtomicLevel() warnings ${o.warnings.join("\n")}`),o.molCol}(0,t.t6)("fastaDna",async()=>{await f(await g(d.fastaDna),"seq")}),(0,t.t6)("fastaRna",async()=>{await f(await g(d.fastaRna),"seq")}),(0,t.t6)("fastaPt",async()=>{await f(await g(d.fastaPt),"seq")}),(0,t.t6)("fastaUn",async()=>{await f(await g(d.fastaUn),"seq")}),(0,t.t6)("separatorDna",async()=>{await f(await g(d.separatorDna),"seq")}),(0,t.t6)("separatorDna",async()=>{await f(await g(d.separatorRna),"seq")}),(0,t.t6)("separatorPt",async()=>{await f(await g(d.separatorPt),"seq")}),(0,t.t6)("separatorUn",async()=>{await f(await g(d.separatorUn),"seq")}),(0,t.t6)("helm",async()=>{await f(await g(d.helm),"seq")}),(0,t.t6)("ptFasta2",async()=>{const n=await Le.files.readAsText("tests/to-atomic-level-pt-fasta-2.mol"),i=e.DataFrame.fromCsv("seq\nAR"),o=i.getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,l.YI.PT),s.getSeqHandler(o);const r=await f(i,"seq");(0,t.E3)(we(r.get(0)),we(n))})});var ve=n(8754);(0,t.L1)("toAtomicLevel-ui",()=>{let n,i,o,r,s;(0,t.gM)(async()=>{o=await(0,c.Q)(),s=await(0,ge.j)(),n=await(0,L.pj)(),i=await(0,O.u)(),await n.loadMonomerLibForTests(),r=n.getMonomerLib()}),(0,t.Pl)(async()=>{await(0,O.E)(i),await n.loadMonomerLib(!0)});const u={fasta:{src:{seq:"MDYKETLLMPK",units:l.Hi.FASTA},tgt:{atomCount:94,bondCount:95}},"fasta-with-gap":{src:{seq:"MD-YKETLLMPK",units:l.Hi.FASTA},tgt:{atomCount:94,bondCount:95}},helm:{src:{seq:"PEPTIDE1{meI.hHis.Aca.N.T.dK.Thr_PO3H2}$$$$",units:l.Hi.HELM},tgt:{atomCount:68,bondCount:68}},"helm-with-gap":{src:{seq:"PEPTIDE1{meI.hHis.*.Aca.N.T.dK.Thr_PO3H2}$$$$",units:l.Hi.HELM},tgt:{atomCount:68,bondCount:68}}},h=async t=>{const n=t.src.seq,i=e.DataFrame.fromColumns([e.Column.fromList(e.COLUMN_TYPE.STRING,"seq",[n])]);return await a.data.detectSemanticTypes(i),i.getCol("seq")};for(const[e,n]of Object.entries(u))(0,t.t6)(`${e}-linear`,async()=>{const e=await h(n);await d(e,!1,n.tgt)});if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length)for(const[e,n]of Object.entries(u))(0,t.t6)(`${e}-nonlinear`,async()=>{const e=await h(n);await d(e,!0,n.tgt)});async function d(n,i,a){const l=await(0,ve.V)(n.dataFrame,n,i,!1,r,o,s);(0,t.E3)(l.molCol.semType,e.SEMTYPE.MOLECULE);const c=l.molCol.get(0),u=s.get_mol(c);(0,t.E3)(null!=u,!0,"No molecule generated");try{const e=u.get_num_atoms(),n=u.get_num_bonds();(0,t.E3)(e,a.atomCount),(0,t.E3)(n,a.bondCount)}finally{u.delete()}}});var Te=n(6863);async function Ce(t,n){const i=e.DataFrame.fromCsv(t),o=i.col("seq"),r=await a.functions.call("Bio:detectMacromolecule",{col:o});return r&&(o.semType=r),await a.data.detectSemanticTypes(i),n.getSeqHandler(o)}function Ae(e,n,i,o){const r=i(e,n);(0,t.E3)(Number(r.toFixed(3)),Number(o.toFixed(3)))}(0,t.L1)("Distance",async()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i=[[1,0,0,0],[0,1,0,0],[0,0,1,0],[0,0,0,1]],o={F:0,W:1,R:2,Y:3},r="FWRWY",s="FWRWW",a="FWY",l="FWRWY",u="FWY",h="FWRRRRY";(0,t.t6)("protein-distance-function",async()=>{const e=(await Ce("seq\nFWRWYVKHPFWRWYVKHP\nYNRWYVKHPYNRWYVKHP\nMWRSWYCKHPMWRSWYCKHP",n)).getDistanceFunctionName();(0,t.E3)(e,Te.Z.LEVENSHTEIN)}),(0,t.t6)("DNA-distance-function",async()=>{const e=(await Ce("seq\nATAACGATAACG\nATCGAATCGA\nATCGAATCGA",n)).getDistanceFunctionName();(0,t.E3)(e,Te.Z.LEVENSHTEIN)}),(0,t.t6)("MSA-distance-function",async()=>{const e=(await Ce("seq\nATAACATAAC\nATCGAATCGA\nATCGAATCGA",n)).getDistanceFunctionName();(0,t.E3)(e,Te.Z.HAMMING)}),(0,t.t6)("levenstein-sub",async()=>{const e=Te.V[Te.Z.LEVENSHTEIN]();Ae(r,s,e,.2)}),(0,t.t6)("levenstein-del",async()=>{const e=Te.V[Te.Z.LEVENSHTEIN]();Ae(a,l,e,.4)}),(0,t.t6)("hamming",async()=>{const e=Te.V[Te.Z.HAMMING]();Ae(a,l,e,.6)}),(0,t.t6)("needleman-blosum62",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({gapOpen:8,gapExtend:2});Ae(r,s,e,-6)}),(0,t.t6)("needleman-blosum62-del",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({gapOpen:8,gapExtend:2});Ae(a,l,e,-3.667)}),(0,t.t6)("needleman-custom-sub",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:1});Ae(r,s,e,.2)}),(0,t.t6)("needleman-custom-del",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:1});Ae(a,l,e,.667)}),(0,t.t6)("needleman-custom-zero-extend",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:0});Ae(u,h,e,.333)}),(0,t.t6)("needleman-custom-half-extend",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:2,gapExtend:1});Ae(u,h,e,1.667)}),(0,t.t6)("needleman-custom-same-extend",async()=>{const t=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:1});e.Test.isInBenchmark?Ae(Array(1e3).fill(u).join(""),Array(1e3).fill(h).join(""),t,1.333):Ae(u,h,t,1.333)},{benchmark:!0})});var Ee=n(684);async function Se(n,i,o,r,s,l,c,u){await a.data.detectSemanticTypes(n),await a.functions.call("Bio:activityCliffs",{table:n,molecules:n.getCol(o),activities:n.getCol(r),similarity:s,methodName:i,similarityMetric:c,preprocessingFunction:u,options:{[`${Ee.vb}`]:!0},demo:!1});const h=Array.from(a.shell.tv.viewers)[1];(0,t.E3)(h?.type===e.VIEWER.SCATTER_PLOT,!0),await(0,t.bk)(()=>{const e=Array.from(h.root.getElementsByClassName("scatter_plot_link"));return!e.length||e[0].innerText.toLowerCase()===`${l} cliffs`},"incorrect cliffs link",3e3)}var Me=n(2780),Pe=n(9039),_e=n(9124);async function Ie(n,i,o){const r=n.getCol(o);n.name="seqSpaceDf";const s=await a.functions.call("Bio:detectMacromolecule",{col:r});s&&(r.semType=s);const l=e.Func.find({package:"Bio",name:"macromoleculePreprocessingFunction"})[0];if(!l)throw new Error("Preprocessing function not found");await a.functions.call("Bio:sequenceSpaceTopMenu",{table:n,molecules:n.col(o),methodName:i,similarityMetric:Te.Z.LEVENSHTEIN,plotEmbeddings:!0,preprocessingFunction:l,options:{[Ee.vb]:!0}});const c=a.shell.tableView(n.name),u=Array.from(c?.viewers??[])[1];(0,t.E3)(null!=u)}(0,t.L1)("activityCliffs",async()=>{let n,i,o;const r=e.Func.find({name:"macromoleculePreprocessingFunction",package:"Bio"})[0],s=e.Func.find({name:"helmPreprocessingFunction",package:"Bio"})[0];(0,t.gM)(async()=>{e.Func.find({package:"Helm",name:"getHelmHelper"}).length&&(n=await(0,_e.b2)()),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)}),(0,t.t6)("activityCliffsOpens",async()=>{const t=e.Test.isInBenchmark?{fileName:"tests/peptides_with_random_motif_1600.csv",tgt:{cliffCount:64}}:{fileName:"tests/100_3_clustests.csv",tgt:{cliffCount:3}},n=await R(t.fileName);a.shell.addTableView(n),await Se(n,Pe.c.UMAP,"sequence","Activity",90,t.tgt.cliffCount,Te.Z.LEVENSHTEIN,r)},{benchmark:!0,skipReason:"Fails"}),(0,t.t6)("activityCliffsWithEmptyRows",async()=>{const e=await R("tests/100_3_clustests_empty_vals.csv");a.shell.addTableView(e),await Se(e,Pe.c.UMAP,"sequence","Activity",90,3,Te.Z.LEVENSHTEIN,r)}),(0,t.t6)("Helm",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e=await Le.files.readCsv("samples/HELM_50.csv");a.shell.addTableView(e),await Se(e,Pe.c.UMAP,"HELM","Activity",65,20,Me.aT.Tanimoto,s)}})}),(0,t.L1)("sequenceSpace",async()=>{let n,i,o,r;(0,t.t6)("sequenceSpaceOpens",async()=>{const t=e.Test.isInBenchmark?{fileName:"tests/peptides_with_random_motif_1600.csv"}:{fileName:"tests/100_3_clustests.csv"};n=await R(t.fileName),i=a.shell.addTableView(n),await Ie(n,Pe.c.UMAP,"sequence")},{benchmark:!0}),(0,t.t6)("sequenceSpaceWithEmptyRows",async()=>{o=await R("tests/100_3_clustests_empty_vals.csv"),r=a.shell.addTableView(o),await Ie(o,Pe.c.UMAP,"sequence")})}),(0,t.L1)("Scoring",()=>{const n="sequence",i="expected_similarity",o="expected_identity",r=e.DataFrame.fromCsv(`${n},${i},${o}\nPEPTIDE1{Aca.Orn.gGlu.Pqa.D-His_1Bn.dH.hHis.4Abz.D-Tic.D-Dap.Y.Iva.meS.F.P.F.D-1Nal}$$$$,1.0,1.0\nPEPTIDE1{Iva.Gly_allyl.gGlu.Pqa.D-Dip.dH.hHis.4Abz.D-aHyp.D-Dap.Y.Iva.I.Tyr_26diMe.P.Asu.meC}$$$$,0.691,0.53\nPEPTIDE1{[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal]}$$$$V2.0,0.37,0.0`),s=r.getCol(n);s.meta.units=l.Hi.HELM,s.semType=e.SEMTYPE.MACROMOLECULE;const c=s.get(0);let u,h;(0,t.gM)(async()=>{u=await(0,L.pj)(),h=await(0,O.u)(),await u.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(h),await u.loadMonomerLib(!0)}),(0,t.t6)("Identity",async()=>{const e=await a.functions.call("Bio:sequenceIdentityScoring",{table:r,macromolecule:s,reference:c});for(let n=0;n<e.length;n++){const i=e.get(n),s=r.get(o,n);(0,t.Wj)(i,s,.01,`Wrong identity score for sequence at position ${n}`)}}),(0,t.t6)("Identity-shortReference",async()=>{const e=await a.functions.call("Bio:sequenceIdentityScoring",{table:r,macromolecule:s,reference:"PEPTIDE1{Iva.Gly_allyl.gGlu.Pqa.D-Dip.dH.hHis.4Abz.D-aHyp.D-Dap.Y.Iva}$$$$"});(0,t.E3)(_().count(0).take(e.length).map(t=>e.get(t)).every(e=>null!=e&&!isNaN(e)),!0)}),(0,t.t6)("Identity-longReference",async()=>{const e=await a.functions.call("Bio:sequenceIdentityScoring",{table:r,macromolecule:s,reference:"PEPTIDE1{Iva.Gly_allyl.gGlu.Pqa.D-Dip.dH.hHis.4Abz.D-aHyp.D-Dap.Y.Iva.I.Tyr_26diMe.P.Asu.meC.I.Tyr_26diMe.P.Asu.meC}$$$$"});(0,t.E3)(_().count(0).take(e.length).map(t=>e.get(t)).every(e=>null!=e&&!isNaN(e)),!0)}),(0,t.t6)("Similarity",async()=>{const e=await a.functions.call("Bio:sequenceSimilarityScoring",{table:r,macromolecule:s,reference:c});for(let n=0;n<e.length;n++){const o=e.get(n),s=r.get(i,n);(0,t.Wj)(o,s,.01,`Wrong similarity score for sequence at position ${n}`)}})});const Le=new e.Package;async function xe(n,i,o,r){const s=await(0,t.N$)({category:n,test:i,testContext:o,stressTest:r});return e.DataFrame.fromObjects(s)}async function Ne(){await(0,t.Xb)(Le,Le.getModule("package-test.js"))}})(),bio_test=i})();
7
+ deps: ${n}}`};const s={keyword:"dependencies",type:"object",schemaType:"object",error:t.error,code(e){const[t,n]=function({schema:e}){const t={},n={};for(const i in e)"__proto__"!==i&&((Array.isArray(e[i])?t:n)[i]=e[i]);return[t,n]}(e);a(e,t),l(e,n)}};function a(e,t=e.schema){const{gen:n,data:o,it:s}=e;if(0===Object.keys(t).length)return;const a=n.let("missing");for(const l in t){const c=t[l];if(0===c.length)continue;const u=(0,r.propertyInData)(n,o,l,s.opts.ownProperties);e.setParams({property:l,depsCount:c.length,deps:c.join(", ")}),s.allErrors?n.if(u,()=>{for(const t of c)(0,r.checkReportMissingProp)(e,t)}):(n.if(i._`${u} && (${(0,r.checkMissingProp)(e,c,a)})`),(0,r.reportMissingProp)(e,a),n.else())}}function l(e,t=e.schema){const{gen:n,data:i,keyword:s,it:a}=e,l=n.name("valid");for(const c in t)(0,o.alwaysValidSchema)(a,t[c])||(n.if((0,r.propertyInData)(n,i,c,a.opts.ownProperties),()=>{const t=e.subschema({keyword:s,schemaProp:c},l);e.mergeValidEvaluated(t,l)},()=>n.var(l,!0)),e.ok(l))}t.validatePropertyDeps=a,t.validateSchemaDeps=l,t.default=s},3151:(e,t,n)=>{"use strict";n.d(t,{EK:()=>l,Ec:()=>r,f6:()=>i,pe:()=>s,q7:()=>a,yw:()=>o});const i=["symbol","molfile","rgroups","name"],o="MonomerName",r={monomerType:null,smiles:null,name:"Name",author:null,molfile:"molecule",naturalAnalog:"MonomerNaturalAnalogCode",rgroups:"MonomerCaps",createDate:null,id:null,polymerType:"MonomerType",symbol:"MonomerName"},s={monomerType:"Backbone",smiles:"",name:"",author:"Datagrok",molfile:"",naturalAnalog:"",rgroups:[],createDate:null,id:0,polymerType:"PEPTIDE",symbol:""},a="p",l=new RegExp(`[rd]\\((\\w)\\)${a}?`,"g")},3252:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.dynamicRef=void 0;const i=n(9029),o=n(2023),r=n(3693),s={keyword:"$dynamicRef",schemaType:"string",code:e=>a(e,e.schema)};function a(e,t){const{gen:n,keyword:s,it:a}=e;if("#"!==t[0])throw new Error(`"${s}" only supports hash fragment reference`);const l=t.slice(1);if(a.allErrors)c();else{const t=n.let("valid",!1);c(t),e.ok(t)}function c(e){if(a.schemaEnv.root.dynamicAnchors[l]){const t=n.let("_v",i._`${o.default.dynamicAnchors}${(0,i.getProperty)(l)}`);n.if(t,u(t,e),u(a.validateName,e))}else u(a.validateName,e)()}function u(t,i){return i?()=>n.block(()=>{(0,r.callRef)(e,t),n.let(i,!0)}):()=>(0,r.callRef)(e,t)}}t.dynamicRef=a,t.default=s},3265:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(392),o=n(3445),r=[i.default,o.default];t.default=r},3282:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.MissingRefError=t.ValidationError=t.CodeGen=t.Name=t.nil=t.stringify=t.str=t._=t.KeywordCxt=t.Ajv=void 0;const i=n(4042),o=n(6144),r=n(6653),s=n(2079),a=["/properties"],l="http://json-schema.org/draft-07/schema";class c extends i.default{_addVocabularies(){super._addVocabularies(),o.default.forEach(e=>this.addVocabulary(e)),this.opts.discriminator&&this.addKeyword(r.default)}_addDefaultMetaSchema(){if(super._addDefaultMetaSchema(),!this.opts.meta)return;const e=this.opts.$data?this.$dataMetaSchema(s,a):s;this.addMetaSchema(e,l,!1),this.refs["http://json-schema.org/schema"]=l}defaultMeta(){return this.opts.defaultMeta=super.defaultMeta()||(this.getSchema(l)?l:void 0)}}t.Ajv=c,e.exports=t=c,e.exports.Ajv=c,Object.defineProperty(t,"__esModule",{value:!0}),t.default=c;var u=n(2586);Object.defineProperty(t,"KeywordCxt",{enumerable:!0,get:function(){return u.KeywordCxt}});var h=n(9029);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return h._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return h.str}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return h.stringify}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return h.nil}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return h.Name}}),Object.defineProperty(t,"CodeGen",{enumerable:!0,get:function(){return h.CodeGen}});var d=n(3558);Object.defineProperty(t,"ValidationError",{enumerable:!0,get:function(){return d.default}});var m=n(4551);Object.defineProperty(t,"MissingRefError",{enumerable:!0,get:function(){return m.default}})},3439:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={keyword:"multipleOf",type:"number",schemaType:"number",$data:!0,error:{message:({schemaCode:e})=>i.str`must be multiple of ${e}`,params:({schemaCode:e})=>i._`{multipleOf: ${e}}`},code(e){const{gen:t,data:n,schemaCode:o,it:r}=e,s=r.opts.multipleOfPrecision,a=t.let("res"),l=s?i._`Math.abs(Math.round(${a}) - ${a}) > 1e-${s}`:i._`${a} !== parseInt(${a})`;e.fail$data(i._`(${o} === 0 || (${a} = ${n}/${o}, ${l}))`)}};t.default=o},3445:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r={keyword:"unevaluatedItems",type:"array",schemaType:["boolean","object"],error:{message:({params:{len:e}})=>i.str`must NOT have more than ${e} items`,params:({params:{len:e}})=>i._`{limit: ${e}}`},code(e){const{gen:t,schema:n,data:r,it:s}=e,a=s.items||0;if(!0===a)return;const l=t.const("len",i._`${r}.length`);if(!1===n)e.setParams({len:a}),e.fail(i._`${l} > ${a}`);else if("object"==typeof n&&!(0,o.alwaysValidSchema)(s,n)){const n=t.var("valid",i._`${l} <= ${a}`);t.if((0,i.not)(n),()=>function(n,r){t.forRange("i",r,l,r=>{e.subschema({keyword:"unevaluatedItems",dataProp:r,dataPropType:o.Type.Num},n),s.allErrors||t.if((0,i.not)(n),()=>t.break())})}(n,a)),e.ok(n)}s.items=!0}};t.default=r},3463:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const n={keyword:"id",code(){throw new Error('NOT SUPPORTED: keyword "id", use "$id" for schema ID')}};t.default=n},3516:(e,t,n)=>{"use strict";n.d(t,{m:()=>r});var i=n(6082),o=n(439);class r{get descriptionsArray(){return this._descriptionsArray}get sequencesArray(){return this._sequencesArray}parseMacromolecule(e,t){return this._fileContent.slice(e,t).split(/\s/).join("")}parseColumns(){const e=/^>(.*)$/gm;let t,n=0;for(;t=e.exec(this._fileContent);){const i=this._fileContent.substring(t.index+1,e.lastIndex);this._descriptionsArray.push(i),0!==n&&this._sequencesArray.push(this.parseMacromolecule(n,t.index)),n=e.lastIndex+1}this._sequencesArray.push(this.parseMacromolecule(n,-1))}importFasta(){const e=i.Column.fromStrings("description",this.descriptionsArray),t=i.Column.fromStrings("sequence",this.sequencesArray);return t.semType=i.SEMTYPE.MACROMOLECULE,t.meta.units=o.Hi.FASTA,[i.DataFrame.fromColumns([e,t])]}constructor(e){this._descriptionsArray=[],this._sequencesArray=[],this._fileContent=e,this.parseColumns()}}},3527:(e,t,n)=>{"use strict";n.d(t,{Mi:()=>i});class i extends Float32Array{}},3558:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});class n extends Error{constructor(e){super("validation failed"),this.errors=e,this.ajv=this.validation=!0}}t.default=n},3561:(e,t,n)=>{"use strict";n.d(t,{Hb:()=>l,YN:()=>g,gU:()=>c});var i=n(8123),o=n(294),r=n(3151),s=n(439),a=n(6197);function l(e,t,n){const o=new Map;for(const a of e.getMonomerSymbolsByType(t)){const l=e.getMonomer(t,a);if("RNA"===t&&("Branch"===l.monomerType||n===s.YI.DNA&&l.symbol===i.u.DEOXYRIBOSE.symbol||n===s.YI.RNA&&l.symbol===i.u.RIBOSE.symbol||l.symbol===i.u.PHOSPHATE.symbol)||"PEPTIDE"===t&&"Branch"!==l.monomerType){const e={};r.f6.forEach(t=>{e[t]=l[t]}),o.set(a,e)}}return o}function c(e,t,n,r){if(0===e.length)return o.vF.createEmpty();const l=p,{atomCount:c,bondCount:h,needsCapping:m}=l(e,t,n,r),f=new Array(c),y=new Array(h);let b,w=null,v=null;"PEPTIDE"===r?b=u:(b=d,w=n===s.YI.DNA?(0,o.xb)(t,i.u.DEOXYRIBOSE):(0,o.xb)(t,i.u.RIBOSE),v=(0,o.xb)(t,i.u.PHOSPHATE));const T={i:0,nodeShift:0,bondShift:0,backbonePositionShift:new Array(2).fill(0),branchPositionShift:new Array(2).fill(0),backboneAttachNode:0,branchAttachNode:0,flipFactor:1},C={sugar:w,phosphate:v,seqLength:e.length,atomCount:c,bondCount:h},A=new o.Cg,E=[];let S,M=0;for(T.i=0;T.i<C.seqLength;++T.i){const n=e[T.i];if(n.symbol===s._S)continue;const i=(0,o.xb)(t,{symbol:n.symbol,polymerType:(0,a.Y)(n.biotype)});S=i.terminalR2Atom;const r=T.nodeShift,l=T.bondShift;b(i,f,y,T,C),i.stereoAtoms?.forEach(e=>E.push(e+M)),M+=i.atoms.x.length;const c=T.nodeShift-r,u=new Array(c);for(let e=0;e<c;++e)u[e]=r+e;const h=T.bondShift-l,d=new Array(h);for(let e=0;e<h;++e)d[e]=l+e;A.set(T.i,{biotype:n.biotype,symbol:n.symbol,atoms:u,bonds:d})}m&&function(e,t,n,o,r=i.u.OXYGEN){const s=n.nodeShift+1;e[o.atomCount]=i.u.V3K_BEGIN_DATA_LINE+s+" "+(r??i.u.OXYGEN)+" "+g(n.backbonePositionShift[0])+" "+n.flipFactor*g(n.backbonePositionShift[1])+" 0.000000 0\n";const a=n.backboneAttachNode,l=s;t[o.bondCount]=i.u.V3K_BEGIN_DATA_LINE+n.bondShift+" 1 "+a+" "+l+"\n"}(f,y,T,C,S??i.u.OXYGEN);const P=i.u.V3K_BEGIN_COUNTS_LINE+c+" "+h+i.u.V3K_COUNTS_LINE_ENDING;let _="";return _+=i.u.V3K_HEADER_FIRST_LINE,_+=i.u.V3K_HEADER_SECOND_LINE,_+=i.u.V3K_BEGIN_CTAB_BLOCK,_+=P,_+=i.u.V3K_BEGIN_ATOM_BLOCK,_+=f.join(""),_+=i.u.V3K_END_ATOM_BLOCK,_+=i.u.V3K_BEGIN_BOND_BLOCK,_+=y.join(""),_+=i.u.V3K_END_BOND_BLOCK,E.length>0&&(_+=function(e){const t=[];let n=`M V30 MDLV30/STEABS ATOMS=(${e.length}`;for(let i=0;i<e.length;i++){const o=`${n} ${e[i]}`;o.length>76?(t.push(`${n} -\n`),n=`M V30 ${e[i]}`):n=o,i===e.length-1&&t.push(`${n})\n`)}return`M V30 BEGIN COLLECTION\n${t.join("")}M V30 END COLLECTION\n`}(E)),_+=i.u.V3K_END_CTAB_BLOCK,_+=i.u.V3K_END,{molfile:_,monomers:A}}function u(e,t,n,i){i.flipFactor=(-1)**(i.i%2),h(e,t,n,i)}function h(e,t,n,o){!function(e,t,n){for(let o=0;o<e.atoms.atomTypes.length;++o){const r=n.nodeShift+o+1;t[n.nodeShift+o]=i.u.V3K_BEGIN_DATA_LINE+r+" "+e.atoms.atomTypes[o]+" "+g(n.backbonePositionShift[0]+e.atoms.x[o])+" "+g(n.backbonePositionShift[1]+n.flipFactor*e.atoms.y[o])+" "+e.atoms.kwargs[o]}}(e,t,o),m(e,n,o),function(e,t,n){if(0!==n.backboneAttachNode){const o=n.bondShift,r=n.backboneAttachNode,s=e.meta.terminalNodes[0]+n.nodeShift;t[n.bondShift-1]=i.u.V3K_BEGIN_DATA_LINE+o+" 1 "+r+" "+s+"\n"}}(e,n,o),null!==e.meta.branchShift&&e.meta.terminalNodes.length>2&&function(e,t){t.branchAttachNode=t.nodeShift+e.meta.terminalNodes[2];for(let n=0;n<2;++n)t.branchPositionShift[n]=t.backbonePositionShift[n]+e.meta.branchShift[n]}(e,o),function(e,t){t.backboneAttachNode=t.nodeShift+e.meta.terminalNodes[1],t.bondShift+=e.bonds.atomPairs.length+1,t.nodeShift+=e.atoms.atomTypes.length,t.backbonePositionShift[0]+=e.meta.backboneShift?.[0]??0,t.backbonePositionShift[1]+=t.flipFactor*(e.meta.backboneShift?.[1]??0)}(e,o)}function d(e,t,n,o,r){if(0===o.i)h(r.sugar,t,n,o);else for(const e of[r.phosphate,r.sugar])h(e,t,n,o);!function(e,t,n,o){(function(e,t,n){for(let o=0;o<e.atoms.atomTypes.length;++o){const r=n.nodeShift+o+1;t[n.nodeShift+o]=i.u.V3K_BEGIN_DATA_LINE+r+" "+e.atoms.atomTypes[o]+" "+g(n.branchPositionShift[0]+e.atoms.x[o])+" "+g(n.branchPositionShift[1]+n.flipFactor*e.atoms.y[o])+" "+e.atoms.kwargs[o]}})(e,t,o),m(e,n,o),function(e,t,n){const o=n.bondShift,r=n.branchAttachNode,s=e.meta.terminalNodes[0]+n.nodeShift;t[o-1]=i.u.V3K_BEGIN_DATA_LINE+o+" 1 "+r+" "+s+"\n"}(e,n,o);const r=o.bondShift,s=o.branchAttachNode,a=e.meta.terminalNodes[0]+o.nodeShift;n[r-1]=i.u.V3K_BEGIN_DATA_LINE+r+" 1 "+s+" "+a+"\n",o.bondShift+=e.bonds.atomPairs.length+1,o.nodeShift+=e.atoms.atomTypes.length}(e,t,n,o)}function m(e,t,n){for(let o=0;o<e.bonds.atomPairs.length;++o){const r=n.bondShift+o+1,s=e.bonds.atomPairs[o][0]+n.nodeShift,a=e.bonds.atomPairs[o][1]+n.nodeShift;let l="";if(e.bonds.bondConfiguration.has(o)){let t=e.bonds.bondConfiguration.get(o);n.flipFactor<0&&(t=1===t?3:1),l=" CFG="+t}const c=e.bonds.kwargs.has(o)?" "+e.bonds.kwargs.get(o):"";t[n.bondShift+o]=i.u.V3K_BEGIN_DATA_LINE+r+" "+e.bonds.bondTypes[o]+" "+s+" "+a+l+c+"\n"}}function p(e,t,n,r){let l=0,c=0,u=0,h=!0,d=null;for(const n of e)if(n.symbol!==s._S){if("*"==n.symbol)throw new Error("Gap canonical symbol is '', not '*");d=(0,o.xb)(t,{symbol:n.symbol,polymerType:(0,a.Y)(n.biotype)}),l+=d.atoms.x.length,c+=d.bonds.bondTypes.length,u++}if("PEPTIDE"===r)l+=1,c+=u,u>0&&((d?.meta?.rNodes?.length??0)<2||d?.terminalR2Atom?.toLowerCase()===i.u.HYDROGEN.toLowerCase())&&(h=!1,l-=1,c-=1);else{const r=n===s.YI.DNA?(0,o.xb)(t,i.u.DEOXYRIBOSE):(0,o.xb)(t,i.u.RIBOSE),a=(0,o.xb)(t,i.u.PHOSPHATE);l+=(e.length-1)*a.atoms.x.length,l+=e.length*r.atoms.x.length,l+=1,c+=(e.length-1)*a.bonds.bondTypes.length,c+=e.length*r.bonds.bondTypes.length,c-=1,c+=3*e.length}return{atomCount:l,bondCount:c,needsCapping:h}}function g(e){return Math.round(i.u.PRECISION_FACTOR*e)/i.u.PRECISION_FACTOR}},3599:(e,t,n)=>{"use strict";n.d(t,{o:()=>i.o});var i=n(6869)},3629:(e,t,n)=>{"use strict";n.d(t,{KE:()=>a,S8:()=>l,dC:()=>r,vA:()=>o,wQ:()=>s});var i=n(3527);function o(e=!1,t="Assertion error."){if(!e)throw new Error(t)}function r(e,t,n=1){const r=e.length;o(r==t.length,"Vector lengths do not match.");const s=new i.Mi(r);for(let i=0;i<e.length;++i)s[i]=e[i]+n*t[i];return s}function s(e){let t=0;for(let n=0;n<e.length;n++)t+=e[n]*e[n];return Math.sqrt(t)}function a(e,t){if(e.length!=t.length)throw new Error("The dimensionality of the vectors must match");let n=0;for(let i=0;i<e.length;i++)n+=e[i]*t[i];return n}function l(e){const t=e.length;let n=0,i=0;for(let o=0;o<t;++o)n+=e[o],i+=Math.pow(e[o],2);const o=n/t,r=1/Math.sqrt(i/t-Math.pow(o,2));for(let n=0;n<t;++n)e[n]=(e[n]-o)*r;return e}},3673:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateKeywordUsage=t.validSchemaType=t.funcKeywordCode=t.macroKeywordCode=void 0;const i=n(9029),o=n(2023),r=n(5765),s=n(8708);function a(e){const{gen:t,data:n,it:o}=e;t.if(o.parentData,()=>t.assign(n,i._`${o.parentData}[${o.parentDataProperty}]`))}function l(e,t,n){if(void 0===n)throw new Error(`keyword "${t}" failed to compile`);return e.scopeValue("keyword","function"==typeof n?{ref:n}:{ref:n,code:(0,i.stringify)(n)})}t.macroKeywordCode=function(e,t){const{gen:n,keyword:o,schema:r,parentSchema:s,it:a}=e,c=t.macro.call(a.self,r,s,a),u=l(n,o,c);!1!==a.opts.validateSchema&&a.self.validateSchema(c,!0);const h=n.name("valid");e.subschema({schema:c,schemaPath:i.nil,errSchemaPath:`${a.errSchemaPath}/${o}`,topSchemaRef:u,compositeRule:!0},h),e.pass(h,()=>e.error(!0))},t.funcKeywordCode=function(e,t){var n;const{gen:c,keyword:u,schema:h,parentSchema:d,$data:m,it:p}=e;!function({schemaEnv:e},t){if(t.async&&!e.$async)throw new Error("async keyword in sync schema")}(p,t);const g=!m&&t.compile?t.compile.call(p.self,h,d,p):t.validate,f=l(c,u,g),y=c.let("valid");function b(n=(t.async?i._`await `:i.nil)){const s=p.opts.passContext?o.default.this:o.default.self,a=!("compile"in t&&!m||!1===t.schema);c.assign(y,i._`${n}${(0,r.callValidateCode)(e,f,s,a)}`,t.modifying)}function w(e){var n;c.if((0,i.not)(null!==(n=t.valid)&&void 0!==n?n:y),e)}e.block$data(y,function(){if(!1===t.errors)b(),t.modifying&&a(e),w(()=>e.error());else{const n=t.async?function(){const e=c.let("ruleErrs",null);return c.try(()=>b(i._`await `),t=>c.assign(y,!1).if(i._`${t} instanceof ${p.ValidationError}`,()=>c.assign(e,i._`${t}.errors`),()=>c.throw(t))),e}():function(){const e=i._`${f}.errors`;return c.assign(e,null),b(i.nil),e}();t.modifying&&a(e),w(()=>function(e,t){const{gen:n}=e;n.if(i._`Array.isArray(${t})`,()=>{n.assign(o.default.vErrors,i._`${o.default.vErrors} === null ? ${t} : ${o.default.vErrors}.concat(${t})`).assign(o.default.errors,i._`${o.default.vErrors}.length`),(0,s.extendErrors)(e)},()=>e.error())}(e,n))}}),e.ok(null!==(n=t.valid)&&void 0!==n?n:y)},t.validSchemaType=function(e,t,n=!1){return!t.length||t.some(t=>"array"===t?Array.isArray(e):"object"===t?e&&"object"==typeof e&&!Array.isArray(e):typeof e==t||n&&void 0===e)},t.validateKeywordUsage=function({schema:e,opts:t,self:n,errSchemaPath:i},o,r){if(Array.isArray(o.keyword)?!o.keyword.includes(r):o.keyword!==r)throw new Error("ajv implementation error");const s=o.dependencies;if(null==s?void 0:s.some(t=>!Object.prototype.hasOwnProperty.call(e,t)))throw new Error(`parent schema must have dependencies of ${r}: ${s.join(",")}`);if(o.validateSchema&&!o.validateSchema(e[r])){const e=`keyword "${r}" value is invalid at path "${i}": `+n.errorsText(o.validateSchema.errors);if("log"!==t.validateSchema)throw new Error(e);n.logger.error(e)}}},3693:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.callRef=t.getValidate=void 0;const i=n(4551),o=n(5765),r=n(9029),s=n(2023),a=n(3835),l=n(4227),c={keyword:"$ref",schemaType:"string",code(e){const{gen:t,schema:n,it:o}=e,{baseId:s,schemaEnv:l,validateName:c,opts:d,self:m}=o,{root:p}=l;if(("#"===n||"#/"===n)&&s===p.baseId)return function(){if(l===p)return h(e,c,l,l.$async);const n=t.scopeValue("root",{ref:p});return h(e,r._`${n}.validate`,p,p.$async)}();const g=a.resolveRef.call(m,p,s,n);if(void 0===g)throw new i.default(o.opts.uriResolver,s,n);return g instanceof a.SchemaEnv?function(t){const n=u(e,t);h(e,n,t,t.$async)}(g):function(i){const o=t.scopeValue("schema",!0===d.code.source?{ref:i,code:(0,r.stringify)(i)}:{ref:i}),s=t.name("valid"),a=e.subschema({schema:i,dataTypes:[],schemaPath:r.nil,topSchemaRef:o,errSchemaPath:n},s);e.mergeEvaluated(a),e.ok(s)}(g)}};function u(e,t){const{gen:n}=e;return t.validate?n.scopeValue("validate",{ref:t.validate}):r._`${n.scopeValue("wrapper",{ref:t})}.validate`}function h(e,t,n,i){const{gen:a,it:c}=e,{allErrors:u,schemaEnv:h,opts:d}=c,m=d.passContext?s.default.this:r.nil;function p(e){const t=r._`${e}.errors`;a.assign(s.default.vErrors,r._`${s.default.vErrors} === null ? ${t} : ${s.default.vErrors}.concat(${t})`),a.assign(s.default.errors,r._`${s.default.vErrors}.length`)}function g(e){var t;if(!c.opts.unevaluated)return;const i=null===(t=null==n?void 0:n.validate)||void 0===t?void 0:t.evaluated;if(!0!==c.props)if(i&&!i.dynamicProps)void 0!==i.props&&(c.props=l.mergeEvaluated.props(a,i.props,c.props));else{const t=a.var("props",r._`${e}.evaluated.props`);c.props=l.mergeEvaluated.props(a,t,c.props,r.Name)}if(!0!==c.items)if(i&&!i.dynamicItems)void 0!==i.items&&(c.items=l.mergeEvaluated.items(a,i.items,c.items));else{const t=a.var("items",r._`${e}.evaluated.items`);c.items=l.mergeEvaluated.items(a,t,c.items,r.Name)}}i?function(){if(!h.$async)throw new Error("async schema referenced by sync schema");const n=a.let("valid");a.try(()=>{a.code(r._`await ${(0,o.callValidateCode)(e,t,m)}`),g(t),u||a.assign(n,!0)},e=>{a.if(r._`!(${e} instanceof ${c.ValidationError})`,()=>a.throw(e)),p(e),u||a.assign(n,!1)}),e.ok(n)}():e.result((0,o.callValidateCode)(e,t,m),()=>g(t),()=>p(t))}t.getValidate=u,t.callRef=h,t.default=c},3799:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(3252),o={keyword:"$recursiveRef",schemaType:"string",code:e=>(0,i.dynamicRef)(e,e.schema)};t.default=o},3835:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.resolveSchema=t.getCompilingSchema=t.resolveRef=t.compileSchema=t.SchemaEnv=void 0;const i=n(9029),o=n(3558),r=n(2023),s=n(6939),a=n(4227),l=n(2586);class c{constructor(e){var t;let n;this.refs={},this.dynamicAnchors={},"object"==typeof e.schema&&(n=e.schema),this.schema=e.schema,this.schemaId=e.schemaId,this.root=e.root||this,this.baseId=null!==(t=e.baseId)&&void 0!==t?t:(0,s.normalizeId)(null==n?void 0:n[e.schemaId||"$id"]),this.schemaPath=e.schemaPath,this.localRefs=e.localRefs,this.meta=e.meta,this.$async=null==n?void 0:n.$async,this.refs={}}}function u(e){const t=d.call(this,e);if(t)return t;const n=(0,s.getFullPath)(this.opts.uriResolver,e.root.baseId),{es5:a,lines:c}=this.opts.code,{ownProperties:u}=this.opts,h=new i.CodeGen(this.scope,{es5:a,lines:c,ownProperties:u});let m;e.$async&&(m=h.scopeValue("Error",{ref:o.default,code:i._`require("ajv/dist/runtime/validation_error").default`}));const p=h.scopeName("validate");e.validateName=p;const g={gen:h,allErrors:this.opts.allErrors,data:r.default.data,parentData:r.default.parentData,parentDataProperty:r.default.parentDataProperty,dataNames:[r.default.data],dataPathArr:[i.nil],dataLevel:0,dataTypes:[],definedProperties:new Set,topSchemaRef:h.scopeValue("schema",!0===this.opts.code.source?{ref:e.schema,code:(0,i.stringify)(e.schema)}:{ref:e.schema}),validateName:p,ValidationError:m,schema:e.schema,schemaEnv:e,rootId:n,baseId:e.baseId||n,schemaPath:i.nil,errSchemaPath:e.schemaPath||(this.opts.jtd?"":"#"),errorPath:i._`""`,opts:this.opts,self:this};let f;try{this._compilations.add(e),(0,l.validateFunctionCode)(g),h.optimize(this.opts.code.optimize);const t=h.toString();f=`${h.scopeRefs(r.default.scope)}return ${t}`,this.opts.code.process&&(f=this.opts.code.process(f,e));const n=new Function(`${r.default.self}`,`${r.default.scope}`,f)(this,this.scope.get());if(this.scope.value(p,{ref:n}),n.errors=null,n.schema=e.schema,n.schemaEnv=e,e.$async&&(n.$async=!0),!0===this.opts.code.source&&(n.source={validateName:p,validateCode:t,scopeValues:h._values}),this.opts.unevaluated){const{props:e,items:t}=g;n.evaluated={props:e instanceof i.Name?void 0:e,items:t instanceof i.Name?void 0:t,dynamicProps:e instanceof i.Name,dynamicItems:t instanceof i.Name},n.source&&(n.source.evaluated=(0,i.stringify)(n.evaluated))}return e.validate=n,e}catch(t){throw delete e.validate,delete e.validateName,f&&this.logger.error("Error compiling schema, function code:",f),t}finally{this._compilations.delete(e)}}function h(e){return(0,s.inlineRef)(e.schema,this.opts.inlineRefs)?e.schema:e.validate?e:u.call(this,e)}function d(e){for(const t of this._compilations)if(m(t,e))return t}function m(e,t){return e.schema===t.schema&&e.root===t.root&&e.baseId===t.baseId}function p(e,t){let n;for(;"string"==typeof(n=this.refs[t]);)t=n;return n||this.schemas[t]||g.call(this,e,t)}function g(e,t){const n=this.opts.uriResolver.parse(t),i=(0,s._getFullPath)(this.opts.uriResolver,n);let o=(0,s.getFullPath)(this.opts.uriResolver,e.baseId,void 0);if(Object.keys(e.schema).length>0&&i===o)return y.call(this,n,e);const r=(0,s.normalizeId)(i),a=this.refs[r]||this.schemas[r];if("string"==typeof a){const t=g.call(this,e,a);if("object"!=typeof(null==t?void 0:t.schema))return;return y.call(this,n,t)}if("object"==typeof(null==a?void 0:a.schema)){if(a.validate||u.call(this,a),r===(0,s.normalizeId)(t)){const{schema:t}=a,{schemaId:n}=this.opts,i=t[n];return i&&(o=(0,s.resolveUrl)(this.opts.uriResolver,o,i)),new c({schema:t,schemaId:n,root:e,baseId:o})}return y.call(this,n,a)}}t.SchemaEnv=c,t.compileSchema=u,t.resolveRef=function(e,t,n){var i;n=(0,s.resolveUrl)(this.opts.uriResolver,t,n);const o=e.refs[n];if(o)return o;let r=p.call(this,e,n);if(void 0===r){const o=null===(i=e.localRefs)||void 0===i?void 0:i[n],{schemaId:s}=this.opts;o&&(r=new c({schema:o,schemaId:s,root:e,baseId:t}))}return void 0!==r?e.refs[n]=h.call(this,r):void 0},t.getCompilingSchema=d,t.resolveSchema=g;const f=new Set(["properties","patternProperties","enum","dependencies","definitions"]);function y(e,{baseId:t,schema:n,root:i}){var o;if("/"!==(null===(o=e.fragment)||void 0===o?void 0:o[0]))return;for(const i of e.fragment.slice(1).split("/")){if("boolean"==typeof n)return;const e=n[(0,a.unescapeFragment)(i)];if(void 0===e)return;const o="object"==typeof(n=e)&&n[this.opts.schemaId];!f.has(i)&&o&&(t=(0,s.resolveUrl)(this.opts.uriResolver,t,o))}let r;if("boolean"!=typeof n&&n.$ref&&!(0,a.schemaHasRulesButRef)(n,this.RULES)){const e=(0,s.resolveUrl)(this.opts.uriResolver,t,n.$ref);r=g.call(this,i,e)}const{schemaId:l}=this.opts;return r=r||new c({schema:n,schemaId:l,root:i,baseId:t}),r.schema!==r.root.schema?r:void 0}},3837:e=>{"use strict";e.exports=JSON.parse('{"$id":"https://raw.githubusercontent.com/ajv-validator/ajv/master/lib/refs/data.json#","description":"Meta-schema for $data reference (JSON AnySchema extension proposal)","type":"object","required":["$data"],"properties":{"$data":{"type":"string","anyOf":[{"format":"relative-json-pointer"},{"format":"json-pointer"}]}},"additionalProperties":false}')},3853:(e,t)=>{"use strict";function n(e){const t=e.length;let n,i=0,o=0;for(;o<t;)i++,n=e.charCodeAt(o++),n>=55296&&n<=56319&&o<t&&(n=e.charCodeAt(o),56320==(64512&n)&&o++);return i}Object.defineProperty(t,"__esModule",{value:!0}),t.default=n,n.code='require("ajv/dist/runtime/ucs2length").default'},3856:(e,t,n)=>{"use strict";n.d(t,{Mn:()=>u,gp:()=>c,oZ:()=>m,yg:()=>h});var i=n(6082),o=n(7278);const r="rgb(100,100,100)",s="#808080",a="rgb(0,0,0)",l=o.zS;var c,u,h;!function(e){e.maxMonomerLength=".mm.cellRenderer.maxMonomerLength"}(c||(c={})),function(e){e.applyToBackground=".m.cellRenderer.applyToBackground"}(u||(u={})),function(e){e.MSA="MSA",e.classic="classic"}(h||(h={}));const d=new class{constructor(){this.color=r,this.pivot=0,this.left=!1,this.transparencyRate=0,this.separator="",this.last=!1,this.drawStyle=h.classic,this.maxWord=[],this.wordIdx=0,this.gridCell=null,this.referenceSequence=null,this.maxLengthOfMonomer=null,this.monomerTextSizeMap={},this.logger=void 0,this.selectedPosition=void 0,this.isMultiLineContext=!1,this.lineNumber=0}};function m(e,t,n,o,c,u,m){var p,g,f;const y={...d,...m};if(y.isMultiLineContext){e.textBaseline="middle",e.textAlign="center";let i=t;null!=y.maxLengthOfMonomer&&(i=l(i,y.maxLengthOfMonomer));const s=Math.max(.1,1-(y.transparencyRate??0));e.globalAlpha=s;const h=e.measureText(i),d=h.fontBoundingBoxAscent+h.fontBoundingBoxDescent,m=o+(u-d)/2+h.fontBoundingBoxAscent;let p=y.color??r;return p&&p!==r||(p=a),e.fillStyle=p,y.selectedPosition===y.wordIdx+1&&(e.save(),e.fillStyle="rgba(60, 177, 115, 0.2)",e.fillRect(n,o,c,u),e.restore(),e.fillStyle=p),e.fillText(i,n+c/2,m),e.globalAlpha=1,e.textBaseline="top",e.textAlign="start",n+c}m.logger?.debug("Bio: printLeftOrCentered(), start"),e.textAlign="start";let b=t.substring(0),w=y.last?"":y.separator;y.drawStyle===h.MSA&&(w="");let v=!0,T=!0,C="difference";if(null!=y.gridCell&&null!=y.gridCell.cell.column&&(v=y.gridCell.cell.column.temp["color-code"]??!0,T=y.gridCell.cell.column.temp["compare-with-current"]??!0,C=y.gridCell.cell.column.temp["highlight-difference"]??"difference"),y.referenceSequence){const e=y.referenceSequence[y.wordIdx];T&&y.referenceSequence.length>0&&"difference"===C&&(y.transparencyRate=b==e?.7:y.transparencyRate),T&&y.referenceSequence.length>0&&"equal"===C&&(y.transparencyRate=b!=e?.7:y.transparencyRate)}null!=y.maxLengthOfMonomer&&(b=l(b,y.maxLengthOfMonomer));const A=b+w;(p=y.monomerTextSizeMap)[A]??(p[A]=e.measureText(A));let E=y.monomerTextSizeMap[A];(g=y.monomerTextSizeMap)[b]??(g[b]=e.measureText(b));let S=y.monomerTextSizeMap[b].width;const M=u/2-(E.fontBoundingBoxAscent+E.fontBoundingBoxDescent)/2+1;(f=y.monomerTextSizeMap)[w]??(f[w]=e.measureText(w));const P=y.monomerTextSizeMap[w].width;function _(t,r){let l=v?y.color:a;y.selectedPosition===y.wordIdx+1&&(e.fillStyle="rgba(60, 177, 115, 0.2)",e.fillRect(n+t-4,o-5,y.monomerTextSizeMap[b].width+8,u+10),l=i.Color.toHtml(i.Color.setAlpha(i.Color.fromHtml(l),255))),e.fillStyle=l,e.globalAlpha=1-y.transparencyRate,y.drawStyle===h.classic&&(e.fillText(b,n+t,o+M),e.fillStyle=s,e.fillText(w,n+r,o+M)),y.drawStyle===h.MSA&&e.fillText(b,n+t,o+M),e.globalAlpha=1}E=E.width,y.drawStyle===h.MSA&&(S=y.maxWord[y.wordIdx],E=y.maxWord[y.wordIdx]);const I=(y.maxWord[y.wordIdx]??0)-(y.maxWord[0]??0);if(y.left||E>c)return _(I,I+S),n+I+S+P;{const e=(c-E)/2;return _(e,e+S),n+I+e+S}}},3890:(e,t,n)=>{"use strict";n.d(t,{TE:()=>u,aS:()=>d,wz:()=>h});var i=n(6082),o=n(7389),r=n(4328),s=n(1991),a=n.n(s),l=n(7150);const c=60;function u(){const e=r.shell.tv.grid,t=e.dataFrame,n=a().count(0).take(t.columns.length).map(e=>t.columns.byIndex(e)).filter(e=>e.semType!==i.SEMTYPE.MACROMOLECULE).toArray().find(e=>-1!==e.name.toLowerCase().indexOf("id")),s=n?[n]:[],u=o.input.columns("Seq id columns",{table:t,value:s,filter:e=>e.semType!==i.SEMTYPE.MACROMOLECULE}),d=a().count(0).take(t.columns.length).map(e=>t.columns.byIndex(e)).filter(e=>!(!e||e.semType!==i.SEMTYPE.MACROMOLECULE)&&l._package.seqHelper.getSeqHandler(e).isFasta()).toArray(),m=d.length>0?d[0]:null,p=o.input.column("Seq column",{table:t,value:m,filter:e=>!(!e||e.semType!==i.SEMTYPE.MACROMOLECULE)&&l._package.seqHelper.getSeqHandler(e).isFasta()}),g=o.input.int("FASTA line width",{value:c});o.dialog({title:"Save as FASTA"}).add(o.inputs([u,p,g])).onOK(()=>{const t=u.value??[],n=p.value??null,i=g.value??c;n||r.shell.warning("Seq column is mandatory to save as FASTA.");const o=h(t,l._package.seqHelper.getSeqHandler(n),i),s=document.createElement("a");s.setAttribute("href",`data:text/plain;charset=utf-8,${encodeURIComponent(o)}`),s.setAttribute("download",`${e.dataFrame.name}.fasta`),s.click()}).show()}function h(e,t,n=c,i="\n"){const o=[];for(let r=0;r<t.length;r++){const s=e.map(e=>e.get(r).toString()).join("|"),a=d(t.getSplitted(r),n);o.push(`>${s}${i}`);for(const e of a)o.push(`${e}${i}`)}return"".concat(...o)}function d(e,t=c){let n=0;const i=e.length,o=[];for(;n<i;){const i=a().count(n).take(Math.min(e.length-n,t)).map(t=>e.getOriginal(t)).toArray(),r=i.map(e=>e.length>1?`[${e}]`:e).reduce((e,t)=>e+t,"");o.push(r),n+=i.length}return o}},3966:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(5765),s=n(5457),a={keyword:"items",type:"array",schemaType:["object","boolean"],before:"uniqueItems",error:{message:({params:{len:e}})=>i.str`must NOT have more than ${e} items`,params:({params:{len:e}})=>i._`{limit: ${e}}`},code(e){const{schema:t,parentSchema:n,it:i}=e,{prefixItems:a}=n;i.items=!0,(0,o.alwaysValidSchema)(i,t)||(a?(0,s.validateAdditionalItems)(e,a):e.ok((0,r.validateArray)(e)))}};t.default=a},4003:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5765),o=n(9029),r=n(4227),s={keyword:"required",type:"object",schemaType:"array",$data:!0,error:{message:({params:{missingProperty:e}})=>o.str`must have required property '${e}'`,params:({params:{missingProperty:e}})=>o._`{missingProperty: ${e}}`},code(e){const{gen:t,schema:n,schemaCode:s,data:a,$data:l,it:c}=e,{opts:u}=c;if(!l&&0===n.length)return;const h=n.length>=u.loopRequired;if(c.allErrors?function(){if(h||l)e.block$data(o.nil,d);else for(const t of n)(0,i.checkReportMissingProp)(e,t)}():function(){const r=t.let("missing");if(h||l){const n=t.let("valid",!0);e.block$data(n,()=>function(n,r){e.setParams({missingProperty:n}),t.forOf(n,s,()=>{t.assign(r,(0,i.propertyInData)(t,a,n,u.ownProperties)),t.if((0,o.not)(r),()=>{e.error(),t.break()})},o.nil)}(r,n)),e.ok(n)}else t.if((0,i.checkMissingProp)(e,n,r)),(0,i.reportMissingProp)(e,r),t.else()}(),u.strictRequired){const t=e.parentSchema.properties,{definedProperties:i}=e.it;for(const e of n)if(void 0===(null==t?void 0:t[e])&&!i.has(e)){const t=`required property "${e}" is not defined at "${c.schemaEnv.baseId+c.errSchemaPath}" (strictRequired)`;(0,r.checkStrictMode)(c,t,c.opts.strictRequired)}}function d(){t.forOf("prop",s,n=>{e.setParams({missingProperty:n}),t.if((0,i.noPropertyInData)(t,a,n,u.ownProperties),()=>e.error())})}}};t.default=s},4025:(e,t,n)=>{"use strict";n.d(t,{C:()=>a,j:()=>s});var i=n(6082),o=n(439),r=n(7278);const s=new class{constructor(){this.seqHandler="seq-handler",this.notationProvider="seq-handler.notation-provider"}};class a extends i.SemanticValue{get value(){return this.seqHandler.column.get(this.rowIdx)}set value(e){this.seqHandler.column.set(this.rowIdx,e)}get helm(){return this.seqHandler.getHelm(this.rowIdx)}isDna(){return this.seqHandler.alphabet===o.YI.DNA}isRna(){return this.seqHandler.alphabet===o.YI.RNA}isNaturalPeptide(){return this.seqHandler.alphabet===o.YI.PT}isHelm(){return this.seqHandler.isHelm()}constructor(e,t){if(null==t.column.dataFrame)throw new Error("Attribute .dataFrame is required for SeqValueBase from cell");const n=t.column.dataFrame.cell(e,t.column.name);super(i.SemanticValue.fromTableCell(n).dart),this.rowIdx=e,this.seqHandler=t}getSplitted(){return this.seqHandler.getSplitted(this.rowIdx)}getSplittedWithSugarsAndPhosphates(){if(!this.isDna()&&!this.isRna())return this.getSplitted();const e=(0,r.qp)(this.helm),t=[],n=/\(|\)/;for(let i=0;i<e.length;i++){const o=e.getOriginal(i),r=o.split(n).filter(e=>!!e);3===r.length?(t.push(r[0]),t.push(r[1]),t.push(r[2])):t.push(o)}return new r.Mu(t,this.seqHandler.defaultGapOriginal)}}},4042:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.CodeGen=t.Name=t.nil=t.stringify=t.str=t._=t.KeywordCxt=void 0;var i=n(2586);Object.defineProperty(t,"KeywordCxt",{enumerable:!0,get:function(){return i.KeywordCxt}});var o=n(9029);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return o._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return o.str}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return o.stringify}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return o.nil}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return o.Name}}),Object.defineProperty(t,"CodeGen",{enumerable:!0,get:function(){return o.CodeGen}});const r=n(3558),s=n(4551),a=n(396),l=n(3835),c=n(9029),u=n(6939),h=n(208),d=n(4227),m=n(3837),p=n(5944),g=(e,t)=>new RegExp(e,t);g.code="new RegExp";const f=["removeAdditional","useDefaults","coerceTypes"],y=new Set(["validate","serialize","parse","wrapper","root","schema","keyword","pattern","formats","validate$data","func","obj","Error"]),b={errorDataPath:"",format:"`validateFormats: false` can be used instead.",nullable:'"nullable" keyword is supported by default.',jsonPointers:"Deprecated jsPropertySyntax can be used instead.",extendRefs:"Deprecated ignoreKeywordsWithRef can be used instead.",missingRefs:"Pass empty schema with $id that should be ignored to ajv.addSchema.",processCode:"Use option `code: {process: (code, schemaEnv: object) => string}`",sourceCode:"Use option `code: {source: true}`",strictDefaults:"It is default now, see option `strict`.",strictKeywords:"It is default now, see option `strict`.",uniqueItems:'"uniqueItems" keyword is always validated.',unknownFormats:"Disable strict mode or pass `true` to `ajv.addFormat` (or `formats` option).",cache:"Map is used as cache, schema object as key.",serialize:"Map is used as cache, schema object as key.",ajvErrors:"It is default now."},w={ignoreKeywordsWithRef:"",jsPropertySyntax:"",unicode:'"minLength"/"maxLength" account for unicode characters by default.'};function v(e){var t,n,i,o,r,s,a,l,c,u,h,d,m,f,y,b,w,v,T,C,A,E,S,M,P;const _=e.strict,I=null===(t=e.code)||void 0===t?void 0:t.optimize,L=!0===I||void 0===I?1:I||0,x=null!==(i=null===(n=e.code)||void 0===n?void 0:n.regExp)&&void 0!==i?i:g,N=null!==(o=e.uriResolver)&&void 0!==o?o:p.default;return{strictSchema:null===(s=null!==(r=e.strictSchema)&&void 0!==r?r:_)||void 0===s||s,strictNumbers:null===(l=null!==(a=e.strictNumbers)&&void 0!==a?a:_)||void 0===l||l,strictTypes:null!==(u=null!==(c=e.strictTypes)&&void 0!==c?c:_)&&void 0!==u?u:"log",strictTuples:null!==(d=null!==(h=e.strictTuples)&&void 0!==h?h:_)&&void 0!==d?d:"log",strictRequired:null!==(f=null!==(m=e.strictRequired)&&void 0!==m?m:_)&&void 0!==f&&f,code:e.code?{...e.code,optimize:L,regExp:x}:{optimize:L,regExp:x},loopRequired:null!==(y=e.loopRequired)&&void 0!==y?y:200,loopEnum:null!==(b=e.loopEnum)&&void 0!==b?b:200,meta:null===(w=e.meta)||void 0===w||w,messages:null===(v=e.messages)||void 0===v||v,inlineRefs:null===(T=e.inlineRefs)||void 0===T||T,schemaId:null!==(C=e.schemaId)&&void 0!==C?C:"$id",addUsedSchema:null===(A=e.addUsedSchema)||void 0===A||A,validateSchema:null===(E=e.validateSchema)||void 0===E||E,validateFormats:null===(S=e.validateFormats)||void 0===S||S,unicodeRegExp:null===(M=e.unicodeRegExp)||void 0===M||M,int32range:null===(P=e.int32range)||void 0===P||P,uriResolver:N}}class T{constructor(e={}){this.schemas={},this.refs={},this.formats={},this._compilations=new Set,this._loading={},this._cache=new Map,e=this.opts={...e,...v(e)};const{es5:t,lines:n}=this.opts.code;this.scope=new c.ValueScope({scope:{},prefixes:y,es5:t,lines:n}),this.logger=function(e){if(!1===e)return _;if(void 0===e)return console;if(e.log&&e.warn&&e.error)return e;throw new Error("logger must implement log, warn and error methods")}(e.logger);const i=e.validateFormats;e.validateFormats=!1,this.RULES=(0,a.getRules)(),C.call(this,b,e,"NOT SUPPORTED"),C.call(this,w,e,"DEPRECATED","warn"),this._metaOpts=P.call(this),e.formats&&S.call(this),this._addVocabularies(),this._addDefaultMetaSchema(),e.keywords&&M.call(this,e.keywords),"object"==typeof e.meta&&this.addMetaSchema(e.meta),E.call(this),e.validateFormats=i}_addVocabularies(){this.addKeyword("$async")}_addDefaultMetaSchema(){const{$data:e,meta:t,schemaId:n}=this.opts;let i=m;"id"===n&&(i={...m},i.id=i.$id,delete i.$id),t&&e&&this.addMetaSchema(i,i[n],!1)}defaultMeta(){const{meta:e,schemaId:t}=this.opts;return this.opts.defaultMeta="object"==typeof e?e[t]||e:void 0}validate(e,t){let n;if("string"==typeof e){if(n=this.getSchema(e),!n)throw new Error(`no schema with key or ref "${e}"`)}else n=this.compile(e);const i=n(t);return"$async"in n||(this.errors=n.errors),i}compile(e,t){const n=this._addSchema(e,t);return n.validate||this._compileSchemaEnv(n)}compileAsync(e,t){if("function"!=typeof this.opts.loadSchema)throw new Error("options.loadSchema should be a function");const{loadSchema:n}=this.opts;return i.call(this,e,t);async function i(e,t){await o.call(this,e.$schema);const n=this._addSchema(e,t);return n.validate||r.call(this,n)}async function o(e){e&&!this.getSchema(e)&&await i.call(this,{$ref:e},!0)}async function r(e){try{return this._compileSchemaEnv(e)}catch(t){if(!(t instanceof s.default))throw t;return a.call(this,t),await l.call(this,t.missingSchema),r.call(this,e)}}function a({missingSchema:e,missingRef:t}){if(this.refs[e])throw new Error(`AnySchema ${e} is loaded but ${t} cannot be resolved`)}async function l(e){const n=await c.call(this,e);this.refs[e]||await o.call(this,n.$schema),this.refs[e]||this.addSchema(n,e,t)}async function c(e){const t=this._loading[e];if(t)return t;try{return await(this._loading[e]=n(e))}finally{delete this._loading[e]}}}addSchema(e,t,n,i=this.opts.validateSchema){if(Array.isArray(e)){for(const t of e)this.addSchema(t,void 0,n,i);return this}let o;if("object"==typeof e){const{schemaId:t}=this.opts;if(o=e[t],void 0!==o&&"string"!=typeof o)throw new Error(`schema ${t} must be string`)}return t=(0,u.normalizeId)(t||o),this._checkUnique(t),this.schemas[t]=this._addSchema(e,n,t,i,!0),this}addMetaSchema(e,t,n=this.opts.validateSchema){return this.addSchema(e,t,!0,n),this}validateSchema(e,t){if("boolean"==typeof e)return!0;let n;if(n=e.$schema,void 0!==n&&"string"!=typeof n)throw new Error("$schema must be a string");if(n=n||this.opts.defaultMeta||this.defaultMeta(),!n)return this.logger.warn("meta-schema not available"),this.errors=null,!0;const i=this.validate(n,e);if(!i&&t){const e="schema is invalid: "+this.errorsText();if("log"!==this.opts.validateSchema)throw new Error(e);this.logger.error(e)}return i}getSchema(e){let t;for(;"string"==typeof(t=A.call(this,e));)e=t;if(void 0===t){const{schemaId:n}=this.opts,i=new l.SchemaEnv({schema:{},schemaId:n});if(t=l.resolveSchema.call(this,i,e),!t)return;this.refs[e]=t}return t.validate||this._compileSchemaEnv(t)}removeSchema(e){if(e instanceof RegExp)return this._removeAllSchemas(this.schemas,e),this._removeAllSchemas(this.refs,e),this;switch(typeof e){case"undefined":return this._removeAllSchemas(this.schemas),this._removeAllSchemas(this.refs),this._cache.clear(),this;case"string":{const t=A.call(this,e);return"object"==typeof t&&this._cache.delete(t.schema),delete this.schemas[e],delete this.refs[e],this}case"object":{const t=e;this._cache.delete(t);let n=e[this.opts.schemaId];return n&&(n=(0,u.normalizeId)(n),delete this.schemas[n],delete this.refs[n]),this}default:throw new Error("ajv.removeSchema: invalid parameter")}}addVocabulary(e){for(const t of e)this.addKeyword(t);return this}addKeyword(e,t){let n;if("string"==typeof e)n=e,"object"==typeof t&&(this.logger.warn("these parameters are deprecated, see docs for addKeyword"),t.keyword=n);else{if("object"!=typeof e||void 0!==t)throw new Error("invalid addKeywords parameters");if(n=(t=e).keyword,Array.isArray(n)&&!n.length)throw new Error("addKeywords: keyword must be string or non-empty array")}if(L.call(this,n,t),!t)return(0,d.eachItem)(n,e=>x.call(this,e)),this;R.call(this,t);const i={...t,type:(0,h.getJSONTypes)(t.type),schemaType:(0,h.getJSONTypes)(t.schemaType)};return(0,d.eachItem)(n,0===i.type.length?e=>x.call(this,e,i):e=>i.type.forEach(t=>x.call(this,e,i,t))),this}getKeyword(e){const t=this.RULES.all[e];return"object"==typeof t?t.definition:!!t}removeKeyword(e){const{RULES:t}=this;delete t.keywords[e],delete t.all[e];for(const n of t.rules){const t=n.rules.findIndex(t=>t.keyword===e);t>=0&&n.rules.splice(t,1)}return this}addFormat(e,t){return"string"==typeof t&&(t=new RegExp(t)),this.formats[e]=t,this}errorsText(e=this.errors,{separator:t=", ",dataVar:n="data"}={}){return e&&0!==e.length?e.map(e=>`${n}${e.instancePath} ${e.message}`).reduce((e,n)=>e+t+n):"No errors"}$dataMetaSchema(e,t){const n=this.RULES.all;e=JSON.parse(JSON.stringify(e));for(const i of t){const t=i.split("/").slice(1);let o=e;for(const e of t)o=o[e];for(const e in n){const t=n[e];if("object"!=typeof t)continue;const{$data:i}=t.definition,r=o[e];i&&r&&(o[e]=H(r))}}return e}_removeAllSchemas(e,t){for(const n in e){const i=e[n];t&&!t.test(n)||("string"==typeof i?delete e[n]:i&&!i.meta&&(this._cache.delete(i.schema),delete e[n]))}}_addSchema(e,t,n,i=this.opts.validateSchema,o=this.opts.addUsedSchema){let r;const{schemaId:s}=this.opts;if("object"==typeof e)r=e[s];else{if(this.opts.jtd)throw new Error("schema must be object");if("boolean"!=typeof e)throw new Error("schema must be object or boolean")}let a=this._cache.get(e);if(void 0!==a)return a;n=(0,u.normalizeId)(r||n);const c=u.getSchemaRefs.call(this,e,n);return a=new l.SchemaEnv({schema:e,schemaId:s,meta:t,baseId:n,localRefs:c}),this._cache.set(a.schema,a),o&&!n.startsWith("#")&&(n&&this._checkUnique(n),this.refs[n]=a),i&&this.validateSchema(e,!0),a}_checkUnique(e){if(this.schemas[e]||this.refs[e])throw new Error(`schema with key or id "${e}" already exists`)}_compileSchemaEnv(e){if(e.meta?this._compileMetaSchema(e):l.compileSchema.call(this,e),!e.validate)throw new Error("ajv implementation error");return e.validate}_compileMetaSchema(e){const t=this.opts;this.opts=this._metaOpts;try{l.compileSchema.call(this,e)}finally{this.opts=t}}}function C(e,t,n,i="error"){for(const o in e){const r=o;r in t&&this.logger[i](`${n}: option ${o}. ${e[r]}`)}}function A(e){return e=(0,u.normalizeId)(e),this.schemas[e]||this.refs[e]}function E(){const e=this.opts.schemas;if(e)if(Array.isArray(e))this.addSchema(e);else for(const t in e)this.addSchema(e[t],t)}function S(){for(const e in this.opts.formats){const t=this.opts.formats[e];t&&this.addFormat(e,t)}}function M(e){if(Array.isArray(e))this.addVocabulary(e);else{this.logger.warn("keywords option as map is deprecated, pass array");for(const t in e){const n=e[t];n.keyword||(n.keyword=t),this.addKeyword(n)}}}function P(){const e={...this.opts};for(const t of f)delete e[t];return e}T.ValidationError=r.default,T.MissingRefError=s.default,t.default=T;const _={log(){},warn(){},error(){}},I=/^[a-z_$][a-z0-9_$:-]*$/i;function L(e,t){const{RULES:n}=this;if((0,d.eachItem)(e,e=>{if(n.keywords[e])throw new Error(`Keyword ${e} is already defined`);if(!I.test(e))throw new Error(`Keyword ${e} has invalid name`)}),t&&t.$data&&!("code"in t)&&!("validate"in t))throw new Error('$data keyword must have "code" or "validate" function')}function x(e,t,n){var i;const o=null==t?void 0:t.post;if(n&&o)throw new Error('keyword with "post" flag cannot have "type"');const{RULES:r}=this;let s=o?r.post:r.rules.find(({type:e})=>e===n);if(s||(s={type:n,rules:[]},r.rules.push(s)),r.keywords[e]=!0,!t)return;const a={keyword:e,definition:{...t,type:(0,h.getJSONTypes)(t.type),schemaType:(0,h.getJSONTypes)(t.schemaType)}};t.before?N.call(this,s,a,t.before):s.rules.push(a),r.all[e]=a,null===(i=t.implements)||void 0===i||i.forEach(e=>this.addKeyword(e))}function N(e,t,n){const i=e.rules.findIndex(e=>e.keyword===n);i>=0?e.rules.splice(i,0,t):(e.rules.push(t),this.logger.warn(`rule ${n} is not defined`))}function R(e){let{metaSchema:t}=e;void 0!==t&&(e.$data&&this.opts.$data&&(t=H(t)),e.validateSchema=this.compile(t,!0))}const $={$ref:"https://raw.githubusercontent.com/ajv-validator/ajv/master/lib/refs/data.json#"};function H(e){return{anyOf:[e,$]}}},4139:(e,t,n)=>{"use strict";n.d(t,{HX:()=>h,J:()=>c,b9:()=>u,gN:()=>a,uF:()=>r});var i,o,r,s=n(8152);!function(e){e.SPLIT_COL="~split",e.ACTIVITY="~activity",e.ACTIVITY_SCALED="activity_scaled",e.ALIGNED_SEQUENCE="~aligned_sequence",e.AMINO_ACID_RESIDUE="AAR",e.POSITION="Pos",e.P_VALUE="pValue",e.MEAN_DIFFERENCE="Mean difference"}(i||(i={})),function(e){e.AAR="AAR",e.POSITION="Pos",e.SELECTION="selection"}(o||(o={})),function(e){e.MONOMER="Monomer",e.MACROMOLECULE_DIFFERENCE="MacromoleculeDifference",e.ACTIVITY="activity",e.ACTIVITY_SCALED="activityScaled"}(r||(r={}));const a="MSA";var l,c;!function(e){e.CELL_CHANGING="isCellChanging"}(l||(l={})),function(e){e.SEPARATOR="."}(c||(c={}));const u="3.3.1",h={pepsea:{gapOpen:1.53,gapExtend:0,method:s.ZY[0]},kalign:{gapOpen:-1,gapExtend:-1,terminalGap:-1}}},4152:(e,t,n)=>{"use strict";n.d(t,{$u:()=>l,oT:()=>h});var i=n(6082),o=n(7362),r=n(4971);function s(e,t=!0){if(null==e)return"rgb(100,100,100)";const n=i.Color.fromHtml(e);if(t){const e=i.Color.g(n),t=i.Color.r(n),o=i.Color.b(n),r=Math.sqrt(Math.pow(0-t,2)+Math.pow(0-e,2)+Math.pow(0-o,2));if(r>210)return`rgb(${t/r*210},${e/r*210},${o/r*210})`}return i.Color.toRgb(n)}class a{static hashCode(e){let t=0;if(0===e.length)return t;for(let n=0;n<e.length;n++)t=(t<<5)-t+e.charCodeAt(n),t|=0;return t}}class l{}class c extends l{get(e,t){return"#666666"}}class u extends l{static get palette(){return u._pallete||(u._pallete=u.buildPalette()),u._pallete}static buildPalette(){return(0,r.pj)().then(e=>{e.awaitLoaded(1/0).then(()=>{const t=e.getMonomerLib();t.onChanged.subscribe(()=>{u.customMonomerColors={},u.polymerTypes=t.getPolymerTypes();for(const e of this.polymerTypes){const n=t.getMonomerSymbolsByType(e);for(const i of n){const n=t.getMonomer(e,i);n?.meta?.colors?.default?.background&&(this.customMonomerColors[i]||(this.customMonomerColors[i]={}),this.customMonomerColors[i][e]=s(n.meta.colors.default.background))}}})})}),[].concat(...Object.values(o.e.colourPalette))}get(e,t){const n=u.palette.length,i=u.customMonomerColors[e],o=t??"PEPTIDE";if(i&&i[o])return i[o];const r=a.hashCode(e)%n;return s(u.palette[r])}}u._pallete=null,u.customMonomerColors={},u.polymerTypes=[];class h extends o.e{static get Gray(){return void 0===this.gray&&(this.gray=new c),this.gray}static get Color(){return void 0===this.color&&(this.color=new u),this.color}}},4227:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.checkStrictMode=t.getErrorPath=t.Type=t.useFunc=t.setEvaluated=t.evaluatedPropsToName=t.mergeEvaluated=t.eachItem=t.unescapeJsonPointer=t.escapeJsonPointer=t.escapeFragment=t.unescapeFragment=t.schemaRefOrVal=t.schemaHasRulesButRef=t.schemaHasRules=t.checkUnknownRules=t.alwaysValidSchema=t.toHash=void 0;const i=n(9029),o=n(1520);function r(e,t=e.schema){const{opts:n,self:i}=e;if(!n.strictSchema)return;if("boolean"==typeof t)return;const o=i.RULES.keywords;for(const n in t)o[n]||p(e,`unknown keyword: "${n}"`)}function s(e,t){if("boolean"==typeof e)return!e;for(const n in e)if(t[n])return!0;return!1}function a(e){return"number"==typeof e?`${e}`:e.replace(/~/g,"~0").replace(/\//g,"~1")}function l(e){return e.replace(/~1/g,"/").replace(/~0/g,"~")}function c({mergeNames:e,mergeToName:t,mergeValues:n,resultToName:o}){return(r,s,a,l)=>{const c=void 0===a?s:a instanceof i.Name?(s instanceof i.Name?e(r,s,a):t(r,s,a),a):s instanceof i.Name?(t(r,a,s),s):n(s,a);return l!==i.Name||c instanceof i.Name?c:o(r,c)}}function u(e,t){if(!0===t)return e.var("props",!0);const n=e.var("props",i._`{}`);return void 0!==t&&h(e,n,t),n}function h(e,t,n){Object.keys(n).forEach(n=>e.assign(i._`${t}${(0,i.getProperty)(n)}`,!0))}t.toHash=function(e){const t={};for(const n of e)t[n]=!0;return t},t.alwaysValidSchema=function(e,t){return"boolean"==typeof t?t:0===Object.keys(t).length||(r(e,t),!s(t,e.self.RULES.all))},t.checkUnknownRules=r,t.schemaHasRules=s,t.schemaHasRulesButRef=function(e,t){if("boolean"==typeof e)return!e;for(const n in e)if("$ref"!==n&&t.all[n])return!0;return!1},t.schemaRefOrVal=function({topSchemaRef:e,schemaPath:t},n,o,r){if(!r){if("number"==typeof n||"boolean"==typeof n)return n;if("string"==typeof n)return i._`${n}`}return i._`${e}${t}${(0,i.getProperty)(o)}`},t.unescapeFragment=function(e){return l(decodeURIComponent(e))},t.escapeFragment=function(e){return encodeURIComponent(a(e))},t.escapeJsonPointer=a,t.unescapeJsonPointer=l,t.eachItem=function(e,t){if(Array.isArray(e))for(const n of e)t(n);else t(e)},t.mergeEvaluated={props:c({mergeNames:(e,t,n)=>e.if(i._`${n} !== true && ${t} !== undefined`,()=>{e.if(i._`${t} === true`,()=>e.assign(n,!0),()=>e.assign(n,i._`${n} || {}`).code(i._`Object.assign(${n}, ${t})`))}),mergeToName:(e,t,n)=>e.if(i._`${n} !== true`,()=>{!0===t?e.assign(n,!0):(e.assign(n,i._`${n} || {}`),h(e,n,t))}),mergeValues:(e,t)=>!0===e||{...e,...t},resultToName:u}),items:c({mergeNames:(e,t,n)=>e.if(i._`${n} !== true && ${t} !== undefined`,()=>e.assign(n,i._`${t} === true ? true : ${n} > ${t} ? ${n} : ${t}`)),mergeToName:(e,t,n)=>e.if(i._`${n} !== true`,()=>e.assign(n,!0===t||i._`${n} > ${t} ? ${n} : ${t}`)),mergeValues:(e,t)=>!0===e||Math.max(e,t),resultToName:(e,t)=>e.var("items",t)})},t.evaluatedPropsToName=u,t.setEvaluated=h;const d={};var m;function p(e,t,n=e.opts.strictSchema){if(n){if(t=`strict mode: ${t}`,!0===n)throw new Error(t);e.self.logger.warn(t)}}t.useFunc=function(e,t){return e.scopeValue("func",{ref:t,code:d[t.code]||(d[t.code]=new o._Code(t.code))})},function(e){e[e.Num=0]="Num",e[e.Str=1]="Str"}(m||(t.Type=m={})),t.getErrorPath=function(e,t,n){if(e instanceof i.Name){const o=t===m.Num;return n?o?i._`"[" + ${e} + "]"`:i._`"['" + ${e} + "']"`:o?i._`"/" + ${e}`:i._`"/" + ${e}.replace(/~/g, "~0").replace(/\\//g, "~1")`}return n?(0,i.getProperty)(e).toString():"/"+a(e)},t.checkStrictMode=p},4326:(e,t,n)=>{"use strict";n.d(t,{Fo:()=>u,Lp:()=>r,P4:()=>s,fH:()=>o,gp:()=>i,lT:()=>l,mH:()=>a});var i,o,r,s,a,l,c=n(6082);!function(e){e.tooltipWebLogo=".tooltipWebLogo"}(i||(i={})),function(e){e.Entropy="Entropy",e.full="100%"}(o||(o={})),function(e){e.TOP="top",e.MIDDLE="middle",e.BOTTOM="bottom"}(r||(r={})),function(e){e.LEFT="left",e.CENTER="center",e.RIGHT="right"}(s||(s={})),function(e){e.AUTO="auto",e.ON="on",e.OFF="off"}(a||(a={})),function(e){e.Filtered="Filtered",e.Selected="Selected"}(l||(l={}));const u=new class{constructor(){this.sequenceColumnName=null,this.valueAggrType=c.AGG.TOTAL_COUNT,this.valueColumnName="Activity",this.startPositionName=null,this.endPositionName=null,this.skipEmptySequences=!0,this.skipEmptyPositions=!1,this.shrinkEmptyTail=!0,this.backgroundColor=4294967295,this.positionHeight=o.Entropy,this.positionWidth=20,this.verticalAlignment=r.MIDDLE,this.horizontalAlignment=s.CENTER,this.fixWidth=!1,this.fitArea=!0,this.minHeight=25,this.maxHeight=300,this.maxMonomerLetters=5,this.showPositionLabels=!0,this.positionMarginState=a.AUTO,this.positionMargin=0,this.filterSource=l.Filtered}}},4328:e=>{"use strict";e.exports=grok},4356:(e,t,n)=>{"use strict";n.d(t,{E:()=>h,u:()=>u});var i=n(4328);const o="Libraries",r="Settings",s="DuplicateMonomerPreferences",a=4e3,l="nextChunk";let c=Promise.resolve();async function u(){let e;return c=c.then(async()=>{const t=await i.userSettings.getValue(o,r,!0);e=t?JSON.parse(t):{exclude:[],explicit:[],duplicateMonomerPreferences:{}};const n=await async function(){let e=await i.userSettings.getValue(o,s,!0)??"";if(!e)return{};for(;e.endsWith(l);){const t=`${s}${e.charAt(e.length-l.length-1)}`,n=await i.userSettings.getValue(o,t,!0)??"";e=e.slice(0,e.length-l.length-1)+n}return JSON.parse(e)}();e.exclude=e.exclude instanceof Array?e.exclude:[],e.explicit=e.explicit instanceof Array?e.explicit:[],e.duplicateMonomerPreferences=e.duplicateMonomerPreferences instanceof Object?e.duplicateMonomerPreferences:{};for(const t in n){e.duplicateMonomerPreferences[t]=e.duplicateMonomerPreferences[t]??{};for(const i in n[t])for(const o of n[t][i])e.duplicateMonomerPreferences[t][o]=i}}),await c,e}async function h(e){c=c.then(async()=>{e.duplicateMonomerPreferences=e.duplicateMonomerPreferences??{};const t={};for(const n in e.duplicateMonomerPreferences){t[n]={};for(const i in e.duplicateMonomerPreferences[n]){const o=e.duplicateMonomerPreferences[n][i];t[n][o]=t[n][o]??[],t[n][o].push(i)}}await async function(e){const t=JSON.stringify(e),n=Math.ceil(t.length/a);for(let e=0;e<n;e++){const r=0===e?s:`${s}${e}`,c=e<n-1?`${e+1}`:"",u=t.slice(e*a,(e+1)*a),h=c?u+c+l:u;await i.userSettings.add(o,r,h,!0)}}(t),e.duplicateMonomerPreferences={},await i.userSettings.add(o,r,JSON.stringify(e),!0)}),await c}},4426:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(4227),o={keyword:["then","else"],schemaType:["object","boolean"],code({keyword:e,parentSchema:t,it:n}){void 0===t.if&&(0,i.checkStrictMode)(n,`"${e}" without "if" is ignored`)}};t.default=o},4486:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={keyword:["maxProperties","minProperties"],type:"object",schemaType:"number",$data:!0,error:{message({keyword:e,schemaCode:t}){const n="maxProperties"===e?"more":"fewer";return i.str`must NOT have ${n} than ${t} properties`},params:({schemaCode:e})=>i._`{limit: ${e}}`},code(e){const{keyword:t,data:n,schemaCode:o}=e,r="maxProperties"===t?i.operators.GT:i.operators.LT;e.fail$data(i._`Object.keys(${n}).length ${r} ${o}`)}};t.default=o},4495:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.extendSubschemaMode=t.extendSubschemaData=t.getSubschema=void 0;const i=n(9029),o=n(4227);t.getSubschema=function(e,{keyword:t,schemaProp:n,schema:r,schemaPath:s,errSchemaPath:a,topSchemaRef:l}){if(void 0!==t&&void 0!==r)throw new Error('both "keyword" and "schema" passed, only one allowed');if(void 0!==t){const r=e.schema[t];return void 0===n?{schema:r,schemaPath:i._`${e.schemaPath}${(0,i.getProperty)(t)}`,errSchemaPath:`${e.errSchemaPath}/${t}`}:{schema:r[n],schemaPath:i._`${e.schemaPath}${(0,i.getProperty)(t)}${(0,i.getProperty)(n)}`,errSchemaPath:`${e.errSchemaPath}/${t}/${(0,o.escapeFragment)(n)}`}}if(void 0!==r){if(void 0===s||void 0===a||void 0===l)throw new Error('"schemaPath", "errSchemaPath" and "topSchemaRef" are required with "schema"');return{schema:r,schemaPath:s,topSchemaRef:l,errSchemaPath:a}}throw new Error('either "keyword" or "schema" must be passed')},t.extendSubschemaData=function(e,t,{dataProp:n,dataPropType:r,data:s,dataTypes:a,propertyName:l}){if(void 0!==s&&void 0!==n)throw new Error('both "data" and "dataProp" passed, only one allowed');const{gen:c}=t;if(void 0!==n){const{errorPath:s,dataPathArr:a,opts:l}=t;u(c.let("data",i._`${t.data}${(0,i.getProperty)(n)}`,!0)),e.errorPath=i.str`${s}${(0,o.getErrorPath)(n,r,l.jsPropertySyntax)}`,e.parentDataProperty=i._`${n}`,e.dataPathArr=[...a,e.parentDataProperty]}function u(n){e.data=n,e.dataLevel=t.dataLevel+1,e.dataTypes=[],t.definedProperties=new Set,e.parentData=t.data,e.dataNames=[...t.dataNames,n]}void 0!==s&&(u(s instanceof i.Name?s:c.let("data",s,!0)),void 0!==l&&(e.propertyName=l)),a&&(e.dataTypes=a)},t.extendSubschemaMode=function(e,{jtdDiscriminator:t,jtdMetadata:n,compositeRule:i,createErrors:o,allErrors:r}){void 0!==i&&(e.compositeRule=i),void 0!==o&&(e.createErrors=o),void 0!==r&&(e.allErrors=r),e.jtdDiscriminator=t,e.jtdMetadata=n}},4551:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(6939);class o extends Error{constructor(e,t,n,o){super(o||`can't resolve reference ${n} from id ${t}`),this.missingRef=(0,i.resolveUrl)(e,t,n),this.missingSchema=(0,i.normalizeId)((0,i.getFullPath)(e,this.missingRef))}}t.default=o},4574:(e,t,n)=>{"use strict";n.d(t,{O:()=>r,n:()=>o});var i=n(1858);class o{constructor(e,t=!0,n){return this.substructure=e,this.readOnly=t,this.logger=n,new Proxy(this,{set:(e,t,n)=>{if(this.logger?.debug(`BioFilterProps.set ${t.toString()}( '${n}' )`),this.readOnly)throw new Error("Properties are immutable.");return e[t]=n,!0}})}}class r{constructor(){this.onChanged=new i.Subject,this._props=null,this._propsChanging=!1}get props(){return this._props||(this._props=this.emptyProps),this._props}set props(e){this._propsChanging=!0;try{this._props=e,this.applyProps(),this.onChanged.next()}finally{this._propsChanging=!1}}saveProps(){const e={};for(const[t,n]of Object.entries(this.props))"_onChanged"!==t&&"logger"!==t&&(e[t]=this.props[t]);return e}async detach(){}get filterSummary(){return this.props.substructure}get isFiltering(){return""!==this.props.substructure}resetFilter(){this.props=this.emptyProps,this.onChanged.next()}}},4588:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/format-annotation","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/format-annotation":true},"$dynamicAnchor":"meta","title":"Format vocabulary meta-schema for annotation results","type":["object","boolean"],"properties":{"format":{"type":"string"}}}')},4737:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o={keyword:"format",type:["number","string"],schemaType:"string",$data:!0,error:{message:({schemaCode:e})=>i.str`must match format "${e}"`,params:({schemaCode:e})=>i._`{format: ${e}}`},code(e,t){const{gen:n,data:o,$data:r,schema:s,schemaCode:a,it:l}=e,{opts:c,errSchemaPath:u,schemaEnv:h,self:d}=l;c.validateFormats&&(r?function(){const r=n.scopeValue("formats",{ref:d.formats,code:c.code.formats}),s=n.const("fDef",i._`${r}[${a}]`),l=n.let("fType"),u=n.let("format");n.if(i._`typeof ${s} == "object" && !(${s} instanceof RegExp)`,()=>n.assign(l,i._`${s}.type || "string"`).assign(u,i._`${s}.validate`),()=>n.assign(l,i._`"string"`).assign(u,s)),e.fail$data((0,i.or)(!1===c.strictSchema?i.nil:i._`${a} && !${u}`,function(){const e=h.$async?i._`(${s}.async ? await ${u}(${o}) : ${u}(${o}))`:i._`${u}(${o})`,n=i._`(typeof ${u} == "function" ? ${e} : ${u}.test(${o}))`;return i._`${u} && ${u} !== true && ${l} === ${t} && !${n}`}()))}():function(){const r=d.formats[s];if(!r)return void function(){if(!1!==c.strictSchema)throw new Error(e());function e(){return`unknown format "${s}" ignored in schema at path "${u}"`}d.logger.warn(e())}();if(!0===r)return;const[a,l,m]=function(e){const t=e instanceof RegExp?(0,i.regexpCode)(e):c.code.formats?i._`${c.code.formats}${(0,i.getProperty)(s)}`:void 0,o=n.scopeValue("formats",{key:s,ref:e,code:t});return"object"!=typeof e||e instanceof RegExp?["string",e,o]:[e.type||"string",e.validate,i._`${o}.validate`]}(r);a===t&&e.pass(function(){if("object"==typeof r&&!(r instanceof RegExp)&&r.async){if(!h.$async)throw new Error("async format in sync schema");return i._`await ${m}(${o})`}return"function"==typeof l?i._`${m}(${o})`:i._`${m}.test(${o})`}())}())}};t.default=o},4834:(e,t,n)=>{"use strict";const{HEX:i}=n(4914),o=/^(?:(?:25[0-5]|2[0-4]\d|1\d{2}|[1-9]\d|\d)\.){3}(?:25[0-5]|2[0-4]\d|1\d{2}|[1-9]\d|\d)$/u;function r(e){if(c(e,".")<3)return{host:e,isIPV4:!1};const t=e.match(o)||[],[n]=t;return n?{host:l(n,"."),isIPV4:!0}:{host:e,isIPV4:!1}}function s(e,t=!1){let n="",o=!0;for(const t of e){if(void 0===i[t])return;"0"!==t&&!0===o&&(o=!1),o||(n+=t)}return t&&0===n.length&&(n="0"),n}function a(e){if(c(e,":")<2)return{host:e,isIPV6:!1};const t=function(e){let t=0;const n={error:!1,address:"",zone:""},i=[],o=[];let r=!1,a=!1,l=!1;function c(){if(o.length){if(!1===r){const e=s(o);if(void 0===e)return n.error=!0,!1;i.push(e)}o.length=0}return!0}for(let s=0;s<e.length;s++){const u=e[s];if("["!==u&&"]"!==u)if(":"!==u)if("%"===u){if(!c())break;r=!0}else o.push(u);else{if(!0===a&&(l=!0),!c())break;if(t++,i.push(":"),t>7){n.error=!0;break}s-1>=0&&":"===e[s-1]&&(a=!0)}}return o.length&&(r?n.zone=o.join(""):l?i.push(o.join("")):i.push(s(o))),n.address=i.join(""),n}(e);if(t.error)return{host:e,isIPV6:!1};{let e=t.address,n=t.address;return t.zone&&(e+="%"+t.zone,n+="%25"+t.zone),{host:e,escapedHost:n,isIPV6:!0}}}function l(e,t){let n="",i=!0;const o=e.length;for(let r=0;r<o;r++){const s=e[r];"0"===s&&i?(r+1<=o&&e[r+1]===t||r+1===o)&&(n+=s,i=!1):(i=s===t,n+=s)}return n}function c(e,t){let n=0;for(let i=0;i<e.length;i++)e[i]===t&&n++;return n}const u=/^\.\.?\//u,h=/^\/\.(?:\/|$)/u,d=/^\/\.\.(?:\/|$)/u,m=/^\/?(?:.|\n)*?(?=\/|$)/u;e.exports={recomposeAuthority:function(e){const t=[];if(void 0!==e.userinfo&&(t.push(e.userinfo),t.push("@")),void 0!==e.host){let n=unescape(e.host);const i=r(n);if(i.isIPV4)n=i.host;else{const t=a(i.host);n=!0===t.isIPV6?`[${t.escapedHost}]`:e.host}t.push(n)}return"number"!=typeof e.port&&"string"!=typeof e.port||(t.push(":"),t.push(String(e.port))),t.length?t.join(""):void 0},normalizeComponentEncoding:function(e,t){const n=!0!==t?escape:unescape;return void 0!==e.scheme&&(e.scheme=n(e.scheme)),void 0!==e.userinfo&&(e.userinfo=n(e.userinfo)),void 0!==e.host&&(e.host=n(e.host)),void 0!==e.path&&(e.path=n(e.path)),void 0!==e.query&&(e.query=n(e.query)),void 0!==e.fragment&&(e.fragment=n(e.fragment)),e},removeDotSegments:function(e){const t=[];for(;e.length;)if(e.match(u))e=e.replace(u,"");else if(e.match(h))e=e.replace(h,"/");else if(e.match(d))e=e.replace(d,"/"),t.pop();else if("."===e||".."===e)e="";else{const n=e.match(m);if(!n)throw new Error("Unexpected dot segment condition");{const i=n[0];e=e.slice(i.length),t.push(i)}}return t.join("")},normalizeIPv4:r,normalizeIPv6:a,stringArrayToHexStripped:s}},4845:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(3025),o={keyword:"dependentSchemas",type:"object",schemaType:"object",code:e=>(0,i.validateSchemaDeps)(e)};t.default=o},4870:(e,t,n)=>{"use strict";n.d(t,{Kd:()=>a,Ku:()=>s,me:()=>r});var i=n(4328),o=n(6082);function r(){const e=i.shell.t.columns.bySemTypeAll(o.SEMTYPE.MACROMOLECULE);return null==e?(i.shell.error("Current table does not contain macromolecules"),[]):e}function s(e,t){e.innerHTML="",e.append(t)}function a(e,t,n,i,o){const r=()=>{const o=e.col(t);o&&(o.width=n),i&&(e.props.rowHeight=i)};if(o)return void r();const s=e.onAfterDrawOverlay.subscribe(()=>{s.unsubscribe(),setTimeout(()=>{r()})})}},4914:e=>{"use strict";e.exports={HEX:{0:0,1:1,2:2,3:3,4:4,5:5,6:6,7:7,8:8,9:9,a:10,A:10,b:11,B:11,c:12,C:12,d:13,D:13,e:14,E:14,f:15,F:15}}},4954:(e,t,n)=>{"use strict";n.d(t,{a7:()=>p,if:()=>f,BQ:()=>y,nI:()=>g});var i=n(4328),o=n(7389),r=n(6082),s=n(8070),a=n(2003),l=n(439);const c=31;async function u(e,t,n=!1,o){const s=t.getSeqHandler(e);let a;o??=new Map;const l=s.isHelm()?t.getSeqMonomers(e):Object.keys(s.stats.freq).filter(e=>""!==e);for(let e=0;e<l.length;e++)o.has(l[e])||o.set(l[e],`${o.size+1}`);if(s.isHelm())a=await i.functions.call("HELM:getMolFiles",{col:e}),a=function(e,t,n=!1){const i=new Array(e.length);for(let o=0;o<e.length;o++){let r=0,s=0,a="\n Datagrok macromolecule handler\n\n 0 0 0 0 0 0 999 V3000\nM V30 BEGIN CTAB\n";const l=e.get(o);r=l.indexOf("\n",r)+1,r=l.indexOf("\n",r)+1,r=l.indexOf("\n",r)+1;const u=parseInt(l.substring(r,r+3)),h=parseInt(l.substring(r+3,r+6));a+=`M V30 COUNTS ${u} ${h} 0 0 0\n`,a+="M V30 BEGIN ATOM\n";for(let e=0;e<u;e++){r=l.indexOf("\n",r)+1+c,s=l.indexOf(" ",r);const i=l.substring(r,s);a+=n?`M V30 ${e+1} R${t.get(i)} 0.000 0.000 0 0\n`:`M V30 ${e+1} At 0.000 0.000 0 0 MASS=${t.get(i)}\n`}a+="M V30 END ATOM\n",a+="M V30 BEGIN BOND\n";for(let e=0;e<h;e++){r=l.indexOf("\n",r)+1;const t=parseInt(l.substring(r,r+3).trim()),n=parseInt(l.substring(r+3,r+6).trim());a+=`M V30 ${e+1} ${parseInt(l.substring(r+6,r+9).trim())} ${t} ${n}\n`}a+="M V30 END BOND\n",a+="M V30 END CTAB\n",a+="M END",i[o]=a}return i}(a,o,n);else{a=new Array(e.length);for(let t=0;t<e.length;t++){const e=h(s.getSplitted(t),o,n);a[t]=e}}return r.Column.fromStrings("monomericMols",a)}function h(e,t,n=!1){let i="\n Datagrok macromolecule handler\n\n 0 0 0 0 0 0 999 V3000\nM V30 BEGIN CTAB\n";i+=`M V30 COUNTS ${e.length} ${e.length?e.length-1:0} 0 0 0\n`,i+="M V30 BEGIN ATOM\n";for(let o=0;o<e.length;o++){const r=e.getCanonical(o);r!==l._S&&(i+=n?`M V30 ${o+1} R${t.get(r)} 0.000 0.000 0 0\n`:`M V30 ${o+1} At 0.000 0.000 0 0 MASS=${t.get(r)}\n`)}i+="M V30 END ATOM\n",i+="M V30 BEGIN BOND\n";for(let t=0;t<e.length-1;t++)i+=`M V30 ${t+1} 1 ${t+1} ${t+2}\n`;return i+="M V30 END BOND\n",i+="M V30 END CTAB\n",i+="M END",i}var d=n(4870);const m="substr_helm";class p{seqHelper;units;separator;inputsDiv;substructureInput;separatorInput;editHelmLink;columnsInput;grid;col;dialog;constructor(e,t){this.seqHelper=t,this.col=e[0],this.createUI()}editHelmLinkAction(){(0,d.Ku)(this.inputsDiv,this.grid.root),o.tools.waitForElementInDom(this.grid.root).then(()=>{setTimeout(()=>{this.grid.cell(m,0).element.children[0].dispatchEvent(new KeyboardEvent("keydown",{key:"Enter"}))},100)})}updateInputs(){const e=this.units===a.Hi.HELM?o.divV([this.columnsInput,this.editHelmLink]):this.units===a.Hi.SEPARATOR?o.inputs([this.columnsInput,this.substructureInput,this.separatorInput]):o.inputs([this.columnsInput,this.substructureInput]);(0,d.Ku)(this.inputsDiv,e)}updateNotationDiv(){this.units=this.col.meta.units,this.separator=this.col.getTag(a.gp.separator);const e=this.dialog.root.getElementsByClassName("notation-text")[0];e&&(e.textContent=`Notation: ${this.units}`)}createUI(){const e=i.shell.tv.dataFrame;this.columnsInput=o.input.column("Column",{table:e,value:this.col,onValueChanged:e=>{this.col=e,this.updateNotationDiv(),this.updateInputs()},filter:e=>e.semType===r.SEMTYPE.MACROMOLECULE}),this.substructureInput=o.input.string("Substructure",{value:""}),this.editHelmLink=o.link("Edit helm",()=>this.editHelmLinkAction(),void 0,{style:{position:"relative",left:"95px"}});const t=r.DataFrame.create(1);t.columns.addNewString(m).init(e=>""),t.col(m).semType=this.col.semType,t.col(m).meta.units=a.Hi.HELM,this.grid=t.plot.grid(),this.separatorInput=o.input.string("Separator",{value:this.separator}),this.inputsDiv=o.div(),this.units=this.col.meta.units,this.separator=this.col.getTag(a.gp.separator),this.updateInputs(),this.dialog=o.dialog("Substructure Search").add(o.divV([o.divText(`Notation: ${this.units}`,"notation-text"),this.inputsDiv])).onOK(async()=>{let e,n=this.units===a.Hi.HELM?t.get(m,0):this.substructureInput.value;this.units===a.Hi.SEPARATOR&&this.separatorInput.value!==this.separator&&this.separatorInput.value&&(n=n.replaceAll(this.separatorInput.value,this.separator)),e=this.units===a.Hi.HELM?await f(n,this.col,this.seqHelper):g(n,this.col),this.col.dataFrame.filter.and(e)}).show()}}function g(e,t,n){const i=n?function(e,t){const n=`${t}`.replace(/[\-\[\]\/\{\}\(\)\*\+\?\.\\\^\$\|]/g,"\\$&"),i=e.charAt(0)===t,o=e.charAt(e.length-1)===t,r=e.replace(new RegExp(`^${n}|${n}$`,"g"),"");return i?o?`${n}${r}${n}`:`${n}${r}${n}|${n}${r}$`:o?`^${r}${n}|${n}${r}${n}`:`^${r}${n}|${n}${r}${n}|${n}${r}$`}(e,n):e,o=r.BitSet.create(t.length);for(let n=0;n<t.length;n++){const r=t.get(n);(r.match(i)||r===e)&&o.set(n,!0,!1)}return o}async function f(e,t,n){t.version!==t.temp["last-invalidated-version"]&&await y(t,n,!0);const o=r.Column.string("helm",1).init(t=>e);o.semType=r.SEMTYPE.MACROMOLECULE,o.meta.units=a.Hi.HELM;const s=await u(o,n,!0,t.temp["monomers-dict"]);return(await i.functions.call("Chem:searchSubstructure",{molStringsColumn:t.temp["monomeric-mols"],molString:s.get(0),molBlockFailover:""})).get(0)}async function y(e,t,n){const i=r.TaskBarProgressIndicator.create(`Invalidating molfiles for ${e.name}`);try{await(0,s.cb)(10);const i=new Map,o=await u(e,t,n,i);e.temp["monomeric-mols"]=o,e.temp["monomers-dict"]=i,e.temp["last-invalidated-version"]=e.version}finally{i.close()}}},4971:(e,t,n)=>{"use strict";n.d(t,{YS:()=>c,ic:()=>r,lH:()=>l,pY:()=>s,pj:()=>a});var i=n(6082),o=n(9192);const r="Files";async function s(e,t){for(const n of e){const e=await n.listLibraries();if(e.includes(t)||e.includes(`${t}.json`))return n}return null}async function a(){const e=i.Func.find({package:"Bio",name:"getMonomerLibHelper"});if(0===e.length)throw new Error('Package "Bio" must be installed for MonomerLibHelper.');return(await e[0].prepare().call()).getOutputParamValue()}class l{constructor(e,t,n,i,r){this.monomerLib=e,this.symbol=t,this.polymerType=n,this.monomerType=i,this.monomerLinks=r,this.error=null;try{this.monomers=this.monomerLinks.map(e=>{const n=this.monomerLib.getMonomer(this.polymerType,e.symbol);if(!n)throw new Error("Monomer not found: ");if(n.lib?.source!=e.source)throw new Error(`Monomer '${t}' found in different library.`);return n})}catch(e){const[t,n]=(0,o.AP)(e);this.error=t,this.monomers=[]}}}class c{constructor(e,t,n=void 0,i=void 0){this.description=e,this.placeholders=t,this.source=n,this.error=i}updateSets(e,t=!1){t&&(this.placeholders=[]);for(const t of e)t.error||this._updateSetInt(t)}_updateSetInt(e){for(const t of e.placeholders)this.placeholders.push(t)}}},5056:(e,t,n)=>{"use strict";e.exports=function(e){var t=n.nc;t&&e.setAttribute("nonce",t)}},5072:e=>{"use strict";var t=[];function n(e){for(var n=-1,i=0;i<t.length;i++)if(t[i].identifier===e){n=i;break}return n}function i(e,i){for(var r={},s=[],a=0;a<e.length;a++){var l=e[a],c=i.base?l[0]+i.base:l[0],u=r[c]||0,h="".concat(c," ").concat(u);r[c]=u+1;var d=n(h),m={css:l[1],media:l[2],sourceMap:l[3],supports:l[4],layer:l[5]};if(-1!==d)t[d].references++,t[d].updater(m);else{var p=o(m,i);i.byIndex=a,t.splice(a,0,{identifier:h,updater:p,references:1})}s.push(h)}return s}function o(e,t){var n=t.domAPI(t);return n.update(e),function(t){if(t){if(t.css===e.css&&t.media===e.media&&t.sourceMap===e.sourceMap&&t.supports===e.supports&&t.layer===e.layer)return;n.update(e=t)}else n.remove()}}e.exports=function(e,o){var r=i(e=e||[],o=o||{});return function(e){e=e||[];for(var s=0;s<r.length;s++){var a=n(r[s]);t[a].references--}for(var l=i(e,o),c=0;c<r.length;c++){var u=n(r[c]);0===t[u].references&&(t[u].updater(),t.splice(u,1))}r=l}}},5333:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5765),o=n(9029),r=n(4227),s=n(4227),a={keyword:"patternProperties",type:"object",schemaType:"object",code(e){const{gen:t,schema:n,data:a,parentSchema:l,it:c}=e,{opts:u}=c,h=(0,i.allSchemaProperties)(n),d=h.filter(e=>(0,r.alwaysValidSchema)(c,n[e]));if(0===h.length||d.length===h.length&&(!c.opts.unevaluated||!0===c.props))return;const m=u.strictSchema&&!u.allowMatchingProperties&&l.properties,p=t.name("valid");!0===c.props||c.props instanceof o.Name||(c.props=(0,s.evaluatedPropsToName)(t,c.props));const{props:g}=c;function f(e){for(const t in m)new RegExp(e).test(t)&&(0,r.checkStrictMode)(c,`property ${t} matches pattern ${e} (use allowMatchingProperties)`)}function y(n){t.forIn("key",a,r=>{t.if(o._`${(0,i.usePattern)(e,n)}.test(${r})`,()=>{const i=d.includes(n);i||e.subschema({keyword:"patternProperties",schemaProp:n,dataProp:r,dataPropType:s.Type.Str},p),c.opts.unevaluated&&!0!==g?t.assign(o._`${g}[${r}]`,!0):i||c.allErrors||t.if((0,o.not)(p),()=>t.break())})})}!function(){for(const e of h)m&&f(e),c.allErrors?y(e):(t.var(p,!0),y(e),t.if(p))}()}};t.default=a},5354:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(494),o={keyword:"prefixItems",type:"array",schemaType:["array"],before:"uniqueItems",code:e=>(0,i.validateTuple)(e,"items")};t.default=o},5413:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(1846),o=n(4845),r=n(2626),s=[i.default,o.default,r.default];t.default=s},5433:(e,t,n)=>{"use strict";n.d(t,{C:()=>h,r:()=>d});var i=n(6082),o=n(7389),r=n(4328),s=n(1757),a=n.n(s),l=n(2003);let c=null,u=[];function h(e,t){let n=e??r.shell.t.columns.bySemType("Macromolecule");if(!n)throw new Error("No column with Macromolecule semantic type found");let s=t.getSeqHandler(n),h=s.notation;const m=o.divText("Current notation: "+h,{style:{"text-align":"center","font-weight":"bold","font-size":"14px",padding:"5px"}}),p=[l.Hi.FASTA,l.Hi.SEPARATOR,l.Hi.HELM,l.Hi.BILN],g=o.input.column("Column",{table:r.shell.t,value:n,filter:e=>e.semType===i.SEMTYPE.MACROMOLECULE,nullable:!1,onValueChanged:e=>(n=e,s=t.getSeqHandler(n),h=s.notation,h===l.Hi.HELM&&(b.value="/"),m.textContent="Current notation: "+h,y=p.filter(e=>e!==h),v=o.input.choice("Convert to",{value:y[0],items:y,onValueChanged:w}),w(),c?.clear(),void c?.add(o.div([m,g.root,v.root,b.root])))}),f=["-",".","/"];let y=p.filter(e=>e!==h);const b=o.input.choice("Separator",{value:f[0],items:f}),w=()=>{v.value!==l.Hi.SEPARATOR?a()(b.root).hide():a()(b.root).show()};let v=o.input.choice("Convert to",{value:y[0],items:y,onValueChanged:w});w(),v.onChanged.subscribe(()=>{w()}),null==c&&(c=o.dialog("Convert Sequence Notation").add(o.div([m,g.root,v.root,b.root])).onOK(async()=>{const e=v.value,i=e===l.Hi.SEPARATOR?b.value:void 0;await d(n,t,e,i)}).show({x:350,y:100}),u.push(c.onClose.subscribe(e=>{u.forEach(e=>{e.unsubscribe()}),u=[],c=null})))}async function d(e,t,n,i){const o=t.getSeqHandler(e).convert(n,i);e.dataFrame.columns.add(o);const s=await r.functions.call("Bio:detectMacromolecule",{col:o});return s&&(o.semType=s),await r.data.detectSemanticTypes(e.dataFrame),o}},5457:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateAdditionalItems=void 0;const i=n(9029),o=n(4227),r={keyword:"additionalItems",type:"array",schemaType:["boolean","object"],before:"uniqueItems",error:{message:({params:{len:e}})=>i.str`must NOT have more than ${e} items`,params:({params:{len:e}})=>i._`{limit: ${e}}`},code(e){const{parentSchema:t,it:n}=e,{items:i}=t;Array.isArray(i)?s(e,i):(0,o.checkStrictMode)(n,'"additionalItems" is ignored when "items" is not an array of schemas')}};function s(e,t){const{gen:n,schema:r,data:s,keyword:a,it:l}=e;l.items=!0;const c=n.const("len",i._`${s}.length`);if(!1===r)e.setParams({len:t.length}),e.pass(i._`${c} <= ${t.length}`);else if("object"==typeof r&&!(0,o.alwaysValidSchema)(l,r)){const r=n.var("valid",i._`${c} <= ${t.length}`);n.if((0,i.not)(r),()=>function(r){n.forRange("i",t.length,c,t=>{e.subschema({keyword:a,dataProp:t,dataPropType:o.Type.Num},r),l.allErrors||n.if((0,i.not)(r),()=>n.break())})}(r)),e.ok(r)}}t.validateAdditionalItems=s,t.default=r},5488:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,"\n.ui-form.ui-tooltip .ui-input-root > label.ui-input-label:not(:empty) {\n /* min-width: 30px; /* Breaks right margin /**/\n}\n\n.ui-form.ui-tooltip .ui-input-root > div.ui-input-text:not(:empty) {\n margin-top: 6px;\n}","",{version:3,sources:["webpack://./css/cell-renderer.css"],names:[],mappings:";AACA;IACI,8CAA8C;AAClD;;AAEA;IACI,eAAe;AACnB",sourcesContent:["\n.ui-form.ui-tooltip .ui-input-root > label.ui-input-label:not(:empty) {\n /* min-width: 30px; /* Breaks right margin /**/\n}\n\n.ui-form.ui-tooltip .ui-input-root > div.ui-input-text:not(:empty) {\n margin-top: 6px;\n}"],sourceRoot:""}]);const a=s},5520:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2476),o=n(3252),r=n(2721),s=n(3799),a=[i.default,o.default,r.default,s.default];t.default=a},5540:(e,t,n)=>{"use strict";e=n.hmd(e);var i,o=(i="undefined"!=typeof document&&document.currentScript?document.currentScript.src:void 0,function(e={}){var t,n,o=void 0!==e?e:{};o.ready=new Promise(function(e,i){t=e,n=i});var r,s=Object.assign({},o),a="object"==typeof window,l="function"==typeof importScripts,c=("object"==typeof process&&"object"==typeof process.versions&&process.versions.node,"");(a||l)&&(l?c=self.location.href:"undefined"!=typeof document&&document.currentScript&&(c=document.currentScript.src),i&&(c=i),c=0!==c.indexOf("blob:")?c.substr(0,c.replace(/[?#].*/,"").lastIndexOf("/")+1):"",l&&(r=e=>{var t=new XMLHttpRequest;return t.open("GET",e,!1),t.responseType="arraybuffer",t.send(null),new Uint8Array(t.response)})),o.print||console.log.bind(console);var u,h,d=o.printErr||console.warn.bind(console);Object.assign(o,s),s=null,o.arguments&&o.arguments,o.thisProgram&&o.thisProgram,o.quit&&o.quit,o.wasmBinary&&(u=o.wasmBinary),o.noExitRuntime,"object"!=typeof WebAssembly&&_("no native wasm support detected");var m,p,g,f=!1;function y(){var e=h.buffer;o.HEAP8=m=new Int8Array(e),o.HEAP16=new Int16Array(e),o.HEAP32=new Int32Array(e),o.HEAPU8=p=new Uint8Array(e),o.HEAPU16=new Uint16Array(e),o.HEAPU32=g=new Uint32Array(e),o.HEAPF32=new Float32Array(e),o.HEAPF64=new Float64Array(e)}var b=[],w=[],v=[];function T(e){b.unshift(e)}function C(e){v.unshift(e)}var A,E,S=0,M=null,P=null;function _(e){o.onAbort&&o.onAbort(e),d(e="Aborted("+e+")"),f=!0,e+=". Build with -sASSERTIONS for more info.";var t=new WebAssembly.RuntimeError(e);throw n(t),t}function I(e){return e.startsWith("data:application/octet-stream;base64,")}function L(e){try{if(e==A&&u)return new Uint8Array(u);if(r)return r(e);throw"both async and sync fetching of the wasm failed"}catch(e){_(e)}}function x(e,t,n){return function(e){return u||!a&&!l||"function"!=typeof fetch?Promise.resolve().then(function(){return L(e)}):fetch(e,{credentials:"same-origin"}).then(function(t){if(!t.ok)throw"failed to load wasm binary file at '"+e+"'";return t.arrayBuffer()}).catch(function(){return L(e)})}(e).then(function(e){return WebAssembly.instantiate(e,t)}).then(function(e){return e}).then(n,function(e){d("failed to asynchronously prepare wasm: "+e),_(e)})}function N(e){for(;e.length>0;)e.shift()(o)}function R(e){this.excPtr=e,this.ptr=e-24,this.set_type=function(e){g[this.ptr+4>>2]=e},this.get_type=function(){return g[this.ptr+4>>2]},this.set_destructor=function(e){g[this.ptr+8>>2]=e},this.get_destructor=function(){return g[this.ptr+8>>2]},this.set_caught=function(e){e=e?1:0,m[this.ptr+12|0]=e},this.get_caught=function(){return 0!=m[this.ptr+12|0]},this.set_rethrown=function(e){e=e?1:0,m[this.ptr+13|0]=e},this.get_rethrown=function(){return 0!=m[this.ptr+13|0]},this.init=function(e,t){this.set_adjusted_ptr(0),this.set_type(e),this.set_destructor(t)},this.set_adjusted_ptr=function(e){g[this.ptr+16>>2]=e},this.get_adjusted_ptr=function(){return g[this.ptr+16>>2]},this.get_exception_ptr=function(){if(U(this.get_type()))return g[this.excPtr>>2];var e=this.get_adjusted_ptr();return 0!==e?e:this.excPtr}}function $(e){var t=h.buffer;try{return h.grow(e-t.byteLength+65535>>>16),y(),1}catch(e){}}function H(e){return o["_"+e]}I(A="wasmDbscan.wasm")||(E=A,A=o.locateFile?o.locateFile(E,c):c+E);var O="undefined"!=typeof TextDecoder?new TextDecoder("utf8"):void 0;function D(e,t,n,i,o){var r={string:e=>{var t=0;return null!=e&&0!==e&&(t=function(e){var t=function(e){for(var t=0,n=0;n<e.length;++n){var i=e.charCodeAt(n);i<=127?t++:i<=2047?t+=2:i>=55296&&i<=57343?(t+=4,++n):t+=3}return t}(e)+1,n=V(t);return function(e,t,n){!function(e,t,n,i){if(!(i>0))return 0;for(var o=n+i-1,r=0;r<e.length;++r){var s=e.charCodeAt(r);if(s>=55296&&s<=57343&&(s=65536+((1023&s)<<10)|1023&e.charCodeAt(++r)),s<=127){if(n>=o)break;t[n++]=s}else if(s<=2047){if(n+1>=o)break;t[n++]=192|s>>6,t[n++]=128|63&s}else if(s<=65535){if(n+2>=o)break;t[n++]=224|s>>12,t[n++]=128|s>>6&63,t[n++]=128|63&s}else{if(n+3>=o)break;t[n++]=240|s>>18,t[n++]=128|s>>12&63,t[n++]=128|s>>6&63,t[n++]=128|63&s}}t[n]=0}(e,p,t,n)}(e,n,t),n}(e)),t},array:e=>{var t,n,i=V(e.length);return t=e,n=i,m.set(t,n),i}},s=H(e),a=[],l=0;if(i)for(var c=0;c<i.length;c++){var u=r[n[c]];u?(0===l&&(l=G()),a[c]=u(i[c])):a[c]=i[c]}var h=s.apply(null,a);return function(e){return 0!==l&&B(l),function(e){return"string"===t?(n=e)?function(e,t,n){for(var i=t+n,o=t;e[o]&&!(o>=i);)++o;if(o-t>16&&e.buffer&&O)return O.decode(e.subarray(t,o));for(var r="";t<o;){var s=e[t++];if(128&s){var a=63&e[t++];if(192!=(224&s)){var l=63&e[t++];if((s=224==(240&s)?(15&s)<<12|a<<6|l:(7&s)<<18|a<<12|l<<6|63&e[t++])<65536)r+=String.fromCharCode(s);else{var c=s-65536;r+=String.fromCharCode(55296|c>>10,56320|1023&c)}}else r+=String.fromCharCode((31&s)<<6|a)}else r+=String.fromCharCode(s)}return r}(p,n,i):"":"boolean"===t?Boolean(e):e;var n,i}(e)}(h)}var k,F={__cxa_throw:function(e,t,n){throw new R(e).init(t,n),e},abort:function(){_("")},emscripten_memcpy_big:function(e,t,n){p.copyWithin(e,t,t+n)},emscripten_resize_heap:function(e){var t=p.length,n=2147483648;if((e>>>=0)>n)return!1;let i=(e,t)=>e+(t-e%t)%t;for(var o=1;o<=4;o*=2){var r=t*(1+.2/o);if(r=Math.min(r,e+100663296),$(Math.min(n,i(Math.max(e,r),65536))))return!0}return!1}},G=(function(){var e,t,i,r,s={env:F,wasi_snapshot_preview1:F};function a(e,t){var n,i=e.exports;return o.asm=i,h=o.asm.memory,y(),o.asm.__indirect_function_table,n=o.asm.__wasm_call_ctors,w.unshift(n),function(){if(S--,o.monitorRunDependencies&&o.monitorRunDependencies(S),0==S&&(null!==M&&(clearInterval(M),M=null),P)){var e=P;P=null,e()}}(),i}if(S++,o.monitorRunDependencies&&o.monitorRunDependencies(S),o.instantiateWasm)try{return o.instantiateWasm(s,a)}catch(e){d("Module.instantiateWasm callback failed with error: "+e),n(e)}(e=u,t=A,i=s,r=function(e){a(e.instance)},e||"function"!=typeof WebAssembly.instantiateStreaming||I(t)||"function"!=typeof fetch?x(t,i,r):fetch(t,{credentials:"same-origin"}).then(function(e){return WebAssembly.instantiateStreaming(e,i).then(r,function(e){return d("wasm streaming compile failed: "+e),d("falling back to ArrayBuffer instantiation"),x(t,i,r)})})).catch(n)}(),o._dbscan=function(){return(o._dbscan=o.asm.dbscan).apply(null,arguments)},o._malloc=function(){return(o._malloc=o.asm.malloc).apply(null,arguments)},o._free=function(){return(o._free=o.asm.free).apply(null,arguments)},function(){return(G=o.asm.stackSave).apply(null,arguments)}),B=function(){return(B=o.asm.stackRestore).apply(null,arguments)},V=function(){return(V=o.asm.stackAlloc).apply(null,arguments)},U=function(){return(U=o.asm.__cxa_is_pointer_type).apply(null,arguments)};function W(){function e(){k||(k=!0,o.calledRun=!0,f||(N(w),t(o),o.onRuntimeInitialized&&o.onRuntimeInitialized(),function(){if(o.postRun)for("function"==typeof o.postRun&&(o.postRun=[o.postRun]);o.postRun.length;)C(o.postRun.shift());N(v)}()))}S>0||(function(){if(o.preRun)for("function"==typeof o.preRun&&(o.preRun=[o.preRun]);o.preRun.length;)T(o.preRun.shift());N(b)}(),S>0||(o.setStatus?(o.setStatus("Running..."),setTimeout(function(){setTimeout(function(){o.setStatus("")},1),e()},1)):e()))}if(o.ccall=D,o.cwrap=function(e,t,n,i){var o=!n||n.every(e=>"number"===e||"boolean"===e);return"string"!==t&&o&&!i?H(e):function(){return D(e,t,n,arguments)}},P=function e(){k||W(),k||(P=e)},o.preInit)for("function"==typeof o.preInit&&(o.preInit=[o.preInit]);o.preInit.length>0;)o.preInit.pop()();return W(),e.ready});"object"==typeof exports?e.exports=o:"function"==typeof define&&n.amdO?define([],function(){return o}):"object"==typeof exports&&(exports.exportCppDbscanLib=o)},5553:(e,t,n)=>{"use strict";n.d(t,{Qc:()=>C,WN:()=>A});var i=n(1991),o=n.n(i);const r="object"==typeof performance&&performance&&"function"==typeof performance.now?performance:Date,s=new Set,a="object"==typeof process&&process?process:{},l=(e,t,n,i)=>{"function"==typeof a.emitWarning?a.emitWarning(e,t,n,i):console.error(`[${n}] ${t}: ${e}`)};let c=globalThis.AbortController,u=globalThis.AbortSignal;if(void 0===c){u=class{onabort;_onabort=[];reason;aborted=!1;addEventListener(e,t){this._onabort.push(t)}},c=class{constructor(){t()}signal=new u;abort(e){if(!this.signal.aborted){this.signal.reason=e,this.signal.aborted=!0;for(const t of this.signal._onabort)t(e);this.signal.onabort?.(e)}}};let e="1"!==a.env?.LRU_CACHE_IGNORE_AC_WARNING;const t=()=>{e&&(e=!1,l("AbortController is not defined. If using lru-cache in node 14, load an AbortController polyfill from the `node-abort-controller` package. A minimal polyfill is provided for use by LRUCache.fetch(), but it should not be relied upon in other contexts (eg, passing it to other APIs that use AbortController/AbortSignal might have undesirable effects). You may disable this with LRU_CACHE_IGNORE_AC_WARNING=1 in the env.","NO_ABORT_CONTROLLER","ENOTSUP",t))}}Symbol("type");const h=e=>e&&e===Math.floor(e)&&e>0&&isFinite(e),d=e=>h(e)?e<=Math.pow(2,8)?Uint8Array:e<=Math.pow(2,16)?Uint16Array:e<=Math.pow(2,32)?Uint32Array:e<=Number.MAX_SAFE_INTEGER?m:null:null;class m extends Array{constructor(e){super(e),this.fill(0)}}class p{heap;length;static#e=!1;static create(e){const t=d(e);if(!t)return[];p.#e=!0;const n=new p(e,t);return p.#e=!1,n}constructor(e,t){if(!p.#e)throw new TypeError("instantiate Stack using Stack.create(n)");this.heap=new t(e),this.length=0}push(e){this.heap[this.length++]=e}pop(){return this.heap[--this.length]}}class g{#t;#n;#i;#o;#r;#s;ttl;ttlResolution;ttlAutopurge;updateAgeOnGet;updateAgeOnHas;allowStale;noDisposeOnSet;noUpdateTTL;maxEntrySize;sizeCalculation;noDeleteOnFetchRejection;noDeleteOnStaleGet;allowStaleOnFetchAbort;allowStaleOnFetchRejection;ignoreFetchAbort;#a;#l;#c;#u;#h;#d;#m;#p;#g;#f;#y;#b;#w;#v;#T;#C;#A;static unsafeExposeInternals(e){return{starts:e.#w,ttls:e.#v,sizes:e.#b,keyMap:e.#c,keyList:e.#u,valList:e.#h,next:e.#d,prev:e.#m,get head(){return e.#p},get tail(){return e.#g},free:e.#f,isBackgroundFetch:t=>e.#E(t),backgroundFetch:(t,n,i,o)=>e.#S(t,n,i,o),moveToTail:t=>e.#M(t),indexes:t=>e.#P(t),rindexes:t=>e.#_(t),isStale:t=>e.#I(t)}}get max(){return this.#t}get maxSize(){return this.#n}get calculatedSize(){return this.#l}get size(){return this.#a}get fetchMethod(){return this.#r}get memoMethod(){return this.#s}get dispose(){return this.#i}get disposeAfter(){return this.#o}constructor(e){const{max:t=0,ttl:n,ttlResolution:i=1,ttlAutopurge:o,updateAgeOnGet:r,updateAgeOnHas:a,allowStale:c,dispose:u,disposeAfter:m,noDisposeOnSet:f,noUpdateTTL:y,maxSize:b=0,maxEntrySize:w=0,sizeCalculation:v,fetchMethod:T,memoMethod:C,noDeleteOnFetchRejection:A,noDeleteOnStaleGet:E,allowStaleOnFetchRejection:S,allowStaleOnFetchAbort:M,ignoreFetchAbort:P}=e;if(0!==t&&!h(t))throw new TypeError("max option must be a nonnegative integer");const _=t?d(t):Array;if(!_)throw new Error("invalid max value: "+t);if(this.#t=t,this.#n=b,this.maxEntrySize=w||this.#n,this.sizeCalculation=v,this.sizeCalculation){if(!this.#n&&!this.maxEntrySize)throw new TypeError("cannot set sizeCalculation without setting maxSize or maxEntrySize");if("function"!=typeof this.sizeCalculation)throw new TypeError("sizeCalculation set to non-function")}if(void 0!==C&&"function"!=typeof C)throw new TypeError("memoMethod must be a function if defined");if(this.#s=C,void 0!==T&&"function"!=typeof T)throw new TypeError("fetchMethod must be a function if specified");if(this.#r=T,this.#C=!!T,this.#c=new Map,this.#u=new Array(t).fill(void 0),this.#h=new Array(t).fill(void 0),this.#d=new _(t),this.#m=new _(t),this.#p=0,this.#g=0,this.#f=p.create(t),this.#a=0,this.#l=0,"function"==typeof u&&(this.#i=u),"function"==typeof m?(this.#o=m,this.#y=[]):(this.#o=void 0,this.#y=void 0),this.#T=!!this.#i,this.#A=!!this.#o,this.noDisposeOnSet=!!f,this.noUpdateTTL=!!y,this.noDeleteOnFetchRejection=!!A,this.allowStaleOnFetchRejection=!!S,this.allowStaleOnFetchAbort=!!M,this.ignoreFetchAbort=!!P,0!==this.maxEntrySize){if(0!==this.#n&&!h(this.#n))throw new TypeError("maxSize must be a positive integer if specified");if(!h(this.maxEntrySize))throw new TypeError("maxEntrySize must be a positive integer if specified");this.#L()}if(this.allowStale=!!c,this.noDeleteOnStaleGet=!!E,this.updateAgeOnGet=!!r,this.updateAgeOnHas=!!a,this.ttlResolution=h(i)||0===i?i:1,this.ttlAutopurge=!!o,this.ttl=n||0,this.ttl){if(!h(this.ttl))throw new TypeError("ttl must be a positive integer if specified");this.#x()}if(0===this.#t&&0===this.ttl&&0===this.#n)throw new TypeError("At least one of max, maxSize, or ttl is required");if(!this.ttlAutopurge&&!this.#t&&!this.#n){const e="LRU_CACHE_UNBOUNDED";(e=>!s.has(e))(e)&&(s.add(e),l("TTL caching without ttlAutopurge, max, or maxSize can result in unbounded memory consumption.","UnboundedCacheWarning",e,g))}}getRemainingTTL(e){return this.#c.has(e)?1/0:0}#x(){const e=new m(this.#t),t=new m(this.#t);this.#v=e,this.#w=t,this.#N=(n,i,o=r.now())=>{if(t[n]=0!==i?o:0,e[n]=i,0!==i&&this.ttlAutopurge){const e=setTimeout(()=>{this.#I(n)&&this.#R(this.#u[n],"expire")},i+1);e.unref&&e.unref()}},this.#$=n=>{t[n]=0!==e[n]?r.now():0},this.#H=(o,r)=>{if(e[r]){const s=e[r],a=t[r];if(!s||!a)return;o.ttl=s,o.start=a,o.now=n||i();const l=o.now-a;o.remainingTTL=s-l}};let n=0;const i=()=>{const e=r.now();if(this.ttlResolution>0){n=e;const t=setTimeout(()=>n=0,this.ttlResolution);t.unref&&t.unref()}return e};this.getRemainingTTL=o=>{const r=this.#c.get(o);if(void 0===r)return 0;const s=e[r],a=t[r];return s&&a?s-((n||i())-a):1/0},this.#I=o=>{const r=t[o],s=e[o];return!!s&&!!r&&(n||i())-r>s}}#$=()=>{};#H=()=>{};#N=()=>{};#I=()=>!1;#L(){const e=new m(this.#t);this.#l=0,this.#b=e,this.#O=t=>{this.#l-=e[t],e[t]=0},this.#D=(e,t,n,i)=>{if(this.#E(t))return 0;if(!h(n)){if(!i)throw new TypeError("invalid size value (must be positive integer). When maxSize or maxEntrySize is used, sizeCalculation or size must be set.");if("function"!=typeof i)throw new TypeError("sizeCalculation must be a function");if(n=i(t,e),!h(n))throw new TypeError("sizeCalculation return invalid (expect positive integer)")}return n},this.#k=(t,n,i)=>{if(e[t]=n,this.#n){const n=this.#n-e[t];for(;this.#l>n;)this.#F(!0)}this.#l+=e[t],i&&(i.entrySize=n,i.totalCalculatedSize=this.#l)}}#O=e=>{};#k=(e,t,n)=>{};#D=(e,t,n,i)=>{if(n||i)throw new TypeError("cannot set size without setting maxSize or maxEntrySize on cache");return 0};*#P({allowStale:e=this.allowStale}={}){if(this.#a)for(let t=this.#g;this.#G(t)&&(!e&&this.#I(t)||(yield t),t!==this.#p);)t=this.#m[t]}*#_({allowStale:e=this.allowStale}={}){if(this.#a)for(let t=this.#p;this.#G(t)&&(!e&&this.#I(t)||(yield t),t!==this.#g);)t=this.#d[t]}#G(e){return void 0!==e&&this.#c.get(this.#u[e])===e}*entries(){for(const e of this.#P())void 0===this.#h[e]||void 0===this.#u[e]||this.#E(this.#h[e])||(yield[this.#u[e],this.#h[e]])}*rentries(){for(const e of this.#_())void 0===this.#h[e]||void 0===this.#u[e]||this.#E(this.#h[e])||(yield[this.#u[e],this.#h[e]])}*keys(){for(const e of this.#P()){const t=this.#u[e];void 0===t||this.#E(this.#h[e])||(yield t)}}*rkeys(){for(const e of this.#_()){const t=this.#u[e];void 0===t||this.#E(this.#h[e])||(yield t)}}*values(){for(const e of this.#P())void 0===this.#h[e]||this.#E(this.#h[e])||(yield this.#h[e])}*rvalues(){for(const e of this.#_())void 0===this.#h[e]||this.#E(this.#h[e])||(yield this.#h[e])}[Symbol.iterator](){return this.entries()}[Symbol.toStringTag]="LRUCache";find(e,t={}){for(const n of this.#P()){const i=this.#h[n],o=this.#E(i)?i.__staleWhileFetching:i;if(void 0!==o&&e(o,this.#u[n],this))return this.get(this.#u[n],t)}}forEach(e,t=this){for(const n of this.#P()){const i=this.#h[n],o=this.#E(i)?i.__staleWhileFetching:i;void 0!==o&&e.call(t,o,this.#u[n],this)}}rforEach(e,t=this){for(const n of this.#_()){const i=this.#h[n],o=this.#E(i)?i.__staleWhileFetching:i;void 0!==o&&e.call(t,o,this.#u[n],this)}}purgeStale(){let e=!1;for(const t of this.#_({allowStale:!0}))this.#I(t)&&(this.#R(this.#u[t],"expire"),e=!0);return e}info(e){const t=this.#c.get(e);if(void 0===t)return;const n=this.#h[t],i=this.#E(n)?n.__staleWhileFetching:n;if(void 0===i)return;const o={value:i};if(this.#v&&this.#w){const e=this.#v[t],n=this.#w[t];if(e&&n){const t=e-(r.now()-n);o.ttl=t,o.start=Date.now()}}return this.#b&&(o.size=this.#b[t]),o}dump(){const e=[];for(const t of this.#P({allowStale:!0})){const n=this.#u[t],i=this.#h[t],o=this.#E(i)?i.__staleWhileFetching:i;if(void 0===o||void 0===n)continue;const s={value:o};if(this.#v&&this.#w){s.ttl=this.#v[t];const e=r.now()-this.#w[t];s.start=Math.floor(Date.now()-e)}this.#b&&(s.size=this.#b[t]),e.unshift([n,s])}return e}load(e){this.clear();for(const[t,n]of e){if(n.start){const e=Date.now()-n.start;n.start=r.now()-e}this.set(t,n.value,n)}}set(e,t,n={}){if(void 0===t)return this.delete(e),this;const{ttl:i=this.ttl,start:o,noDisposeOnSet:r=this.noDisposeOnSet,sizeCalculation:s=this.sizeCalculation,status:a}=n;let{noUpdateTTL:l=this.noUpdateTTL}=n;const c=this.#D(e,t,n.size||0,s);if(this.maxEntrySize&&c>this.maxEntrySize)return a&&(a.set="miss",a.maxEntrySizeExceeded=!0),this.#R(e,"set"),this;let u=0===this.#a?void 0:this.#c.get(e);if(void 0===u)u=0===this.#a?this.#g:0!==this.#f.length?this.#f.pop():this.#a===this.#t?this.#F(!1):this.#a,this.#u[u]=e,this.#h[u]=t,this.#c.set(e,u),this.#d[this.#g]=u,this.#m[u]=this.#g,this.#g=u,this.#a++,this.#k(u,c,a),a&&(a.set="add"),l=!1;else{this.#M(u);const n=this.#h[u];if(t!==n){if(this.#C&&this.#E(n)){n.__abortController.abort(new Error("replaced"));const{__staleWhileFetching:t}=n;void 0===t||r||(this.#T&&this.#i?.(t,e,"set"),this.#A&&this.#y?.push([t,e,"set"]))}else r||(this.#T&&this.#i?.(n,e,"set"),this.#A&&this.#y?.push([n,e,"set"]));if(this.#O(u),this.#k(u,c,a),this.#h[u]=t,a){a.set="replace";const e=n&&this.#E(n)?n.__staleWhileFetching:n;void 0!==e&&(a.oldValue=e)}}else a&&(a.set="update")}if(0===i||this.#v||this.#x(),this.#v&&(l||this.#N(u,i,o),a&&this.#H(a,u)),!r&&this.#A&&this.#y){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}return this}pop(){try{for(;this.#a;){const e=this.#h[this.#p];if(this.#F(!0),this.#E(e)){if(e.__staleWhileFetching)return e.__staleWhileFetching}else if(void 0!==e)return e}}finally{if(this.#A&&this.#y){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}}}#F(e){const t=this.#p,n=this.#u[t],i=this.#h[t];return this.#C&&this.#E(i)?i.__abortController.abort(new Error("evicted")):(this.#T||this.#A)&&(this.#T&&this.#i?.(i,n,"evict"),this.#A&&this.#y?.push([i,n,"evict"])),this.#O(t),e&&(this.#u[t]=void 0,this.#h[t]=void 0,this.#f.push(t)),1===this.#a?(this.#p=this.#g=0,this.#f.length=0):this.#p=this.#d[t],this.#c.delete(n),this.#a--,t}has(e,t={}){const{updateAgeOnHas:n=this.updateAgeOnHas,status:i}=t,o=this.#c.get(e);if(void 0!==o){const e=this.#h[o];if(this.#E(e)&&void 0===e.__staleWhileFetching)return!1;if(!this.#I(o))return n&&this.#$(o),i&&(i.has="hit",this.#H(i,o)),!0;i&&(i.has="stale",this.#H(i,o))}else i&&(i.has="miss");return!1}peek(e,t={}){const{allowStale:n=this.allowStale}=t,i=this.#c.get(e);if(void 0===i||!n&&this.#I(i))return;const o=this.#h[i];return this.#E(o)?o.__staleWhileFetching:o}#S(e,t,n,i){const o=void 0===t?void 0:this.#h[t];if(this.#E(o))return o;const r=new c,{signal:s}=n;s?.addEventListener("abort",()=>r.abort(s.reason),{signal:r.signal});const a={signal:r.signal,options:n,context:i},l=(i,o=!1)=>{const{aborted:s}=r.signal,l=n.ignoreFetchAbort&&void 0!==i;if(n.status&&(s&&!o?(n.status.fetchAborted=!0,n.status.fetchError=r.signal.reason,l&&(n.status.fetchAbortIgnored=!0)):n.status.fetchResolved=!0),s&&!l&&!o)return u(r.signal.reason);const c=h;return this.#h[t]===h&&(void 0===i?c.__staleWhileFetching?this.#h[t]=c.__staleWhileFetching:this.#R(e,"fetch"):(n.status&&(n.status.fetchUpdated=!0),this.set(e,i,a.options))),i},u=i=>{const{aborted:o}=r.signal,s=o&&n.allowStaleOnFetchAbort,a=s||n.allowStaleOnFetchRejection,l=a||n.noDeleteOnFetchRejection,c=h;if(this.#h[t]===h&&(l&&void 0!==c.__staleWhileFetching?s||(this.#h[t]=c.__staleWhileFetching):this.#R(e,"fetch")),a)return n.status&&void 0!==c.__staleWhileFetching&&(n.status.returnedStale=!0),c.__staleWhileFetching;if(c.__returned===c)throw i};n.status&&(n.status.fetchDispatched=!0);const h=new Promise((t,i)=>{const s=this.#r?.(e,o,a);s&&s instanceof Promise&&s.then(e=>t(void 0===e?void 0:e),i),r.signal.addEventListener("abort",()=>{n.ignoreFetchAbort&&!n.allowStaleOnFetchAbort||(t(void 0),n.allowStaleOnFetchAbort&&(t=e=>l(e,!0)))})}).then(l,e=>(n.status&&(n.status.fetchRejected=!0,n.status.fetchError=e),u(e))),d=Object.assign(h,{__abortController:r,__staleWhileFetching:o,__returned:void 0});return void 0===t?(this.set(e,d,{...a.options,status:void 0}),t=this.#c.get(e)):this.#h[t]=d,d}#E(e){if(!this.#C)return!1;const t=e;return!!t&&t instanceof Promise&&t.hasOwnProperty("__staleWhileFetching")&&t.__abortController instanceof c}async fetch(e,t={}){const{allowStale:n=this.allowStale,updateAgeOnGet:i=this.updateAgeOnGet,noDeleteOnStaleGet:o=this.noDeleteOnStaleGet,ttl:r=this.ttl,noDisposeOnSet:s=this.noDisposeOnSet,size:a=0,sizeCalculation:l=this.sizeCalculation,noUpdateTTL:c=this.noUpdateTTL,noDeleteOnFetchRejection:u=this.noDeleteOnFetchRejection,allowStaleOnFetchRejection:h=this.allowStaleOnFetchRejection,ignoreFetchAbort:d=this.ignoreFetchAbort,allowStaleOnFetchAbort:m=this.allowStaleOnFetchAbort,context:p,forceRefresh:g=!1,status:f,signal:y}=t;if(!this.#C)return f&&(f.fetch="get"),this.get(e,{allowStale:n,updateAgeOnGet:i,noDeleteOnStaleGet:o,status:f});const b={allowStale:n,updateAgeOnGet:i,noDeleteOnStaleGet:o,ttl:r,noDisposeOnSet:s,size:a,sizeCalculation:l,noUpdateTTL:c,noDeleteOnFetchRejection:u,allowStaleOnFetchRejection:h,allowStaleOnFetchAbort:m,ignoreFetchAbort:d,status:f,signal:y};let w=this.#c.get(e);if(void 0===w){f&&(f.fetch="miss");const t=this.#S(e,w,b,p);return t.__returned=t}{const t=this.#h[w];if(this.#E(t)){const e=n&&void 0!==t.__staleWhileFetching;return f&&(f.fetch="inflight",e&&(f.returnedStale=!0)),e?t.__staleWhileFetching:t.__returned=t}const o=this.#I(w);if(!g&&!o)return f&&(f.fetch="hit"),this.#M(w),i&&this.#$(w),f&&this.#H(f,w),t;const r=this.#S(e,w,b,p),s=void 0!==r.__staleWhileFetching&&n;return f&&(f.fetch=o?"stale":"refresh",s&&o&&(f.returnedStale=!0)),s?r.__staleWhileFetching:r.__returned=r}}async forceFetch(e,t={}){const n=await this.fetch(e,t);if(void 0===n)throw new Error("fetch() returned undefined");return n}memo(e,t={}){const n=this.#s;if(!n)throw new Error("no memoMethod provided to constructor");const{context:i,forceRefresh:o,...r}=t,s=this.get(e,r);if(!o&&void 0!==s)return s;const a=n(e,s,{options:r,context:i});return this.set(e,a,r),a}get(e,t={}){const{allowStale:n=this.allowStale,updateAgeOnGet:i=this.updateAgeOnGet,noDeleteOnStaleGet:o=this.noDeleteOnStaleGet,status:r}=t,s=this.#c.get(e);if(void 0!==s){const t=this.#h[s],a=this.#E(t);return r&&this.#H(r,s),this.#I(s)?(r&&(r.get="stale"),a?(r&&n&&void 0!==t.__staleWhileFetching&&(r.returnedStale=!0),n?t.__staleWhileFetching:void 0):(o||this.#R(e,"expire"),r&&n&&(r.returnedStale=!0),n?t:void 0)):(r&&(r.get="hit"),a?t.__staleWhileFetching:(this.#M(s),i&&this.#$(s),t))}r&&(r.get="miss")}#B(e,t){this.#m[t]=e,this.#d[e]=t}#M(e){e!==this.#g&&(e===this.#p?this.#p=this.#d[e]:this.#B(this.#m[e],this.#d[e]),this.#B(this.#g,e),this.#g=e)}delete(e){return this.#R(e,"delete")}#R(e,t){let n=!1;if(0!==this.#a){const i=this.#c.get(e);if(void 0!==i)if(n=!0,1===this.#a)this.#V(t);else{this.#O(i);const n=this.#h[i];if(this.#E(n)?n.__abortController.abort(new Error("deleted")):(this.#T||this.#A)&&(this.#T&&this.#i?.(n,e,t),this.#A&&this.#y?.push([n,e,t])),this.#c.delete(e),this.#u[i]=void 0,this.#h[i]=void 0,i===this.#g)this.#g=this.#m[i];else if(i===this.#p)this.#p=this.#d[i];else{const e=this.#m[i];this.#d[e]=this.#d[i];const t=this.#d[i];this.#m[t]=this.#m[i]}this.#a--,this.#f.push(i)}}if(this.#A&&this.#y?.length){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}return n}clear(){return this.#V("delete")}#V(e){for(const t of this.#_({allowStale:!0})){const n=this.#h[t];if(this.#E(n))n.__abortController.abort(new Error("deleted"));else{const i=this.#u[t];this.#T&&this.#i?.(n,i,e),this.#A&&this.#y?.push([n,i,e])}}if(this.#c.clear(),this.#h.fill(void 0),this.#u.fill(void 0),this.#v&&this.#w&&(this.#v.fill(0),this.#w.fill(0)),this.#b&&this.#b.fill(0),this.#p=0,this.#g=0,this.#f.length=0,this.#l=0,this.#a=0,this.#A&&this.#y){const e=this.#y;let t;for(;t=e?.shift();)this.#o?.(...t)}}}function f(e){window.$monomerHover=e}var y=n(2003),b=n(6077),w=n(3561),v=n(9235);const T="MonomerHoverLinks";async function C(e,t,n,i,r,s=!1){const a=i.getSeqHandler(e),l=a.alphabet==y.YI.RNA||a.alphabet==y.YI.DNA,c=a.isHelm()&&l,u=!a.isHelm()&&l,h=e=>null==e?null:c?s?e:Math.floor(e/3):u&&s?3*e+1:e,d=s?await i.getHelmToMolfileConverter(n):null,m=new g({max:100});function p(e,t){const a=e.get(t);if(null==a)return null;let l=m.get(a);return l||m.set(a,l=function(e,t){const a=i.getSeqHandler(e);if(s){const e=a.getHelm(t);return i.helmToAtomicLevelSingle(e,d,!1,!1).monomers}{const e=a.getSplitted(t),i=a.defaultBiotype,s=o().count(0).take(e.length).map(t=>({position:t,symbol:e.getCanonical(t),biotype:i})).toArray(),l=a.alphabet,c=l==y.YI.RNA||l==y.YI.DNA?"RNA":"PEPTIDE",u=(0,b.eM)([s],c,l,n,r);return(0,w.gU)(s,u,l,c).monomers}}(e,t)),l}const C={targetCol:t,handler:(t,i,o)=>{const r=o.grid,s=t.tableRowIndex,a=t.gridRow,l=r.cell(o.name,a),c=null!==(u=window.$monomerHover)&&void 0!==u?u:null;var u;if(!c||c&&(c.dataFrameId!=e.dataFrame.id||c.gridRowIdx!=a||c.seqColName!=e.name||c.seqPosition!=i?.position)){if(c&&(f(null),c.gridCell.render()),!i)return f(null),!0;f({gridCell:l,dataFrameId:e.dataFrame.id,gridRowIdx:a,seqColName:e.name,seqPosition:h(i?.position)??-1,getSubstruct:()=>{if(!i||"*"===i.symbol)return;const t=p(e,s);if(!t)return;const o=t.get(h(i?.position));return o?(0,v.H)([o],n):{atoms:[],bonds:[],highlightAtomColors:[],highlightBondColors:[]}}}),l.render()}return!0},getSubstruct:i=>{if("true"!=t.getTag(".sequence-src-highlight-monomers"))return;if(null==i)return;if(!e.get(i))return;const o=p(e,i);return o?(0,v.H)(o.values(),n):void 0}};return function(e,t){let n=e[T];n||(n=e[T]=[]),n.push(t),e[T]=n}(e.temp,C),function(e,t){let n=e["substruct-providers"];n||(n=e["substruct-providers"]=[]),n.push(t),e["substruct-providers"]=n}(t.temp,C),C}function A(e,t){try{const n=e.tableColumn;if(!n)return;const i=function(e){return e.temp[T]??[]}(n);for(let n=i.length-1;n>=0;--n){const o=i[n],r=e.grid.col(o.targetCol.name);if(r&&!o.handler(e,t,r))break}}catch(e){console.error(e)}}},5707:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/meta-data","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/meta-data":true},"$dynamicAnchor":"meta","title":"Meta-data vocabulary meta-schema","type":["object","boolean"],"properties":{"title":{"type":"string"},"description":{"type":"string"},"default":true,"deprecated":{"type":"boolean","default":false},"readOnly":{"type":"boolean","default":false},"writeOnly":{"type":"boolean","default":false},"examples":{"type":"array","items":true}}}')},5765:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.validateUnion=t.validateArray=t.usePattern=t.callValidateCode=t.schemaProperties=t.allSchemaProperties=t.noPropertyInData=t.propertyInData=t.isOwnProperty=t.hasPropFunc=t.reportMissingProp=t.checkMissingProp=t.checkReportMissingProp=void 0;const i=n(9029),o=n(4227),r=n(2023),s=n(4227);function a(e){return e.scopeValue("func",{ref:Object.prototype.hasOwnProperty,code:i._`Object.prototype.hasOwnProperty`})}function l(e,t,n){return i._`${a(e)}.call(${t}, ${n})`}function c(e,t,n,o){const r=i._`${t}${(0,i.getProperty)(n)} === undefined`;return o?(0,i.or)(r,(0,i.not)(l(e,t,n))):r}function u(e){return e?Object.keys(e).filter(e=>"__proto__"!==e):[]}t.checkReportMissingProp=function(e,t){const{gen:n,data:o,it:r}=e;n.if(c(n,o,t,r.opts.ownProperties),()=>{e.setParams({missingProperty:i._`${t}`},!0),e.error()})},t.checkMissingProp=function({gen:e,data:t,it:{opts:n}},o,r){return(0,i.or)(...o.map(o=>(0,i.and)(c(e,t,o,n.ownProperties),i._`${r} = ${o}`)))},t.reportMissingProp=function(e,t){e.setParams({missingProperty:t},!0),e.error()},t.hasPropFunc=a,t.isOwnProperty=l,t.propertyInData=function(e,t,n,o){const r=i._`${t}${(0,i.getProperty)(n)} !== undefined`;return o?i._`${r} && ${l(e,t,n)}`:r},t.noPropertyInData=c,t.allSchemaProperties=u,t.schemaProperties=function(e,t){return u(t).filter(n=>!(0,o.alwaysValidSchema)(e,t[n]))},t.callValidateCode=function({schemaCode:e,data:t,it:{gen:n,topSchemaRef:o,schemaPath:s,errorPath:a},it:l},c,u,h){const d=h?i._`${e}, ${t}, ${o}${s}`:t,m=[[r.default.instancePath,(0,i.strConcat)(r.default.instancePath,a)],[r.default.parentData,l.parentData],[r.default.parentDataProperty,l.parentDataProperty],[r.default.rootData,r.default.rootData]];l.opts.dynamicRef&&m.push([r.default.dynamicAnchors,r.default.dynamicAnchors]);const p=i._`${d}, ${n.object(...m)}`;return u!==i.nil?i._`${c}.call(${u}, ${p})`:i._`${c}(${p})`};const h=i._`new RegExp`;t.usePattern=function({gen:e,it:{opts:t}},n){const o=t.unicodeRegExp?"u":"",{regExp:r}=t.code,a=r(n,o);return e.scopeValue("pattern",{key:a.toString(),ref:a,code:i._`${"new RegExp"===r.code?h:(0,s.useFunc)(e,r)}(${n}, ${o})`})},t.validateArray=function(e){const{gen:t,data:n,keyword:r,it:s}=e,a=t.name("valid");if(s.allErrors){const e=t.let("valid",!0);return l(()=>t.assign(e,!1)),e}return t.var(a,!0),l(()=>t.break()),a;function l(s){const l=t.const("len",i._`${n}.length`);t.forRange("i",0,l,n=>{e.subschema({keyword:r,dataProp:n,dataPropType:o.Type.Num},a),t.if((0,i.not)(a),s)})}},t.validateUnion=function(e){const{gen:t,schema:n,keyword:r,it:s}=e;if(!Array.isArray(n))throw new Error("ajv implementation error");if(n.some(e=>(0,o.alwaysValidSchema)(s,e))&&!s.opts.unevaluated)return;const a=t.let("valid",!1),l=t.name("_valid");t.block(()=>n.forEach((n,o)=>{const s=e.subschema({keyword:r,schemaProp:o,compositeRule:!0},l);t.assign(a,i._`${a} || ${l}`),e.mergeValidEvaluated(s,l)||t.if((0,i.not)(a))})),e.result(a,()=>e.reset(),()=>e.error(!0))}},5844:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(4227),o={keyword:"allOf",schemaType:"array",code(e){const{gen:t,schema:n,it:o}=e;if(!Array.isArray(n))throw new Error("ajv implementation error");const r=t.name("valid");n.forEach((t,n)=>{if((0,i.alwaysValidSchema)(o,t))return;const s=e.subschema({keyword:"allOf",schemaProp:n},r);e.ok(r),e.mergeEvaluated(s)})}};t.default=o},5882:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=i.operators,r={maximum:{okStr:"<=",ok:o.LTE,fail:o.GT},minimum:{okStr:">=",ok:o.GTE,fail:o.LT},exclusiveMaximum:{okStr:"<",ok:o.LT,fail:o.GTE},exclusiveMinimum:{okStr:">",ok:o.GT,fail:o.LTE}},s={message:({keyword:e,schemaCode:t})=>i.str`must be ${r[e].okStr} ${t}`,params:({keyword:e,schemaCode:t})=>i._`{comparison: ${r[e].okStr}, limit: ${t}}`},a={keyword:Object.keys(r),type:"number",schemaType:"number",$data:!0,error:s,code(e){const{keyword:t,data:n,schemaCode:o}=e;e.fail$data(i._`${n} ${r[t].fail} ${o} || isNaN(${n})`)}};t.default=a},5944:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(8343);i.code='require("ajv/dist/runtime/uri").default',t.default=i},5999:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".macromolecule-cell-comp-analysis-host{\n max-height: 250px;\n overflow-y: scroll;\n}\n\n.macromolecule-cell-comp-analysis-bar{\n height: inherit;\n display: block;\n margin-top: 1.5px;\n margin-bottom: 1.5px;\n margin-right: 3px;\n}\n\n.macromolecule-cell-comp-analysis-value{\n display: flex;\n}","",{version:3,sources:["webpack://./css/composition-analysis.css"],names:[],mappings:"AAAA;IACI,iBAAiB;IACjB,kBAAkB;AACtB;;AAEA;IACI,eAAe;IACf,cAAc;IACd,iBAAiB;IACjB,oBAAoB;IACpB,iBAAiB;AACrB;;AAEA;IACI,aAAa;AACjB",sourcesContent:[".macromolecule-cell-comp-analysis-host{\n max-height: 250px;\n overflow-y: scroll;\n}\n\n.macromolecule-cell-comp-analysis-bar{\n height: inherit;\n display: block;\n margin-top: 1.5px;\n margin-bottom: 1.5px;\n margin-right: 3px;\n}\n\n.macromolecule-cell-comp-analysis-value{\n display: flex;\n}"],sourceRoot:""}]);const a=s},6077:(e,t,n)=>{"use strict";n.d(t,{C4:()=>p,eM:()=>g});var i=n(4328),o=n(6082),r=n(1991),s=n.n(r),a=n(439),l=n(3561),c=n(9235),u=n(294),h=n(9192),d=n(330),m=n(8123);async function p(e,t,n,r,l){if(t.semType!==o.SEMTYPE.MACROMOLECULE)return{molCol:null,warnings:[`Only the ${o.SEMTYPE.MACROMOLECULE} columns can be converted to atomic level, the chosen column has semType '${t.semType}'`]};let u=t;const m=r.getSeqHandler(t);let p,f;m.notation!==a.Hi.SEPARATOR&&m.notation!==a.Hi.BILN&&(u=m.convert(a.Hi.SEPARATOR,"."),u.name=t.name);try{f=r.getSeqHandler(u).alphabet,p=(0,d.pz)(f)}catch(e){const[t,n]=(0,h.AP)(e);return{molCol:null,warnings:[t]}}const y=function(e,t){const n=e.length,o=new Array(n),r=t.getSeqHandler(e);let a=!1;const l=r.defaultBiotype;for(let e=0;e<n;++e){const t=r.getSplitted(e);a||(a=0===t.length),o[e]=s().count(0).take(t.length).filter(e=>!t.isGap(e)).map(e=>({position:e,biotype:l,symbol:t.getCanonical(e)})).toArray()}return a&&i.shell.warning(`Some values in the "${e.name}" column are empty`),o}(u,r),b=g(y,p,f,n,l),w=u.length,v=await(0,c.R)(u,b,f,p,n,r,l);v.warnings.length>.05*w&&i.shell.warning(`Molfile conversion resulted in ${v.warnings.length} errors`);const T=o.Func.find({name:"convertToV3KViaOCL"})[0];if(T&&v.molCol)try{const e=v.molCol.toList(),t=await T.apply({mols:e});v.molCol.init(n=>t[n]?t[n]:e[n])}catch(e){console.error(e)}return v}function g(e,t,n,i,o){const r=(0,l.Hb)(i,t,n),s={},c={value:null};if("RNA"===t){const e=n===a.YI.RNA?[m.u.RIBOSE,m.u.PHOSPHATE]:[m.u.DEOXYRIBOSE,m.u.PHOSPHATE];for(const n of e)f(s,n.symbol,r,o,t,c)}for(let n=0;n<e.length;++n){const i=e[n];for(const e of i){const n=e.symbol;if(""!==n)try{if("RNA"===t&&3===n.split(/\(|\)/).filter(e=>!!e).length){const e=n.split(/\(|\)/)[1];f(s,e,r,o,t,c),s[t]?.[e]&&(s[t][n]=s[t][e])}else f(s,n,r,o,t,c)}catch(e){const t=e instanceof Error?e.message:e.toString(),i=e instanceof Error?e.stack:void 0;throw console.error(`bio lib: getMonomersDictFromLib() sym='${n}', error:\n${t}\n${i}`),new Error(`Can't get monomer '${n}' from library: ${t}`)}}}return s}function f(e,t,n,i,o,r){const s={polymerType:o,symbol:t};if(!(0,u.bq)(e,s)){const a=function(e,t,n,i,o){if(t.has(e)){const s=t.get(e),a=function(e){const t=[];for(const n of e){let e=n.capGroupSmiles;e||(e=n.capGroupSMILES),e=e.replace(/(\[|\]|\*|:|\d)/g,"").replace("OH","O").replace("Oh","O"),t.push(e)}return t}(s.rgroups),c=(r=s.molfile).includes("V3000")?function(e){const t=new Map,n=/M V30 (\d+) R#.+RGROUPS=\((\d+) (\d+)\).*/gm;let i;for(;null!==(i=n.exec(e));)i.index===n.lastIndex&&n.lastIndex++,t.set(parseInt(i[1]),parseInt(i[3]));return t}(r):function(e){const t=new Map;let n=e.indexOf(m.u.V2K_A_LINE,0),i=n;for(;-1!==n;){i=e.indexOf("\n",n);const o=parseInt(e.substring(n,i).replace(/^A\s+/,""));n=e.indexOf("R",i),i=e.indexOf("\n",n);const r=parseInt(e.substring(n,i).replace(/^R/,""));t.set(o,r),n=e.indexOf(m.u.V2K_A_LINE,i)}for(n=e.indexOf(m.u.V2K_RGP_LINE,0),i=e.indexOf("\n",n);-1!==n;){n+=m.u.V2K_RGP_SHIFT,i=e.indexOf("\n",n);const o=e.substring(n,i).replaceAll(/\s+/g," ").split(" ").map(e=>parseInt(e)).slice(1);for(let e=0;e<o.length;e+=2){if(t.has(o[e])&&t.get(o[e])!==o[e+1])throw new Error(`r-group index ${o[e]} has already been added with a different value`);t.set(o[e],o[e+1])}n=e.indexOf(m.u.V2K_RGP_LINE,i)}return t}(r),u=s.molfile.includes("V3000")?s.molfile:function(e,t){const n=t.get_mol(function(e){return e.split("\n").map(e=>{const t=e.indexOf(" R# "),n=e.indexOf(" R ");if(-1===t&&-1===n)return e;const i=-1!==t?t:n,o=e.split("");for(let e=i+5;e<o.length;e++)" "!==o[e]&&(o[e]="0");return o.join("")}).join("\n")}(e)),i=n.get_v3Kmolblock();return n.delete(),i}(function(e){let t=e.indexOf(m.u.V2K_A_LINE,0);-1===t&&(t=e.indexOf(m.u.V2K_RGP_LINE));const n=e.indexOf(m.u.V3K_END,t);return e.substring(0,t)+e.substring(n)}(s.molfile),n),h=function(e){let t=(e=e.replaceAll("\r","")).indexOf(m.u.V3K_BEGIN_COUNTS_LINE)+m.u.V3K_COUNTS_SHIFT,n=e.indexOf(" ",t+1);const i=parseInt(e.substring(t,n));return t=n+1,n=e.indexOf(" ",t+1),{atomCount:i,bondCount:parseInt(e.substring(t,n))}}(u),d=function(e,t){const n=new Array(t),i=new Float32Array(t),o=new Float32Array(t),r=new Array(t);let s=e.indexOf(m.u.V3K_BEGIN_ATOM_BLOCK);s=e.indexOf("\n",s);let a=s;for(let l=0;l<t;l++){s=e.indexOf(m.u.V3K_BEGIN_DATA_LINE,s)+m.u.V3K_IDX_SHIFT,a=e.indexOf(" ",s),s=a+1,a=e.indexOf(" ",s),n[l]=e.substring(s,a);const t=new Array(2);for(let n=0;n<2;++n)s=a+1,a=e.indexOf(" ",s),t[n]=parseFloat(e.substring(s,a));i[l]=t[0],o[l]=t[1],s=a,a=e.indexOf("\n",s)+1,r[l]=e.slice(s,a),s=a}return{atomTypes:n,x:i,y:o,kwargs:r}}(u,h.atomCount),p=function(e,t){const n=new Uint32Array(t),i=new Array(t),o=new Map,r=new Map;let s=e.indexOf(m.u.V3K_BEGIN_BOND_BLOCK);s=e.indexOf("\n",s);let a=s;for(let l=0;l<t;++l){const t=new Array(3);s=e.indexOf(m.u.V3K_BEGIN_DATA_LINE,a)+m.u.V3K_IDX_SHIFT,a=e.indexOf(" ",s);for(let n=0;n<3;++n)s=a+1,a=Math.min(e.indexOf("\n",s),e.indexOf(" ",s)),t[n]=parseInt(e.slice(s,a));n[l]=t[0],i[l]=t.slice(1);const c=e.indexOf("\n",s);let u=e.slice(a,c),h=u.indexOf(m.u.V3K_BOND_CONFIG);if(-1!==h){h=u.indexOf("=",h)+1;let e=u.indexOf(" ",h);-1===e&&(e=u.length);const t=parseInt(u.slice(h,e));o.set(l,t);const n=m.u.V3K_BOND_CONFIG+t.toString();u=u.replace(n,"")}u||r.set(l,u)}return{bondTypes:n,atomPairs:i,bondConfiguration:o,kwargs:r}}(u,h.bondCount),g=function(e,t,n,i){const o={backboneShift:null,branchShift:null,terminalNodes:[],rNodes:[]};if(n&&i&&[1,2].some(e=>!Array.from(i.values()).find(t=>t==e))){const o=[1,2].find(e=>!Array.from(i.values()).find(t=>t==e)),r=[1,2].find(e=>Array.from(i.values()).find(t=>t==e)),s=Array.from(i.keys()).find(e=>i.get(e)===r)-1,a=e.x[s],l=e.y[s],c=t.atomPairs.find(e=>e.includes(s+1)).find(e=>e!==s+1)-1;let u=e.x.reduce((t,n,i)=>{if(i===s)return t;if(i===c)return t;const o=e.y[i];return Math.sqrt((n-a)**2+(o-l)**2)>Math.sqrt((e.x[t]-a)**2+(e.y[t]-l)**2)?i:t},-1);if(-1===u&&(u=e.x.length,e.x=new Float32Array([...e.x,-a]),e.y=new Float32Array([...e.y,-l]),e.atomTypes=[...e.atomTypes,"H"],e.kwargs=[...e.kwargs,""],t.atomPairs.push([c+1,u+1]),t.bondTypes=new Uint32Array([...t.bondTypes,1]),t.kwargs.set(t.atomPairs.length-1,"")),i.set(u+1,o),1===o)n.unshift(e.atomTypes[u]);else{if(2!==o)throw new Error(`Unexpected missing R-group: ${o}`);n.splice(1,0,e.atomTypes[u])}}return function(e,t,n){for(const[i,o]of n)e.atomTypes[i-1]=t[o-1]}(e,n,i),function(e,t){t.rNodes=Array.from(e.keys());for(let n=0;n<t.rNodes.length;n++)for(const i of[1,2])if(e.get(t.rNodes[n])===i){const e=t.rNodes[i-1];t.rNodes[i-1]=t.rNodes[n],t.rNodes[n]=e}}(i,o),y(t,o),o}(d,p,a,c),f=function(e){let t=[],n=e.indexOf("M V30 MDLV30/STEABS ATOMS=(");for(;-1!==n;){n+=28;const i=e.indexOf(")",n);t=t.concat(e.substring(n,i).split(" ").slice(1).map(e=>parseInt(e))),n=i,n=e.indexOf("M V30 MDLV30/STEABS ATOMS=(",n)}return t}(u),w={atoms:d,bonds:p,meta:g,stereoAtoms:f};return"PEPTIDE"===i?function(e){const t=e.meta.terminalNodes[0]-1,n=e.meta.rNodes[0]-1,i=e.atoms.x,o=e.atoms.y;M(e,-i[t],-o[t]);const r=C(i[n],o[n]);A(e.atoms,-r),i[e.meta.rNodes[1]-1]<0&&E(e);const s=function(e){const t=function(e){const t=new Map;for(const n of e.bonds.atomPairs)for(let e=0;e<2;e++){const i=n[e],o=n[(e+1)%2];t.has(i)?t.get(i)?.push(o):t.set(i,new Array(1).fill(o))}return t}(e);let n=0;const i=e.atoms.atomTypes.length;let o=0;if(e.meta.terminalNodes.length<2)return null;for(;0===n;){const r=t.get(e.meta.terminalNodes[1])[o];if(e.atoms.atomTypes[r-1]===m.u.OXYGEN&&r!==e.meta.rNodes[1]&&(n=r),o++,o>i)return null}return n}(e);null!=s&&(function(e,t){e.atoms.y[e.meta.rNodes[1]-1]<0&&e.atoms.y[t-1]<0&&(function(e){S(e,!0)}(e),A(e.atoms,-function(e,t){return C(e,t)+Math.PI/2}(e.atoms.x[e.meta.terminalNodes[1]-1],e.atoms.y[e.meta.terminalNodes[1]-1])))}(e,s),function(e,t){const n=e.atoms.x;n[e.meta.rNodes[1]-1]>n[t-1]&&function(e,t,n){const i=t-1,o=n-1,r=e.atoms.x,s=e.atoms.y,a=r[i],l=s[i];r[i]=r[o],s[i]=s[o],r[o]=a,s[o]=l}(e,t,e.meta.rNodes[1])}(e,s))}(w):e===m.u.RIBOSE.symbol||e===m.u.DEOXYRIBOSE.symbol?function(e,t){const n=e.atoms.x,i=e.atoms.y;let o=e.meta.terminalNodes[0]-1;const r=e.meta.rNodes[1]-1;M(e,-n[o],-i[o]);const s=C(n[e.meta.rNodes[2]-1],i[e.meta.rNodes[2]-1]);A(e.atoms,-s),n[e.meta.rNodes[0]-1]>n[e.meta.rNodes[1]-1]&&E(e);const a=C(n[r],i[r]);A(e.atoms,3*Math.PI/2-a),t.value=function(e){const t=e.atoms.x,n=e.atoms.y,i=e.meta.rNodes[2]-1,o=e.meta.terminalNodes[2]-1,r=t[i]-t[o],s=n[i]-n[o];return Math.atan2(r,s)}(e),o=e.meta.terminalNodes[0]-1,M(e,-n[o],-i[o])}(w,o):e===m.u.PHOSPHATE.symbol?function(e){const t=e.meta.rNodes[1]-1,n=e.meta.rNodes[0]-1,i=e.atoms.x,o=e.atoms.y;M(e,-i[t],-o[t]);const r=C(i[n],o[n]);A(e.atoms,Math.PI/2-r)}(w):function(e,t){const n=e.atoms.x,i=e.atoms.y,o=e.meta.terminalNodes[0]-1,r=e.meta.rNodes[0]-1;M(e,-n[o],-i[o]);const s=C(n[r],i[r]),a=t.value;if(!a)throw new Error("The value of sugarBranchToOYAngle is null");A(e.atoms,Math.PI-s+a);const c=function(e,t){return(0,l.YN)(Math.sqrt((e.x-t.x)**2+(e.y-t.y)**2))}({x:n[e.meta.rNodes[0]-1],y:i[e.meta.rNodes[0]-1]},{x:n[e.meta.terminalNodes[0]-1],y:i[e.meta.terminalNodes[0]-1]});if(1!=c)for(let e=0;e<n.length;++e)n[e]=(0,l.YN)(n[e]/c),i[e]=(0,l.YN)(i[e]/c)}(w,o),function(e,t,n){if("PEPTIDE"===e){b(t,e);const n=v(t,t.meta.rNodes[1]);n?.removedAtom&&(t.terminalR2Atom=n.removedAtom)}else n===m.u.RIBOSE.symbol||n===m.u.DEOXYRIBOSE.symbol?(v(t,t.meta.rNodes[1]),t.meta.rNodes[1]=t.meta.terminalNodes[1],y(t.bonds,t.meta),b(t,e),v(t,t.meta.rNodes[1]),v(t,t.meta.rNodes[0]),v(t,t.meta.rNodes[2])):n===m.u.PHOSPHATE.symbol&&(t.meta.terminalNodes[0]=t.meta.rNodes[0],M(t,-t.atoms.x[t.meta.terminalNodes[0]-1],-t.atoms.y[t.meta.terminalNodes[0]-1]),b(t,e),v(t,t.meta.rNodes[1]))}(i,w,e),function(e){let t=0;for(;t<e.atoms.atomTypes.length;)e.atoms.atomTypes[t]===m.u.HYDROGEN&&(v(e,t+1),--t),++t}(w),function(e){let t=0;for(;t<e.atoms.atomTypes.length;)"oh"===e.atoms.atomTypes[t]?.toLowerCase()&&(e.atoms.atomTypes[t]="O"),"?"===e.atoms.atomTypes[t]&&(e.atoms.atomTypes[t]="H"),++t}(w),function(e){const t=" RGROUPS=(1 1)";for(let n=0;n<(e.atoms.kwargs?.length??0);n++){const i=e.atoms.kwargs[n];i&&i.includes(t)&&(e.atoms.kwargs[n]=i.replace(t,""))}}(w),w}var r;return null}(t,n,i,o,r);if(!a)throw new Error(`Monomer with symbol '${t}' is absent the monomer library`);(0,u.LQ)(e,s,a)}}function y(e,t){const n=t.rNodes;t.terminalNodes=new Array(n.length).fill(0);const i=t.terminalNodes,o=e.atomPairs;let r=0,s=0;for(;r<o.length&&s<i.length;){for(let e=0;e<i.length;++e)for(let t=0;t<2;++t)o[r][t]===n[e]&&(i[e]=o[r][(t+1)%2],n.length,++s);++r}}function b(e,t){e.meta.rNodes.length>1&&(e.meta.backboneShift=w(e,e.meta.rNodes[1]-1,e.meta.terminalNodes[0]-1)),"RNA"===t&&e.meta.rNodes.length>2&&(e.meta.branchShift=w(e,e.meta.rNodes[2]-1,e.meta.terminalNodes[0]-1))}function w(e,t,n){return[(0,l.YN)(e.atoms.x[t]-e.atoms.x[n]),(0,l.YN)(e.atoms.y[t]-e.atoms.y[n])]}function v(e,t){if(void 0!==t){const n=t-1,i=e.atoms,o=e.bonds,r=e.meta,s=i.atomTypes.splice(n,1)[0];i.x=T(Float32Array,i.x,n,1),i.y=T(Float32Array,i.y,n,1),i.kwargs.splice(n,1);for(let e=0;e<r.terminalNodes.length;++e)r.terminalNodes[e]>t?--r.terminalNodes[e]:r.terminalNodes[e]===t&&(r.terminalNodes[e]=-1);for(let e=0;e<r.rNodes.length;++e)r.rNodes[e]>t?--r.rNodes[e]:r.rNodes[e]===t&&(r.rNodes[e]=-1);let a=0;for(;a<o.atomPairs.length;){const e=o.atomPairs[a][0],n=o.atomPairs[a][1];e===t||n===t?(o.atomPairs.splice(a,1),o.bondTypes=T(Uint32Array,o.bondTypes,a,1),o.bondConfiguration.has(a)&&o.bondConfiguration.delete(a),o.kwargs.has(a)&&o.kwargs.delete(a),--a):(o.atomPairs[a][0]=e>t?e-1:e,o.atomPairs[a][1]=n>t?n-1:n),++a}let l=Array.from(o.bondConfiguration.keys());return l.forEach(e=>{if(o.bondConfiguration.has(e)&&e>n){const t=o.bondConfiguration.get(e);o.bondConfiguration.delete(e),o.bondConfiguration.set(e-1,t)}}),l=Array.from(o.kwargs.keys()),l.forEach(e=>{if(o.kwargs.has(e)&&e>n){const t=o.kwargs.get(e);o.kwargs.delete(e),o.kwargs.set(e-1,t)}}),s?{removedAtom:s}:void 0}}function T(e,t,n,i){const o=new e(t.length-i);let r=0,s=0;for(;r<t.length;)r===n&&(r+=i),o[s]=t[r],++s,++r;return o}function C(e,t){let n;if(0===e)n=t>0?0:Math.PI;else if(0===t)n=e>0?-Math.PI/2:Math.PI/2;else{const i=t/e,o=Math.atan(i);n=e<0?Math.PI/2+o:-Math.PI/2+o}return n}function A(e,t){if(0!==t){const n=e.x,i=e.y,o=Math.cos(t),r=Math.sin(t);for(let e=0;e<n.length;++e){const t=n[e];n[e]=(0,l.YN)(t*o-i[e]*r),i[e]=(0,l.YN)(t*r+i[e]*o)}}}function E(e){S(e,!1)}function S(e,t){if(t){const t=e.atoms.y;for(let e=0;e<t.length;e++)t[e]=-t[e]}else{const t=e.atoms.x;for(let e=0;e<t.length;e++)t[e]=-t[e]}const n=e.bonds.bondConfiguration;for(const[e,t]of n){const i=1===t?3:1;n.set(e,i)}}function M(e,t,n){const i=e.atoms.x,o=e.atoms.y;for(let e=0;e<i.length;++e)i[e]=(0,l.YN)(i[e]+t),void 0!==n&&(o[e]=(0,l.YN)(o[e]+n))}},6082:e=>{"use strict";e.exports=DG},6105:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2128),o=n(7060),r=n(6378),s=n(5520),a=n(5413),l=n(3265),c=n(7532),u=n(9857),h=[s.default,i.default,o.default,(0,r.default)(!0),c.default,u.metadataVocabulary,u.contentVocabulary,a.default,l.default];t.default=h},6144:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2128),o=n(7060),r=n(6378),s=n(7532),a=n(9857),l=[i.default,o.default,(0,r.default)(),s.default,a.metadataVocabulary,a.contentVocabulary];t.default=l},6163:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r={keyword:"oneOf",schemaType:"array",trackErrors:!0,error:{message:"must match exactly one schema in oneOf",params:({params:e})=>i._`{passingSchemas: ${e.passing}}`},code(e){const{gen:t,schema:n,parentSchema:r,it:s}=e;if(!Array.isArray(n))throw new Error("ajv implementation error");if(s.opts.discriminator&&r.discriminator)return;const a=n,l=t.let("valid",!1),c=t.let("passing",null),u=t.name("_valid");e.setParams({passing:c}),t.block(function(){a.forEach((n,r)=>{let a;(0,o.alwaysValidSchema)(s,n)?t.var(u,!0):a=e.subschema({keyword:"oneOf",schemaProp:r,compositeRule:!0},u),r>0&&t.if(i._`${u} && ${l}`).assign(l,!1).assign(c,i._`[${c}, ${r}]`).else(),t.if(u,()=>{t.assign(l,!0),t.assign(c,r),a&&e.mergeEvaluated(a,i.Name)})})}),e.result(l,()=>e.reset(),()=>e.error(!0))}};t.default=r},6197:(e,t,n)=>{"use strict";n.d(t,{Y:()=>o});var i=n(3599);function o(e){let t;switch(e){case i.o.BASE:case i.o.SUGAR:case i.o.LINKER:case i.o.NUCLEOTIDE:case"nucleotide":t="RNA";break;case i.o.AA:t="PEPTIDE";break;case i.o.CHEM:t="CHEM";break;case i.o.BLOB:t="BLOB";break;default:t="PEPTIDE",console.warn(`Unexpected HelmType '${e}'`)}return t}},6250:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(2017);i.code='require("ajv/dist/runtime/equal").default',t.default=i},6295:(e,t,n)=>{"use strict";n.d(t,{$1:()=>s,Hf:()=>u,Hr:()=>S,Ii:()=>f,Qj:()=>p,T6:()=>E,TK:()=>C,be:()=>g,gt:()=>w,ij:()=>v,jL:()=>c,lO:()=>m,lP:()=>b,rR:()=>y,tO:()=>a,v_:()=>l,w_:()=>h,yK:()=>T,zn:()=>d});var i=n(8774),o=n(8498),r=n(6863);function s(e,t){const n=e.trueCount()+t.trueCount();if(0==n)return 1;const i=e.andWithCountBits(t,!0);return i/(n-i)}function a(e,t){return 1-s(e,t)}function l(e,t){return A(s(new i.A(e,32*e.length),new i.A(t,32*t.length)))}function c(e,t){let n=0;for(let i=0;i<e.length;i++)n+=Math.pow(e[i]-t[i],2);return Math.sqrt(n)}function u(e,t){let n=0;for(let i=0;i<e.length;i++)n+=Math.abs(e[i]-t[i]);return n}function h(e,t){let n=0,i=0,o=0;for(let r=0;r<e.length;r++)n+=e[r]*t[r],i+=e[r]*e[r],o+=t[r]*t[r];return(1-n/(Math.sqrt(i)*Math.sqrt(o)))/2}function d(e,t){return 1-function(e,t){const n=e.trueCount()+t.trueCount();return 0==n?0:2*e.andWithCountBits(t,!0)/n}(e,t)}function m(e,t){return 1-function(e,t){const n=e.trueCount()*t.trueCount();return 0==n?0:e.andWithCountBits(t,!0)/Math.sqrt(n)}(e,t)}function p(e,t){return Math.sqrt(e.trueCount()+t.trueCount()-2*e.andWithCountBits(t,!0))}function g(e,t){return e.trueCount()+t.trueCount()-2*e.andWithCountBits(t,!0)}function f(e,t){return 1-function(e,t){const n=e.trueCount()+t.trueCount(),i=e.andWithCountBits(t,!0);return i/(2*n-3*i)}(e,t)}function y(e,t){return A(function(e,t){const n=e.trueCount()+t.trueCount(),i=e.trueCount()*t.trueCount();return 0==i?0:e.andWithCountBits(t,!0)*n/(2*i)}(e,t))}function b(e,t){return A(function(e,t){const n=e.trueCount()+t.trueCount(),i=e.trueCount()*t.trueCount();return 0==i?0:(e.andWithCountBits(t,!0)*n-i)/i}(e,t))}function w(e,t){return 1-function(e,t){const n=Math.min(e.trueCount(),t.trueCount());return 0==n?0:e.andWithCountBits(t,!0)/n}(e,t)}function v(e,t){return A(function(e,t){const n=Math.max(e.trueCount(),t.trueCount());return 0==n?0:e.andWithCountBits(t,!0)/n}(e,t))}function T(e,t){return A(function(e,t){return 0==e.length?0:e.andWithCountBits(t,!0)/e.length}(e,t))}function C(e,t){return A(function(e,t){const n=e.andWithCountBits(t,!0),i=e.countBits(!0)+t.countBits(!0),o=e.length,r=o-i+n;return n==o||r==o?1:n/i+r/(2*o-i)}(e,t))}function A(e){return e<=0?3402823e32:1/e-1}function E(e){if(e&&null!=e.range&&e.range>0){const t=e.range;return(e,n)=>Math.abs(e-n)/t}return(e,t)=>Math.abs(e-t)}function S(e){const t=function(e){const t=e?.mostCommon??new Set;return(e,n)=>{const i=e.length,o=n.length;let r=0,s=0,a=0;for(;s<i&&a<o;)e[s]===n[a]?(t?.has(e[s])||++r,++s,++a):e[s]<n[a]?++s:++a;return r}}(e);return(e,n)=>0===n.length||0===e.length?1e4:Math.min(e.length,n.length)/(t(e,n)+1e-4)}o.aT.Tanimoto,o.aT.Dice,o.aT.Asymmetric,o.aT.BraunBlanquet,o.aT.Cosine,o.aT.Kulczynski,o.aT.McConnaughey,o.aT.RogotGoldberg,o.aT.Russel,o.aT.Sokal,o.aT.Hamming,o.aT.Euclidean,o.aT.Tanimoto,o.aT.Dice,o.aT.Asymmetric,o.aT.BraunBlanquet,o.aT.Cosine,o.aT.Kulczynski,o.aT.McConnaughey,o.aT.RogotGoldberg,o.aT.Russel,o.aT.Sokal,o.aT.Hamming,o.aT.Euclidean,o.aT.Tanimoto,o.aT.Dice,o.aT.Cosine,o.aT.Tanimoto,o.aT.Asymmetric,o.aT.Cosine,o.aT.Sokal,r.Z.HAMMING,r.Z.LEVENSHTEIN,r.Z.MONOMER_CHEMICAL_DISTANCE,r.Z.NEEDLEMANN_WUNSCH},6307:(e,t,n)=>{"use strict";n.d(t,{F:()=>a});var i=n(7389),o=n(6082),r=n(439),s=n(6197);function a(e,t,n,a){let l=0,c=null;for(const t of Object.values(e))l+=t,c=null===c?t:Math.max(c,t);const u=c/l,h=Object.assign({},...Array.from(Object.entries(e)).sort((e,t)=>t[1]-e[1]).map(([e,c])=>{const h=c/l;let d;const m=a&&a[e]||t;try{const t=n.getMonomerColors(m,e);d=t?.backgroundcolor||"#CCCCCC"}catch(t){console.warn(`Failed to get colors for monomer ${e}:`,t),d="#CCCCCC"}const p=i.div("",{classes:"macromolecule-cell-comp-analysis-bar"});p.style.width=50*h/u+"px",p.style.backgroundColor=d,r._S===e&&(p.style.borderWidth="1px",p.style.borderStyle="solid",p.style.borderColor=o.Color.toHtml(o.Color.lightGray));let g=e;if(e!==r._S){const t=n.getMonomer((0,s.Y)(m),e);t&&t.symbol!==e&&(g=t.symbol)}else g="-";const f=i.div(`${(100*h).toFixed(2)}%`),y=i.div([p,f],{classes:"macromolecule-cell-comp-analysis-value"});return{[g]:y}})),d=i.tableFromMap(h);return Array.from(d.rows).forEach(e=>{const t=e.getElementsByClassName("macromolecule-cell-comp-analysis-bar")[0].style.backgroundColor;e.cells[0].style.color=t}),d}},6314:e=>{"use strict";e.exports=function(e){var t=[];return t.toString=function(){return this.map(function(t){var n="",i=void 0!==t[5];return t[4]&&(n+="@supports (".concat(t[4],") {")),t[2]&&(n+="@media ".concat(t[2]," {")),i&&(n+="@layer".concat(t[5].length>0?" ".concat(t[5]):""," {")),n+=e(t),i&&(n+="}"),t[2]&&(n+="}"),t[4]&&(n+="}"),n}).join("")},t.i=function(e,n,i,o,r){"string"==typeof e&&(e=[[null,e,void 0]]);var s={};if(i)for(var a=0;a<this.length;a++){var l=this[a][0];null!=l&&(s[l]=!0)}for(var c=0;c<e.length;c++){var u=[].concat(e[c]);i&&s[u[0]]||(void 0!==r&&(void 0===u[5]||(u[1]="@layer".concat(u[5].length>0?" ".concat(u[5]):""," {").concat(u[1],"}")),u[5]=r),n&&(u[2]?(u[1]="@media ".concat(u[2]," {").concat(u[1],"}"),u[2]=n):u[2]=n),o&&(u[4]?(u[1]="@supports (".concat(u[4],") {").concat(u[1],"}"),u[4]=o):u[4]="".concat(o)),t.push(u))}},t}},6369:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".kalign-version {\n margin-bottom: 0;\n text-align: end;\n font-size: 12px;\n opacity: 0.8;\n}\nbutton.msa-params-button.ui-btn {\n justify-content: end;\n}","",{version:3,sources:["webpack://./css/msa.css"],names:[],mappings:"AAAA;IACI,gBAAgB;IAChB,eAAe;IACf,eAAe;IACf,YAAY;AAChB;AACA;IACI,oBAAoB;AACxB",sourcesContent:[".kalign-version {\n margin-bottom: 0;\n text-align: end;\n font-size: 12px;\n opacity: 0.8;\n}\nbutton.msa-params-button.ui-btn {\n justify-content: end;\n}"],sourceRoot:""}]);const a=s},6378:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5457),o=n(5354),r=n(494),s=n(3966),a=n(2661),l=n(3025),c=n(2094),u=n(8660),h=n(117),d=n(5333),m=n(7923),p=n(6505),g=n(6163),f=n(5844),y=n(1239),b=n(4426);t.default=function(e=!1){const t=[m.default,p.default,g.default,f.default,y.default,b.default,c.default,u.default,l.default,h.default,d.default];return e?t.push(o.default,s.default):t.push(i.default,r.default),t.push(a.default),t}},6505:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i={keyword:"anyOf",schemaType:"array",trackErrors:!0,code:n(5765).validateUnion,error:{message:"must match a schema in anyOf"}};t.default=i},6642:(e,t,n)=>{"use strict";n.d(t,{BG:()=>s,sD:()=>l});var i=n(4328),o=n(1858),r=n(8070);function s(e){let t=null,n=null;try{n=e.dart?e.gridColumn:null,t=n?n.temp:null}catch{[n,t]=[null,null]}const i=e.cell.column;if(t=t??(i?i.temp:null),!t)throw new Error("Grid cell renderer back store (GridColumn or Column) not found.");return[n,i,t]}class a{onKeyDown(e,t){}onKeyPress(e,t){}onMouseEnter(e,t){}onMouseLeave(e,t){}onMouseDown(e,t){}onMouseUp(e,t){}onMouseMove(e,t){}onClick(e,t){}onDoubleClick(e,t){}}class l extends a{constructor(e,t,n){super(),this.gridCol=e,this.tableCol=t,this.logger=n,this.subs=[],this.dirty=!0,this.destroyed=!1,this.viewerId=++l.viewerCounter,this.errors=[],this._onRendered=new o.Subject,this.tableCol&&this.tableCol.dataFrame&&(this.subs.push(this.tableCol.dataFrame.onDataChanged.subscribe(()=>{this.dirty=!0})),this.subs.push(this.tableCol.dataFrame.onColumnsRemoved.subscribe(e=>{try{this.destroyed||!this.tableCol||this.tableCol.dataFrame||this.destroy()}catch(e){this.logger.error(e)}}))),this.tableCol&&this.subs.push(i.events.onTableRemoved.subscribe(e=>{try{const t=e.args.dataFrame;this.tableCol?.dataFrame.id!==t.id||this.destroyed||this.destroy()}catch(e){this.logger.error(e)}})),this.gridCol&&this.subs.push(i.events.onViewRemoving.subscribe(e=>{try{const t=e.args.view;this.gridCol?.dart&&this.gridCol.grid&&this.gridCol?.grid?.dart&&this.gridCol?.grid?.view?.id===t.id&&!this.destroyed&&this.destroy()}catch(e){this.logger.error(e)}}))}toLog(){return`${this.constructor.name}<${this.viewerId}>`}destroy(){for(const e of this.subs)e.unsubscribe();this.destroyed=!0}invalidateGrid(){this.gridCol&&this.gridCol.dart&&this.gridCol.grid?.invalidate()}reset(){this.dirty=!1}get onRendered(){return this._onRendered}invalidate(e){this.invalidateGrid()}async awaitRendered(e=1e4,t=`${e} timeout`){const n=`${this.toLog()}.awaitRendered()`;if(this.logger.debug(`${n}, start, testEvent before`),await(0,r.PE)(this._onRendered,()=>{},()=>{this.invalidate()},e,`${n}, ${t}`),this.errors.length>0){const e=this.errors[0];throw this.errors=[],e}this.logger.debug(`${n}, end`)}}l.viewerCounter=-1},6653:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(7652),r=n(3835),s=n(4551),a=n(4227),l={keyword:"discriminator",type:"object",schemaType:"object",error:{message:({params:{discrError:e,tagName:t}})=>e===o.DiscrError.Tag?`tag "${t}" must be string`:`value of tag "${t}" must be in oneOf`,params:({params:{discrError:e,tag:t,tagName:n}})=>i._`{error: ${e}, tag: ${n}, tagValue: ${t}}`},code(e){const{gen:t,data:n,schema:l,parentSchema:c,it:u}=e,{oneOf:h}=c;if(!u.opts.discriminator)throw new Error("discriminator: requires discriminator option");const d=l.propertyName;if("string"!=typeof d)throw new Error("discriminator: requires propertyName");if(l.mapping)throw new Error("discriminator: mapping is not supported");if(!h)throw new Error("discriminator: requires oneOf keyword");const m=t.let("valid",!1),p=t.const("tag",i._`${n}${(0,i.getProperty)(d)}`);function g(n){const o=t.name("valid"),r=e.subschema({keyword:"oneOf",schemaProp:n},o);return e.mergeEvaluated(r,i.Name),o}t.if(i._`typeof ${p} == "string"`,()=>function(){const n=function(){var e;const t={},n=o(c);let i=!0;for(let t=0;t<h.length;t++){let c=h[t];if((null==c?void 0:c.$ref)&&!(0,a.schemaHasRulesButRef)(c,u.self.RULES)){const e=c.$ref;if(c=r.resolveRef.call(u.self,u.schemaEnv.root,u.baseId,e),c instanceof r.SchemaEnv&&(c=c.schema),void 0===c)throw new s.default(u.opts.uriResolver,u.baseId,e)}const m=null===(e=null==c?void 0:c.properties)||void 0===e?void 0:e[d];if("object"!=typeof m)throw new Error(`discriminator: oneOf subschemas (or referenced schemas) must have "properties/${d}"`);i=i&&(n||o(c)),l(m,t)}if(!i)throw new Error(`discriminator: "${d}" must be required`);return t;function o({required:e}){return Array.isArray(e)&&e.includes(d)}function l(e,t){if(e.const)m(e.const,t);else{if(!e.enum)throw new Error(`discriminator: "properties/${d}" must have "const" or "enum"`);for(const n of e.enum)m(n,t)}}function m(e,n){if("string"!=typeof e||e in t)throw new Error(`discriminator: "${d}" values must be unique strings`);t[e]=n}}();t.if(!1);for(const e in n)t.elseIf(i._`${p} === ${e}`),t.assign(m,g(n[e]));t.else(),e.error(!1,{discrError:o.DiscrError.Mapping,tag:p,tagName:d}),t.endIf()}(),()=>e.error(!1,{discrError:o.DiscrError.Tag,tag:p,tagName:d})),e.ok(m)}};t.default=l},6717:(e,t,n)=>{"use strict";n.d(t,{j:()=>o});var i=n(6082);async function o(){const e=i.Func.find({package:"Chem",name:"getRdKitModule"});if(0===e.length)throw new Error('Package "Chem" must be installed for getRdKitModule.');return(await e[0].prepare().call()).getOutputParamValue()}},6863:(e,t,n)=>{"use strict";function i(e={}){const t=function(){if(!e||!e.scoringMatrix||!e.alphabetIndexes)return(e,t)=>e===t?0:1;if(e.scoringMatrix.length!==Object.keys(e.alphabetIndexes).length)throw new Error("Scoring matrix and alphabet indexes should have the same length");const t=e.alphabetIndexes,n=e.scoringMatrix,i=Math.min(...Object.keys(t).map(e=>e.charCodeAt(0)))+1,o=new Float32Array((n.length+i)*(n.length+i));return Object.entries(t).forEach(([e,i])=>{const r=n[i];Object.entries(t).forEach(([t,i])=>{o[e.charCodeAt(0)*n.length+t.charCodeAt(0)]=r[i]})}),(e,t)=>1-o[e.charCodeAt(0)*n.length+t.charCodeAt(0)]}(),n=e?.threshold??0;return(e,i)=>{let o=0;const r=e.length,s=i.length,a=Math.ceil(Math.max(r,s)*(1-n));r!==s&&(o=Math.abs(r-s));let l=0;for(let n=0;n<Math.min(r,s);n++)if(e[n]!==i[n]&&(l+=t(e[n],i[n]),l>a))return 1;return l+=o,l/=Math.max(r,s),l}}n.d(t,{Z:()=>s,V:()=>a});var o=n(2787);const r={gapOpen:1,gapExtend:.6,scoringMatrix:[[4,-1,-2,-2,0,-1,-1,0,-2,-1,-1,-1,-1,-2,-1,1,0,-3,-2,0,-2,-1,0,-4],[-1,5,0,-2,-3,1,0,-2,0,-3,-2,2,-1,-3,-2,-1,-1,-3,-2,-3,-1,0,-1,-4],[-2,0,6,1,-3,0,0,0,1,-3,-3,0,-2,-3,-2,1,0,-4,-2,-3,3,0,-1,-4],[-2,-2,1,6,-3,0,2,-1,-1,-3,-4,-1,-3,-3,-1,0,-1,-4,-3,-3,4,1,-1,-4],[0,-3,-3,-3,9,-3,-4,-3,-3,-1,-1,-3,-1,-2,-3,-1,-1,-2,-2,-1,-3,-3,-2,-4],[-1,1,0,0,-3,5,2,-2,0,-3,-2,1,0,-3,-1,0,-1,-2,-1,-2,0,3,-1,-4],[-1,0,0,2,-4,2,5,-2,0,-3,-3,1,-2,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-2,0,-1,-3,-2,-2,6,-2,-4,-4,-2,-3,-3,-2,0,-2,-2,-3,-3,-1,-2,-1,-4],[-2,0,1,-1,-3,0,0,-2,8,-3,-3,-1,-2,-1,-2,-1,-2,-2,2,-3,0,0,-1,-4],[-1,-3,-3,-3,-1,-3,-3,-4,-3,4,2,-3,1,0,-3,-2,-1,-3,-1,3,-3,-3,-1,-4],[-1,-2,-3,-4,-1,-2,-3,-4,-3,2,4,-2,2,0,-3,-2,-1,-2,-1,1,-4,-3,-1,-4],[-1,2,0,-1,-3,1,1,-2,-1,-3,-2,5,-1,-3,-1,0,-1,-3,-2,-2,0,1,-1,-4],[-1,-1,-2,-3,-1,0,-2,-3,-2,1,2,-1,5,0,-2,-1,-1,-1,-1,1,-3,-1,-1,-4],[-2,-3,-3,-3,-2,-3,-3,-3,-1,0,0,-3,0,6,-4,-2,-2,1,3,-1,-3,-3,-1,-4],[-1,-2,-2,-1,-3,-1,-1,-2,-2,-3,-3,-1,-2,-4,7,-1,-1,-4,-3,-2,-2,-1,-2,-4],[1,-1,1,0,-1,0,0,0,-1,-2,-2,0,-1,-2,-1,4,1,-3,-2,-2,0,0,0,-4],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-2,-1,1,5,-2,-2,0,-1,-1,0,-4],[-3,-3,-4,-4,-2,-2,-3,-2,-2,-3,-2,-3,-1,1,-4,-3,-2,11,2,-3,-4,-3,-2,-4],[-2,-2,-2,-3,-2,-1,-2,-3,2,-1,-1,-2,-1,3,-3,-2,-2,2,7,-1,-3,-2,-1,-4],[0,-3,-3,-3,-1,-2,-2,-3,-3,3,1,-2,1,-1,-2,-2,0,-3,-1,4,-3,-2,-1,-4],[-2,-1,3,4,-3,0,1,-1,0,-3,-4,0,-3,-3,-2,0,-1,-4,-3,-3,4,1,-1,-4],[-1,0,0,1,-3,3,4,-2,0,-3,-3,1,-1,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-1,-1,-1,-2,-1,-1,-1,-1,-1,-1,-1,-1,-1,-2,0,0,-2,-1,-1,-1,-1,-1,-4],[-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,1]],alphabetIndexes:{A:0,R:1,N:2,D:3,C:4,Q:5,E:6,G:7,H:8,I:9,L:10,K:11,M:12,F:13,P:14,S:15,T:16,W:17,Y:18,V:19,B:20,Z:21,X:22,"*":23}};var s;!function(e){e.HAMMING="Hamming",e.LEVENSHTEIN="Levenshtein",e.NEEDLEMANN_WUNSCH="Needlemann-Wunsch",e.MONOMER_CHEMICAL_DISTANCE="Monomer chemical distance"}(s||(s={}));const a={[s.HAMMING]:i,[s.LEVENSHTEIN]:function(){return(e,t)=>(0,o.I)(e,t)/Math.max(e.length,t.length)},[s.NEEDLEMANN_WUNSCH]:function(e){const t=new Uint16Array(65536),{gapOpen:n,gapExtend:i,scoringMatrix:o,alphabetIndexes:s}={...r,...e};Object.entries(s).forEach(([e,n])=>t[e.charCodeAt(0)]=n);const a=[new Float32Array(1e4),new Float32Array(1e4)];return(e,r)=>{const s=new Array(e.length+1).fill(!1),l=new Array(e.length+1).fill(!1);let c=0,u=1;for(let t=1;t<e.length+1;t++)a[0][t]=-i-(t-1)*i,a[1][t]=0;a[0][0]=0;for(let h=1;h<r.length+1;h++){a[u][0]=-i-(h-1)*i;for(let d=1;d<e.length+1;d++){const m=a[c][d-1]+o[t[e.charCodeAt(d-1)]][t[r.charCodeAt(h-1)]],p=a[c][d]-(s[d]||1===h||h===r.length?i:n),g=a[u][d-1]-(l[d-1]||1===d||d===e.length?i:n);a[u][d]=Math.max(m,g,p),a[u][d]===m?(s[d]=!1,l[d]=!1):a[u][d]===g?(s[d]=!1,l[d]=!0):(s[d]=!0,l[d]=!1)}c=u,u=(u+1)%2}const h=Math.min(e.length,r.length);return(h-a[c][e.length])/h}},[s.MONOMER_CHEMICAL_DISTANCE]:i}},6869:(e,t,n)=>{"use strict";var i;n.d(t,{o:()=>i}),function(e){e.BASE="HELM_BASE",e.SUGAR="HELM_SUGAR",e.LINKER="HELM_LINKER",e.AA="HELM_AA",e.CHEM="HELM_CHEM",e.BLOB="HELM_BLOB",e.NUCLEOTIDE="HELM_NUCLETIDE"}(i||(i={}))},6873:(e,t,n)=>{"use strict";n.d(t,{Hx:()=>h,dW:()=>u,fD:()=>c});var i=n(6082),o=n(1991),r=n.n(o),s=n(2003),a=n(7278),l=n(439);function c(){const e=[];return e.push(i.Column.fromList("string","MSA",new Array(10**6).fill("meI/hHis/Aca/N/T/dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe/dV/E/N/D-Orn/D-aThr//Phe_4Me"))),e.push(i.Column.fromList(i.COLUMN_TYPE.FLOAT,"Activity",new Array(10**6).fill(5.30751))),e}function u(e=1e4){const t="meI/hHis/Aca/N//dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe".repeat(Math.ceil(e/10)).slice(0,-1),n=i.Column.fromList(i.COLUMN_TYPE.STRING,"MSA",new Array(100).fill(t));n.semType=i.SEMTYPE.MACROMOLECULE,n.meta.units=s.Hi.SEPARATOR,n.setTag(s.gp.separator,"/"),n.setTag(s.gp.alphabet,s.YI.UN),n.setTag(s.gp.alphabetIsMultichar,"true");const o=[];return o.push(n),o.push(i.Column.fromList(i.COLUMN_TYPE.FLOAT,"Activity",new Array(100).fill(7.30751))),o}function h(e,t=s.Hi.SEPARATOR,n=s.YI.PT,o=(t===s.Hi.SEPARATOR?"-":void 0),c=void 0,u="seq",h=100,d=10**6){const m=n===s.YI.UN?c?.getMonomerSymbolsByType("PEPTIDE")??[]:Array.from((0,s.Qf)(n)),p=m.length,g=i.Column.fromType(i.COLUMN_TYPE.STRING,u,h);g.semType=i.SEMTYPE.MACROMOLECULE,g.meta.units=t,g.setTag(s.gp.alphabet,n),t==s.Hi.SEPARATOR&&g.setTag(s.gp.separator,o);const f=e.getSeqHandler(g);for(let e=0;e<h;e++){const n=r().count(0).take(d).map(e=>m[Math.floor(Math.random()*p)]).toArray(),i=f.joiner(new a.Mu(n,l.b9[t]));g.set(e,i)}return g}},6882:(e,t,n)=>{"use strict";n.d(t,{Bb:()=>b,Jy:()=>w,S$:()=>y,U0:()=>v});var i=n(7389),o=n(6082),r=n(1991),s=n.n(r),a=n(8312),l=n(2003),c=n(6642),u=n(4971),h=n(9192),d=n(3856),m=n(673),p=n(3599),g=n(5553),f=n(9713);const y="rgb(100,100,100)";function b(e,t,n){if((n??0)>0&&t<(e[0]??0)+n)return-1;t-=n??0;let i,o=100,r=0,s=e.length-1;for(;r<=s;){if(i=Math.floor((s+r)/2),e[i]<=t&&t<e[i+1])return i;if(t<e[i]?s=i-1:r=i+1,--o<=0)throw new Error(`Get position for pointer x = ${t} searching has not converged on ${JSON.stringify(e)}. `)}return null}class w extends c.sD{get separatorWidth(){return this.props?.fontCharWidth?this.props?.fontCharWidth:5}constructor(e,t,n,i,r){if(super(e,t,n),this.monomerLengthLimit=i,this.propsProvider=r,this.colWidth=0,this._monomerLengthList=null,this._processedMaxVisibleSeqLength=0,this._monomerLengthMap={},this._monomerStructureMap={},this._ellipsisBounds=void 0,this._totalLinesNeeded=0,this._lineHeight=20,this._cellBounds=new Map,this.sysMonomerLib=null,this.padding=5,this._leftThreeDotsPadding=0,this.props=this.propsProvider(),this._processedRows=o.BitSet.create(this.tableCol.length),this.gridCol&&this.subs.push(this.gridCol.grid.onAfterDrawContent.subscribe(()=>{this._onRendered.next()})),this.tableCol&&this.gridCol){this.subs.push(this.tableCol.dataFrame.onCurrentRowChanged.subscribe(()=>{-1===this.tableCol.dataFrame.currentRowIdx&&(this.tableCol.temp["reference-sequence"]=null,this.tableCol.temp["current-word"]=null,this.invalidateGrid())}));const e=[l.gp.positionShift,"renderMultiline"];this.subs.push(o.debounce(this.tableCol.dataFrame.onMetadataChanged.pipe(f.filter(t=>t.args.source===this.tableCol&&e.includes(t.args.key))),200).subscribe(e=>{this.reset()})),this.subs.push(o.debounce(this.tableCol.dataFrame.onMetadataChanged.pipe(f.filter(e=>e.args.source===this.tableCol&&e.args.key===l.gp.positionShift)),200).subscribe(e=>{this.reset()}))}}calculateFontBasedSpacing(e){const t=e.measureText("M");let n=12;if(this.tableCol?.temp[".mm.cellRenderer.fontSize"]){const e=this.tableCol.temp[".mm.cellRenderer.fontSize"];"number"!=typeof e||isNaN(e)||(n=Math.max(e,1))}return{lineHeight:Math.max(1.4*n,t.fontBoundingBoxAscent+t.fontBoundingBoxDescent+4),monomerSpacing:Math.max(2,.2*this.props.fontCharWidth)}}shouldUseMultilineRendering(e){return"true"===e.getTag("renderMultiline")}calculateMultiLineLayoutDynamic(e,t,n,i,o,r){if(this.dirty)try{this.reset()}catch(e){const[t,n]=(0,h.AP)(e);this.logger.error(t,void 0,n)}const{lineHeight:s,monomerSpacing:a}=this.calculateFontBasedSpacing(e),l=t-2*this.padding;let c=0;const u=[];if(i.length>0)for(let t=o;t<i.length;t++){const n=i.getOriginal(t),o=this.props.monomerToShort(n,r);u.push({text:o,posIdx:t}),c=Math.max(c,e.measureText(o).width)}if(0===u.length)return{lineLayouts:[],lineHeight:s};const d=c;let m=Math.floor((l+a)/(d+a));m=Math.max(1,m);const p=n-2*this.padding,g=Math.max(0,Math.floor(p/s)),f=[];let y=0;for(let e=0;e<g&&y<u.length;e++){const t=[];for(let e=0;e<m&&y<u.length;e++){const n=u[y],i=this.padding+e*(d+a);t.push({posIdx:n.posIdx,x:i,width:d,om:n.text,isSeparator:!1}),y++}f.push({lineIdx:e,elements:t})}return{lineLayouts:f,lineHeight:s}}async init(){await Promise.all([(async()=>{this.seqHelper=await(0,a.Q)(),this.invalidateGrid()})(),(async()=>{const e=await(0,u.pj)();this.sysMonomerLib=e.getMonomerLib()})()]),this.subs.push(this.sysMonomerLib.onChanged.subscribe(()=>{this.reset()})),this.reset()}static getFontSettings(e){let t=12;return e&&e.temp[".mm.cellRenderer.fontSize"]&&"number"==typeof e.temp[".mm.cellRenderer.fontSize"]&&!isNaN(e.temp[".mm.cellRenderer.fontSize"])&&(t=Math.max(e.temp[".mm.cellRenderer.fontSize"],1)),{font:`${t}px monospace`,fontWidth:.6*t}}toLog(){return`MonomerPlacer<${this.viewerId}>`}getMonomerLib(){return this.tableCol.temp[".mm.cellRenderer.overriddenLibrary"]??this.sysMonomerLib}reset(){this.propsProvider&&(this.props=this.propsProvider()),this._processedRows=o.BitSet.create(this.tableCol.length),this._monomerLengthList=null,this._monomerLengthMap={},this._monomerStructureMap={},this._cellBounds.clear(),super.reset(),this.invalidateGrid()}invalidateGrid(){this.gridCol&&this.gridCol.dart&&this.gridCol.grid?.invalidate()}getCellMonomerLengths(e,t){const n=this.seqHelper.getSeqHandler(this.tableCol);if(this.colWidth<t&&(this.colWidth=t,this.dirty=!0),this.dirty)try{this.reset()}catch(e){const[t,n]=(0,h.AP)(e);this.logger.error(t,void 0,n)}const i=n.isMsa()?this.getCellMonomerLengthsForSeqMsa():this.getCellMonomerLengthsForSeq(e);return[i,this.getSummedMonomerLengths(i)]}getSummedMonomerLengths(e){const t=new Array(e.length+1);t[0]=this.padding;for(let n=1;n<t.length;n++)t[n]=t[n-1]+e[n-1];let n=t[0];for(let e=1;e<t.length;e++)t[e]?n=t[e]:t[e]=n;return t}getCellMonomerLengthsForSeqValue(e,t){const n=this.seqHelper.getSeqHandler(this.tableCol),i=this.props.separatorWidth+1*this.props.fontCharWidth,o=this.positionShift,r=Math.ceil(t/i)+o,s=n.splitter(e),a=Math.min(r,s.length),l=new Array(a-o);let c=0;for(let e=o;e<a;++e){const i=s.getOriginal(e),r=this.props.monomerToShort(i,this.monomerLengthLimit),a=(n.isSeparator()?this.separatorWidth:this.props.separatorWidth)+r.length*this.props.fontCharWidth;if(l[e-o]=a,c+=a,c>t)break}return l}getCellMonomerLengthsForSeq(e){this.toLog(),null===this._monomerLengthList&&(this._monomerLengthList=new Array(this.tableCol.length).fill(null));const t=this.positionShift,n=this.seqHelper.getSeqHandler(this.tableCol),i=this.props.separatorWidth+1*this.props.fontCharWidth,o=Math.ceil(this.colWidth/i)+t,r=n.getSplitted(e),s=Math.min(o,r.length);let a=this._monomerLengthList[e];if(null===a||a.length!=s-t){a=this._monomerLengthList[e]=new Array(r.length);let i=0;for(let e=t;e<s;++e){const o=r.getOriginal(e),s=this.props.monomerToShort(o,this.monomerLengthLimit),l=(n.isSeparator()?this.separatorWidth:this.props.separatorWidth)+s.length*this.props.fontCharWidth;if(a[e-t]=l,i+=l,i>this.colWidth)break}}return a}getCellMonomerLengthsForSeqMsa(){var e;this.toLog(),null===this._monomerLengthList&&(this._monomerLengthList=new Array(1).fill(null)),(e=this._monomerLengthList)[0]??(e[0]=new Array(0));const t=this._monomerLengthList[0],{startIdx:n,endIdx:i}=(()=>{try{const e=this.gridCol&&this.gridCol.dart?this.gridCol.grid:null;return e&&e.dart?{startIdx:Math.max(Math.floor((e?.vertScroll.min??0)-10),0),endIdx:Math.min(Math.ceil((e?.vertScroll.max??0)+10),this.tableCol.length)}:{startIdx:0,endIdx:Math.min(this.tableCol.length,10)}}catch(e){return{startIdx:0,endIdx:Math.min(this.tableCol.length,10)}}})(),o=this.props.separatorWidth+1*this.props.fontCharWidth,r=this.positionShift,s=Math.ceil(this.colWidth/o)+r;for(let e=n;e<i;e++){if(this._processedRows.get(e)&&s<=this._processedMaxVisibleSeqLength)continue;const n=this.seqHelper.getSeqHandler(this.tableCol).getSplitted(e,s),i=Math.min(s,n.length);i-r>t.length&&t.push(...new Array(i-r-t.length).fill(o));let a=0;for(let e=r;e<i;++e){const i=n.getOriginal(e),o=this.props.monomerToShort(i,this.monomerLengthLimit),s=this.props.separatorWidth+o.length*this.props.fontCharWidth;if(t[e-r]=Math.max(t[e-r]??0,s),a+=s,a>=this.colWidth)break}this._processedMaxVisibleSeqLength=Math.max(this._processedMaxVisibleSeqLength,s),this._processedRows.set(e,!0)}return t}getPosition(e,t,n,i){const[o,r]=this.getCellMonomerLengths(e,n);return 0===this.seqHelper.getSeqHandler(this.tableCol).getSplitted(e).length?null:b(r,t,i)}setMonomerLengthLimit(e){this.monomerLengthLimit!=e&&(this.monomerLengthLimit=e,this.dirty=!0)}setSeparatorWidth(e){this.separatorWidth!=e&&(this.props.separatorWidth=e,this.dirty=!0)}get positionShift(){const e=Number.parseInt(this.tableCol?.tags[l.gp.positionShift]??"0")??0;return isNaN(e)?0:Math.max(e,0)}render(e,t,n,i,r,a,c){const u=a.grid?.dart&&a.grid?.canvas===e.canvas;if(!this.seqHelper)return;const p=this.tableCol,g=this.positionShift;e.save();try{const c=this.seqHelper.getSeqHandler(p);let h=this.monomerLengthLimit;if(d.gp.maxMonomerLength in p.tags){const e=parseInt(p.getTag(d.gp.maxMonomerLength));h=!isNaN(e)&&e?e:50}if(".mm.cellRenderer.maxMonomerLength"in p.temp){const e=p.temp[".mm.cellRenderer.maxMonomerLength"],t="number"==typeof e?e:parseInt(e);h=!isNaN(t)&&t?t:50}if(p.temp[".mm.cellRenderer.settingsChanged"]===m.s.true||this.monomerLengthLimit!=h){let e=0;const t=8;e=p.temp[".mm.cellRenderer.gapLength"]??e,this.setMonomerLengthLimit(h),this.setSeparatorWidth(c.isMsa()?t:e),p.temp[".mm.cellRenderer.settingsChanged"]=m.s.false,this.dirty=!0}const f=a.cell.rowIndex,b=a.cell.value;u&&(i=v(a.grid,e,t,i,window.devicePixelRatio)),e.beginPath(),e.rect(t,n,i,r),e.clip(),e.font=this.props?.font??"12px monospace",e.textBaseline="top";const w=p.meta.units,T=p.getTag(l.gp.aligned),C=p.getTag(l.gp.separator)??"",A=u?c.getSplitted(f):c.splitter(b);let E=d.yg.classic;T?.includes("MSA")&&w===l.Hi.SEPARATOR&&(E=d.yg.MSA);const S=p.temp["reference-sequence"],M=this.tableCol.temp["current-word"],P=(()=>{const e=(0,c.splitter)(null!=S&&""!==S?S:M??"");return s().count(0).take(e.length).slice(g).map(t=>e.getCanonical(t)).toArray()})(),_=Number.parseInt(p.getTag(l.gp.selectedPosition)??"-200");if(this.shouldUseMultilineRendering(p)){const s=[],l=this.calculateMultiLineLayoutDynamic(e,i,r,A,g,h);let u=n+this.padding;1===l.lineLayouts.length&&(u=n+(r-l.lineHeight)/2);for(const i of l.lineLayouts){const r=u+i.lineIdx*l.lineHeight;for(const u of i.elements){const h=t+u.x,m=u,f=m.posIdx,b=A.getCanonical(f);let w=y;const v=this.getMonomerLib();v&&(w=v.getMonomerTextColor(c.defaultBiotype,b));let T=0;if(a.tableRowIndex!==p.dataFrame.currentRowIdx&&P.length>0){const e=f-g;e>=0&&e<P.length&&b===P[e]&&(T=.7)}s.push({lineIdx:i.lineIdx,monomerIdx:f-g,bounds:new o.Rect(u.x,r-n,u.width,l.lineHeight),sequencePosition:f}),(0,d.oZ)(e,m.om,h,r,u.width,l.lineHeight,{color:w,isMultiLineContext:!0,transparencyRate:T,selectedPosition:isNaN(_)||_<1?void 0:_,wordIdx:f})}}null!==a.tableRowIndex&&this._cellBounds.set(a.tableRowIndex,s)}else{this._leftThreeDotsPadding=this.shouldRenderShiftedThreeDots(g)?e.measureText("...").width:0;let[,o]=this.getCellMonomerLengths(a.tableRowIndex,i);u||(o=this.getSummedMonomerLengths(this.getCellMonomerLengthsForSeqValue(b,i)));const s=this.props.separatorWidth+1*this.props.fontCharWidth,l=Math.min(A.length,Math.ceil(i/s)+g);for(let s=g;s<l;++s){const l=s<A.length?A.getOriginal(s):c.defaultGapOriginal,u=s<A.length?A.getCanonical(s):c.defaultGapOriginal;let m=y;this.getMonomerLib()&&(m=this.getMonomerLib().getMonomerTextColor(c.defaultBiotype,u));const p=s===A.length-1,f={color:m,pivot:0,left:!0,transparencyRate:0,separator:(A?.graphInfo?.disjointSeqStarts?.indexOf(s+1)??0)>0?"|":C,last:p,drawStyle:E,maxWord:o,wordIdx:s-g,gridCell:a,referenceSequence:P,maxLengthOfMonomer:h,monomerTextSizeMap:this._monomerLengthMap,logger:this.logger,selectedPosition:isNaN(_)||_<1?void 0:_-g};(0,d.oZ)(e,l,t+this.padding+this._leftThreeDotsPadding,n,i,r,f)}if(this.shouldRenderShiftedThreeDots(g)){const s={color:y,pivot:0,left:!0,transparencyRate:0,separator:C,last:!1,drawStyle:E,maxWord:o,wordIdx:0,gridCell:a,maxLengthOfMonomer:h,monomerTextSizeMap:this._monomerLengthMap,logger:this.logger};(0,d.oZ)(e,"...",t+this.padding,n,i,r,s)}}}catch(e){const[t,n]=(0,h.AP)(e);this.logger.error(t,void 0,n),this.errors.push(e)}finally{e.restore()}}shouldRenderShiftedThreeDots(e){return e>0&&(!this.gridCol||!this.gridCol.dart||!this.gridCol.grid||!this.gridCol.grid.dart||(this.gridCol.grid.props.colHeaderHeight??0)<=50)}onMouseMove(e,t){const n=`${this.toLog()}.onMouseMove()`;if(!this.seqHelper||null==e.tableRowIndex)return;const o=this.positionShift,r=e.bounds,s=t.offsetX-e.gridColumn.left+(e.gridColumn.left-r.x),a=t.offsetY-r.y;this.gridCol?.grid?.canvas&&(this.gridCol.grid.canvas.style.cursor="default");let c=null;const u=this._cellBounds.get(e.tableRowIndex);if(u){for(const e of u)if(e.bounds.contains(s,a)){c=e.monomerIdx;break}}else{const t=this.shouldRenderShiftedThreeDots(o)&&(this._leftThreeDotsPadding??0)>0?this._leftThreeDotsPadding:0;c=this.getPosition(e.tableRowIndex,s,r.width,t)}this.logger.debug(`${n}, argsX: ${s}, argsY: ${a}, left: ${c}`);const h=this.seqHelper.getSeqHandler(this.tableCol),d=h.getSplitted(e.tableRowIndex);if(null!==c&&c>=0&&c+o<d.length){const n=h.alphabet??l.YI.UN,r={position:c,biotype:n===l.YI.RNA||n===l.YI.DNA?p.o.NUCLEOTIDE:p.o.AA,symbol:d.getCanonical(c+o)},s=[];let a=this._monomerStructureMap[r.symbol];if(!a){const e=this.getMonomerLib();a=this._monomerStructureMap[r.symbol]=e?e.getTooltip(r.biotype,r.symbol):i.divText("Monomer library is not available")}s.push(a),i.tooltip.show(i.divV(s),t.x+16,t.y+16),(0,g.WN)(e,r)}else-1===c?i.tooltip.show(i.divText(`${Math.min(o,d.length)} hidden monomers`),t.x+16,t.y+16):i.tooltip.hide(),(0,g.WN)(e,null)}}function v(e,t,n,i,o){return e?Math.max(Math.min(e.canvas.width/o-n,i)):Math.max(t.canvas.width/o-n,0)}},6939:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.getSchemaRefs=t.resolveUrl=t.normalizeId=t._getFullPath=t.getFullPath=t.inlineRef=void 0;const i=n(4227),o=n(2017),r=n(7106),s=new Set(["type","format","pattern","maxLength","minLength","maxProperties","minProperties","maxItems","minItems","maximum","minimum","uniqueItems","multipleOf","required","enum","const"]);t.inlineRef=function(e,t=!0){return"boolean"==typeof e||(!0===t?!l(e):!!t&&c(e)<=t)};const a=new Set(["$ref","$recursiveRef","$recursiveAnchor","$dynamicRef","$dynamicAnchor"]);function l(e){for(const t in e){if(a.has(t))return!0;const n=e[t];if(Array.isArray(n)&&n.some(l))return!0;if("object"==typeof n&&l(n))return!0}return!1}function c(e){let t=0;for(const n in e){if("$ref"===n)return 1/0;if(t++,!s.has(n)&&("object"==typeof e[n]&&(0,i.eachItem)(e[n],e=>t+=c(e)),t===1/0))return 1/0}return t}function u(e,t="",n){!1!==n&&(t=m(t));const i=e.parse(t);return h(e,i)}function h(e,t){return e.serialize(t).split("#")[0]+"#"}t.getFullPath=u,t._getFullPath=h;const d=/#\/?$/;function m(e){return e?e.replace(d,""):""}t.normalizeId=m,t.resolveUrl=function(e,t,n){return n=m(n),e.resolve(t,n)};const p=/^[a-z_][-a-z0-9._]*$/i;t.getSchemaRefs=function(e,t){if("boolean"==typeof e)return{};const{schemaId:n,uriResolver:i}=this.opts,s=m(e[n]||t),a={"":s},l=u(i,s,!1),c={},h=new Set;return r(e,{allKeys:!0},(e,t,i,o)=>{if(void 0===o)return;const r=l+t;let s=a[o];function u(t){const n=this.opts.uriResolver.resolve;if(t=m(s?n(s,t):t),h.has(t))throw g(t);h.add(t);let i=this.refs[t];return"string"==typeof i&&(i=this.refs[i]),"object"==typeof i?d(e,i.schema,t):t!==m(r)&&("#"===t[0]?(d(e,c[t],t),c[t]=e):this.refs[t]=r),t}function f(e){if("string"==typeof e){if(!p.test(e))throw new Error(`invalid anchor "${e}"`);u.call(this,`#${e}`)}}"string"==typeof e[n]&&(s=u.call(this,e[n])),f.call(this,e.$anchor),f.call(this,e.$dynamicAnchor),a[t]=s}),c;function d(e,t,n){if(void 0!==t&&!o(e,t))throw g(n)}function g(e){return new Error(`reference "${e}" resolves to more than one schema`)}}},6956:(e,t,n)=>{"use strict";n.d(t,{m:()=>o,x:()=>i});const i="|",o="H"},7060:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5882),o=n(3439),r=n(7307),s=n(422),a=n(4486),l=n(4003),c=n(1163),u=n(617),h=n(7935),d=n(8643),m=[i.default,o.default,r.default,s.default,a.default,l.default,c.default,u.default,{keyword:"type",schemaType:["string","array"]},{keyword:"nullable",schemaType:"boolean"},h.default,d.default];t.default=m},7082:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/validation","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/validation":true},"$dynamicAnchor":"meta","title":"Validation vocabulary meta-schema","type":["object","boolean"],"properties":{"type":{"anyOf":[{"$ref":"#/$defs/simpleTypes"},{"type":"array","items":{"$ref":"#/$defs/simpleTypes"},"minItems":1,"uniqueItems":true}]},"const":true,"enum":{"type":"array","items":true},"multipleOf":{"type":"number","exclusiveMinimum":0},"maximum":{"type":"number"},"exclusiveMaximum":{"type":"number"},"minimum":{"type":"number"},"exclusiveMinimum":{"type":"number"},"maxLength":{"$ref":"#/$defs/nonNegativeInteger"},"minLength":{"$ref":"#/$defs/nonNegativeIntegerDefault0"},"pattern":{"type":"string","format":"regex"},"maxItems":{"$ref":"#/$defs/nonNegativeInteger"},"minItems":{"$ref":"#/$defs/nonNegativeIntegerDefault0"},"uniqueItems":{"type":"boolean","default":false},"maxContains":{"$ref":"#/$defs/nonNegativeInteger"},"minContains":{"$ref":"#/$defs/nonNegativeInteger","default":1},"maxProperties":{"$ref":"#/$defs/nonNegativeInteger"},"minProperties":{"$ref":"#/$defs/nonNegativeIntegerDefault0"},"required":{"$ref":"#/$defs/stringArray"},"dependentRequired":{"type":"object","additionalProperties":{"$ref":"#/$defs/stringArray"}}},"$defs":{"nonNegativeInteger":{"type":"integer","minimum":0},"nonNegativeIntegerDefault0":{"$ref":"#/$defs/nonNegativeInteger","default":0},"simpleTypes":{"enum":["array","boolean","integer","null","number","object","string"]},"stringArray":{"type":"array","items":{"type":"string"},"uniqueItems":true,"default":[]}}}')},7106:e=>{"use strict";var t=e.exports=function(e,t,i){"function"==typeof t&&(i=t,t={}),n(t,"function"==typeof(i=t.cb||i)?i:i.pre||function(){},i.post||function(){},e,"",e)};function n(e,o,r,s,a,l,c,u,h,d){if(s&&"object"==typeof s&&!Array.isArray(s)){for(var m in o(s,a,l,c,u,h,d),s){var p=s[m];if(Array.isArray(p)){if(m in t.arrayKeywords)for(var g=0;g<p.length;g++)n(e,o,r,p[g],a+"/"+m+"/"+g,l,a,m,s,g)}else if(m in t.propsKeywords){if(p&&"object"==typeof p)for(var f in p)n(e,o,r,p[f],a+"/"+m+"/"+i(f),l,a,m,s,f)}else(m in t.keywords||e.allKeys&&!(m in t.skipKeywords))&&n(e,o,r,p,a+"/"+m,l,a,m,s)}r(s,a,l,c,u,h,d)}}function i(e){return e.replace(/~/g,"~0").replace(/\//g,"~1")}t.keywords={additionalItems:!0,items:!0,contains:!0,additionalProperties:!0,propertyNames:!0,not:!0,if:!0,then:!0,else:!0},t.arrayKeywords={items:!0,allOf:!0,anyOf:!0,oneOf:!0},t.propsKeywords={$defs:!0,definitions:!0,properties:!0,patternProperties:!0,dependencies:!0},t.skipKeywords={default:!0,enum:!0,const:!0,required:!0,maximum:!0,minimum:!0,exclusiveMaximum:!0,exclusiveMinimum:!0,multipleOf:!0,maxLength:!0,minLength:!0,pattern:!0,format:!0,maxItems:!0,minItems:!0,uniqueItems:!0,maxProperties:!0,minProperties:!0}},7150:(e,t,n)=>{"use strict";n.d(t,{PackageFunctions:()=>Ao,_package:()=>To});var i,o,r=n(4328),s=n(7389),a=n(6082),l=n(684),c=n(9039);(o=i||(i={})).EUCLIDEAN="EUCLIDEAN",o.MANHATTAN="MANHATTAN";var u=n(1858),h=n(5072),d=n.n(h),m=n(7825),p=n.n(m),g=n(7659),f=n.n(g),y=n(5056),b=n.n(y),w=n(540),v=n.n(w),T=n(1113),C=n.n(T),A=n(7939),E={};E.styleTagTransform=C(),E.setAttributes=b(),E.insert=f().bind(null,"head"),E.domAPI=p(),E.insertStyleElement=v(),d()(A.A,E),A.A&&A.A.locals&&A.A.locals;var S=function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})};let M=null,P=null;function _(e,t){return e&&""!=e?e:t}n(2780);class I{constructor(){this.learningRate={uiName:"Learninig Rate",value:1,tooltip:"The initial learning rate for the embedding optimization"},this.nEpochs={uiName:"Epochs",value:0,tooltip:"The number of epochs to optimize embeddings via SGD. Computed automatically if set to 0"},this.nNeighbors={uiName:"Neighbors",value:15,tooltip:"The number of nearest neighbors to construct the fuzzy manifold"},this.spread={uiName:"Spread",value:1,tooltip:"The effective scale of embedded points, used with min distance to control \n the clumped/dispersed nature of the embedding"},this.minDist={uiName:"Min Distance",value:.1,tooltip:"The effective minimum distance between embedded points, \n used with spread to control the clumped/dispersed nature of the embedding"},this.randomSeed={uiName:"Random Seed",value:null,tooltip:"Random seed",type:"string"},this.useWebGPU={uiName:"Use WebGPU",value:!1,tooltip:"Use WebGPU for Distance and UMAP computations",type:"boolean",disableTooltip:"WebGPU is not available"},function(){return S(this,void 0,void 0,function*(){if(!navigator.gpu)return console.error("WebGPU is not supported in this browser"),null;if(!M&&(M=yield navigator.gpu.requestAdapter(),null==M))return null;let e=null;return"info"in M&&(e=M.info),e?_(e.description,_(e.vendor,"No GPU description available")):"No GPU description available"})}().then(e=>{e?(this.useWebGPU.tooltip+=` (${e})`,this.useWebGPU.value=!0):(this.useWebGPU.value=!1,this.useWebGPU.disable=!0)})}}class L{constructor(){this.epsilon={uiName:"Epsilon",value:10,tooltip:"Epsilon is learning rate"},this.perplexity={uiName:"Perplexity",value:30,tooltip:"Roughly how many neighbors each point influences"}}}Promise.resolve(),n(934),n(8903);const x="MCL";a.SEMTYPE.MOLECULE,a.SEMTYPE.MACROMOLECULE;class N{constructor(){this.epsilon={uiName:"Epsilon",value:.01,tooltip:"Minimum distance between cluster points",min:0,max:2,step:.005},this.minPts={uiName:"Minimum points",value:4,tooltip:"Minimum number of points in cluster",min:1,max:1e3,step:1}}}class R{get algorithmOptions(){const e=this.methodsParams[this.methodInput.value],t={};return Object.keys(e).forEach(n=>{null!=e[n].value&&(t[n]=e[n].value)}),t}get dbScanOptions(){return{dbScanEpsilon:this.dbScanParams.epsilon.value??.01,dbScanMinPts:this.dbScanParams.minPts.value??4}}constructor(e={}){this.editorSettings={},this.plotEmbeddingsInput=s.input.bool("Plot embeddings",{value:!0}),this.clusterEmbeddingsInput=s.input.bool("Cluster embeddings",{value:!0}),this.preprocessingFunctionInputRoot=null,this.methods=[c.c.UMAP,c.c.T_SNE],this.columnFunctionsMap={},this.supportedFunctions={},this.availableMetrics=[],this.methodSettingsDiv=s.inputs([]),this.dbScanSettingsDiv=s.inputs([]),this.preprocessingFuncSettingsDiv=s.inputs([]),this.preprocessingFunctionSettings={},this.methodsParams={[c.c.UMAP]:new I,[c.c.T_SNE]:new L},this.dbScanParams=new N,this.editorSettings=e,this.editorSettings.enableMCL&&this.methods.push(x),a.Func.find({tags:[l.GP]}).forEach(e=>{const t=e.options.get(l.n3)??"",n=e.friendlyName??e.name,i=e.options.get(l.C0)??"",o=e.options.get(l._X)??"",r=e.options.get(l.Gi)??"";this.editorSettings.semtype&&!t.includes(this.editorSettings.semtype)||this.editorSettings.type&&!i.includes(this.editorSettings.type)||this.editorSettings.units&&!o.includes(this.editorSettings.units)||(this.supportedFunctions[n]={func:e,semTypes:t?t.split(","):[],types:i?i.split(","):[],units:o?o.split(","):[],distanceFunctions:r?r.split(","):[]})}),this.tableInput=s.input.table("Table",{value:r.shell.tv.dataFrame,items:r.shell.tables,onValueChanged:()=>{this.onTableInputChanged()}}),this.onTableInputChanged(),this.regenerateColInput(),this.onColumnInputChanged();let t=!1,n=!1;this.methodInput=s.input.choice("Method",{value:c.c.UMAP,items:this.methods,onValueChanged:e=>{t&&this.createAlgorithmSettingsDiv(this.methodSettingsDiv,this.methodsParams[e])}}),this.methodSettingsIcon=s.icons.settings(()=>{t=!t,t?this.createAlgorithmSettingsDiv(this.methodSettingsDiv,this.methodsParams[this.methodInput.value]):s.empty(this.methodSettingsDiv)},"Modify methods parameters"),this.dbScanSettingsIcon=s.icons.settings(()=>{n=!n,n?this.createAlgorithmSettingsDiv(this.dbScanSettingsDiv,this.dbScanParams):s.empty(this.dbScanSettingsDiv)},"Modify clustering parameters"),this.clusterEmbeddingsInput.classList.add("ml-dim-reduction-settings-input"),this.clusterEmbeddingsInput.root.prepend(this.dbScanSettingsIcon),this.methodInput.root.classList.add("ml-dim-reduction-settings-input"),this.methodInput.root.prepend(this.methodSettingsIcon),this.methodSettingsDiv=s.inputs([]);const i=this.columnFunctionsMap[this.colInput.value.name];this.preprocessingFunctionInput=s.input.choice("Encoding function",{value:i[0],items:i,onValueChanged:()=>{this.onPreprocessingFunctionChanged()}});let o=!1;this.preprocessingFunctionInputRoot||(this.preprocessingFunctionInputRoot=this.preprocessingFunctionInput.root,o=!0),o||(s.empty(this.preprocessingFunctionInputRoot),Array.from(this.preprocessingFunctionInput.root.children).forEach(e=>this.preprocessingFunctionInputRoot.append(e))),this.preprocessingFunctionInputRoot.classList.add("ml-dim-reduction-settings-input");let u=!1;this.preprocessingFuncSettingsIcon=s.icons.settings(async()=>{u?s.empty(this.preprocessingFuncSettingsDiv):await this.createPreprocessingFuncParamsDiv(this.preprocessingFuncSettingsDiv,this.supportedFunctions[this.preprocessingFunctionInput.value].func),u=!u},"Modify encoding function parameters"),this.preprocessingFunctionInputRoot.prepend(this.preprocessingFuncSettingsIcon),this.similarityMetricInput=s.input.choice("Similarity",{value:"",items:[]}),this.similarityMetricInput.nullable=!1,this.similarityMetricInputRoot||(this.similarityMetricInputRoot=this.similarityMetricInput.root),this.onPreprocessingFunctionChanged()}getColInput(){const e=this.tableInput.value?.columns.toList().find(e=>!!this.columnFunctionsMap[e.name])??null,t=s.input.column("Column",{table:this.tableInput.value,value:e,nullable:!1,onValueChanged:()=>this.onColumnInputChanged(),filter:e=>!!this.columnFunctionsMap[e.name]});return this.colInputRoot||(this.colInputRoot=t.root),t}regenerateColInput(){let e=!1;this.colInputRoot&&(e=!0,s.empty(this.colInputRoot)),this.colInput=this.getColInput(),e&&Array.from(this.colInput.root.children).forEach(e=>this.colInputRoot.append(e)),this.onColumnInputChanged()}onTableInputChanged(){const e=this.tableInput.value;if(!e)return;const t=()=>{this.columnFunctionsMap={},e.columns.toList().forEach(e=>{Object.keys(this.supportedFunctions).forEach(t=>{const n=this.supportedFunctions[t].semTypes,i=this.supportedFunctions[t].types,o=this.supportedFunctions[t].units,r=!n.length||e.semType&&n.includes(e.semType),s=!i.length||i.includes(e.type),a=!o.length||e.meta.units&&o.includes(e.meta.units);r&&s&&a&&(this.columnFunctionsMap[e.name]||(this.columnFunctionsMap[e.name]=[]),this.columnFunctionsMap[e.name].push(t))})}),this.regenerateColInput()};t(),e.columns.toList().some(e=>!!e.getTag(a.Tags.SemanticDetectionDuration))||e.meta.detectSemanticTypes().then(()=>{t()})}onColumnInputChanged(){const e=this.colInput.value;if(!e)return;const t=this.columnFunctionsMap[e.name];this.preprocessingFunctionInput=s.input.choice("Preprocessing function",{value:t[0],items:t,onValueChanged:()=>{this.onPreprocessingFunctionChanged()}});let n=!1;this.preprocessingFunctionInputRoot||(this.preprocessingFunctionInputRoot=this.preprocessingFunctionInput.root,n=!0),n||(s.empty(this.preprocessingFunctionInputRoot),Array.from(this.preprocessingFunctionInput.root.children).forEach(e=>this.preprocessingFunctionInputRoot.append(e))),this.onPreprocessingFunctionChanged()}onPreprocessingFunctionChanged(){s.empty(this.preprocessingFuncSettingsDiv),this.preprocessingFunctionSettings={};const e=this.preprocessingFunctionInput.value,t=this.supportedFunctions[e].distanceFunctions;this.availableMetrics=[...t],this.similarityMetricInput=s.input.choice("Similarity",{value:this.availableMetrics[0],items:this.availableMetrics}),this.similarityMetricInput.nullable=!1,this.similarityMetricInputRoot||(this.similarityMetricInputRoot=this.similarityMetricInput.root),s.empty(this.similarityMetricInputRoot),Array.from(this.similarityMetricInput.root.children).forEach(e=>this.similarityMetricInputRoot.append(e)),this.preprocessingFuncSettingsIcon&&(this.supportedFunctions[e].func.inputs.length<3?this.preprocessingFuncSettingsIcon.style.display="none":this.preprocessingFuncSettingsIcon.style.display="flex")}createAlgorithmSettingsDiv(e,t){return s.empty(e),Object.keys(t).forEach(n=>{const i=t[n],o="string"===i.type?s.input.string(i.uiName,{value:i.value??"",onValueChanged:e=>{i.value=e}}):"boolean"===i.type?s.input.bool(i.uiName,{value:i.value??!1,onValueChanged:e=>{i.value=e}}):s.input.float(i.uiName,{value:i.value,onValueChanged:e=>{i.value=e}});e.append(o.root),i.disable?(o.enabled=!1,s.tooltip.bind(o.input??o.root,i.disableTooltip??"")):s.tooltip.bind(o.input??o.root,i.tooltip)}),e}async createPreprocessingFuncParamsDiv(e,t){if(s.empty(e),t.inputs.length<3)return s.div();const n=t.prepare(),i=await n.buildEditor(s.div());for(let o=2;o<t.inputs.length;o++){const r=t.inputs[o];(this.preprocessingFunctionSettings[r.name]||n.inputParams[t.inputs[o].name].value||r.defaultValue)&&(this.preprocessingFunctionSettings[r.name]=this.preprocessingFunctionSettings[r.name]??n.inputParams[r.name].value??r.defaultValue);const s=i.find(e=>e.property.name===r.name);s&&(null!==this.preprocessingFunctionSettings[r.name]&&void 0!==this.preprocessingFunctionSettings[r.name]&&(s.value=this.preprocessingFunctionSettings[r.name]),s.onChanged.subscribe(e=>{this.preprocessingFunctionSettings[r.name]=e}),e.append(s.root))}return e}getEditor(){return s.div([this.tableInput,this.colInputRoot,this.preprocessingFunctionInputRoot,this.preprocessingFuncSettingsDiv,this.methodInput,this.methodSettingsDiv,this.similarityMetricInputRoot,this.plotEmbeddingsInput,this.clusterEmbeddingsInput,this.dbScanSettingsDiv],{style:{minWidth:"420px"},classes:"ui-form dim-reduction-dialog-form"})}getParams(){return{table:this.tableInput.value,col:this.colInput.value,methodName:this.methodInput.value,preprocessingFunction:this.supportedFunctions[this.preprocessingFunctionInput.value].func,similarityMetric:this.similarityMetricInput.value,plotEmbeddings:this.plotEmbeddingsInput.value,clusterEmbeddings:this.clusterEmbeddingsInput.value,options:{...this.algorithmOptions,...this.dbScanOptions,preprocessingFuncArgs:this.preprocessingFunctionSettings??{}}}}getInput(){return{table:this.tableInput.value.name,col:this.colInput.value.name,methodName:this.methodInput.value,preprocessingFunction:this.preprocessingFunctionInput.value,similarityMetric:this.similarityMetricInput.value,plotEmbeddings:this.plotEmbeddingsInput.value,clusterEmbeddings:this.clusterEmbeddingsInput.value,options:{...this.algorithmOptions,...this.dbScanOptions,preprocessingFuncArgs:this.preprocessingFunctionSettings??{}}}}getStringInput(){return JSON.stringify(this.getInput())}async applyStringInput(e){try{const t=JSON.parse(e);await this.applyInput(t)}catch(e){r.shell.error("Error applying input from history"),console.error(e)}}async applyInput(e){try{const t=this.tableInput.value?.col(e.col);if(!t)throw new Error("Column not found");this.colInput.value=t,this.preprocessingFunctionInput.value=e.preprocessingFunction,this.similarityMetricInput.value=e.similarityMetric,this.plotEmbeddingsInput.value=e.plotEmbeddings,this.clusterEmbeddingsInput.value=e.clusterEmbeddings;const n=this.methodsParams[this.methodInput.value];Object.keys(n).forEach(t=>{null!=e.options[t]&&(this.methodsParams[e.methodName][t].value=e.options[t])}),this.methodInput.value=e.methodName,this.preprocessingFunctionSettings=e.options.preprocessingFuncArgs,await this.createPreprocessingFuncParamsDiv(this.preprocessingFuncSettingsDiv,this.supportedFunctions[this.preprocessingFunctionInput.value].func)}catch(e){r.shell.error("Error applying input from history"),console.error(e)}}}var $=n(9713),H=n(6295);const O=e=>null==e;function D(e,t,n,i){if(n>e[e.length-1])return;const o=e.findIndex(e=>n<e);e.pop(),e.splice(o,0,n),t.pop(),t.splice(o,0,i)}class k{constructor(e=!0,t=!0){const i=navigator.hardwareConcurrency;this._workerCount=e?Math.max(i-2,1):1,this._workers=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(793),n.b))),this._terminateOnComplete=t}async calc(e,t,n=!0,o){return await this.calcMulti([e],[t],n,[o??{}],[1],i.MANHATTAN)}async calcMulti(e,t,n=!0,o=[{}],r=[1],s=i.MANHATTAN){if(e.length<1)throw new Error("values must contain at least one array");if(t.length!==e.length||o.length!==e.length||r.length!==e.length)throw new Error("values, fnNames, weights and opts must have the same length");return new Promise(async(i,a)=>{try{const a=e[0].length,l=new Array(this._workerCount),c=a*(a-1)/2;this._workerCount=Math.min(this._workerCount,c);const u=c/this._workerCount,h=new Float32Array(c);let d=0,m=1,p=0,g=Number.MIN_VALUE;for(let n=0;n<this._workerCount;n++){const i=Math.floor(n*u),f=n===this._workerCount-1?c:Math.floor((n+1)*u),y=d,b=m;n!==this._workerCount-1&&(d=a-2-Math.floor(Math.sqrt(-8*f+4*a*(a-1)-7)/2-.5),m=f-a*d+Math.floor((d+1)*(d+2)/2)),this._workers[n].postMessage({values:e,fnNames:t,startRow:y,startCol:b,chunckSize:f-i,opts:o,weights:r,aggregationMethod:s}),l[n]=new Promise((e,t)=>{this._workers[n].onmessage=({data:{error:o,distanceMatrixData:r,min:s,max:a}})=>{this._terminateOnComplete&&setTimeout(()=>this._workers[n].terminate()),o?t(o):(h.set(r,i),s<p&&(p=s),a>g&&(g=a),e())}})}await Promise.all(l),n&&h.forEach((e,t)=>{h[t]=(e-p)/(g-p)}),i(h)}catch(e){a(e)}})}terminate(){this._workers.forEach(e=>e.terminate())}}class F{constructor(){this._workerCount=Math.max(navigator.hardwareConcurrency-2,1)}static pruneSparseMatrix(e,t=1e6){const n=200,i=new Uint32Array(n),o=e.distance.length,r=e.distance;for(let e=0;e<o;e++)i[Math.floor(r[e]*n)]++;let s=0,a=0;for(let e=0;e<n&&(s+=i[e],a=e,!(s>=t));e++);const l=new Uint32Array(s),c=new Uint32Array(s),u=new Float32Array(s),h=e.i,d=e.j;let m=0;const p=(a+1)/n;for(let e=0;e<o;e++)r[e]<p&&(l[m]=h[e],c[m]=d[e],u[m]=r[e],m++);return{i:l,j:c,distance:u}}async calcMultiColumn(e,t,o,r=[{}],s=[1],a=i.EUCLIDEAN){const l=e[0].length*(e[0].length-1)/2,c=Math.floor(l/this._workerCount),u=e[0].length>2e4?await this.getMinimalThreshold(e,t,r,s,a):0;o<u&&(console.log(`using threshold ${u}`),o=u),r.forEach((e,t)=>r[t].threshold=o);const h=new Array(this._workerCount),d=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(111),n.b)));for(let n=0;n<this._workerCount;n++)h[n]=new Promise((i,u)=>{const h=n*c,m=n===this._workerCount-1?l:(n+1)*c;m<=h&&i({i:new Int32Array(0),j:new Int32Array(0),distance:new Float32Array(0),idx:n}),d[n].postMessage({values:e,startIdx:h,endIdx:m,threshold:o,fnNames:t,opts:r,weights:s,aggregationMethod:a}),d[n].onmessage=({data:{error:e,i:t,j:o,distance:r}})=>{e?(d[n].terminate(),u(e)):(d[n].terminate(),i({i:t,j:o,distance:r,idx:n}))}});const m=await Promise.all(h),p=m.reduce((e,t)=>e+t.i.length,0),g=new Int32Array(p),f=new Int32Array(p),y=new Float32Array(p);let b=0;for(const e of m)g.set(e.i,b),f.set(e.j,b),y.set(e.distance,b),b+=e.i.length;return{i:g,j:f,distance:y}}async calc(e,t,n,i={}){return await this.calcMultiColumn([e],[t],n,[i],[1])}async getKNN(e,t,n=15,i={}){return await this.multiColumnKNN([e],[t],n,[i],[1])}async getThresholdKNN(e,t,n=.8,i={}){return await this.multiColumnThresholdKnn([e],[t],n,[i],[1])}async multiColumnThresholdKnn(e,t,o=.8,r,s,a=i.EUCLIDEAN){if(e.length!==t.length||e.length!==r.length||e.length!==s.length)throw new Error("values, distance functions, options and weights arrays should have the same length");if(e.some(t=>t.length!==e[0].length))throw new Error("all values arrays should have the same length");const l=e[0].length*(e[0].length-1)/2,c=Math.floor(l/this._workerCount),u=new Array(this._workerCount),h=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(603),n.b)));for(let n=0;n<this._workerCount;n++)u[n]=new Promise((i,u)=>{const d=n*c,m=n===this._workerCount-1?l:(n+1)*c;m<=d&&i({knnDistances:new Array(0),knnIndexes:new Array(0)}),h[n].postMessage({values:e,startIdx:d,endIdx:m,fnNames:t,opts:r,threshold:o,weights:s,aggregationMethod:a}),h[n].onmessage=({data:{error:e,knnDistances:t,knnIndexes:o}})=>{e?(h[n].terminate(),u(e)):(h[n].terminate(),i({knnDistances:t,knnIndexes:o}))}});const d=await Promise.all(u),m=new Int32Array(e[0].length);for(const t of d)for(let n=0;n<e[0].length;++n)m[n]+=t.knnIndexes[n]?.length??0;const p={knnDistances:new Array(e[0].length).fill(null).map((e,t)=>new Array(m[t])),knnIndexes:new Array(e[0].length).fill(null).map((e,t)=>new Array(m[t]))};for(const t of d)for(let n=0;n<e[0].length;++n)for(let e=0;e<(t.knnDistances[n]?.length??0);++e)p.knnDistances[n][m[n]-1]=t.knnDistances[n][e],p.knnIndexes[n][m[n]-1]=t.knnIndexes[n][e],m[n]-=1;return p}async multiColumnSingleValueKNN(e,t,o,r=15,s,a,l=i.EUCLIDEAN){if(e.length!==o.length||e.length!==s.length||e.length!==a.length)throw new Error("values, distance functions, options and weights arrays should have the same length");if(e.some(t=>t.length!==e[0].length))throw new Error("all values arrays should have the same length");const c=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(810),n.b))),u=new Array(this._workerCount),h=e[0].length,d=e.map(e=>e[t]),m=Math.ceil(h/this._workerCount);for(let t=0;t<this._workerCount;t++)u[t]=new Promise((n,i)=>{const u=t*m,p=t===this._workerCount-1?h:(t+1)*m;p<=u&&n({knnDistances:new Array(0),knnIndexes:new Array(0)}),c[t].postMessage({values:e.map(e=>e.slice(u,p)),target:d,fnNames:o,opts:s,nNeighbours:r,weights:a,aggregationMethod:l,startIdx:u}),c[t].onmessage=({data:{error:e,knnDistances:o,knnIndexes:r}})=>{e?(c[t].terminate(),i(e)):(c[t].terminate(),n({knnDistances:o,knnIndexes:r}))}});const p=await Promise.all(u),g={knnDistances:new Array(r).fill(99999),knnIndexes:new Array(r).fill(-1)};for(const e of p)for(let t=0;t<(e.knnDistances?.length??0);++t)D(g.knnDistances,g.knnIndexes,e.knnDistances[t],e.knnIndexes[t]);return g}async multiColumnKNN(e,t,o=15,r,s,a=i.EUCLIDEAN){if(e.length!==t.length||e.length!==r.length||e.length!==s.length)throw new Error("values, distance functions, options and weights arrays should have the same length");if(e.some(t=>t.length!==e[0].length))throw new Error("all values arrays should have the same length");const l=e[0].length*(e[0].length-1)/2,c=Math.floor(l/this._workerCount),u=new Array(this._workerCount),h=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(950),n.b)));for(let n=0;n<this._workerCount;n++)u[n]=new Promise((i,u)=>{const d=n*c,m=n===this._workerCount-1?l:(n+1)*c;m<=d&&i({knnDistances:new Array(0),knnIndexes:new Array(0)}),h[n].postMessage({values:e,startIdx:d,endIdx:m,fnNames:t,opts:r,nNeighbours:o,weights:s,aggregationMethod:a}),h[n].onmessage=({data:{error:e,knnDistances:t,knnIndexes:o}})=>{e?(h[n].terminate(),u(e)):(h[n].terminate(),i({knnDistances:t,knnIndexes:o}))}});const d=await Promise.all(u),m={knnDistances:new Array(e[0].length).fill(null).map(()=>new Array(o).fill(99999)),knnIndexes:new Array(e[0].length).fill(null).map(()=>new Array(o).fill(-1))};for(const t of d)for(let n=0;n<e[0].length;++n)for(let e=0;e<(t.knnDistances[n]?.length??0);++e)D(m.knnDistances[n],m.knnIndexes[n],t.knnDistances[n][e],t.knnIndexes[n][e]);return m}async getSampleDistances(e,t,o=[],r,s=i.EUCLIDEAN){const a=new Array(this._workerCount).fill(null).map(()=>new Worker(new URL(n.p+n.u(778),n.b)));try{const n=e[0].length*(e[0].length-1)/2,i=Math.floor(n/this._workerCount),l=1e6,c=Math.max(Math.min(n/1e3,l),Math.min(n,l)),u=Math.floor(c/this._workerCount),h=new Array(this._workerCount);for(let l=0;l<this._workerCount;l++)h[l]=new Promise((c,h)=>{const d=l*i,m=l===this._workerCount-1?n:(l+1)*i;a[l].postMessage({values:e,startIdx:d,endIdx:m,sampleLength:u,fnNames:t,opts:o,weights:r,aggregationMethod:s}),a[l].onmessage=({data:{error:e,distance:t}})=>{a[l].terminate(),e?h(e):c({distance:t})}});const d=await Promise.all(h),m=d.reduce((e,t)=>e+t.distance.length,0),p=new Float32Array(m);let g=0;for(const e of d)p.set(e.distance,g),g+=e.distance.length;return p.sort(),p}catch(e){return a?.forEach(e=>e?.terminate()),console.error(e),new Float32Array(1).fill(.5)}}async getMinimalThreshold(e,t,n=[],o,r=i.EUCLIDEAN){try{const i=e.length*(e.length-1)/2,s=await this.getSampleDistances(e,t,n,o,r);return 1-s[Math.floor(7e7/i*s.length)]}catch(e){return console.error(e),.5}}static calcSync(e,t,n,i){const o=[],r=[],s=[];let a=0,l=0,c=0;const u=e.length*(e.length-1)/2;for(;a<u;){const t=O(e[l])||O(e[c])?1:n(e[l],e[c]);1-t>=i&&(o.push(l),r.push(c),s.push(t)),a++,c++,c===e.length&&(l++,c=l+1)}return{i:new Int32Array(o),j:new Int32Array(r),distance:new Float32Array(s)}}}var G,B,V=n(8774);(B=G||(G={})).none="none",B.bold="bold",B.dashed="dashed";class U{get currentLineId(){return this._currentLineIdx}set currentLineId(e){e!==this._currentLineIdx&&(this._currentLineIdx=e,this.sp.render(this.ctx))}set linesToRender(e){this.updateLines(e),this.sp.render(this.ctx)}set linesVisibility(e){this.visibility=e,this.sp.render(this.ctx)}constructor(e,t,n,i,o=G.none){var r;this._currentLineIdx=-1,this.lineClicked=new u.Subject,this.lineHover=new u.Subject,this.mouseOverLineId=-1,this.arrowWidth=15,this.sp=e,this.xAxisCol=this.sp.dataFrame.columns.byName(t),this.yAxisCol=this.sp.dataFrame.columns.byName(n),this.canvas=this.sp.getInfo().canvas,this.ctx=this.canvas.getContext("2d"),this.currentLineStyle=o,this.updateLines(i),this.visibility=null!==(r=i.visibility)&&void 0!==r?r:new V.A(this.lines.from.length),i.visibility||this.visibility.setAll(!0,!1),i.arrowSize&&(this.arrowWidth=i.arrowSize),this.canvas.onmousedown=e=>{var t;(null===(t=this.lines)||void 0===t?void 0:t.skipMouseOverDetection)&&(this.mouseOverLineId=this.checkCoordsOnLine(e.offsetX,e.offsetY)),-1!==this.mouseOverLineId&&this.lineClicked.next({x:e.clientX,y:e.clientY,id:this.mouseOverLineId,event:e})},this.canvas.onmousemove=e=>{var t;this.mouseOverLineId=(null===(t=this.lines)||void 0===t?void 0:t.skipMouseOverDetection)?-1:this.checkCoordsOnLine(e.offsetX,e.offsetY),-1!==this.mouseOverLineId&&this.lineHover.next({x:e.clientX,y:e.clientY,id:this.mouseOverLineId,event:e})},e.onEvent("d4-before-draw-scene").subscribe(e=>{this.renderLines()})}updateLines(e){this.lines=e,this.multipleLinesCounts=new Uint8Array(this.lines.from.length),e.skipMultiLineCalculation?this.multipleLinesCounts.fill(0):this.createMultiLinesIndices()}renderLines(){var e,t,n,i,o,r,s,a,l,c,u,h,d,m,p,g,f;const y=this.lines.colors||this.lines.widths||this.lines.opacities||this.lines.drawArrowsArr;y||(this.ctx.lineWidth=null!==(e=this.lines.width)&&void 0!==e?e:1,this.ctx.strokeStyle=`rgba(${null!==(t=this.lines.color)&&void 0!==t?t:"0,128,0"},${null!==(n=this.lines.opacity)&&void 0!==n?n:1})`);const b=this.sp.dataFrame.filter,w=Math.pow(null!==(i=this.lines.shortLineThreshold)&&void 0!==i?i:5,2);for(let e=0;e<this.lines.from.length;e++)if(b.get(this.lines.from[e])&&b.get(this.lines.to[e])&&this.visibility.getBit(e)){let t=0;const n=this.sp.getMarkerSize(this.lines.from[e])/2,i=this.sp.getMarkerSize(this.lines.to[e])/2,b=this.sp.pointToScreen(this.lines.from[e]);let v=null==b?void 0:b.x,T=null==b?void 0:b.y;const C=this.sp.pointToScreen(this.lines.to[e]);let A=null==C?void 0:C.x,E=null==C?void 0:C.y;const S=Math.min(this.sp.viewBox.width,this.sp.viewBox.height);if(this.ctx.beginPath(),v&&T&&A&&E&&Math.hypot(A-v,E-T)/S>.01){if(y){const t=(null===(o=this.lines.colors)||void 0===o?void 0:o[e])?null===(r=this.lines.colors)||void 0===r?void 0:r[e]:null!==(s=this.lines.color)&&void 0!==s?s:"0,128,0",n=(null===(a=this.lines.opacities)||void 0===a?void 0:a[e])?null===(l=this.lines.opacities)||void 0===l?void 0:l[e]:null!==(c=this.lines.opacity)&&void 0!==c?c:1;this.ctx.strokeStyle=`rgba(${t},${n})`,this.ctx.lineWidth=(null===(u=this.lines.widths)||void 0===u?void 0:u[e])?null===(h=this.lines.widths)||void 0===h?void 0:h[e]:null!==(d=this.lines.width)&&void 0!==d?d:1}e===this._currentLineIdx&&this.toggleCurrentLineStyle(!0);const b=this.multipleLinesCounts[e];let C=null;if(b){t=this.getLineLength(v,T,A,E);const o=this.getPointOnDistance(v,T,A,E,i,t),r=this.getPointOnDistance(A,E,v,T,n,t);v=o.x,T=o.y,A=r.x,E=r.y,C=this.lines.from[e]>this.lines.to[e]?this.findControlPoint(b,v,T,A,E,e):this.findControlPoint(b,A,E,v,T,e),this.ctx.moveTo(v,T),this.ctx.quadraticCurveTo(C.x,C.y,A,E)}else(!this.lines.skipShortLines||Math.pow(A-v,2)+Math.pow(E-T,2)>w)&&(this.ctx.moveTo(v,T),this.ctx.lineTo(A,E));if((null!==(m=this.lines.drawArrows)&&void 0!==m?m:null===(p=this.lines.drawArrowsArr)||void 0===p?void 0:p.getBit(e))&&(t||(t=this.getLineLength(v,T,A,E)),t>this.arrowWidth)){const e=b?null:this.getPointOnDistance(v,T,A,E,i,t),n=b?C.x:v,o=b?C.y:T;this.canvasArrow(this.ctx,null!==(g=null==e?void 0:e.x)&&void 0!==g?g:v,null!==(f=null==e?void 0:e.y)&&void 0!==f?f:T,n,o)}this.ctx.stroke(),this.ctx.closePath(),e===this._currentLineIdx&&this.toggleCurrentLineStyle(!1)}}this.fillLeftBottomRect()}toggleCurrentLineStyle(e){switch(this.currentLineStyle){case G.bold:e?this.ctx.lineWidth+=2:this.ctx.lineWidth-=2;break;case G.dashed:e?this.ctx.setLineDash([5,5]):this.ctx.setLineDash([]);break;default:return}}fillLeftBottomRect(){const e=new Path2D;e.rect(this.sp.yAxisBox.minX,this.sp.yAxisBox.maxY,this.sp.yAxisBox.width,this.sp.xAxisBox.height),this.ctx.fillStyle="white",this.ctx.beginPath(),this.ctx.fill(e),this.ctx.closePath()}createMultiLinesIndices(){const e={};for(let t=0;t<this.lines.from.length;t++){let n=0,i=0;this.lines.from[t]<this.lines.to[t]?(n=this.lines.from[t],i=this.lines.to[t]):(n=this.lines.to[t],i=this.lines.from[t]),e[`${n}|${i}`]?(1===e[`${n}|${i}`].length&&(this.multipleLinesCounts[e[`${n}|${i}`][0]]=1,e[`${n}|${i}`].push(1)),this.multipleLinesCounts[t]=++e[`${n}|${i}`][1]):e[`${n}|${i}`]=[t]}}checkCoordsOnLine(e,t){let n=-1,i=null,o=null;const r=this.sp.dataFrame.filter;for(let s=0;s<this.lines.from.length;s++)if(r.get(this.lines.from[s])&&r.get(this.lines.to[s])&&this.visibility.getBit(s)){const r=this.sp.getMarkerSize(this.lines.from[s])/2,a=this.sp.getMarkerSize(this.lines.to[s])/2,l=this.sp.worldToScreen(this.xAxisCol.get(this.lines.from[s]),this.yAxisCol.get(this.lines.from[s])),c=this.sp.worldToScreen(this.xAxisCol.get(this.lines.to[s]),this.yAxisCol.get(this.lines.to[s]));if(this.multipleLinesCounts[s]){const n=this.getLineLength(l.x,l.y,c.x,c.y),i=this.getPointOnDistance(l.x,l.y,c.x,c.y,a,n),u=this.getPointOnDistance(c.x,c.y,null==l?void 0:l.x,null==l?void 0:l.y,r,n),h=this.lines.from[s]>this.lines.to[s]?this.findControlPoint(this.multipleLinesCounts[s],i.x,i.y,u.x,u.y,s):this.findControlPoint(this.multipleLinesCounts[s],u.x,u.y,i.x,i.y,s);o=this.calculateDistToCurveLine(s,e,t,i,u,h)}else o=this.calculateDistToStraightLine(e,t,l,c);(!i&&null!==o&&o<5||i&&null!==o&&o<i)&&(i=o,n=s)}return n}calculateDistToStraightLine(e,t,n,i){const o=Math.min(n.x,i.x),r=Math.max(n.x,i.x),s=Math.min(n.y,i.y),a=Math.max(n.y,i.y);return e>=o-2&&e<=r+2&&t>=s-2&&t<=a+2?this.distToStraightLineSegment(e,t,n,i):null}distToStraightLineSegment(e,t,n,i){const o=(e,t,n,i)=>Math.pow(e-n,2)+Math.pow(t-i,2),r=o(n.x,n.y,i.x,i.y);if(0==r)return o(e,t,n.x,n.y);let s=((e-n.x)*(i.x-n.x)+(t-n.y)*(i.y-n.y))/r;return s=Math.max(0,Math.min(1,s)),o(e,t,n.x+s*(i.x-n.x),n.y+s*(i.y-n.y))}calculateDistToCurveLine(e,t,n,i,o,r){const s=Math.min(i.x,o.x,r.x),a=Math.max(i.x,o.x,r.x),l=Math.min(i.y,o.y,r.y),c=Math.max(i.y,o.y,r.y);if(t>=s-2&&t<=a+2&&n>=l-2&&n<=c+2){const e=a-s,u=c-l;return this.calculateDistToCurveInRect(t,n,i,r,o,e,u)}return null}calculateDistToCurveInRect(e,t,n,i,o,r,s){const a=Math.floor((r+s)/3),l=1/a,c=new Uint32Array(a),u=new Uint32Array(a),h=new Uint32Array(a);let d=null;const m=new V.A(a);for(let r=0;r<c.length;r++){const s=r*l,a=Math.pow(1-s,2)*n.x+2*s*(1-s)*i.x+Math.pow(s,2)*o.x,m=Math.pow(1-s,2)*n.y+2*s*(1-s)*i.y+Math.pow(s,2)*o.y,p=Math.abs(e-a),g=Math.abs(t-m),f=p+g;(!d||d>f)&&(d=f),h[r]=Math.max(p,g),c[r]=a,u[r]=m}for(let e=0;e<c.length;e++)h[e]<d&&m.setBit(e,!0,!1);let p=null;for(let n=-1;-1!==(n=m.findNext(n));){const i=Math.hypot(c[n]-e,u[n]-t);(!p||p>i)&&(p=i)}return p}getLineLength(e,t,n,i){return Math.sqrt(Math.pow(n-e,2)+Math.pow(i-t,2))}getPointOnDistance(e,t,n,i,o,r){const s=n-o*((n-e)/r),l=i-o*((i-t)/r);return new a.Point(s,l)}findControlPoint(e,t,n,i,o,r){const s=t+(i-t)/2,l=n+(o-n)/2;let c=s-t,u=l-n;const h=Math.sqrt(c*c+u*u);c/=h,u/=h;const d=50*Math.ceil(e/2);return e%2==0?new a.Point(s+d/2*u,l-d/2*c):new a.Point(s-d/2*u,l+d/2*c)}canvasArrow(e,t,n,i,o){const r=Math.atan2(i-t,o-n)+Math.PI;e.moveTo(t-this.arrowWidth*Math.sin(r-Math.PI/10),n-this.arrowWidth*Math.cos(r-Math.PI/10)),e.lineTo(t,n),e.lineTo(t-this.arrowWidth*Math.sin(r+Math.PI/10),n-this.arrowWidth*Math.cos(r+Math.PI/10))}}const W="dimensionality-reducer-terminate-event";var q,Y,j=n(3629);async function K(e,t,i,o,s,a,l){let c=await async function(e,t,i,o,s,a,l){if(!a.distanceFnArgs)throw new Error("options.distanceFnArgs must be defined");if(e.length!==t.length||e.length!==a.distanceFnArgs.length||e.length!==o.length)throw new Error("data, metrics and options and weights must have the same length");return new Promise(function(c,u){const h=new Worker(new URL(n.p+n.u(234),n.b));h.postMessage({columnsData:e,distanceMetrics:t,method:i,options:a,weights:o,aggregationMethod:s});const d=r.events.onCustomEvent(W).subscribe(()=>{try{h?.terminate()}finally{d.unsubscribe()}});h.onmessage=({data:{error:e,embedding:t,epochNum:n,epochsLength:i}})=>{O(n)||O(i)?(d.unsubscribe(),e?u(e):c(t),setTimeout(()=>h.terminate(),100)):l&&l(n,i,t)}})}(e,i,t,o,s,a,l);return c=c.map(e=>(0,j.S8)(e)),c}(Y=q||(q={})).EUCLIDEAN="EUCLIDEAN",Y.MANHATTAN="MANHATTAN";const z={[q.EUCLIDEAN]:function(e){return`\n var sum = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n sum = sum + distances[i] * distances[i] * computeInfo.weights[i] * computeInfo.weights[i];\n }\n return sqrt(sum);\n `},[q.MANHATTAN]:function(e){return`\n var sum = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n sum = sum + abs(distances[i]) * computeInfo.weights[i];\n }\n return sum;\n `}};var Z,X;(X=Z||(Z={})).HAMMING="Hamming",X.EUCLIDEAN="Euclidean",X.VECTOR_COSINE="Vector Cosine",X.MANHATTAN="Manhattan",X.TANIMOTO="Tanimoto",X.LEVENSTEIN="Levenshtein",X.NEEDLEMAN_WUNSCH="Needlemann-Wunsch",X.MONOMER_CHEMICAL_DISTANCE="Monomer chemical distance",X.SOKAL="Sokal",X.COSINE="Cosine",X.ASYMMETRIC="Asymmetric",X.Difference="Difference",X.OneHot="One-Hot";const J={[Z.HAMMING]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n let sizeDiff: u32 = maxLength - minLength;\n \n let maxIntDistance = ceil(maxDistance * f32(maxLength)) - f32(sizeDiff);\n\n var diff: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n diff = diff + f32(a[i] != b[i]);\n if (diff > maxIntDistance) {\n return 1.0;\n }\n }\n diff += f32(sizeDiff);\n return diff / ${e};\n `},[Z.EUCLIDEAN]:function(e,t){return`\n var dist: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n dist = dist + f32(a[i] - b[i]) * f32(a[i] - b[i]);\n }\n return sqrt(dist);\n `},[Z.MANHATTAN]:function(e,t){return`\n var dist: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n dist = dist + abs(f32(a[i] - b[i]));\n }\n return dist;\n `},[Z.VECTOR_COSINE]:function(e,t){return`\n var dist: f32 = 0.0;\n var productSum: f32 = 0.0;\n var aSquareSum: f32 = 0.0;\n var bSquareSum: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n productSum = productSum + f32(a[i] * b[i]);\n aSquareSum = aSquareSum + f32(a[i] * a[i]);\n bSquareSum = bSquareSum + f32(b[i] * b[i]);\n }\n var sim = productSum / (sqrt(aSquareSum) * sqrt(bSquareSum));\n return (1.0 - sim) / 2.0;\n `},[Z.TANIMOTO]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n\n if (onBitsa == 0u && onBitsb == 0u) {\n return 0.0;\n }\n\n let totalOnBits = onBitsa + onBitsb;\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n\n return 1.0 - f32(commonBits) / f32(totalOnBits - commonBits);\n `},[Z.LEVENSTEIN]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n\n let maxIntDistance = ceil(maxDistance * f32(maxLength));\n\n // we will store two arrays as matrix and swap the working indices per pass.\n // this way we can reduce memory usage per computation to just O(aLength)\n // the grid will have aLength + 1 columns and bLength + 1 rows\n // this will be guaranteed by iteration, but the array sizes must be known at compile time, so we will use a fixed size of maxArraySize\n var dynamicPassMat: array<array<f32, ${e+1}u>, 2>; // initialize to 0\n \n var prevIndex: u32 = 0;\n var curIndex: u32 = 1; // we will swap these indices per pass\n\n // initialize the first row\n for (var i = 0u; i <= aLength; i = i + 1u) {\n dynamicPassMat[prevIndex][i] = f32(i);\n }\n\n // iterate over the rows\n for (var i = 1u; i <= bLength; i = i + 1u) {\n dynamicPassMat[curIndex][0] = f32(i);\n var minEntry: f32 = f32(maxLength);\n let prevRow = &dynamicPassMat[prevIndex];\n let curRow = &dynamicPassMat[curIndex];\n let bMon = u32(b[i - 1]);\n for (var j = 1u; j <= aLength; j = j + 1u) {\n var cost: f32 = f32(a[j - 1] != bMon);\n var res: f32 = min(\n min(\n (*prevRow)[j] + 1.0, // deletion\n (*curRow)[j - 1] + 1.0, // insertion\n ),\n (*prevRow)[j - 1] + cost // substitution\n );\n (*curRow)[j] = res;\n if (res < minEntry) {\n minEntry = res;\n }\n }\n // swap the indices\n let temp: u32 = prevIndex;\n prevIndex = curIndex;\n curIndex = temp;\n if (minEntry > maxIntDistance) {\n return 1.0;\n }\n }\n\n return dynamicPassMat[prevIndex][aLength] / f32(maxLength);\n `},[Z.NEEDLEMAN_WUNSCH]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n \n let maxIntDistance = ceil(maxDistance * f32(maxLength));\n // we will store two arrays as matrix and swap the working indices per pass.\n // this way we can reduce memory usage per computation to just O(aLength)\n // the grid will have aLength + 1 columns and bLength + 1 rows\n // this will be guaranteed by iteration, but the array sizes must be known at compile time, so we will use a fixed size of maxArraySize\n var dynamicPassMat: array<array<f32, ${e+1}u>, 2>; // initialize to 0\n \n // we need to keep track of which operation led to the current cell\n // i.e. whether we came from the left, top or diagonal to assign gap open/gap extend penalty\n var verticalGaps: array<u32, ${e+1}u>;\n var horizontalGaps: array<u32, ${e+1}u>;\n\n let gapOpenPenalty: f32 = suppInfo.gapOpenPenalty${t};\n let gapExtensionPenalty: f32 = suppInfo.gapExtensionPenalty${t};\n var prevIndex: u32 = 0;\n var curIndex: u32 = 1; // we will swap these indices per pass\n // initialize the first row\n for (var i = 0u; i <= aLength; i = i + 1u) {\n dynamicPassMat[prevIndex][i] = gapExtensionPenalty + f32(i - 1) * gapExtensionPenalty; // accounting for the fact that left and right gaps are less costly\n dynamicPassMat[curIndex][i] = 0.0;\n }\n dynamicPassMat[0][0] = 0.0;\n\n let simMatrix = &suppInfo.similarityMatrix${t}; // using pointers make things faster\n // iterate over the rows\n for (var i = 1u; i <= bLength; i = i + 1u) {\n let prevRow = &dynamicPassMat[prevIndex];\n let curRow = &dynamicPassMat[curIndex];\n (*curRow)[0] = gapExtensionPenalty + f32(i - 1) * gapExtensionPenalty;\n var minEntry: f32 = f32(maxLength);\n let monB = u32(b[i - 1]);\n for (var j = 1u; j <= aLength; j = j + 1u) {\n let monA = u32(a[j - 1]);\n \n let cost: f32 = (*prevRow)[j - 1] + 1f - (*simMatrix)[monA][monB];\n var top = (*prevRow)[j]; // deletion\n if (verticalGaps[j] > 0 || i == 1 || i == bLength) {\n top = top + gapExtensionPenalty;\n } else {\n top = top + gapOpenPenalty;\n }\n var left = (*curRow)[j - 1]; // insertion\n if (horizontalGaps[j - 1] > 0 || j == 1 || j == aLength) {\n left = left + gapExtensionPenalty;\n } else {\n left = left + gapOpenPenalty;\n }\n var res: f32 = min(\n min(\n top, // deletion\n left, // insertion\n ),\n cost // substitution\n );\n (*curRow)[j] = res;\n if (res < minEntry) {\n minEntry = res;\n }\n // update the horizontal and vertical gaps\n if (res == cost) {\n verticalGaps[j] = 0;\n horizontalGaps[j] = 0;\n } else if (res == left) {\n verticalGaps[j] = 0;\n horizontalGaps[j] = 1;\n } else {\n verticalGaps[j] = 1;\n horizontalGaps[j] = 0;\n }\n }\n // swap the indices\n let temp: u32 = prevIndex;\n prevIndex = curIndex;\n curIndex = temp;\n if (minEntry > maxIntDistance) {\n return 1.0;\n }\n }\n return dynamicPassMat[prevIndex][aLength] / f32(minLength);\n\n `},[Z.MONOMER_CHEMICAL_DISTANCE]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n let maxLength: u32 = max(aLength, bLength);\n let minLength: u32 = min(aLength, bLength);\n let sizeDiff: u32 = maxLength - minLength;\n \n let maxIntDistance = ceil(maxDistance * f32(maxLength)) - f32(sizeDiff);\n\n let simMatrix = &(suppInfo.similarityMatrix${t}); // using pointers make things faster\n var diff: f32 = 0.0;\n for (var i = 0u; i < ${e}; i = i + 1u) {\n diff = diff + 1.0 - (*simMatrix)[u32(a[i])][u32(b[i])];\n if (diff > maxIntDistance) {\n return 1.0;\n }\n }\n diff += f32(sizeDiff);\n return diff / ${e};\n `},[Z.SOKAL]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n let total = onBitsa + onBitsb;\n if (total == 0u) {\n return 1.0;\n }\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n return 1.0 - f32(commonBits) / f32(total * 2 - commonBits * 3);\n `},[Z.COSINE]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n let total = onBitsa * onBitsb; // p.s. here total is taken by multiplying\n if (total == 0u) {\n return 1.0;\n }\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n return 1.0 - f32(commonBits) / sqrt(f32(total));\n `},[Z.ASYMMETRIC]:function(e,t){return`\n var onBitsa: u32 = 0u;\n var onBitsb: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n onBitsa = onBitsa + countOneBits(a[i]);\n onBitsb = onBitsb + countOneBits(b[i]);\n }\n let min = min(onBitsa, onBitsb);\n if (min == 0u) {\n return 1.0;\n }\n var commonBits: u32 = 0u;\n for (var i = 0u; i < ${e}u; i = i + 1u) {\n commonBits = commonBits + countOneBits(a[i] & b[i]);\n }\n return 1.0 - f32(commonBits) / f32(min);\n `},[Z.Difference]:function(e,t){return`\n let range = suppInfo.range${t};\n return f32(abs(f32(a[0]) - f32(b[0])) / range);\n `},[Z.OneHot]:function(e,t){return`\n let aLength: u32 = computeInfo.entrySizes[${t}][aIndex];\n let bLength: u32 = computeInfo.entrySizes[${t}][bIndex];\n if (aLength != bLength) {\n return 1.0;\n }\n for (var i = 0u; i < aLength; i = i + 1u) {\n if(a[i] != b[i]) {\n return 1.0;\n }\n }\n return 0.0;\n `}},Q={[Z.HAMMING]:e=>Math.ceil(e/30),[Z.EUCLIDEAN]:e=>Math.ceil(e/30),[Z.MANHATTAN]:e=>Math.ceil(e/30),[Z.TANIMOTO]:e=>Math.ceil(e/30),[Z.SOKAL]:e=>Math.ceil(e/30),[Z.COSINE]:e=>Math.ceil(e/30),[Z.ASYMMETRIC]:e=>Math.ceil(e/30),[Z.LEVENSTEIN]:e=>Math.ceil(e*e/60),[Z.NEEDLEMAN_WUNSCH]:e=>Math.ceil(e*e/60),[Z.MONOMER_CHEMICAL_DISTANCE]:e=>Math.ceil(e/25),[Z.Difference]:e=>1,[Z.OneHot]:e=>Math.ceil(e/40),[Z.VECTOR_COSINE]:e=>Math.ceil(e/30)},ee={STRING:new Set([Z.HAMMING,Z.LEVENSTEIN,Z.NEEDLEMAN_WUNSCH,Z.MONOMER_CHEMICAL_DISTANCE,Z.OneHot]),UINT32ARRAY:new Set([Z.HAMMING,Z.EUCLIDEAN,Z.MANHATTAN,Z.MONOMER_CHEMICAL_DISTANCE,Z.LEVENSTEIN,Z.NEEDLEMAN_WUNSCH,Z.TANIMOTO,Z.COSINE,Z.VECTOR_COSINE,Z.SOKAL,Z.ASYMMETRIC,Z.OneHot,Z.Difference]),INT32ARRAY:new Set([Z.EUCLIDEAN,Z.MANHATTAN,Z.OneHot,Z.Difference,Z.VECTOR_COSINE]),FLOAT32ARRAY:new Set([Z.EUCLIDEAN,Z.MANHATTAN,Z.Difference,Z.VECTOR_COSINE]),NUMBER:new Set([Z.EUCLIDEAN,Z.MANHATTAN,Z.Difference]),BITARRAY:new Set([Z.TANIMOTO,Z.COSINE,Z.SOKAL,Z.ASYMMETRIC])};function te(e,t=.8,n,i,o,r){return function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})}(this,void 0,void 0,function*(){const s=yield function(){return S(this,void 0,void 0,function*(){if(!navigator.gpu)return console.error("WebGPU is not supported in this browser"),null;if(!M&&(M=yield navigator.gpu.requestAdapter({powerPreference:"high-performance"}),null==M))return null;let e=!1;if(P&&(P.lost.then(()=>{e=!0}),yield new Promise(e=>setTimeout(e,10))),!P||e){const e=1e9,t=M.limits,n=t.maxBufferSize,i=t.maxStorageBufferBindingSize;try{return P=yield M.requestDevice({requiredLimits:{maxBufferSize:Math.min(n,e),maxStorageBufferBindingSize:Math.min(i,e)}}),P}catch(e){return console.error("Failed to create device with required limits",e),P=yield M.requestDevice(),P}}return P})}();if(!s)return null;const a=Object.values(Z);if(n.some(e=>!a.includes(e)))throw new Error("Invalid distance metrics provided: "+n.join(", "));if(!Object.values(q).includes(i))throw new Error("Invalid aggregation function provided: "+i);const l=1-t;if(r.length!==e.length||r.length!==n.length||r.length!==o.length)throw new Error("Options, weigths and distance functions must be provided for each column");if(e.some(t=>t.length!==e[0].length))throw new Error("All entry lists must be the same length");const c=e.length,u=e[0].length,h=e.map((e,t)=>function(e,t=Z.HAMMING,n,i={gapOpenPenalty:1,gapExtensionPenalty:.6}){var o,r;let s=null;const a=e.some(e=>"string"==typeof e)?(s="STRING",e.map(e=>new Uint32Array(e.split("").map(e=>e.charCodeAt(0))))):e.some(e=>"number"==typeof e)?(s="NUMBER",e.map(e=>new Float32Array([e]))):"object"==typeof e[0]&&e.some(e=>"_data"in e&&"_length"in e)?(s="BITARRAY",e.map(e=>e._data)):e.some(e=>e instanceof Float32Array)?(s="FLOAT32ARRAY",e):e.some(e=>e instanceof Uint32Array)?(s="UINT32ARRAY",e):e.some(e=>e instanceof Int32Array)?(s="INT32ARRAY",e):void 0;if(!a||!s)throw new Error("Invalid entry type, could not determine entry type from input list");const l=a[0]instanceof Int32Array?"INT32ARRAY":a[0]instanceof Float32Array?"FLOAT32ARRAY":"UINT32ARRAY",c=new Uint32Array(a.map(e=>e.length));if(!ee[s]||!ee[s].has(t))throw new Error(`Distance metric '${t}' not supported for entry type '${s}'`);const u=c.reduce((e,t)=>Math.max(e,t),0),h=Q[t](u),d="INT32ARRAY"===l?Int32Array:"FLOAT32ARRAY"===l?Float32Array:Uint32Array,m=new d(a.length*u);a.forEach((e,t)=>{m.set(e,t*u)});let p="",g=0,f="FLOAT32ARRAY",y=null;if(t===Z.NEEDLEMAN_WUNSCH||t===Z.MONOMER_CHEMICAL_DISTANCE){let e=i.scoringMatrix&&i.alphabetIndexes?Object.keys(i.alphabetIndexes).reduce((e,t)=>Math.max(e,t.charCodeAt(0)),0):-1;if(!i.alphabetIndexes||!i.scoringMatrix){for(let t=0;t<m.length;t++)m[t]>e&&(e=m[t]);i.scoringMatrix=new Array(e+1).fill(null).map(()=>new Array(e+1).fill(0)),i.alphabetIndexes={};for(let e=0;e<i.scoringMatrix.length;e++)i.scoringMatrix[e][e]=1,i.alphabetIndexes[String.fromCharCode(e)]=e}const t=(e+1)*(e+1),s=new Array(e+1).fill(null).map(()=>new Float32Array(e+1));for(let t=0;t<e+1;t++)s[t][t]=1;const a=i.alphabetIndexes;for(const e of Object.keys(a))for(const t of Object.keys(a))e!==t&&(s[e.charCodeAt(0)][t.charCodeAt(0)]=i.scoringMatrix[a[e]][a[t]]);g=2+t,f="FLOAT32ARRAY",y=new Float32Array(g),y[0]=null!==(o=i.gapOpenPenalty)&&void 0!==o?o:1,y[1]=null!==(r=i.gapExtensionPenalty)&&void 0!==r?r:.6;let l=2;for(let e=0;e<s.length;e++)y.set(s[e],l),l+=s[e].length;p=`\n gapOpenPenalty${n}: f32,\n gapExtensionPenalty${n}: f32,\n similarityMatrix${n}: array<array<f32, ${e+1}>, ${e+1}>`}else if(t===Z.Difference){if(!i.range||"number"!=typeof i.range||i.range<=0){const e=m.reduce((e,t)=>Math.min(e,t),m[0]),t=m.reduce((e,t)=>Math.max(e,t),m[0]);i.range=t-e}i.range<=0&&(i.range=1),g=1,f="FLOAT32ARRAY",y=new Float32Array([i.range]),p=`\n range${n}: f32`}const b=m instanceof Int32Array?"i32":m instanceof Float32Array?"f32":"u32",w=`data${n}: array<array<${b}, ${u}>, ${a.length}>`;return{flatSourceArray:m,sourceArraySize:m.length,maxEntryLen:u,arraySizes:c,complexity:h,suppInfoBuffer:y,suppInfoSize:g,suppInfoType:f,suppInfoStructWgsl:p,entryType:s,dataTypeWGSL:b,dataStructWgsl:w,EncodedArrayConstructor:d}}(e,n[t],t,r[t]));if(0===c)throw new Error("No columns provided. Please provide at least one column of data.");1===c&&(i=q.MANHATTAN);let d=h.map(e=>e.suppInfoStructWgsl).filter(e=>!!e&&""!=e).join(",\n"),m=!1;d&&""!=d.trim()||(m=!0,d="\ndummy: f32\n");const p=h.map(e=>e.dataStructWgsl).filter(e=>!!e&&""!=e).join(",\n"),g=new Uint32Array(c*u);h.forEach((e,t)=>{g.set(e.arraySizes,t*u)});const f=1e4,y=100,b=h.reduce((e,t)=>e+t.complexity,0),w=Math.ceil(6e3/b),v=Math.ceil(Math.sqrt(Math.ceil(100))),T=10*v,C=u*(u-1)/2,A=Math.ceil(C/f),E=s.createShaderModule({label:"Sparse matrix compute shader",code:`\n // each thread will perform 100 iterations at one time, comparing 100 pairs of entries.\n // in total, each thread will perform at most ${A} comparisons.\n // first is the result struct, containing is, js, and distances. each array with length of 100,\n // and also integer for how many pairs were found to be below threshold.\n struct SparseResult {\n i: array<array<u32, 100>, 10000>,\n j: array<array<u32, 100>, 10000>,\n distances: array<array<f32, 100>, 10000>,\n found: array<u32, 10000>,\n done: array<u32, 10000>\n }\n // struct for the data\n struct ComputeInfo {\n // start at cols and rows, and end at cols and rows for each thread, these will be calculated on cpu and passed to gpu.\n startAtCols: array<u32, 10000>,\n startAtRows: array<u32, 10000>,\n endAtCols: array<u32, 10000>,\n endAtRows: array<u32, 10000>,\n\n // the ACTUALLY sizes of each entry\n entrySizes: array<array<u32, ${u}>, ${c}>,\n // the weights for each entry\n weights: array<f32, ${c}>,\n // the data for each entry\n ${p} // an example of the dataWgsl would be:\n //data0: array<array<u32,20>,100>,\n //data1: array<array<u32,20>,100>\n }\n\n // struct for the supplementary information\n struct SuppInfo {\n // struct containing all the supplementary info, like scoring matrix, alphabet indexes, range, etc.\n ${d}\n };\n\n @group(0) @binding(0) var<storage, read_write> computeInfo: ComputeInfo;\n @group(0) @binding(1) var<storage, read_write> suppInfo: SuppInfo;\n @group(0) @binding(2) var<storage, read_write> results: SparseResult;\n @compute @workgroup_size(10, 10) fn calcSparseMatrix(\n @builtin(global_invocation_id) id: vec3<u32>\n ) {\n ${m?"let otherDummy = suppInfo.dummy * 2;":""} // just to make sure that the suppInfo is not optimized out\n let threadCol = id.x;\n let threadRow = id.y;\n let linearIndex = threadRow * ${T} + threadCol;\n if (linearIndex >= 10000) {\n return; // if we are out of bounds, return\n } \n var startAtCol: u32 = computeInfo.startAtCols[linearIndex];\n var startAtRow: u32 = computeInfo.startAtRows[linearIndex];\n let endAtCol: u32 = min(computeInfo.endAtCols[linearIndex], ${u}u);\n let endAtRow: u32 = min(computeInfo.endAtRows[linearIndex], ${u}u);\n let is = &results.i[linearIndex];\n let js = &results.j[linearIndex];\n let distances = &results.distances[linearIndex];\n results.found[linearIndex] = 0; // initialize the found counter\n var found: u32 = 0;\n if (results.done[linearIndex] > 0) {\n return; // if we are done, return\n }\n for (var i = 0; i < ${w}; i++) {\n if (startAtCol >= endAtCol && startAtRow >= endAtRow) {\n results.done[linearIndex] = 1;\n break;\n }\n if (found >= 100) {\n break;\n }\n let dist = combinedDistance(startAtCol, startAtRow);\n if (dist <= ${l}) {\n (*is)[found] = startAtCol;\n (*js)[found] = startAtRow;\n (*distances)[found] = dist;\n found = found + 1;\n }\n startAtCol = startAtCol + 1;\n if (startAtCol >= ${u}u) {\n startAtRow += 1;\n startAtCol = startAtRow + 1;\n }\n }\n results.found[linearIndex] = found;\n // update the startAtCols and startAtRows\n computeInfo.startAtCols[linearIndex] = startAtCol;\n computeInfo.startAtRows[linearIndex] = startAtRow;\n\n }\n\n // this will generate the distance script for each distance metric and then combine them into one\n ${ne(n,h.map(e=>e.maxEntryLen),l,i)}\n\n\n `}),_=s.createComputePipeline({label:"sparse matrix compute pipeline",layout:"auto",compute:{module:E,entryPoint:"calcSparseMatrix"}}),I=new Uint32Array(f),L=new Uint32Array(f),x=new Uint32Array(f),N=new Uint32Array(f),R=Math.floor(C/f);let $=0,H=1;console.time("GPUthreadStarts");for(let e=0;e<f;e++){const t=9999===e?C-1:(e+1)*R,n=u-2-Math.floor(Math.sqrt(-8*t+4*u*(u-1)-7)/2-.5),i=t-u*n+Math.floor((n+1)*(n+2)/2);I[e]=H,L[e]=$,x[e]=i,N[e]=n,$=n,H=i}console.timeEnd("GPUthreadStarts");const O=4e4+u*c+c+h.reduce((e,t)=>e+t.sourceArraySize,0),D=h.reduce((e,t)=>e+t.suppInfoSize,0),k=1e6,F=O*Uint32Array.BYTES_PER_ELEMENT;let G=F;const B=15&F;0!==B&&(G+=16-B);const V=s.createBuffer({label:"compute info buffer",size:G,usage:GPUBufferUsage.STORAGE|GPUBufferUsage.COPY_SRC|GPUBufferUsage.COPY_DST,mappedAtCreation:!0}),U=V.getMappedRange();let W=0;new Uint32Array(U,W,f).set(I),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,f).set(L),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,f).set(x),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,f).set(N),W+=f*Uint32Array.BYTES_PER_ELEMENT,new Uint32Array(U,W,g.length).set(g),W+=g.length*Uint32Array.BYTES_PER_ELEMENT,new Float32Array(U,W,c).set(o),W+=c*Float32Array.BYTES_PER_ELEMENT;for(const e of h){const t=e.EncodedArrayConstructor,n=e.sourceArraySize;new t(U,W,n).set(e.flatSourceArray),W+=n*t.BYTES_PER_ELEMENT}V.unmap();const Y=D*Uint32Array.BYTES_PER_ELEMENT;let j=Y;const K=15&Y;0!==K&&(j+=16-K),j=Math.max(j,16);const z=s.createBuffer({label:"supp info buffer",size:j,usage:GPUBufferUsage.STORAGE|GPUBufferUsage.COPY_SRC|GPUBufferUsage.COPY_DST,mappedAtCreation:!0}),X=z.getMappedRange();let J=0;for(const e of h)e.suppInfoBuffer&&e.suppInfoBuffer.byteLength>0&&e.suppInfoSize>0&&(new("UINT32ARRAY"===e.suppInfoType?Uint32Array:Float32Array)(X,J,e.suppInfoBuffer.length).set(e.suppInfoBuffer),J+=e.suppInfoBuffer.byteLength);0===J&&new Uint32Array(X,0,4).set([1,1,1,1]),z.unmap();const te=302e4*Uint32Array.BYTES_PER_ELEMENT;let ie=te;const oe=15&te;0!==oe&&(ie+=16-oe);const re=s.createBuffer({label:"results buffer",size:ie,usage:GPUBufferUsage.STORAGE|GPUBufferUsage.COPY_SRC}),se=s.createBindGroup({label:"bindGroup for sparse matrix buffer",layout:_.getBindGroupLayout(0),entries:[{binding:0,resource:{buffer:V}},{binding:1,resource:{buffer:z}},{binding:2,resource:{buffer:re}}]}),ae=s.createBuffer({label:"results out buffer",size:re.size,usage:GPUBufferUsage.MAP_READ|GPUBufferUsage.COPY_DST}),le=[],ce=[],ue=[];let he=!1;for(;!he;){const e=s.createCommandEncoder({label:"distance encoder"}),t=e.beginComputePass({label:"distance compute pass"});t.setPipeline(_),t.setBindGroup(0,se),t.dispatchWorkgroups(v,v),t.end(),e.copyBufferToBuffer(re,0,ae,0,ae.size);const n=e.finish();s.queue.submit([n]),yield s.queue.onSubmittedWorkDone(),yield ae.mapAsync(GPUMapMode.READ);const i=ae.getMappedRange();let o=0;const r=new Uint32Array(i,o,k);o+=k*Uint32Array.BYTES_PER_ELEMENT;const a=new Uint32Array(i,o,k);o+=k*Uint32Array.BYTES_PER_ELEMENT;const l=new Float32Array(i,o,k);o+=k*Float32Array.BYTES_PER_ELEMENT;const c=new Uint32Array(i,o,f);o+=f*Uint32Array.BYTES_PER_ELEMENT,he=new Uint32Array(i,o,f).every(e=>1===e);const u=c.reduce((e,t)=>e+t,0),h=new Uint32Array(u),d=new Uint32Array(u),m=new Float32Array(u);let p=0;for(let e=0;e<c.length;e++){const t=c[e];0!==t&&(h.set(r.subarray(e*y,e*y+t),p),d.set(a.subarray(e*y,e*y+t),p),m.set(l.subarray(e*y,e*y+t),p),p+=t)}le.push(h),ce.push(d),ue.push(m),ae.unmap()}const de=le.reduce((e,t)=>e+t.length,0),me=new Uint32Array(de),pe=new Uint32Array(de),ge=new Float32Array(de);let fe=0;for(let e=0;e<le.length;e++)me.set(le[e],fe),pe.set(ce[e],fe),ge.set(ue[e],fe),fe+=le[e].length;return V.destroy(),z.destroy(),re.destroy(),ae.destroy(),{i:me,j:pe,distance:ge}})}function ne(e,t,n,i){return e.map((e,i)=>`\n fn distanceScript${i}(aIndex: u32, bIndex: u32) -> f32 {\n let a = computeInfo.data${i}[aIndex];\n let b = computeInfo.data${i}[bIndex];\n let maxDistance: f32 = ${n};\n ${J[e](t[i],i)}\n }\n `).join("\n")+"\n"+`\n fn combinedDistance(aIndex: u32, bIndex: u32) -> f32 {\n var distances: array<f32, ${e.length}>;\n ${e.map((e,t)=>`distances[${t}] = distanceScript${t}(aIndex, bIndex);`).join("\n")}\n ${z[i](e.length)}\n }\n \n `}var ie=n(1991),oe=n.n(ie);let re=0;const se="cliffsDf",ae=new u.Subject,le="SALI",ce="line index",ue=["From","To"],he="filterCliffs";async function de(e,t,i,o,l,c,u,h,d,m,p,g,f,y,b,w,v){re++;const T=c/100;let C,A=!1;const E=g.inputs,S=await g.apply({[E[0].name]:t,[E[1].name]:u,...d.preprocessingFuncArgs??{}});let M=[];if(h===x){const t=await function(e,t,i,o,r,s,a=10,l=!1,c=2){const u=new Worker(new URL(n.p+n.u(980),n.b));let h;return u.postMessage({data:e,threshold:t,weights:i,aggregationMethod:o,distanceFns:r,distanceFnArgs:s,maxIterations:a,useWebGPU:l,inflate:c}),{promise:new Promise((e,t)=>{h=e,u.onmessage=t=>{setTimeout(()=>u.terminate(),100),e(t.data.res)},u.onerror=e=>{setTimeout(()=>u.terminate(),100),t(e)}}),terminate:()=>{try{h(null),u.terminate()}catch(e){console.error(e)}}}}([S.entries],c,[1],"MANHATTAN",[u],[S.options??{}],d?.maxIterations??5,d.useWebGPU??!1).promise;e.columns.addNewInt(e.columns.getUnusedName("MCL Cluster")).init(e=>t.clusters[e]),M=[t.embedX,t.embedY]}else M=await K([S.entries],h,[u],[1],"MANHATTAN",{...d,distanceFnArgs:[S.options??{}]});if(M.length!==i.length)throw new Error("Number of axes names should be equal to number of embedding dimensions");for(let t=0;t<M.length;++t)e.columns.addNewFloat(i[t]).init(e=>M[t][e]);let P=null;if(d.useWebGPU)try{P=await te([S.entries],T,[u],q.MANHATTAN,[1],[S.options??{}])}catch(e){console.error(e)}P||(d.useWebGPU&&console.error("WebGPU sparse matrix calculation failed, falling back to CPU implementation"),P=await(new F).calc(S.entries,u,T,S.options));const _=await async function(e,t){const n=e.distance.map((n,i)=>{const o=Math.abs(t.get(e.i[i])-t.get(e.j[i]));return 0!=n?o/n:1/0}),i=e.distance.map(e=>1-e),o=e.i,r=e.j,s=a.BitSet.create(t.length);return e.distance.forEach((t,n)=>{s.set(e.i[n],!0),s.set(e.j[n],!0)}),{simVals:i,saliVals:n,n1:o,n2:r,cliffsBitSet:s}}(P,l),I=function(e,t,n,i,o,r,s){const l=new Array(e).fill(0);for(let e=0;e!=i.length;++e)n[e]!=1/0&&(s.get(i[e])>s.get(o[e])?l[i[e]]+=n[e]:l[o[e]]+=n[e]);return a.Column.fromList("double",t,l)}(t.length,`sali_${i[0].substring(i[0].lastIndexOf("_"))}`,_.saliVals,_.n1,_.n2,0,l);e.columns.add(I);const L=_.cliffsBitSet,N=function(e){const t=e.filter(e=>e!==1/0),n=t.reduce((e,t)=>Math.min(e,t),Number.MAX_VALUE);return{max:t.reduce((e,t)=>Math.max(e,t),n),min:n}}(_.saliVals),R=.8/(N.max-N.min),H=r.shell.tv?.dataFrame===e?r.shell.tv:r.shell.getTableView(e.name),O=H.addViewer(a.VIEWER.SCATTER_PLOT,{xColumnName:i[0],yColumnName:i[1],size:I.name,color:l.name,showXSelector:!1,showYSelector:!1,showSizeSelector:!1,showColorSelector:!1,markerMinSize:5,markerMaxSize:25,title:o}),D=function(e,t,n,i,o,r,s,l){const c={from:new Uint32Array(t.n1.length),to:new Uint32Array(t.n1.length),opacities:new Float32Array(t.n1.length),colors:new Array(t.n1.length),widths:new Float32Array(t.n1.length)};for(let n=0;n<t.n1.length;n++)c.from[n]=t.n1[n],c.to[n]=t.n2[n],c.opacities[n]=t.saliVals[n]===1/0?1:.2+(t.saliVals[n]-s.min)*l,c.colors[n]=e.selection.get(c.from[n])&&e.selection.get(c.to[n])?"255,255,0":"0,128,0",c.widths[n]=1;const u=a.DataFrame.create(c.from.length);return ue.forEach((e,t)=>{u.columns.addNewString(e).init(e=>n.get(0===t?c.from[e]:c.to[e])),function(e,t){Object.keys(t).forEach(n=>{e.tags[n]=t[n]})}(u.col(e),r),u.col(e).semType=o}),u.columns.addNewFloat("Δ activity").init(e=>Math.abs(i.get(c.from[e])-i.get(c.to[e]))),u.columns.addNewInt(ce).init(e=>e),u.columns.addNewFloat(le).init(e=>t.saliVals[e]),u.columns.addNewFloat("Similarity").init(e=>t.simVals[e]),u.name=`${se}${re}`,{lines:c,linesDf:u}}(e,_,t,l,m,p,N,R);D.lines.skipMultiLineCalculation=!0,D.linesDf.col(le).setTag("description","Structure−Activity Landscape Index (activity difference divided by 1 minus similarity)");const k=new U(O,i[0],i[1],D.lines,G.none),B=b?b(D.linesDf,ue).sort([le],[!1]):D.linesDf.plot.grid().sort([le],[!1]);B.col(ce)&&(B.col(ce).visible=!1),e.temp[".cliffsDfGrid"]=B;const V=s.button(`${D.linesDf.rowCount} cliffs`,()=>{const e=oe()(H.viewers).some(e=>e.dataFrame.name===`${se}${re}`);v&&!e&&H.addViewer(B),H.dockManager.dock(B,"down",null,"Activity cliffs",w??.2)});V.classList.add("scatter_plot_link","cliffs_grid");const W=s.input.toggle("Show only cliffs",{value:!1,onValueChanged:t=>{t?(O.dataFrame.setTag(he,i[0]),e.filter.and(L),ae.next(i[0])):(O.dataFrame.setTag(he,""),e.filter.setAll(!0),ae.next(""))}});O.root.prepend(s.divH([V,W.root],"cliffs_div")),ae.subscribe(e=>{W.enabled=""===e||e===i[0]}),e.onRowsFiltering.subscribe(()=>{W.value&&e.filter.and(_.cliffsBitSet)});const Y=r.events.onViewerClosed.subscribe(e=>{e.args.viewer===O&&(H.dockManager.close(B.root),Y.unsubscribe(),H.subs=H.subs.filter(e=>e!==Y))});return H.subs.push(Y),D.linesDf.onCurrentCellChanged.subscribe(()=>{for(let e=0;e<D.linesDf.rowCount;e++)D.lines.widths[e]=e===D.linesDf.currentRowIdx?3:1;k.linesToRender=D.lines;const n=D.linesDf.currentCol&&D.linesDf.currentCol.name===ue[1]?D.lines.to:D.lines.from,o=-1!==D.linesDf.currentRowIdx?D.linesDf.currentRowIdx:null;if(O.dataFrame.currentRowIdx=o?n[o]:-1,null!==o){const n=D.linesDf.currentRowIdx;k.currentLineId=n;const{zoomLeft:a,zoomRight:c,zoomTop:u,zoomBottom:h}=function(e,t,n,i,o,r){const s=Math.abs(n-o),a=Math.abs(i-r),l=e/s,c=t/a,u=Math.min(l,c),h=e/u*5,d=t/u*5,m=(n<o?n:o)+s/2-h/2,p=(i>r?i:r)-a/2+d/2;return{zoomLeft:m,zoomRight:m+h,zoomTop:p,zoomBottom:p-d}}(O.viewport.width,O.viewport.height,O.dataFrame.get(i[0],D.lines.from[n]),O.dataFrame.get(i[1],D.lines.from[n]),O.dataFrame.get(i[0],D.lines.to[n]),O.dataFrame.get(i[1],D.lines.to[n]));O.zoom(a,u,c,h),W.value?e.filter.and(L):!0===W.enabled&&e.filter.setAll(!0),setTimeout(()=>{!function(e,t,n,i,o,a,l,c,u){const h=t.getPane("Cliff Details");s.empty(h.root);const d=u({points:[n,i],lineId:o,df:e,seqCol:a,activityCol:l,sali:c});h.root.append(d),setTimeout(()=>{r.shell.o=t.root},500)}(e,C,D.lines.from[o],D.lines.to[o],o,t,l,D.linesDf.get(le,o),y);const n=O.dataFrame.getSortedOrder(H.grid.sortByColumns,H.grid.sortTypes);H.grid.scrollToCell(t.name,n.indexOf(O.dataFrame.currentRowIdx))},1e3)}}),D.linesDf.onSelectionChanged.subscribe(t=>{setTimeout(()=>(()=>{const t=a.BitSet.create(e.rowCount);for(let e=0;e<D.linesDf.rowCount;e++){const n=D.linesDf.selection.get(e);n&&(t.set(D.lines.from[e],!0),t.set(D.lines.to[e],!0)),D.lines.colors[e]=n?"255,255,0":"0,128,0"}e.selection.copyFrom(t),k.linesToRender=D.lines})(),100)}),e.onSelectionChanged.subscribe(t=>{!1===e.selection.anyTrue&&"number"==typeof t&&(A?A=!1:(e=>{e.selection.setAll(!1);for(let e=0;e<D.lines.colors.length;e++)D.lines.colors[e]="0,128,0";k.linesToRender=D.lines})(B.dataFrame))}),k.lineClicked.subscribe(t=>{if(A=!0,k.currentLineId=t.id,-1!==t.id){const n=D.linesDf.selection.clone();setTimeout(()=>{t.event.ctrlKey?(n.set(t.id,!n.get(t.id)),D.linesDf.selection.copyFrom(n)):(D.linesDf.currentRowIdx!==t.id&&(D.linesDf.currentRowIdx=t.id,e.currentRowIdx=D.lines.from[t.id]),D.linesDf.selection.copyFrom(n));const i=D.linesDf.getSortedOrder(B.sortByColumns,B.sortTypes);B.scrollToCell(ue[0],i.indexOf(t.id))},500)}}),k.lineHover.pipe((0,$.debounceTime)(500)).subscribe(n=>{-1!==n.id&&-1===e.mouseOverRowIdx&&s.tooltip.show(f({lineId:n.id,points:[D.lines.from[n.id],D.lines.to[n.id]],df:e,seqCol:t,activityCol:l}),n.x,n.y)}),O.addProperty("similarityLimit","double",T),C=function(){const e=s.accordion(),t=s.element("i");return t.className="grok-icon svg-icon svg-view-layout",e.addTitle(s.span([t,s.label("Activity cliffs")])),e.addPane("Cliff Details",()=>s.divText("Cliff has not been selected"),!0),r.shell.o=e.root,e}(),O}var me=n(6863),pe=n(2003),ge=n(3516),fe=n(3151);function ye(e,t){const n=e=>o[e]??null,i=e=>{const t=s.columns.addNewString((e+1).toString());return o.push(t),t},o=[],r=e.length,s=a.DataFrame.create(r),l=t.getSeqHandler(e);for(let e=0;e<r;++e){const t=l.getSplitted(e);for(let o=0;o<t.length;++o){const r=t.getCanonical(o);(n(o)||i(o)).set(e,r,!1)}}return s}var be,we=n(439),ve=n(4971);async function Te(e){const t=(await(0,ve.pj)()).getMonomerLib(),n=[],i={},o=e.map(e=>t.getMonomer("PEPTIDE",e)?.smiles??""),s=a.Column.fromStrings("smiles",o);for(let t=0;t<o.length;++t){i[e[t]]=t;const a=o[t],l=""===a?new Array(o.length).fill(0):(await r.chem.getSimilarities(s,a)).getRawData();l[t]=1,n[t]=Array.from(l)}return{scoringMatrix:n,alphabetIndexes:i}}!function(e){e.IDENTITY="identity",e.SIMILARITY="similarity"}(be||(be={}));var Ce=n(9192);class Ae{constructor(){this.maxIterations={uiName:"Max iterations",value:0,tooltip:"Maximum iterations for MCL process.Default is \n 0 which will construct the clusters with plain sparse matrix. Values greater than 0 will \n perform MCL with the given number of iterations and will result in trans-cluster activity cliff lines."},this.useWebGPU={uiName:"Use WebGPU",value:!1,tooltip:"Use WebGPU for MCL calculation. (Experimental)",type:"boolean"}}}class Ee extends R{constructor(e={}){super({...e,enableMCL:!0});const t=Array.from(this.tableInput.value.columns.numericalNoDateTime);this.activitiesInput=s.input.column("Activities",{table:this.tableInput.value,value:t.length?t[0]:null,filter:e=>t.includes(e)}),this.activitiesInputRoot=this.activitiesInput.root,this.similarityInput=s.input.int("Similarity cutoff",{value:80}),this.methodsParams[x]=new Ae}onTableInputChanged(){if(super.onTableInputChanged(),this.activitiesInputRoot){s.empty(this.activitiesInputRoot);const e=Array.from(this.tableInput.value.columns.numerical);this.activitiesInput=s.input.column("Activities",{table:this.tableInput.value,value:e.length?e[0]:null,filter:t=>e.includes(t)}),Array.from(this.activitiesInput.root.children).forEach(e=>this.activitiesInputRoot.append(e))}}getEditor(){return s.div([this.tableInput,this.colInputRoot,this.preprocessingFunctionInputRoot,this.preprocessingFuncSettingsDiv,this.activitiesInputRoot,this.similarityMetricInputRoot,this.methodInput,this.methodSettingsDiv,this.similarityMetricInputRoot,this.similarityInput],{style:{minWidth:"320px"},classes:"ui-form dim-reduction-dialog-form"})}getParams(){return{...super.getParams(),activities:this.activitiesInput.value,similarityThreshold:this.similarityInput.value}}getInput(){return{...super.getInput(),activityCol:this.activitiesInput.value.name,simThreshold:this.similarityInput.value}}async applyInput(e){super.applyInput(e),this.activitiesInput.value=this.tableInput.value.col(e.activityCol),this.similarityInput.value=e.simThreshold}}var Se,Me,Pe;function _e(e){const t=["Embed_X","Embed_Y"],n=e.columns.names().filter(e=>e.includes(t[0])).length+1;return t.map(e=>`${e}_${n}`)}function Ie(e,t){return`${t} (${e.length>4?`${e.length} columns`:e.map(e=>e.name).join(", ")})`}async function Le(e,t,i,o,c,u,h,d=!0,m=!1,p={preprocessingFuncArgs:[]},g={},f=null,y={},b){const w={showXAxis:!1,showYAxis:!1,showXSelector:!1,showYSelector:!1};if(t.length!==o.length||t.length!==u.length||t.length!==c.length||t.length!==p.preprocessingFuncArgs.length)throw new Error("columns, metrics and preprocessing functions, weights and function argumentsmust have the same length");const v=d?g.tableView??r.shell.tableView(e.name)??r.shell.addTableView(e):null,T=async()=>{const T=a.TaskBarProgressIndicator.create(`Initializing ${g.scatterPlotName??"dimensionality reduction"} ...`);let C;try{const A=_e(e);function E(n,o,r){let c=null,u=null;e.columns.names().includes(A[0])?(c=e.columns.byName(A[0]),u=e.columns.byName(A[1])):(c=e.columns.add(a.Column.float(A[0],e.rowCount)),u=e.columns.add(a.Column.float(A[1],e.rowCount)),d&&!C&&(C=v.scatterPlot({...w,x:A[0],y:A[1],title:g.scatterPlotName??Ie(t,i)}))),g[l.YP]&&(C?.root&&s.setUpdateIndicator(C.root,!1),c.init(e=>r[0]?r[0][e]:void 0),u.init(e=>r[1]?r[1][e]:void 0));const h=n/o*100;T.update(h,`Running ${g.scatterPlotName??"dimensionality reduction"}... ${h.toFixed(0)}%`)}async function S(){e.columns.add(a.Column.float(A[0],e.rowCount)),e.columns.add(a.Column.float(A[1],e.rowCount));let n=null;d&&(C=v.scatterPlot({...w,x:A[0],y:A[1],title:g.scatterPlotName??Ie(t,i)}),s.setUpdateIndicator(C.root,!0));const m=r.events.onViewerClosed.subscribe(e=>{const t=e.args.viewer;t?.getOptions()?.look?.title&&C?.getOptions()?.look?.title&&t?.getOptions()?.look?.title===C?.getOptions()?.look?.title&&(r.events.fireCustomEvent(W,{}),m.unsubscribe(),n?.(),T.close())}),f=new Promise(async(r,s)=>{try{n=r;const s=[];let a=o,d=c,m=h;if(b&&t.every(e=>e.isNumerical)){const n=t.map(e=>e.toList()),i=new Array(e.rowCount).fill(0).map((e,n)=>new Float32Array(t.length));for(let o=0;o<t.length;++o)for(let t=0;t<e.rowCount;++t)i[t][o]=n[o][t];p.distanceFnArgs=[{}],s.push({entries:i,options:{}}),a=[b],d=[1],m="MANHATTAN"}else for(let e=0;e<u.length;++e){const n=u[e];if(p.distanceFnArgs||(p.distanceFnArgs=[]),n){const i=n.inputs[0].name,r=n.inputs[1].name,{entries:a,options:l}=await n.apply({[i]:t[e],[r]:o[e],...p.preprocessingFuncArgs[e]??{}});s.push({entries:a,options:l}),p.distanceFnArgs.push(l)}else{const n=t[e].toList(),i={};s.push({entries:n,options:i}),p.distanceFnArgs.push(i)}}r(await K(s.map(e=>e.entries),i,a,d,h,p,g[l.vb]?void 0:E))}catch(e){s(e)}}),y=await f;return T.close(),m.unsubscribe(),y}const M=await S();if(m&&M){const P=a.TaskBarProgressIndicator.create("Clustering embeddings ...");try{const _=await function(e,t,i,o){return function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})}(this,void 0,void 0,function*(){return new Promise(function(r,s){const a=new Worker(new URL(n.p+n.u(682),n.b));a.postMessage({embedX:e,embedY:t,minPts:o,epsilon:i}),a.onmessage=({data:{error:e,clusters:t}})=>{a.terminate(),e?s(e):r(t)}})})}(M[0],M[1],p.dbScanEpsilon??.01,p.dbScanMinPts??4),I=e.columns.getUnusedName("Cluster (DBSCAN)");e.columns.addNewString(I).init(e=>_[e].toString()),C&&(C.props.colorColumnName=I)}catch(L){r.shell.error("Clustering embeddings failed"),console.error(L)}finally{P.close()}}if(M){const x=e.columns.byName(A[0]),N=e.columns.byName(A[1]);if(x.init(e=>M[0][e]),N.init(e=>M[1][e]),f)try{const R=f.inputs[0].name,$=f.inputs[1].name;await f.prepare({[R]:x,[$]:N,...y}).call(!0)}catch(H){r.shell.error("Post-processing failed"),console.error(H)}if(C)return s.setUpdateIndicator(C.root,!1),C.helpUrl="/help/compute/sequence-space",C}}catch(O){r.shell.error("Dimensionality reduction failed"),console.error(O),T.close(),C&&s.setUpdateIndicator(C.root,!1)}};return new Promise(async(t,n)=>{try{if(g.fastRowCount&&e.rowCount>g.fastRowCount&&!g[l.vb])s.dialog().add(s.divText("Analysis might take several minutes. Do you want to continue?")).onOK(async()=>{try{const e=await T();t(e)}catch(e){n(e)}}).onCancel(()=>t(void 0)).show();else{const e=await T();t(e)}}catch(e){n(e)}})}n(5540),function(e){e.ADD="ADD",e.SUB="SUB",e.MULT="MULT"}(Se||(Se={})),function(e){e.SQUARE="SQUARE",e.INVERSE="INVERSE",e.TRANSPOSE="TRANSPOSE",e.NORM="NORM",e.COLUMN_NORM="COLUMN_NORM"}(Me||(Me={})),function(e){e.SCALARMULT="SCALARMULT",e.SCALARADD="SCALARADD",e.SCALARPOW="SCALARPOW"}(Pe||(Pe={})),Object.prototype.toString;var xe=n(6873),Ne=n(4356),Re=n(6717),$e=n(4025),He=n(4870),Oe=n(3856),De=n(6882),ke=n(7278),Fe=n(5553),Ge=n(6642),Be=n(3599),Ve=n(673),Ue=n(8312);class We extends Ge.sD{monomerLib=null;seqHelper=null;constructor(e,t){super(e,t,To.logger),(0,ve.pj)().then(e=>{this.monomerLib=e.getMonomerLib(),this.dirty=!0,this.gridCol?.grid?.invalidate(),this.subs.push(this.monomerLib.onChanged.subscribe(()=>{this.dirty=!0,this.gridCol?.grid?.invalidate()}))}),(0,Ue.Q)().then(e=>{this.seqHelper=e,this.dirty=!0,this.gridCol?.grid?.invalidate()})}}var qe=n(4139);const Ye=pe.zS;function je(e){const t=!oe().enumerate(e).some(([t,n])=>t.length>1&&0!=n&&n!=e.length-1),n=[],i=t?"":" ";for(const[t,o]of oe().enumerate(e)){let r=t;o<e.length&&(r+=`${t?"":"-"}${i}`),n.push(r)}return[n,t]}class Ke extends a.GridCellRenderer{seqHelper;get name(){return"sequence"}get cellType(){return"sequence"}get defaultHeight(){return 30}get defaultWidth(){return 230}hasMouseOver=!1;constructor(){super(),this.seqHelper=To.seqHelper}getRendererBack(e){const[t,n,i]=(0,Ge.BG)(e);if(i.rendererBack)return i.rendererBack;let o=null;return this.seqHelper&&(o=this.seqHelper.getSeqHandler(n).getRendererBack(t,n)),o}onClick(e,t){e.cell.column.temp["current-word"]=e.cell.value,e.grid.invalidate();const n=this.getRendererBack(e);n?.onClick(e,t)}onMouseEnter(e,t){const n=this.getRendererBack(e);n?.onMouseEnter(e,t),this.hasMouseOver=!0}onMouseMove(e,t){const n=this.getRendererBack(e);n?.onMouseMove(e,t)}onMouseLeave(e,t){if((0,Fe.WN)(e,null),e?.grid){const t=e.grid.onEvent("d4-grid-show-tooltip").subscribe(e=>{t.unsubscribe(),this.hasMouseOver&&e.preventDefault()})}this.hasMouseOver=!1}onDoubleClick(e,t){const n=this.getRendererBack(e);n?.onDoubleClick(e,t)}onKeyDown(e,t){const n=this.getRendererBack(e);n?.onKeyDown(e,t)}onKeyPress(e,t){const n=this.getRendererBack(e);n?.onKeyPress(e,t)}renderInt(e,t,n,i,o,r,s){const[a,l,c]=(0,Ge.BG)(r);if(!l)return;const u=l.temp,h=this.seqHelper.getSeqHandler(l);let d=(To.properties?To.properties.maxMonomerLength:4)??50;if(Oe.gp.maxMonomerLength in l.tags){const e=parseInt(l.getTag(Oe.gp.maxMonomerLength));d=!isNaN(e)&&e?e:50}if(".mm.cellRenderer.maxMonomerLength"in u){const e=u[".mm.cellRenderer.maxMonomerLength"];d=!isNaN(e)&&e?e:50}let m=c.rendererBack;m||(m=c.rendererBack=new De.Jy(a,l,To.logger,d,()=>{const{font:e,fontWidth:t}=De.Jy.getFontSettings(l);return{font:e,fontCharWidth:t,separatorWidth:h.isMsa()?8:0,monomerToShort:Ye}}),l.temp[".mm.cellRenderer.settingsChanged"],Ve.s.true,m.init().then(()=>{})),m.render(e,t,n,i,o,r,s)}render(e,t,n,i,o,r,s){const a=this.getRendererBack(r);a?a?.render(e,t,n,i,o,r,s):this.renderInt(e,t,n,i,o,r,s)}}class ze extends We{constructor(e,t){super(e,t)}render(e,t,n,i,o,r,s){const a=window.devicePixelRatio,l=r.grid,c=r.cell.value??"",u=this.tableCol.tags[pe.gp.separator],h=this.tableCol.meta.units;i=(0,De.U0)(l,e,t,i,a);const[d,m]=c.split("#"),p=this.tableCol.temp[$e.j.notationProvider]?.separatorSplitter??(0,ke.Iv)(h,u),g=p(d),f=p(m),y=oe().count(0).take(g.length).map(e=>g.getCanonical(e)).toArray(),b=oe().count(0).take(f.length).map(e=>f.getCanonical(e)).toArray(),w=this.tableCol.getTag(pe.gp.alphabet);Xe(e,t,n,i,o,y,b,w===pe.YI.RNA||w===pe.YI.DNA?Be.o.NUCLEOTIDE:Be.o.AA,this.monomerLib,void 0,void 0)}async awaitRendered(e=1e4,t=`${e} timeout`){return Promise.resolve()}static getOrCreate(e){const[t,n,i]=(0,Ge.BG)(e);let o=i.rendererBack;return o||(o=i.rendererBack=new ze(t,n)),o}}class Ze extends a.GridCellRenderer{get name(){return"MacromoleculeDifferenceCR"}get cellType(){return qe.uF.MACROMOLECULE_DIFFERENCE}get defaultHeight(){return 30}get defaultWidth(){return 230}render(e,t,n,i,o,r,s){ze.getOrCreate(r).render(e,t,n,i,o,r,s)}}function Xe(e,t,n,i,o,r,s,a,l,c,u){if(r.length!==s.length){const e=function(e,t){let n=0,i=0;const o=e.length>t.length?e:t,r=e.length>t.length?t:e;for(let e=0;e<r.length;e++)o[e]===r[e]&&n++;const s=o.length-r.length;for(let e=o.length-1;e>s;e--)o[e]===r[e-s]&&i++;const a=new Array(Math.abs(e.length-t.length)).fill(we.b9[pe.Hi.FASTA]);function l(e){return n>i?e.concat(a):a.concat(e)}return e.length>t.length?t=l(oe()(t).toArray()):e=l(oe()(e).toArray()),{subParts1:e,subParts2:t}}(r,s);r=e.subParts1,s=e.subParts2}const h=e.measureText(je(r).join("")),d=e.measureText(je(s).join("")),m=Math.max(h.width,d.width);c&&(i=m+4*r.length,e.canvas.width=m+4*r.length);let p=Math.max(t,t+(i-(m+4*r.length))/2)+5;const g=Math.max(n,n+(o-28)/2);e.save();try{e.beginPath(),e.rect(t,n,c?m+4*r.length:i,o),e.clip(),e.font="12px monospace",e.textBaseline="top";const h=7;for(let t=0;t<r.length;t++){const n=r[t],c=s[t];let d=De.S$;if(l&&(d=l.getMonomerTextColor(a,n)),n!=c){let r=De.S$;l&&(r=l.getMonomerTextColor(a,c));const s=(0,Oe.oZ)(e,n,p,g-h,i,o,{color:d,pivot:0,left:!0}),m=(0,Oe.oZ)(e,c,p,g+h,i,o,{color:r,pivot:0,left:!0});p=Math.max(m,s),u&&(u[t]=Je(n,c,d,r,g,h,o))}else p=(0,Oe.oZ)(e,n,p,g,i,o,{color:d,pivot:0,left:!0,transparencyRate:.5});p+=4}}finally{e.restore()}}function Je(e,t,n,i,o,r,s){const a=document.createElement("canvas"),l=a.getContext("2d");l.font="12px monospace";const c=l.measureText(je([e]).join("")).width,u=l.measureText(je([t]).join("")).width,h=Math.max(c,u);return a.height=s,a.width=h+4,l.font="12px monospace",l.textBaseline="top",(0,Oe.oZ)(l,e,0,o-r,h,s,{color:n,pivot:0,left:!0}),(0,Oe.oZ)(l,t,0,o+r,h,s,{color:i,pivot:0,left:!0}),a}var Qe,et=n(8070),tt=n(4326);!function(e){e.Unknown="unknown",e.FR="framework",e.CDR="cdr"}(Qe||(Qe={}));const nt=new class{constructor(){this.regionTypes=[Qe.CDR],this.chains=["Heavy","Light"],this.skipEmptyPositions=!1,this.fitWidth=!1,this.positionWidth=16,this.positionHeight=tt.fH.Entropy,this.filterSource=tt.Fo.filterSource}};var it=n(7602),ot=n(250);const rt=Qe;var st,at;!function(e){e.STYLE="Style",e.BEHAVIOR="Behavior",e.LAYOUT="Layout",e.DATA="Data"}(st||(st={})),function(e){e.skipEmptyPositions="skipEmptyPositions",e.regionTypes="regionTypes",e.chains="chains",e.fitWidth="fitWidth",e.positionWidth="positionWidth",e.positionHeight="positionHeight",e.filterSource="filterSource"}(at||(at={}));const lt=nt;class ct extends a.JsViewer{viewed=!1;regionsFg=null;regionsRoot=null;isOpened=!1;panelNode=null;regions=[];regionTypes;chains;skipEmptyPositions;fitWidth;positionWidth;positionHeight;filterSource;constructor(){super(),this.skipEmptyPositions=this.bool(at.skipEmptyPositions,lt.skipEmptyPositions,{category:st.DATA}),this.regionTypes=this.stringList(at.regionTypes,lt.regionTypes,{category:st.DATA,choices:Object.values(rt).filter(e=>e!=rt.Unknown)}),this.chains=this.stringList(at.chains,lt.chains,{category:st.DATA,choices:["Heavy","Light"]}),this.fitWidth=this.bool(at.fitWidth,lt.fitWidth,{category:st.LAYOUT}),this.positionWidth=this.float(at.positionWidth,lt.positionWidth,{category:st.LAYOUT,editor:"slider",min:0,max:64,description:"Internal WebLogo viewers property width of position."}),this.positionHeight=this.string(at.positionHeight,lt.positionHeight,{category:st.LAYOUT,choices:Object.keys(tt.fH)}),this.filterSource=this.string(at.filterSource,lt.filterSource,{category:st.BEHAVIOR,choices:Object.values(tt.lT)}),this.viewSyncer=new it.g(To.logger)}static viewerCounter=-1;viewerId=++ct.viewerCounter;viewerToLog(){return`VdRegionsViewer<${this.viewerId}>`}async init(){this.subs.push((0,u.fromEvent)(this.root,"mousemove").subscribe(this.rootOnMouseMove.bind(this)))}detach(){const e=`${this.viewerToLog()}.detach()`,t=super.detach.bind(this);this.viewSyncer.sync(`${e}`,async()=>{this.setDataInProgress||(this.viewed&&(await this.destroyView("detach"),this.viewed=!1),t())})}onTableAttached(){super.onTableAttached(),this.setData(this.regions)}onPropertyChanged(e){if(super.onPropertyChanged(e),e){switch(e.name){case at.regionTypes:case at.chains:this.setData(this.regions)}switch(e.name){case at.skipEmptyPositions:for(let e=0;e<this.logos.length;++e)for(const t of this.chains)this.logos[e][t].setOptions({[ot.n5.skipEmptyPositions]:this.skipEmptyPositions});this.calcSize();break;case at.fitWidth:case at.positionWidth:this.calcSize();break;case at.positionHeight:for(let e=0;e<this.logos.length;++e)for(const t of this.chains)this.logos[e][t].setOptions({[ot.n5.positionHeight]:this.positionHeight});this.calcSize();break;case at.filterSource:this.filterSourceInput.value=this.filterSource;break;default:this.setData(this.regions)}}else console.warn("Bio: VdRegionsViewer.onPropertyChanged() property is null")}setData(e){const t=`${this.viewerToLog()}.setData()`;To.logger.debug(`${t}, in, regions.length = ${e.length}`),this.viewSyncer.sync(`${t}`,async()=>{if(!this.setDataInProgress){this.setDataInProgress=!0;try{this.viewed&&(await this.destroyView("setData"),this.viewed=!1),this.regions=e,this.viewed||(await this.buildView("setData"),this.viewed=!0)}finally{this.setDataInProgress=!1}}})}viewSyncer;setDataInProgress=!1;host=null;filterSourceInput;mainLayout=null;logos=[];viewSubs=[];async destroyView(e){To.logger.debug(`Bio: VdRegionsViewer.destroyView( mainLayout = ${this.mainLayout?"value":"none"} ), purpose = '${e}', this.regions.length = ${this.regions.length}`),this.filterSourceInput&&s.empty(this.filterSourceInput.root),null!=this.mainLayout&&(this.mainLayout.remove(),this.host.remove(),this.host=null,this.mainLayout=null);for(const e of this.viewSubs)e.unsubscribe()}async buildView(e){To.logger.debug(`Bio: VdRegionsViewer.buildView() begin, purpose = '${e}', this.regions.length = ${this.regions.length}`);const t=this.regions.filter(e=>this.regionTypes.includes(e.type)),n=Array.from(new Set(t.map(e=>e.order))).sort(),i=[];for(let e=0;e<n.length;e++)for(const o of this.chains){const r=t.find(t=>t.order==n[e]&&t.chain==o);i.push((async()=>{const t=await this.dataFrame.plot.fromType("WebLogo",{sequenceColumnName:r.sequenceColumnName,startPositionName:r.positionStartName,endPositionName:r.positionEndName,fixWidth:!0,skipEmptyPositions:this.skipEmptyPositions,positionWidth:this.positionWidth,positionHeight:this.positionHeight,filterSource:this.filterSource});return t.onSizeChanged.subscribe(()=>{this.calcSize()}),[e,o,t]})())}const o=await Promise.all(i);this.logos=new Array(n.length);for(let e=0;e<n.length;++e)this.logos[e]={};for(const[e,t,n]of o)this.logos[e][t]=n,this.viewSubs.push(n.onFreqsCalculated.subscribe(()=>{this.calcSize()}));this.mainLayout=s.table(this.chains,e=>[...n.length>0?[s.div(e,{style:{transform:"rotate(-90deg)",font:"12px Roboto, Roboto Local, sans-serif",textAlign:"center",width:"16px",marginTop:"24px",marginLeft:"6px"}})]:[],...[...Array(n.length).keys()].map(t=>{const n=this.logos[t][e];return n.root.style.height="100%",s.div([n.root],{style:{marginTop:"4px",marginBottom:"4px"}})})],["",...[...Array(n.length).keys()].map(e=>t.find(t=>t.order==n[e]&&t.chain==this.chains[0]).name||"Name")]),this.mainLayout.className="mlb-vd-regions-viewer-table2",this.filterSourceInput=s.input.choice("Data source",{value:this.filterSource,items:Object.values(tt.lT),onValueChanged:this.filterSourceInputOnValueChanged.bind(this)}),this.filterSourceInput.root.style.position="absolute",this.filterSourceInput.root.style.right="9px",this.filterSourceInput.root.style.top="-4px",Math.ceil(255*Math.random()).toString(16),this.host=s.div([this.mainLayout,this.filterSourceInput.root],{}),this.root.appendChild(this.host),this.root.style.overflowX="auto",this.calcSize(),this.viewSubs.push(s.onSizeChanged(this.root).subscribe(this.rootOnSizeChanged.bind(this))),To.logger.debug("Bio: VdRegionsViewer.buildView() end")}calcSizeRequested=!1;calcSize(){To.logger.debug("Bio: VdRegionsViewer.calcSize(), start");const e=()=>{if(!this.host)return;const e=(this.root.clientHeight-54)/this.chains.length;let t=0;for(let n=0;n<this.logos.length;n++){for(const t of this.chains)this.logos[n][t].root.style.height=`${e}px`;t+=Math.max(...this.chains.map(e=>this.logos[n][e].Length))}if(this.fitWidth){if(this.logos.length>0&&t>0){const e=22,n=13,i=9,o=(this.root.clientWidth-e-(this.logos.length-1)*i-n)/t;for(let e=0;e<this.logos.length;e++)for(const t of this.chains){const n=this.logos[e][t];n.setOptions({[ot.n5.positionWidth]:o-n.positionMarginValue}),n.root.style.width=o*n.Length+"px"}}this.host.style.setProperty("overflow","hidden","important")}else{for(let e=0;e<this.logos.length;e++)for(const t of this.chains)this.logos[e][t].setOptions({[ot.n5.positionWidth]:this.positionWidth});this.host.style.removeProperty("overflow")}0===this.positionWidth?this.host.style.setProperty("overflow-x","hidden","important"):this.host.style.removeProperty("overflow-x")};this.calcSizeRequested||(this.calcSizeRequested=!0,window.setTimeout(()=>{e(),this.calcSizeRequested=!1},0))}rootOnSizeChanged(e){this.calcSize()}rootOnMouseMove(e){}filterSourceInputOnValueChanged(){const e=`${this.viewerToLog()}.filterSourceInputOnValueChanged()`,t=this.filterSourceInput.value;this.viewSyncer.sync(`${e}`,async()=>{if(this.filterSource!==t){this.props.getProperty(at.filterSource).set(this,t);for(let e=0;e<this.logos.length;e++)for(let t=0;t<this.chains.length;t++){const n=this.chains[t];this.logos[e][n].setOptions({[ot.n5.filterSource]:this.filterSource})}}})}_onRendered=new u.Subject;get onRendered(){return this._onRendered}invalidate(e){const t=`${this.viewerToLog()}.invalidate(${e?` <- ${e} `:""})`;this.viewSyncer.sync(`${t}`,async()=>{this._onRendered.next()})}async awaitRendered(e=5e3){await(0,et.PE)(this.onRendered,()=>{},()=>{this.invalidate()},e);const t=this.viewSyncer.resetErrors();if(t.length>0)throw t[0]}}class ut{value;parentI;parentJ;constructor(){this.value=0,this.parentI=0,this.parentJ=0}}class ht{seq1;seq2;score;constructor(e,t,n){this.seq1=e,this.seq2=t,this.score=n}}class dt{seq1="";seq2="";gap=1;len1=0;len2=0;step=1;alignGrid=[];scores=[];dpGrid=[];connections={};BLOSUM45=[[5,-2,-1,-2,-1,-1,-1,0,-2,-1,-1,-1,-1,-2,-1,1,0,-2,-2,0,-1,-1,0,-5],[-2,7,0,-1,-3,1,0,-2,0,-3,-2,3,-1,-2,-2,-1,-1,-2,-1,-2,-1,0,-1,-5],[-1,0,6,2,-2,0,0,0,1,-2,-3,0,-2,-2,-2,1,0,-4,-2,-3,4,0,-1,-5],[-2,-1,2,7,-3,0,2,-1,0,-4,-3,0,-3,-4,-1,0,-1,-4,-2,-3,5,1,-1,-5],[-1,-3,-2,-3,12,-3,-3,-3,-3,-3,-2,-3,-2,-2,-4,-1,-1,-5,-3,-1,-2,-3,-2,-5],[-1,1,0,0,-3,6,2,-2,1,-2,-2,1,0,-4,-1,0,-1,-2,-1,-3,0,4,-1,-5],[-1,0,0,2,-3,2,6,-2,0,-3,-2,1,-2,-3,0,0,-1,-3,-2,-3,1,4,-1,-5],[0,-2,0,-1,-3,-2,-2,7,-2,-4,-3,-2,-2,-3,-2,0,-2,-2,-3,-3,-1,-2,-1,-5],[-2,0,1,0,-3,1,0,-2,10,-3,-2,-1,0,-2,-2,-1,-2,-3,2,-3,0,0,-1,-5],[-1,-3,-2,-4,-3,-2,-3,-4,-3,5,2,-3,2,0,-2,-2,-1,-2,0,3,-3,-3,-1,-5],[-1,-2,-3,-3,-2,-2,-2,-3,-2,2,5,-3,2,1,-3,-3,-1,-2,0,1,-3,-2,-1,-5],[-1,3,0,0,-3,1,1,-2,-1,-3,-3,5,-1,-3,-1,-1,-1,-2,-1,-2,0,1,-1,-5],[-1,-1,-2,-3,-2,0,-2,-2,0,2,2,-1,6,0,-2,-2,-1,-2,0,1,-2,-1,-1,-5],[-2,-2,-2,-4,-2,-4,-3,-3,-2,0,1,-3,0,8,-3,-2,-1,1,3,0,-3,-3,-1,-5],[-1,-2,-2,-1,-4,-1,0,-2,-2,-2,-3,-1,-2,-3,9,-1,-1,-3,-3,-3,-2,-1,-1,-5],[1,-1,1,0,-1,0,0,0,-1,-2,-3,-1,-2,-2,-1,4,2,-4,-2,-1,0,0,0,-5],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-1,-1,2,5,-3,-1,0,0,-1,0,-5],[-2,-2,-4,-4,-5,-2,-3,-2,-3,-2,-2,-2,-2,1,-3,-4,-3,15,3,-3,-4,-2,-2,-5],[-2,-1,-2,-2,-3,-1,-2,-3,2,0,0,-1,0,3,-3,-2,-1,3,8,-1,-2,-2,-1,-5],[0,-2,-3,-3,-1,-3,-3,-3,-3,3,1,-2,1,0,-3,-1,0,-3,-1,5,-3,-3,-1,-5],[-1,-1,4,5,-2,0,1,-1,0,-3,-3,0,-2,-3,-2,0,0,-4,-2,-3,4,2,-1,-5],[-1,0,0,1,-3,4,4,-2,0,-3,-2,1,-1,-3,-1,0,-1,-2,-2,-3,2,4,-1,-5],[0,-1,-1,-1,-2,-1,-1,-1,-1,-1,-1,-1,-1,-1,-1,0,0,-2,-1,-1,-1,-1,-1,-5],[-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,1]];BLOSUM50=[[5,-2,-1,-2,-1,-1,-1,0,-2,-1,-2,-1,-1,-3,-1,1,0,-3,-2,0,-2,-1,-1,-5],[-2,7,-1,-2,-4,1,0,-3,0,-4,-3,3,-2,-3,-3,-1,-1,-3,-1,-3,-1,0,-1,-5],[-1,-1,7,2,-2,0,0,0,1,-3,-4,0,-2,-4,-2,1,0,-4,-2,-3,4,0,-1,-5],[-2,-2,2,8,-4,0,2,-1,-1,-4,-4,-1,-4,-5,-1,0,-1,-5,-3,-4,5,1,-1,-5],[-1,-4,-2,-4,13,-3,-3,-3,-3,-2,-2,-3,-2,-2,-4,-1,-1,-5,-3,-1,-3,-3,-2,-5],[-1,1,0,0,-3,7,2,-2,1,-3,-2,2,0,-4,-1,0,-1,-1,-1,-3,0,4,-1,-5],[-1,0,0,2,-3,2,6,-3,0,-4,-3,1,-2,-3,-1,-1,-1,-3,-2,-3,1,5,-1,-5],[0,-3,0,-1,-3,-2,-3,8,-2,-4,-4,-2,-3,-4,-2,0,-2,-3,-3,-4,-1,-2,-2,-5],[-2,0,1,-1,-3,1,0,-2,10,-4,-3,0,-1,-1,-2,-1,-2,-3,2,-4,0,0,-1,-5],[-1,-4,-3,-4,-2,-3,-4,-4,-4,5,2,-3,2,0,-3,-3,-1,-3,-1,4,-4,-3,-1,-5],[-2,-3,-4,-4,-2,-2,-3,-4,-3,2,5,-3,3,1,-4,-3,-1,-2,-1,1,-4,-3,-1,-5],[-1,3,0,-1,-3,2,1,-2,0,-3,-3,6,-2,-4,-1,0,-1,-3,-2,-3,0,1,-1,-5],[-1,-2,-2,-4,-2,0,-2,-3,-1,2,3,-2,7,0,-3,-2,-1,-1,0,1,-3,-1,-1,-5],[-3,-3,-4,-5,-2,-4,-3,-4,-1,0,1,-4,0,8,-4,-3,-2,1,4,-1,-4,-4,-2,-5],[-1,-3,-2,-1,-4,-1,-1,-2,-2,-3,-4,-1,-3,-4,10,-1,-1,-4,-3,-3,-2,-1,-2,-5],[1,-1,1,0,-1,0,-1,0,-1,-3,-3,0,-2,-3,-1,5,2,-4,-2,-2,0,0,-1,-5],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-2,-1,2,5,-3,-2,0,0,-1,0,-5],[-3,-3,-4,-5,-5,-1,-3,-3,-3,-3,-2,-3,-1,1,-4,-4,-3,15,2,-3,-5,-2,-3,-5],[-2,-1,-2,-3,-3,-1,-2,-3,2,-1,-1,-2,0,4,-3,-2,-2,2,8,-1,-3,-2,-1,-5],[0,-3,-3,-4,-1,-3,-3,-4,-4,4,1,-3,1,-1,-3,-2,0,-3,-1,5,-4,-3,-1,-5],[-2,-1,4,5,-3,0,1,-1,0,-4,-4,0,-3,-4,-2,0,0,-5,-3,-4,5,2,-1,-5],[-1,0,0,1,-3,4,5,-2,0,-3,-3,1,-1,-4,-1,0,-1,-2,-2,-3,2,5,-1,-5],[-1,-1,-1,-1,-2,-1,-1,-2,-1,-1,-1,-1,-1,-2,-2,-1,0,-3,-1,-1,-1,-1,-1,-5],[-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,-5,1]];BLOSUM62=[[4,-1,-2,-2,0,-1,-1,0,-2,-1,-1,-1,-1,-2,-1,1,0,-3,-2,0,-2,-1,0,-4],[-1,5,0,-2,-3,1,0,-2,0,-3,-2,2,-1,-3,-2,-1,-1,-3,-2,-3,-1,0,-1,-4],[-2,0,6,1,-3,0,0,0,1,-3,-3,0,-2,-3,-2,1,0,-4,-2,-3,3,0,-1,-4],[-2,-2,1,6,-3,0,2,-1,-1,-3,-4,-1,-3,-3,-1,0,-1,-4,-3,-3,4,1,-1,-4],[0,-3,-3,-3,9,-3,-4,-3,-3,-1,-1,-3,-1,-2,-3,-1,-1,-2,-2,-1,-3,-3,-2,-4],[-1,1,0,0,-3,5,2,-2,0,-3,-2,1,0,-3,-1,0,-1,-2,-1,-2,0,3,-1,-4],[-1,0,0,2,-4,2,5,-2,0,-3,-3,1,-2,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-2,0,-1,-3,-2,-2,6,-2,-4,-4,-2,-3,-3,-2,0,-2,-2,-3,-3,-1,-2,-1,-4],[-2,0,1,-1,-3,0,0,-2,8,-3,-3,-1,-2,-1,-2,-1,-2,-2,2,-3,0,0,-1,-4],[-1,-3,-3,-3,-1,-3,-3,-4,-3,4,2,-3,1,0,-3,-2,-1,-3,-1,3,-3,-3,-1,-4],[-1,-2,-3,-4,-1,-2,-3,-4,-3,2,4,-2,2,0,-3,-2,-1,-2,-1,1,-4,-3,-1,-4],[-1,2,0,-1,-3,1,1,-2,-1,-3,-2,5,-1,-3,-1,0,-1,-3,-2,-2,0,1,-1,-4],[-1,-1,-2,-3,-1,0,-2,-3,-2,1,2,-1,5,0,-2,-1,-1,-1,-1,1,-3,-1,-1,-4],[-2,-3,-3,-3,-2,-3,-3,-3,-1,0,0,-3,0,6,-4,-2,-2,1,3,-1,-3,-3,-1,-4],[-1,-2,-2,-1,-3,-1,-1,-2,-2,-3,-3,-1,-2,-4,7,-1,-1,-4,-3,-2,-2,-1,-2,-4],[1,-1,1,0,-1,0,0,0,-1,-2,-2,0,-1,-2,-1,4,1,-3,-2,-2,0,0,0,-4],[0,-1,0,-1,-1,-1,-1,-2,-2,-1,-1,-1,-1,-2,-1,1,5,-2,-2,0,-1,-1,0,-4],[-3,-3,-4,-4,-2,-2,-3,-2,-2,-3,-2,-3,-1,1,-4,-3,-2,11,2,-3,-4,-3,-2,-4],[-2,-2,-2,-3,-2,-1,-2,-3,2,-1,-1,-2,-1,3,-3,-2,-2,2,7,-1,-3,-2,-1,-4],[0,-3,-3,-3,-1,-2,-2,-3,-3,3,1,-2,1,-1,-2,-2,0,-3,-1,4,-3,-2,-1,-4],[-2,-1,3,4,-3,0,1,-1,0,-3,-4,0,-3,-3,-2,0,-1,-4,-3,-3,4,1,-1,-4],[-1,0,0,1,-3,3,4,-2,0,-3,-3,1,-1,-3,-1,0,-1,-3,-2,-2,1,4,-1,-4],[0,-1,-1,-1,-2,-1,-1,-1,-1,-1,-1,-1,-1,-1,-2,0,0,-2,-1,-1,-1,-1,-1,-4],[-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,-4,1]];BLOSUM80=[[7,-3,-3,-3,-1,-2,-2,0,-3,-3,-3,-1,-2,-4,-1,2,0,-5,-4,-1,-3,-2,-1,-8],[-3,9,-1,-3,-6,1,-1,-4,0,-5,-4,3,-3,-5,-3,-2,-2,-5,-4,-4,-2,0,-2,-8],[-3,-1,9,2,-5,0,-1,-1,1,-6,-6,0,-4,-6,-4,1,0,-7,-4,-5,5,-1,-2,-8],[-3,-3,2,10,-7,-1,2,-3,-2,-7,-7,-2,-6,-6,-3,-1,-2,-8,-6,-6,6,1,-3,-8],[-1,-6,-5,-7,13,-5,-7,-6,-7,-2,-3,-6,-3,-4,-6,-2,-2,-5,-5,-2,-6,-7,-4,-8],[-2,1,0,-1,-5,9,3,-4,1,-5,-4,2,-1,-5,-3,-1,-1,-4,-3,-4,-1,5,-2,-8],[-2,-1,-1,2,-7,3,8,-4,0,-6,-6,1,-4,-6,-2,-1,-2,-6,-5,-4,1,6,-2,-8],[0,-4,-1,-3,-6,-4,-4,9,-4,-7,-7,-3,-5,-6,-5,-1,-3,-6,-6,-6,-2,-4,-3,-8],[-3,0,1,-2,-7,1,0,-4,12,-6,-5,-1,-4,-2,-4,-2,-3,-4,3,-5,-1,0,-2,-8],[-3,-5,-6,-7,-2,-5,-6,-7,-6,7,2,-5,2,-1,-5,-4,-2,-5,-3,4,-6,-6,-2,-8],[-3,-4,-6,-7,-3,-4,-6,-7,-5,2,6,-4,3,0,-5,-4,-3,-4,-2,1,-7,-5,-2,-8],[-1,3,0,-2,-6,2,1,-3,-1,-5,-4,8,-3,-5,-2,-1,-1,-6,-4,-4,-1,1,-2,-8],[-2,-3,-4,-6,-3,-1,-4,-5,-4,2,3,-3,9,0,-4,-3,-1,-3,-3,1,-5,-3,-2,-8],[-4,-5,-6,-6,-4,-5,-6,-6,-2,-1,0,-5,0,10,-6,-4,-4,0,4,-2,-6,-6,-3,-8],[-1,-3,-4,-3,-6,-3,-2,-5,-4,-5,-5,-2,-4,-6,12,-2,-3,-7,-6,-4,-4,-2,-3,-8],[2,-2,1,-1,-2,-1,-1,-1,-2,-4,-4,-1,-3,-4,-2,7,2,-6,-3,-3,0,-1,-1,-8],[0,-2,0,-2,-2,-1,-2,-3,-3,-2,-3,-1,-1,-4,-3,2,8,-5,-3,0,-1,-2,-1,-8],[-5,-5,-7,-8,-5,-4,-6,-6,-4,-5,-4,-6,-3,0,-7,-6,-5,16,3,-5,-8,-5,-5,-8],[-4,-4,-4,-6,-5,-3,-5,-6,3,-3,-2,-4,-3,4,-6,-3,-3,3,11,-3,-5,-4,-3,-8],[-1,-4,-5,-6,-2,-4,-4,-6,-5,4,1,-4,1,-2,-4,-3,0,-5,-3,7,-6,-4,-2,-8],[-3,-2,5,6,-6,-1,1,-2,-1,-6,-7,-1,-5,-6,-4,0,-1,-8,-5,-6,6,0,-3,-8],[-2,0,-1,1,-7,5,6,-4,0,-6,-5,1,-3,-6,-2,-1,-2,-5,-4,-4,0,6,-1,-8],[-1,-2,-2,-3,-4,-2,-2,-3,-2,-2,-2,-2,-2,-3,-3,-1,-1,-5,-3,-2,-3,-1,-2,-8],[-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,1]];BLOSUM90=[[5,-2,-2,-3,-1,-1,-1,0,-2,-2,-2,-1,-2,-3,-1,1,0,-4,-3,-1,-2,-1,-1,-6],[-2,6,-1,-3,-5,1,-1,-3,0,-4,-3,2,-2,-4,-3,-1,-2,-4,-3,-3,-2,0,-2,-6],[-2,-1,7,1,-4,0,-1,-1,0,-4,-4,0,-3,-4,-3,0,0,-5,-3,-4,4,-1,-2,-6],[-3,-3,1,7,-5,-1,1,-2,-2,-5,-5,-1,-4,-5,-3,-1,-2,-6,-4,-5,4,0,-2,-6],[-1,-5,-4,-5,9,-4,-6,-4,-5,-2,-2,-4,-2,-3,-4,-2,-2,-4,-4,-2,-4,-5,-3,-6],[-1,1,0,-1,-4,7,2,-3,1,-4,-3,1,0,-4,-2,-1,-1,-3,-3,-3,-1,4,-1,-6],[-1,-1,-1,1,-6,2,6,-3,-1,-4,-4,0,-3,-5,-2,-1,-1,-5,-4,-3,0,4,-2,-6],[0,-3,-1,-2,-4,-3,-3,6,-3,-5,-5,-2,-4,-5,-3,-1,-3,-4,-5,-5,-2,-3,-2,-6],[-2,0,0,-2,-5,1,-1,-3,8,-4,-4,-1,-3,-2,-3,-2,-2,-3,1,-4,-1,0,-2,-6],[-2,-4,-4,-5,-2,-4,-4,-5,-4,5,1,-4,1,-1,-4,-3,-1,-4,-2,3,-5,-4,-2,-6],[-2,-3,-4,-5,-2,-3,-4,-5,-4,1,5,-3,2,0,-4,-3,-2,-3,-2,0,-5,-4,-2,-6],[-1,2,0,-1,-4,1,0,-2,-1,-4,-3,6,-2,-4,-2,-1,-1,-5,-3,-3,-1,1,-1,-6],[-2,-2,-3,-4,-2,0,-3,-4,-3,1,2,-2,7,-1,-3,-2,-1,-2,-2,0,-4,-2,-1,-6],[-3,-4,-4,-5,-3,-4,-5,-5,-2,-1,0,-4,-1,7,-4,-3,-3,0,3,-2,-4,-4,-2,-6],[-1,-3,-3,-3,-4,-2,-2,-3,-3,-4,-4,-2,-3,-4,8,-2,-2,-5,-4,-3,-3,-2,-2,-6],[1,-1,0,-1,-2,-1,-1,-1,-2,-3,-3,-1,-2,-3,-2,5,1,-4,-3,-2,0,-1,-1,-6],[0,-2,0,-2,-2,-1,-1,-3,-2,-1,-2,-1,-1,-3,-2,1,6,-4,-2,-1,-1,-1,-1,-6],[-4,-4,-5,-6,-4,-3,-5,-4,-3,-4,-3,-5,-2,0,-5,-4,-4,11,2,-3,-6,-4,-3,-6],[-3,-3,-3,-4,-4,-3,-4,-5,1,-2,-2,-3,-2,3,-4,-3,-2,2,8,-3,-4,-3,-2,-6],[-1,-3,-4,-5,-2,-3,-3,-5,-4,3,0,-3,0,-2,-3,-2,-1,-3,-3,5,-4,-3,-2,-6],[-2,-2,4,4,-4,-1,0,-2,-1,-5,-5,-1,-4,-4,-3,0,-1,-6,-4,-4,4,0,-2,-6],[-1,0,-1,0,-5,4,4,-3,0,-4,-4,1,-2,-4,-2,-1,-1,-4,-3,-3,0,4,-1,-6],[-1,-2,-2,-2,-3,-1,-2,-2,-2,-2,-2,-1,-1,-2,-2,-1,-1,-3,-2,-2,-2,-1,-2,-6],[-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,-6,1]];NUCLEOTIDES=[[1,-1,-1,-1],[-1,1,-1,-1],[-1,-1,1,-1],[-1,-1,-1,1]];PAM30=[[6,-7,-4,-3,-6,-4,-2,-2,-7,-5,-6,-7,-5,-8,-2,0,-1,-13,-8,-2,-3,-3,-3,-17],[-7,8,-6,-10,-8,-2,-9,-9,-2,-5,-8,0,-4,-9,-4,-3,-6,-2,-10,-8,-7,-4,-6,-17],[-4,-6,8,2,-11,-3,-2,-3,0,-5,-7,-1,-9,-9,-6,0,-2,-8,-4,-8,6,-3,-3,-17],[-3,-10,2,8,-14,-2,2,-3,-4,-7,-12,-4,-11,-15,-8,-4,-5,-15,-11,-8,6,1,-5,-17],[-6,-8,-11,-14,10,-14,-14,-9,-7,-6,-15,-14,-13,-13,-8,-3,-8,-15,-4,-6,-12,-14,-9,-17],[-4,-2,-3,-2,-14,8,1,-7,1,-8,-5,-3,-4,-13,-3,-5,-5,-13,-12,-7,-3,6,-5,-17],[-2,-9,-2,2,-14,1,8,-4,-5,-5,-9,-4,-7,-14,-5,-4,-6,-17,-8,-6,1,6,-5,-17],[-2,-9,-3,-3,-9,-7,-4,6,-9,-11,-10,-7,-8,-9,-6,-2,-6,-15,-14,-5,-3,-5,-5,-17],[-7,-2,0,-4,-7,1,-5,-9,9,-9,-6,-6,-10,-6,-4,-6,-7,-7,-3,-6,-1,-1,-5,-17],[-5,-5,-5,-7,-6,-8,-5,-11,-9,8,-1,-6,-1,-2,-8,-7,-2,-14,-6,2,-6,-6,-5,-17],[-6,-8,-7,-12,-15,-5,-9,-10,-6,-1,7,-8,1,-3,-7,-8,-7,-6,-7,-2,-9,-7,-6,-17],[-7,0,-1,-4,-14,-3,-4,-7,-6,-6,-8,7,-2,-14,-6,-4,-3,-12,-9,-9,-2,-4,-5,-17],[-5,-4,-9,-11,-13,-4,-7,-8,-10,-1,1,-2,11,-4,-8,-5,-4,-13,-11,-1,-10,-5,-5,-17],[-8,-9,-9,-15,-13,-13,-14,-9,-6,-2,-3,-14,-4,9,-10,-6,-9,-4,2,-8,-10,-13,-8,-17],[-2,-4,-6,-8,-8,-3,-5,-6,-4,-8,-7,-6,-8,-10,8,-2,-4,-14,-13,-6,-7,-4,-5,-17],[0,-3,0,-4,-3,-5,-4,-2,-6,-7,-8,-4,-5,-6,-2,6,0,-5,-7,-6,-1,-5,-3,-17],[-1,-6,-2,-5,-8,-5,-6,-6,-7,-2,-7,-3,-4,-9,-4,0,7,-13,-6,-3,-3,-6,-4,-17],[-13,-2,-8,-15,-15,-13,-17,-15,-7,-14,-6,-12,-13,-4,-14,-5,-13,13,-5,-15,-10,-14,-11,-17],[-8,-10,-4,-11,-4,-12,-8,-14,-3,-6,-7,-9,-11,2,-13,-7,-6,-5,10,-7,-6,-9,-7,-17],[-2,-8,-8,-8,-6,-7,-6,-5,-6,2,-2,-9,-1,-8,-6,-6,-3,-15,-7,7,-8,-6,-5,-17],[-3,-7,6,6,-12,-3,1,-3,-1,-6,-9,-2,-10,-10,-7,-1,-3,-10,-6,-8,6,0,-5,-17],[-3,-4,-3,1,-14,6,6,-5,-1,-6,-7,-4,-5,-13,-4,-5,-6,-14,-9,-6,0,6,-5,-17],[-3,-6,-3,-5,-9,-5,-5,-5,-5,-5,-6,-5,-5,-8,-5,-3,-4,-11,-7,-5,-5,-5,-5,-17],[-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,-17,1]];PAM70=[[5,-4,-2,-1,-4,-2,-1,0,-4,-2,-4,-4,-3,-6,0,1,1,-9,-5,-1,-1,-1,-2,-11],[-4,8,-3,-6,-5,0,-5,-6,0,-3,-6,2,-2,-7,-2,-1,-4,0,-7,-5,-4,-2,-3,-11],[-2,-3,6,3,-7,-1,0,-1,1,-3,-5,0,-5,-6,-3,1,0,-6,-3,-5,5,-1,-2,-11],[-1,-6,3,6,-9,0,3,-1,-1,-5,-8,-2,-7,-10,-4,-1,-2,-10,-7,-5,5,2,-3,-11],[-4,-5,-7,-9,9,-9,-9,-6,-5,-4,-10,-9,-9,-8,-5,-1,-5,-11,-2,-4,-8,-9,-6,-11],[-2,0,-1,0,-9,7,2,-4,2,-5,-3,-1,-2,-9,-1,-3,-3,-8,-8,-4,-1,5,-2,-11],[-1,-5,0,3,-9,2,6,-2,-2,-4,-6,-2,-4,-9,-3,-2,-3,-11,-6,-4,2,5,-3,-11],[0,-6,-1,-1,-6,-4,-2,6,-6,-6,-7,-5,-6,-7,-3,0,-3,-10,-9,-3,-1,-3,-3,-11],[-4,0,1,-1,-5,2,-2,-6,8,-6,-4,-3,-6,-4,-2,-3,-4,-5,-1,-4,0,1,-3,-11],[-2,-3,-3,-5,-4,-5,-4,-6,-6,7,1,-4,1,0,-5,-4,-1,-9,-4,3,-4,-4,-3,-11],[-4,-6,-5,-8,-10,-3,-6,-7,-4,1,6,-5,2,-1,-5,-6,-4,-4,-4,0,-6,-4,-4,-11],[-4,2,0,-2,-9,-1,-2,-5,-3,-4,-5,6,0,-9,-4,-2,-1,-7,-7,-6,-1,-2,-3,-11],[-3,-2,-5,-7,-9,-2,-4,-6,-6,1,2,0,10,-2,-5,-3,-2,-8,-7,0,-6,-3,-3,-11],[-6,-7,-6,-10,-8,-9,-9,-7,-4,0,-1,-9,-2,8,-7,-4,-6,-2,4,-5,-7,-9,-5,-11],[0,-2,-3,-4,-5,-1,-3,-3,-2,-5,-5,-4,-5,-7,7,0,-2,-9,-9,-3,-4,-2,-3,-11],[1,-1,1,-1,-1,-3,-2,0,-3,-4,-6,-2,-3,-4,0,5,2,-3,-5,-3,0,-2,-1,-11],[1,-4,0,-2,-5,-3,-3,-3,-4,-1,-4,-1,-2,-6,-2,2,6,-8,-4,-1,-1,-3,-2,-11],[-9,0,-6,-10,-11,-8,-11,-10,-5,-9,-4,-7,-8,-2,-9,-3,-8,13,-3,-10,-7,-10,-7,-11],[-5,-7,-3,-7,-2,-8,-6,-9,-1,-4,-4,-7,-7,4,-9,-5,-4,-3,9,-5,-4,-7,-5,-11],[-1,-5,-5,-5,-4,-4,-4,-3,-4,3,0,-6,0,-5,-3,-3,-1,-10,-5,6,-5,-4,-2,-11],[-1,-4,5,5,-8,-1,2,-1,0,-4,-6,-1,-6,-7,-4,0,-1,-7,-4,-5,5,1,-2,-11],[-1,-2,-1,2,-9,5,5,-3,1,-4,-4,-2,-3,-9,-2,-2,-3,-10,-7,-4,1,5,-3,-11],[-2,-3,-2,-3,-6,-2,-3,-3,-3,-3,-4,-3,-3,-5,-3,-1,-2,-7,-5,-2,-2,-3,-3,-11],[-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,-11,1]];PAM250=[[2,-2,0,0,-2,0,0,1,-1,-1,-2,-1,-1,-3,1,1,1,-6,-3,0,0,0,0,-8],[-2,6,0,-1,-4,1,-1,-3,2,-2,-3,3,0,-4,0,0,-1,2,-4,-2,-1,0,-1,-8],[0,0,2,2,-4,1,1,0,2,-2,-3,1,-2,-3,0,1,0,-4,-2,-2,2,1,0,-8],[0,-1,2,4,-5,2,3,1,1,-2,-4,0,-3,-6,-1,0,0,-7,-4,-2,3,3,-1,-8],[-2,-4,-4,-5,12,-5,-5,-3,-3,-2,-6,-5,-5,-4,-3,0,-2,-8,0,-2,-4,-5,-3,-8],[0,1,1,2,-5,4,2,-1,3,-2,-2,1,-1,-5,0,-1,-1,-5,-4,-2,1,3,-1,-8],[0,-1,1,3,-5,2,4,0,1,-2,-3,0,-2,-5,-1,0,0,-7,-4,-2,3,3,-1,-8],[1,-3,0,1,-3,-1,0,5,-2,-3,-4,-2,-3,-5,0,1,0,-7,-5,-1,0,0,-1,-8],[-1,2,2,1,-3,3,1,-2,6,-2,-2,0,-2,-2,0,-1,-1,-3,0,-2,1,2,-1,-8],[-1,-2,-2,-2,-2,-2,-2,-3,-2,5,2,-2,2,1,-2,-1,0,-5,-1,4,-2,-2,-1,-8],[-2,-3,-3,-4,-6,-2,-3,-4,-2,2,6,-3,4,2,-3,-3,-2,-2,-1,2,-3,-3,-1,-8],[-1,3,1,0,-5,1,0,-2,0,-2,-3,5,0,-5,-1,0,0,-3,-4,-2,1,0,-1,-8],[-1,0,-2,-3,-5,-1,-2,-3,-2,2,4,0,6,0,-2,-2,-1,-4,-2,2,-2,-2,-1,-8],[-3,-4,-3,-6,-4,-5,-5,-5,-2,1,2,-5,0,9,-5,-3,-3,0,7,-1,-4,-5,-2,-8],[1,0,0,-1,-3,0,-1,0,0,-2,-3,-1,-2,-5,6,1,0,-6,-5,-1,-1,0,-1,-8],[1,0,1,0,0,-1,0,1,-1,-1,-3,0,-2,-3,1,2,1,-2,-3,-1,0,0,0,-8],[1,-1,0,0,-2,-1,0,0,-1,0,-2,0,-1,-3,0,1,3,-5,-3,0,0,-1,0,-8],[-6,2,-4,-7,-8,-5,-7,-7,-3,-5,-2,-3,-4,0,-6,-2,-5,17,0,-6,-5,-6,-4,-8],[-3,-4,-2,-4,0,-4,-4,-5,0,-1,-1,-4,-2,7,-5,-3,-3,0,10,-2,-3,-4,-2,-8],[0,-2,-2,-2,-2,-2,-2,-1,-2,4,2,-2,2,-1,-1,-1,0,-6,-2,4,-2,-2,-1,-8],[0,-1,2,3,-4,1,3,0,1,-2,-3,1,-2,-4,-1,0,0,-5,-3,-2,3,2,-1,-8],[0,0,1,3,-5,3,3,0,2,-2,-3,0,-2,-5,0,0,-1,-6,-4,-2,2,3,-1,-8],[0,-1,0,-1,-3,-1,-1,-1,-1,-1,-1,-1,-1,-2,-1,0,0,-4,-2,-1,-1,-1,-1,-8],[-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,-8,1]];SCHNEIDER=[[11.6,-2.7,9.7,-1.7,-2.7,-6.4,-3.9,-5.6,5.1,-5,3.6,-4.2,-6.3,-13,-7.1,-11.5,.4,-6,-1.9,-5.3,-8.5,-11.2,-8.9,-10.8,2.1,0,1.4,.2,-10.2,-13.5,-13,-12.5,-2.6,-8.5,-5,-8.1,-6.3,-9.9,-7.5,-9,-7.1,-10.2,-8.2,-9.2,-8.2,-12.5,-11.1,-11.4,-50,-14.8,-50,-13.8,-7.3,-10.1,-8.4,-9.1,-50,-13,-13.5,-12.4,-10.7,-18.1,-11.8,-17.2],[-2.7,13,-3.3,10.9,-3.5,-.4,-3.3,-1.8,-5.4,4.6,-5.5,3,-10.2,-7.9,-9.9,-9.6,-5,.5,-5.5,-1,-10.3,-8.1,-9.4,-9.6,-8.1,-5,-7.3,-6.3,-13.4,-11.3,-14.4,-12.9,-6.3,.8,-6.4,-1.1,-7.4,-5,-6.2,-6.5,-5.6,-1.6,-4.7,-3,-10.8,-8.7,-11.9,-10,-50,-6.2,-50,-7.5,-6.3,-4.3,-6.2,-5.4,-50,-7,-16.3,-8.2,-13.2,-12.3,-13.1,-13.3],[9.7,-3.3,11.6,-2.8,-4.5,-6.7,-3.1,-6.9,3.3,-5.5,4.8,-5.1,-8.9,-13.2,-5.7,-12.6,-1.5,-6.1,-.6,-6.1,-10,-11.8,-8.6,-11.9,1.2,.5,2.2,.1,-11.8,-14,-11.9,-13.4,-4.9,-9.1,-3.4,-8.9,-8,-10,-7.2,-10,-9.1,-10.2,-7.1,-9.9,-10.1,-13,-10.6,-12.7,-50,-14.9,-50,-14.4,-8.9,-10.8,-8.9,-10.4,-50,-13.1,-11.8,-13,-12.4,-19.4,-11.5,-17.8],[-1.7,10.9,-2.8,12.9,-2.7,-2.2,-2.8,.2,-4.8,2.9,-5.2,5.2,-9.1,-9.5,-9,-7,-4,-1,-5,1,-9,-8.8,-8.9,-7.7,-7,-6.8,-7.1,-4.3,-12.4,-12.9,-13.9,-10,-4.9,-.7,-5.6,1.4,-6,-6.5,-6.2,-4.8,-5.1,-3.2,-5,-1.2,-9.8,-9.9,-11.3,-8.2,-50,-7.6,-50,-5.1,-5.5,-5.8,-5.9,-4.2,-50,-8.3,-15.5,-5.9,-11.6,-14.2,-12,-11.6],[-2.7,-3.5,-4.5,-2.7,11.7,9,10.6,9.6,-3.2,-.7,-5.1,-.4,.7,-4.6,-.4,-3.6,-4.8,-8.9,-6.5,-7.8,-1.4,-4.1,-2.9,-3.3,-8,-9.1,-8,-8.2,-6,-9.3,-7.7,-8.5,-6.4,-10.1,-7.5,-8.6,2.8,-.7,.9,.1,-5.9,-7.3,-6.5,-6.5,-.4,-3.9,-2.6,-3.1,-50,-14.6,-50,-12.6,2.9,.1,1.8,1,-50,-9.2,-13.6,-7.7,-4.8,-12.2,-6.2,-11],[-6.4,-.4,-6.7,-2.2,9,12.3,9.8,9.6,-7.1,2.4,-7.2,.3,-2.9,-1.2,-3,-3.3,-7.6,-6.7,-8.1,-7.9,-4.9,-1.9,-4.5,-3.8,-9.5,-7.8,-9.3,-8.9,-9.4,-7.1,-9,-9,-9.4,-7.5,-9.3,-9.2,-.7,2.6,.2,-.1,-8,-4.6,-7.7,-6.1,-3.6,-1,-4.1,-3.1,-50,-11.6,-50,-11.6,.2,2.3,.4,.5,-50,-6.5,-15.3,-7.8,-8.4,-9.5,-8.3,-11.1],[-3.9,-3.3,-3.1,-2.8,10.6,9.8,12.2,9.8,-4.9,.1,-3.6,-.2,-1.7,-4.1,.9,-3.5,-5.9,-8.9,-5.6,-8.5,-3.9,-3.9,-2.2,-4.5,-7.3,-7.5,-6.4,-8.5,-7.1,-8.2,-6.7,-7.8,-7.9,-9.1,-7.1,-9.4,.9,-.2,2.5,-.3,-6.9,-6.5,-5.5,-6.8,-1.7,-3.4,-1.7,-2.8,-50,-13,-50,-11.5,1.5,.7,2.7,.6,-50,-8.9,-12.1,-7.4,-6.1,-11.5,-5.4,-10.4],[-5.6,-1.8,-6.9,.2,9.6,9.6,9.8,11.6,-6.6,.9,-7.2,2.5,-2.3,-3.4,-2.3,-.6,-6.5,-8.2,-8,-6.3,-3.7,-3.5,-3.9,-1.6,-9.9,-8.9,-9.6,-7,-8.6,-8.9,-8.8,-6.8,-8.6,-8.2,-8.8,-6.8,.3,.1,.2,2.4,-7.4,-6.2,-6.9,-4.4,-2.9,-2.9,-3.5,-.9,-50,-12.2,-50,-10.1,1.2,.6,1.2,2.4,-50,-7.6,-16.1,-5.8,-7.2,-10.8,-7.4,-9],[5.1,-5.4,3.3,-4.8,-3.2,-7.1,-4.9,-6.6,13.3,-2.8,11.2,-1.9,-5.7,-12.5,-7.2,-11.6,-.7,-4.8,-3.1,-4.3,-10,-11.6,-8.8,-11.7,10.5,7.7,9.1,8.5,-9.8,-12.7,-11.7,-11.8,-6.3,-11.4,-8.8,-11,-7.5,-10.3,-8.3,-9.9,-1.9,-6.7,-4.1,-6.4,-7.9,-12.5,-11.4,-11.7,-50,-14,-50,-13.2,-8.5,-10.4,-9.1,-9.6,-50,-9.8,-7.7,-8.8,-10.3,-17.9,-11.8,-16],[-5,4.6,-5.5,2.9,-.7,2.4,.1,.9,-2.8,12.8,-2.6,11,-8.4,-6.3,-8.3,-7.7,-6.1,-2.9,-6.5,-4.2,-8.5,-5.9,-7.5,-7.7,-5.5,-2.4,-5.5,-4.1,-12.9,-10.3,-12.7,-11.3,-7.4,-3.1,-7.4,-4.9,-4.4,-1.8,-3.5,-3.5,-1.6,3,-.8,.9,-8.4,-6.3,-9.6,-7.3,-50,-9,-50,-9.7,-2.3,-.2,-1.2,-1.5,-50,-.7,-13.3,-2,-11.8,-11.9,-12.3,-12.7],[3.6,-5.5,4.8,-5.2,-5.1,-7.2,-3.6,-7.2,11.2,-2.6,13.4,-2.1,-7.7,-12.5,-5.3,-11.9,-2.2,-4.4,-1.9,-4.8,-10.2,-11.5,-8.1,-12,9.3,8.2,10,8,-10.8,-11.9,-10.7,-12.4,-8.2,-11.8,-6.9,-11.5,-8.4,-9.9,-7.1,-10.6,-4.7,-6.8,-1.2,-7,-9.8,-11.6,-9.6,-12.1,-50,-14.1,-50,-12.7,-10,-10.8,-8.8,-10.5,-50,-9.2,-4.2,-9.3,-11,-18.2,-11.1,-16.1],[-4.2,3,-5.1,5.2,-.4,.3,-.2,2.5,-1.9,11,-2.1,13.2,-7.6,-8.5,-8,-5.3,-5.6,-4.5,-6.8,-2.4,-7.8,-7.9,-7.9,-6.2,-5.7,-5.1,-5.4,-2.1,-12.4,-12.3,-13.1,-10.1,-6.6,-4.4,-6.9,-2.6,-3.6,-3.8,-3.7,-2,-1.4,.8,-.9,3,-8.2,-8.1,-9.2,-5.8,-50,-10.1,-50,-7.4,-1.7,-2,-1.5,-.5,-50,-2.1,-12.6,-.4,-11.6,-13.9,-11.4,-11.1],[-6.3,-10.2,-8.9,-9.1,.7,-2.9,-1.7,-2.3,-5.7,-8.4,-7.7,-7.6,13.2,9.6,3.5,9.7,-8.7,-12.4,-10.7,-10.7,-7.8,-10.2,-8.8,-9.6,-9.5,-11.9,-10.9,-10.5,2.3,-.4,-.2,-.3,-9.7,-15.5,-11.4,-13.7,-3,-6.4,-4.1,-5.4,-9.6,-11.9,-10.5,-11.8,6.2,3.3,3.7,3.6,-50,-13.6,-50,-11.9,-5.6,-8.8,-7.2,-8.9,-50,-12.4,-14.1,-11.6,2.8,-6.4,.5,-5.2],[-13,-7.9,-13.2,-9.5,-4.6,-1.2,-4.1,-3.4,-12.5,-6.3,-12.5,-8.5,9.6,12.7,.2,10.5,-12.4,-11.6,-13.2,-12,-12.4,-10.1,-11.6,-12,-15.1,-13.1,-14.3,-13.4,-1.4,1.4,-1.6,-.5,-14.9,-14.3,-15.2,-16.8,-7.7,-4.7,-6.3,-6.6,-14.6,-10.8,-12.8,-13,2.3,6,2.5,3.6,-50,-11.2,-50,-11.9,-10.5,-9.2,-10.5,-10.5,-50,-10.3,-16.2,-11.3,-1.7,-3.7,-2.5,-5.4],[-7.1,-9.9,-5.7,-9,-.4,-3,.9,-2.3,-7.2,-8.3,-5.3,-8,3.5,.2,14.3,1,-7.3,-11.2,-6.9,-9.7,-8.5,-10.2,-7.7,-9.8,-10,-10.4,-8.4,-10.2,1,-.6,1.7,-.5,-11.1,-14.8,-9.7,-14.5,-3.7,-5.8,-3.1,-5.6,-10.4,-11.5,-8.2,-11.1,.6,-1.6,1.6,-1.1,-50,-12.4,-50,-11.5,-5.5,-8,-4.9,-7.2,-50,-12.4,-10.3,-11.6,.7,-6.8,2.4,-6],[-11.5,-9.6,-12.6,-7,-3.6,-3.3,-3.5,-.6,-11.6,-7.7,-11.9,-5.3,9.7,10.5,1,12.6,-12,-12.2,-12.5,-9.7,-11.1,-11.2,-11.9,-9.4,-12.9,-14.3,-14,-11.9,-1,-.4,-1.6,1.2,-13.9,-15.4,-13.7,-12.6,-6.2,-6.7,-6.3,-4.4,-13,-12.2,-13,-10.4,2.9,3.8,2.5,5.8,-50,-12.5,-50,-10.2,-9.6,-9.7,-9.6,-8.3,-50,-11.6,-15.4,-9.4,-1.1,-5.4,-1.6,-3.3],[.4,-5,-1.5,-4,-4.8,-7.6,-5.9,-6.5,-.7,-6.1,-2.2,-5.6,-8.7,-12.4,-7.3,-12,12.8,2.3,10.2,3,0,-3.4,-.7,-3.2,2.5,-.8,.9,.2,-3,-7.2,-5.7,-6.1,-.2,-6.6,-1.8,-6,-5.3,-8.2,-5.7,-7.6,-6.7,-9.6,-7.5,-9.3,-7.1,-10.5,-9.6,-9.4,-50,-8.1,-50,-7.2,-4.3,-6.8,-5.7,-6.3,-50,-9.5,-9.6,-8.9,-6.2,-12.8,-6.8,-11.8],[-6,.5,-6.1,-1,-8.9,-6.7,-8.9,-8.2,-4.8,-2.9,-4.4,-4.5,-12.4,-11.6,-11.2,-12.2,2.3,14.6,1.9,12.9,-5.5,-2.6,-4.1,-4.7,-1.2,3,-1.1,1.6,-8,-4.7,-8.7,-6,-8.2,-4.7,-7.8,-6.7,-10,-8.3,-8.9,-9.9,-10.8,-7.1,-10,-9.2,-11.6,-10.1,-12.3,-11.9,-50,2.2,-50,.9,-7.9,-5.9,-7.4,-6.9,-50,-4.6,-11.6,-5.6,-9.7,-5.9,-9.9,-7.3],[-1.9,-5.5,-.6,-5,-6.5,-8.1,-5.6,-8,-3.1,-6.5,-1.9,-6.8,-10.7,-13.2,-6.9,-12.5,10.2,1.9,11.9,2.1,-2.3,-4.1,-.5,-4.6,-.1,-.9,2.4,-.8,-5.1,-6.9,-4.8,-6.7,-2.3,-7.1,-.8,-7.2,-7.2,-8,-5.6,-8.5,-9.4,-9.7,-7.2,-9.8,-9.2,-11.1,-9.5,-10.7,-50,-8.7,-50,-8.6,-6.1,-7.5,-5.5,-7.7,-50,-10.4,-7.7,-10,-7.3,-13.6,-6.4,-13.3],[-5.3,-1,-6.1,1,-7.8,-7.9,-8.5,-6.3,-4.3,-4.2,-4.8,-2.4,-10.7,-12,-9.7,-9.7,3,12.9,2.1,14.7,-4.9,-3.8,-4,-2.4,-1,.8,-1.3,3.4,-7.6,-5.7,-8.1,-3.5,-6.8,-5.8,-7.2,-4.2,-8.9,-10.2,-8.4,-8.2,-9.9,-8.4,-9.7,-6.4,-11.1,-11.1,-11.8,-10,-50,.4,-50,2.6,-7.2,-7,-7.4,-5.1,-50,-5.7,-9.8,-3.2,-8.4,-7.4,-8.9,-5.9],[-8.5,-10.3,-10,-9,-1.4,-4.9,-3.9,-3.7,-10,-8.5,-10.2,-7.8,-7.8,-12.4,-8.5,-11.1,0,-5.5,-2.3,-4.9,12.6,10,11.1,10.5,-6,-8.3,-6.9,-7.5,-2.2,-7.4,-5.3,-5.9,-8.9,-12.5,-9.4,-11.6,-.7,-3.9,-2.3,-3,-9.1,-9.8,-9.2,-9.5,-5.6,-9,-8,-8.5,-50,-15.3,-50,-14.1,2.3,-1.4,.3,-.5,-50,-13.6,-14.3,-11.5,-5.3,-13.7,-6.1,-12.7],[-11.2,-8.1,-11.8,-8.8,-4.1,-1.9,-3.9,-3.5,-11.6,-5.9,-11.5,-7.9,-10.2,-10.1,-10.2,-11.2,-3.4,-2.6,-4.1,-3.8,10,13.1,10.7,10.6,-8.1,-5.2,-8,-6.7,-6.1,-3.7,-7.5,-5.6,-11.1,-10.3,-10.6,-11.9,-3.2,-1,-2.2,-2.8,-10.5,-8.1,-9.4,-9.5,-8.3,-6.9,-9.4,-8.8,-50,-11.3,-50,-12.8,-.6,2.2,-.3,.1,-50,-10.1,-17.5,-11.1,-8.6,-9.9,-8.6,-11.9],[-8.9,-9.4,-8.6,-8.9,-2.9,-4.5,-2.2,-3.9,-8.8,-7.5,-8.1,-7.9,-8.8,-11.6,-7.7,-11.9,-.7,-4.1,-.5,-4,11.1,10.7,13.2,10.4,-5.7,-5.8,-3.5,-6.1,-3.6,-6.5,-3.3,-5.5,-9.4,-11,-8.7,-11.2,-1.8,-2.7,.7,-3,-9.1,-8.2,-7.3,-9.4,-7.2,-8.2,-7.2,-8.2,-50,-13.2,-50,-13.3,.5,-.9,1.8,-.6,-50,-11.4,-11.1,-10.5,-6.1,-12.9,-5,-11.9],[-10.8,-9.6,-11.9,-7.7,-3.3,-3.8,-4.5,-1.6,-11.7,-7.7,-12,-6.2,-9.6,-12,-9.8,-9.4,-3.2,-4.7,-4.6,-2.4,10.5,10.6,10.4,12.6,-8.2,-7.9,-9,-4.7,-6.1,-6,-7.5,-2.9,-10.9,-12.2,-11.2,-10.9,-2.4,-2.9,-2.7,-.9,-10.4,-9.7,-10.2,-8,-8.4,-9.1,-9.3,-6.5,-50,-13.3,-50,-11,-0,-.4,-.4,2.3,-50,-10.9,-17.2,-8.3,-8.3,-12.7,-7.8,-9.3],[2.1,-8.1,1.2,-7,-8,-9.5,-7.3,-9.9,10.5,-5.5,9.3,-5.7,-9.5,-15.1,-10,-12.9,2.5,-1.2,-.1,-1,-6,-8.1,-5.7,-8.2,13.8,11.3,11.8,12.1,-6,-9.1,-9,-9.5,-8.9,-13.4,-10,-13.1,-9.9,-11.7,-9.8,-12.8,-5.9,-9.4,-6.5,-8.1,-10.7,-14,-13.3,-13.9,-50,-11.9,-50,-9.7,-8.9,-10.8,-9,-11.1,-50,-6.5,-5.3,-6.3,-10.5,-16.2,-10.4,-15.2],[0,-5,.5,-6.8,-9.1,-7.8,-7.5,-8.9,7.7,-2.4,8.2,-5.1,-11.9,-13.1,-10.4,-14.3,-.8,3,-.9,.8,-8.3,-5.2,-5.8,-7.9,11.3,15,11.2,12.8,-9.7,-5.3,-9.2,-7.8,-11.7,-10.6,-10.1,-12.2,-11.7,-8.8,-8.9,-11.8,-9.3,-5,-8,-8.2,-13.6,-11.4,-12.8,-13,-50,-7.2,-50,-8.4,-11,-7.7,-8.7,-10.2,-50,-1.5,-7.1,-4.9,-11.2,-11.6,-11.6,-15],[1.4,-7.3,2.2,-7.1,-8,-9.3,-6.4,-9.6,9.1,-5.5,10,-5.4,-10.9,-14.3,-8.4,-14,.9,-1.1,2.4,-1.3,-6.9,-8,-3.5,-9,11.8,11.2,13.4,11.4,-7.3,-8.8,-6.5,-8.5,-10,-12.5,-7.8,-12.5,-9.6,-11,-7.1,-10.7,-7.9,-8,-4.3,-9.4,-11.4,-12.3,-10.9,-12.9,-50,-11.8,-50,-11.2,-9.4,-9.8,-7.3,-10.5,-50,-6.2,-2.2,-6.7,-9.8,-15.2,-8.5,-14.9],[.2,-6.3,.1,-4.3,-8.2,-8.9,-8.5,-7,8.5,-4.1,8,-2.1,-10.5,-13.4,-10.2,-11.9,.2,1.6,-.8,3.4,-7.5,-6.7,-6.1,-4.7,12.1,12.8,11.4,14.7,-8.7,-7.4,-9.4,-5.3,-9.9,-11.8,-10.5,-10.3,-9.9,-10.1,-9.3,-9.3,-8.1,-7.2,-8,-5.2,-12,-12.1,-12.6,-10.9,-50,-7.9,-50,-5.3,-9.3,-8.8,-8.9,-7,-50,-3.6,-7.1,-1.2,-10.2,-12.7,-9.9,-11],[-10.2,-13.4,-11.8,-12.4,-6,-9.4,-7.1,-8.6,-9.8,-12.9,-10.8,-12.4,2.3,-1.4,1,-1,-3,-8,-5.1,-7.6,-2.2,-6.1,-3.6,-6.1,-6,-9.7,-7.3,-8.7,11.2,7.9,8.9,8.1,-12.1,-17.4,-13.2,-16.8,-6.3,-9.5,-7.5,-8.8,-12.7,-15.2,-13.1,-14.2,0,-3.1,-1.8,-3.1,-50,-10.7,-50,-9.3,-4.6,-8.9,-5.9,-8.3,-50,-12.8,-9.6,-10.6,9.5,-3.2,8.2,-2.8],[-13.5,-11.3,-14,-12.9,-9.3,-7.1,-8.2,-8.9,-12.7,-10.3,-11.9,-12.3,-.4,1.4,-.6,-.4,-7.2,-4.7,-6.9,-5.7,-7.4,-3.7,-6.5,-6,-9.1,-5.3,-8.8,-7.4,7.9,11.9,7.8,9.3,-15.2,-15.1,-14.6,-17.2,-9.7,-7.3,-8.2,-9.2,-15,-12.8,-14.1,-14.9,-2.8,.2,-2.9,-2.3,-50,-7.4,-50,-8.7,-9.4,-7.3,-9.4,-9.4,-50,-8,-11.9,-9.7,6.5,.5,6.4,-1.8],[-13,-14.4,-11.9,-13.9,-7.7,-9,-6.7,-8.8,-11.7,-12.7,-10.7,-13.1,-.2,-1.6,1.7,-1.6,-5.7,-8.7,-4.8,-8.1,-5.3,-7.5,-3.3,-7.5,-9,-9.2,-6.5,-9.4,8.9,7.8,10.1,7.8,-14.3,-17.7,-13,-17.8,-8,-9.4,-6.2,-9.2,-15.1,-14.9,-12.2,-14.9,-1.8,-3.2,-.8,-3.2,-50,-10.8,-50,-9.9,-7.3,-9.6,-6.4,-9.4,-50,-12.3,-8.7,-11.3,7.6,-3.3,8.7,-2.9],[-12.5,-12.9,-13.4,-10,-8.5,-9,-7.8,-6.8,-11.8,-11.3,-12.4,-10.1,-.3,-.5,-.5,1.2,-6.1,-6,-6.7,-3.5,-5.9,-5.6,-5.5,-2.9,-9.5,-7.8,-8.5,-5.3,8.1,9.3,7.8,11.8,-14.4,-15.7,-14.5,-14.6,-8.4,-8.7,-7.9,-7.1,-14.3,-13.8,-13.8,-12.3,-2.4,-2.2,-2.9,-.2,-50,-8.9,-50,-7.1,-8.1,-9.1,-8.7,-6.6,-50,-9.7,-11.4,-8,6.8,-1.8,6.9,.4],[-2.6,-6.3,-4.9,-4.9,-6.4,-9.4,-7.9,-8.6,-6.3,-7.4,-8.2,-6.6,-9.7,-14.9,-11.1,-13.9,-.2,-8.2,-2.3,-6.8,-8.9,-11.1,-9.4,-10.9,-8.9,-11.7,-10,-9.9,-12.1,-15.2,-14.3,-14.4,11.1,2.9,9.2,3.5,-3,-7,-4.3,-6.2,-2.2,-6.6,-3.7,-5.7,-6,-10.4,-8.6,-9.5,-50,-15.5,-50,-13.9,-7.8,-10.5,-8.7,-9.6,-50,-16.5,-17.1,-14.8,-12.1,-18.9,-12.4,-17.4],[-8.5,.8,-9.1,-.7,-10.1,-7.5,-9.1,-8.2,-11.4,-3.1,-11.8,-4.4,-15.5,-14.3,-14.8,-15.4,-6.6,-4.7,-7.1,-5.8,-12.5,-10.3,-11,-12.2,-13.4,-10.6,-12.5,-11.8,-17.4,-15.1,-17.7,-15.7,2.9,12.5,3.1,10.3,-7.7,-5.2,-6.2,-7.3,-5.4,-1.7,-5.4,-3.7,-11.6,-9.1,-13,-10.8,-50,-10.3,-50,-11.2,-9.8,-8.3,-9.1,-9.7,-50,-12.7,-20.6,-13.1,-16,-16.6,-17,-18.4],[-5,-6.4,-3.4,-5.6,-7.5,-9.3,-7.1,-8.8,-8.8,-7.4,-6.9,-6.9,-11.4,-15.2,-9.7,-13.7,-1.8,-7.8,-.8,-7.2,-9.4,-10.6,-8.7,-11.2,-10,-10.1,-7.8,-10.5,-13.2,-14.6,-13,-14.5,9.2,3.1,10.8,3,-4.5,-6.7,-2.7,-6.7,-5,-6.8,-2.5,-6.7,-7.5,-10.4,-7.4,-10.2,-50,-15.5,-50,-14.2,-8.9,-10.2,-8.5,-10,-50,-15.6,-15.3,-15.5,-13,-18.8,-12.6,-18.3],[-8.1,-1.1,-8.9,1.4,-8.6,-9.2,-9.4,-6.8,-11,-4.9,-11.5,-2.6,-13.7,-16.8,-14.5,-12.6,-6,-6.7,-7.2,-4.2,-11.6,-11.9,-11.2,-10.9,-13.1,-12.2,-12.5,-10.3,-16.8,-17.2,-17.8,-14.6,3.5,10.3,3,12.4,-6.9,-7.5,-6.8,-4.9,-5.4,-4.2,-5.4,-1.3,-10.8,-11.5,-12.4,-8.2,-50,-12.5,-50,-8.9,-9.2,-10,-9.4,-7.9,-50,-14.3,-19.9,-11.4,-16.2,-19.2,-15.8,-15.9],[-6.3,-7.4,-8,-6,2.8,-.7,.9,.3,-7.5,-4.4,-8.4,-3.6,-3,-7.7,-3.7,-6.2,-5.3,-10,-7.2,-8.9,-.7,-3.2,-1.8,-2.4,-9.9,-11.7,-9.6,-9.9,-6.3,-9.7,-8,-8.4,-3,-7.7,-4.5,-6.9,11.3,8.2,9.4,9.1,-1,-3.3,-1.8,-2.4,1.5,-2.1,-.4,-1.1,-50,-14.5,-50,-12.9,2.8,-0,1.4,.7,-50,-8.7,-14.1,-7.5,-5.2,-12.5,-6.5,-10.7],[-9.9,-5,-10,-6.5,-.7,2.6,-.2,.1,-10.3,-1.8,-9.9,-3.8,-6.4,-4.7,-5.8,-6.7,-8.2,-8.3,-8,-10.2,-3.9,-1,-2.7,-2.9,-11.7,-8.8,-11,-10.1,-9.5,-7.3,-9.4,-8.7,-7,-5.2,-6.7,-7.5,8.2,11.6,8.8,9.1,-3.7,-.9,-3.1,-3,-2,1.2,-2.3,-1.3,-50,-12.1,-50,-12.6,.1,2.5,.7,.6,-50,-6,-14.8,-7.5,-8.6,-9.4,-8.5,-11.2],[-7.5,-6.2,-7.2,-6.2,.9,.2,2.5,.2,-8.3,-3.5,-7.1,-3.7,-4.1,-6.3,-3.1,-6.3,-5.7,-8.9,-5.6,-8.4,-2.3,-2.2,.7,-2.7,-9.8,-8.9,-7.1,-9.3,-7.5,-8.2,-6.2,-7.9,-4.3,-6.2,-2.7,-6.8,9.4,8.8,12.1,8.8,-2.1,-2,.1,-2.4,0,-1.1,1.3,-.8,-50,-11.9,-50,-12.6,1.2,.7,3.5,.8,-50,-7.1,-12.4,-7.1,-7.1,-10.6,-5,-10.6],[-9,-6.5,-10,-4.8,.1,-.1,-.3,2.4,-9.9,-3.5,-10.6,-2,-5.4,-6.6,-5.6,-4.4,-7.6,-9.9,-8.5,-8.2,-3,-2.8,-3,-.9,-12.8,-11.8,-10.7,-9.3,-8.8,-9.2,-9.2,-7.1,-6.2,-7.3,-6.7,-4.9,9.1,9.1,8.8,11.2,-3.1,-3,-3.3,-1,-1.1,-1.4,-2,1.2,-50,-12.8,-50,-10.9,.8,.5,.7,2.3,-50,-7.5,-16.5,-5.9,-7.8,-11.1,-7.8,-9],[-7.1,-5.6,-9.1,-5.1,-5.9,-8,-6.9,-7.4,-1.9,-1.6,-4.7,-1.4,-9.6,-14.6,-10.4,-13,-6.7,-10.8,-9.4,-9.9,-9.1,-10.5,-9.1,-10.4,-5.9,-9.3,-7.9,-8.1,-12.7,-15,-15.1,-14.3,-2.2,-5.4,-5,-5.4,-1,-3.7,-2.1,-3.1,12.8,9.6,11.1,10.1,-4.8,-9.4,-8.1,-8.6,-50,-18.3,-50,-15.4,-5.9,-7.5,-6.6,-7.1,-50,-9.5,-11.7,-8.4,-12.5,-17.3,-13.2,-15.4],[-10.2,-1.6,-10.2,-3.2,-7.3,-4.6,-6.5,-6.2,-6.7,3,-6.8,.8,-11.9,-10.8,-11.5,-12.2,-9.6,-7.1,-9.7,-8.4,-9.8,-8.1,-8.2,-9.7,-9.4,-5,-8,-7.2,-15.2,-12.8,-14.9,-13.8,-6.6,-1.7,-6.8,-4.2,-3.3,-.9,-2,-3,9.6,12.8,9.7,10.5,-8.5,-5.6,-9.3,-7.8,-50,-12.7,-50,-13.8,-6.8,-5.1,-5.3,-6.5,-50,-4.1,-12.8,-5.8,-14.4,-14.1,-13.6,-14.8],[-8.2,-4.7,-7.1,-5,-6.5,-7.7,-5.5,-6.9,-4.1,-.8,-1.2,-.9,-10.5,-12.8,-8.2,-13,-7.5,-10,-7.2,-9.7,-9.2,-9.4,-7.3,-10.2,-6.5,-8,-4.3,-8,-13.1,-14.1,-12.2,-13.8,-3.7,-5.4,-2.5,-5.4,-1.8,-3.1,.1,-3.3,11.1,9.7,12.9,9.8,-5.5,-8.1,-5.4,-7.8,-50,-16.4,-50,-14.8,-5.9,-7.1,-4.7,-7.2,-50,-8.4,-6.4,-8.1,-12.1,-16.2,-10.3,-15.8],[-9.2,-3,-9.9,-1.2,-6.5,-6.1,-6.8,-4.4,-6.4,.9,-7,3,-11.8,-13,-11.1,-10.4,-9.3,-9.2,-9.8,-6.4,-9.5,-9.5,-9.4,-8,-8.1,-8.2,-9.4,-5.2,-14.2,-14.9,-14.9,-12.3,-5.7,-3.7,-6.7,-1.3,-2.4,-3,-2.4,-1,10.1,10.5,9.8,13.1,-7.2,-8,-8.4,-5,-50,-14.7,-50,-11.4,-6.3,-6.7,-5.8,-5,-50,-6.1,-13.4,-3.6,-13,-16,-13.7,-13.3],[-8.2,-10.8,-10.1,-9.8,-.4,-3.6,-1.7,-2.9,-7.9,-8.4,-9.8,-8.2,6.2,2.3,.6,2.9,-7.1,-11.6,-9.2,-11.1,-5.6,-8.3,-7.2,-8.4,-10.7,-13.6,-11.4,-12,0,-2.8,-1.8,-2.4,-6,-11.6,-7.5,-10.8,1.5,-2,0,-1.1,-4.8,-8.5,-5.5,-7.2,11.9,8.6,10,9,-50,-14.2,-50,-12.8,-4.1,-7.4,-5.7,-6.5,-50,-11,-14.3,-9.9,1.4,-7.9,-.7,-6.8],[-12.5,-8.7,-13,-9.9,-3.9,-1,-3.4,-2.9,-12.5,-6.3,-11.6,-8.1,3.3,6,-1.6,3.8,-10.5,-10.1,-11.1,-11.1,-9,-6.9,-8.2,-9.1,-14,-11.4,-12.3,-12.1,-3.1,.2,-3.2,-2.2,-10.4,-9.1,-10.4,-11.5,-2.1,1.2,-1.1,-1.4,-9.4,-5.6,-8.1,-8,8.6,12.4,8.6,9.5,-50,-10.4,-50,-11.6,-7.2,-5.7,-7.5,-7.4,-50,-8.6,-15.7,-9.7,-3,-3.7,-3.2,-5.9],[-11.1,-11.9,-10.6,-11.3,-2.6,-4.1,-1.7,-3.5,-11.4,-9.6,-9.6,-9.2,3.7,2.5,1.6,2.5,-9.6,-12.3,-9.5,-11.8,-8,-9.4,-7.2,-9.3,-13.3,-12.8,-10.9,-12.6,-1.8,-2.9,-.8,-2.9,-8.6,-13,-7.4,-12.4,-.4,-2.3,1.3,-2,-8.1,-9.3,-5.4,-8.4,10,8.6,11.4,8.9,-50,-13.7,-50,-13.2,-6.1,-8.1,-5.5,-7.5,-50,-11.3,-12.7,-10.1,-1.6,-7.8,-.3,-7.2],[-11.4,-10,-12.7,-8.2,-3.1,-3.1,-2.8,-.9,-11.7,-7.3,-12.1,-5.8,3.6,3.6,-1.1,5.8,-9.4,-11.9,-10.7,-10,-8.5,-8.8,-8.2,-6.5,-13.9,-13,-12.9,-10.9,-3.1,-2.3,-3.2,-.2,-9.5,-10.8,-10.2,-8.2,-1.1,-1.3,-.8,1.2,-8.6,-7.8,-7.8,-5,9,9.5,8.9,12,-50,-13,-50,-10.3,-6.2,-7,-7.1,-5.4,-50,-9.3,-14,-8.2,-2.4,-6.3,-2.4,-3.9],[-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,33.3,-50,30.6,-50,-50,-50,-50,-50,29.2,-50,-50,-50,-50,-50,-50,-50],[-14.8,-6.2,-14.9,-7.6,-14.6,-11.6,-13,-12.2,-14,-9,-14.1,-10.1,-13.6,-11.2,-12.4,-12.5,-8.1,2.2,-8.7,.4,-15.3,-11.3,-13.2,-13.3,-11.9,-7.2,-11.8,-7.9,-10.7,-7.4,-10.8,-8.9,-15.5,-10.3,-15.5,-12.5,-14.5,-12.1,-11.9,-12.8,-18.3,-12.7,-16.4,-14.7,-14.2,-10.4,-13.7,-13,-50,15.1,-50,13.3,-9.9,-5.8,-8.9,-7.6,-50,-1.5,-7.8,-3,-8.1,3.6,-9.4,2],[-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,30.6,-50,35.2,-50,-50,-50,-50,-50,28.5,-50,-50,-50,-50,-50,-50,-50],[-13.8,-7.5,-14.4,-5.1,-12.6,-11.6,-11.5,-10.1,-13.2,-9.7,-12.7,-7.4,-11.9,-11.9,-11.5,-10.2,-7.2,.9,-8.6,2.6,-14.1,-12.8,-13.3,-11,-9.7,-8.4,-11.2,-5.3,-9.3,-8.7,-9.9,-7.1,-13.9,-11.2,-14.2,-8.9,-12.9,-12.6,-12.6,-10.9,-15.4,-13.8,-14.8,-11.4,-12.8,-11.6,-13.2,-10.3,-50,13.3,-50,15.2,-8.6,-7,-8.4,-4.8,-50,-3,-7.1,-.1,-7.3,2.3,-8.7,3.9],[-7.3,-6.3,-8.9,-5.5,2.9,.2,1.5,1.2,-8.5,-2.3,-10,-1.7,-5.6,-10.5,-5.5,-9.6,-4.3,-7.9,-6.1,-7.2,2.3,-.6,.5,-0,-8.9,-11,-9.4,-9.3,-4.6,-9.4,-7.3,-8.1,-7.8,-9.8,-8.9,-9.2,2.8,.1,1.2,.8,-5.9,-6.8,-5.9,-6.3,-4.1,-7.2,-6.1,-6.2,-50,-9.9,-50,-8.6,12.5,9.4,11,9.8,-50,-4.8,-8.7,-3.5,-0,-8.6,-2.1,-7],[-10.1,-4.3,-10.8,-5.8,.1,2.3,.7,.6,-10.4,-.2,-10.8,-2,-8.8,-9.2,-8,-9.7,-6.8,-5.9,-7.5,-7,-1.4,2.2,-.9,-.4,-10.8,-7.7,-9.8,-8.8,-8.9,-7.3,-9.6,-9.1,-10.5,-8.3,-10.2,-10,-0,2.5,.7,.5,-7.5,-5.1,-7.1,-6.7,-7.4,-5.7,-8.1,-7,-50,-5.8,-50,-7,9.4,12.7,10.1,10,-50,-1.5,-11.3,-3.3,-5.4,-4.2,-5.6,-6.8],[-8.4,-6.2,-8.9,-5.9,1.8,.4,2.7,1.2,-9.1,-1.2,-8.8,-1.5,-7.2,-10.5,-4.9,-9.6,-5.7,-7.4,-5.5,-7.4,.3,-.3,1.8,-.4,-9,-8.7,-7.3,-8.9,-5.9,-9.4,-6.4,-8.7,-8.7,-9.1,-8.5,-9.4,1.4,.7,3.5,.7,-6.6,-5.3,-4.7,-5.8,-5.7,-7.5,-5.5,-7.1,-50,-8.9,-50,-8.4,11,10.1,13.2,10.2,-50,-4.2,-6.1,-3.6,-3.5,-8.4,-1.2,-6.8],[-9.1,-5.4,-10.4,-4.2,1,.5,.6,2.4,-9.6,-1.5,-10.5,-.5,-8.9,-10.5,-7.2,-8.3,-6.3,-6.9,-7.7,-5.1,-.5,.1,-.6,2.3,-11.1,-10.2,-10.5,-7,-8.3,-9.4,-9.4,-6.6,-9.6,-9.7,-10,-7.9,.7,.6,.8,2.3,-7.1,-6.5,-7.2,-5,-6.5,-7.4,-7.5,-5.4,-50,-7.6,-50,-4.8,9.8,10,10.2,12.1,-50,-3.1,-11.4,-.7,-4.6,-6.6,-4.9,-3.9],[-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,-50,29.2,-50,28.5,-50,-50,-50,-50,-50,33.3,-50,-50,-50,-50,-50,-50,-50],[-13,-7,-13.1,-8.3,-9.2,-6.5,-8.9,-7.6,-9.8,-.7,-9.2,-2.1,-12.4,-10.3,-12.4,-11.6,-9.5,-4.6,-10.4,-5.7,-13.6,-10.1,-11.4,-10.9,-6.5,-1.5,-6.2,-3.6,-12.8,-8,-12.3,-9.7,-16.5,-12.7,-15.6,-14.3,-8.7,-6,-7.1,-7.5,-9.5,-4.1,-8.4,-6.1,-11,-8.6,-11.3,-9.3,-50,-1.5,-50,-3,-4.8,-1.5,-4.2,-3.1,-50,16.4,-5.1,14.2,-10.1,-4.3,-10,-5.4],[-13.5,-16.3,-11.8,-15.5,-13.6,-15.3,-12.1,-16.1,-7.7,-13.3,-4.2,-12.6,-14.1,-16.2,-10.3,-15.4,-9.6,-11.6,-7.7,-9.8,-14.3,-17.5,-11.1,-17.2,-5.3,-7.1,-2.2,-7.1,-9.6,-11.9,-8.7,-11.4,-17.1,-20.6,-15.3,-19.9,-14.1,-14.8,-12.4,-16.5,-11.7,-12.8,-6.4,-13.4,-14.3,-15.7,-12.7,-14,-50,-7.8,-50,-7.1,-8.7,-11.3,-6.1,-11.4,-50,-5.1,18.6,-4.8,-8.6,-8.1,-4.5,-7.3],[-12.4,-8.2,-13,-5.9,-7.7,-7.8,-7.4,-5.8,-8.8,-2,-9.3,-.4,-11.6,-11.3,-11.6,-9.4,-8.9,-5.6,-10,-3.2,-11.5,-11.1,-10.5,-8.3,-6.3,-4.9,-6.7,-1.2,-10.6,-9.7,-11.3,-8,-14.8,-13.1,-15.5,-11.4,-7.5,-7.5,-7.1,-5.9,-8.4,-5.8,-8.1,-3.6,-9.9,-9.7,-10.1,-8.2,-50,-3,-50,-.1,-3.5,-3.3,-3.6,-.7,-50,14.2,-4.8,16.4,-8.9,-5.8,-8.9,-3.4],[-10.7,-13.2,-12.4,-11.6,-4.8,-8.4,-6.1,-7.2,-10.3,-11.8,-11,-11.6,2.8,-1.7,.7,-1.1,-6.2,-9.7,-7.3,-8.4,-5.3,-8.6,-6.1,-8.3,-10.5,-11.2,-9.8,-10.2,9.5,6.5,7.6,6.8,-12.1,-16,-13,-16.2,-5.2,-8.6,-7.1,-7.8,-12.5,-14.4,-12.1,-13,1.4,-3,-1.6,-2.4,-50,-8.1,-50,-7.3,-0,-5.4,-3.5,-4.6,-50,-10.1,-8.6,-8.9,13.2,-.9,9.7,-.3],[-18.1,-12.3,-19.4,-14.2,-12.2,-9.5,-11.5,-10.8,-17.9,-11.9,-18.2,-13.9,-6.4,-3.7,-6.8,-5.4,-12.8,-5.9,-13.6,-7.4,-13.7,-9.9,-12.9,-12.7,-16.2,-11.6,-15.2,-12.7,-3.2,.5,-3.3,-1.8,-18.9,-16.6,-18.8,-19.2,-12.5,-9.4,-10.6,-11.1,-17.3,-14.1,-16.2,-16,-7.9,-3.7,-7.8,-6.3,-50,3.6,-50,2.3,-8.6,-4.2,-8.4,-6.6,-50,-4.3,-8.1,-5.8,-.9,14.2,-1.8,11.6],[-11.8,-13.1,-11.5,-12,-6.2,-8.3,-5.4,-7.4,-11.8,-12.3,-11.1,-11.4,.5,-2.5,2.4,-1.6,-6.8,-9.9,-6.4,-8.9,-6.1,-8.6,-5,-7.8,-10.4,-11.6,-8.5,-9.9,8.2,6.4,8.7,6.9,-12.4,-17,-12.6,-15.8,-6.5,-8.5,-5,-7.8,-13.2,-13.6,-10.3,-13.7,-.7,-3.2,-.3,-2.4,-50,-9.4,-50,-8.7,-2.1,-5.6,-1.2,-4.9,-50,-10,-4.5,-8.9,9.7,-1.8,11.3,-.9],[-17.2,-13.3,-17.8,-11.6,-11,-11.1,-10.4,-9,-16,-12.7,-16.1,-11.1,-5.2,-5.4,-6,-3.3,-11.8,-7.3,-13.3,-5.9,-12.7,-11.9,-11.9,-9.3,-15.2,-15,-14.9,-11,-2.8,-1.8,-2.9,.4,-17.4,-18.4,-18.3,-15.9,-10.7,-11.2,-10.6,-9,-15.4,-14.8,-15.8,-13.3,-6.8,-5.9,-7.2,-3.9,-50,2,-50,3.9,-7,-6.8,-6.8,-3.9,-50,-5.4,-7.3,-3.4,-.3,11.6,-.9,14.1]];TRANS=[[5,0,0,4],[0,5,4,0],[0,4,5,0],[4,0,0,5]];CONBLO={A:0,R:1,N:2,D:3,C:4,Q:5,E:6,G:7,H:8,I:9,L:10,K:11,M:12,F:13,P:14,S:15,T:16,W:17,Y:18,V:19,B:20,Z:21,X:22,"*":23};CONNUCL={A:0,T:1,C:2,G:3};CONSCHN={AAA:0,AAC:1,AAG:2,AAT:3,ACA:4,ACC:5,ACG:6,ACT:7,AGA:8,AGC:9,AGG:10,AGT:11,ATA:12,ATC:13,ATG:14,ATT:15,CAA:16,CAC:17,CAG:18,CAT:19,CCA:20,CCC:21,CCG:22,CCT:23,CGA:24,CGC:25,CGG:26,CGT:27,CTA:28,CTC:29,CTG:30,CTT:31,GAA:32,GAC:33,GAG:34,GAT:35,GCA:36,GCC:37,GCG:38,GCT:39,GGA:40,GGC:41,GGG:42,GGT:43,GTA:44,GTC:45,GTG:46,GTT:47,TAA:48,TAC:49,TAG:50,TAT:51,TCA:52,TCC:53,TCG:54,TCT:55,TGA:56,TGC:57,TGG:58,TGT:59,TTA:60,TTC:61,TTG:62,TTT:63};fillNeedleman(){for(let e=0;e<=this.len1;e++)this.dpGrid[e][0].value=-e*this.gap,this.dpGrid[e][0].parentI=e-1,this.dpGrid[e][0].parentJ=0;for(let e=1;e<=this.len2;e++)this.dpGrid[0][e].value=-e*this.gap,this.dpGrid[0][e].parentI=0,this.dpGrid[0][e].parentJ=e-1}fillOne(e,t){this.dpGrid[e][t].value=Math.max(this.dpGrid[e-1][t-1].value+this.scores[e-1][t-1],Math.max(this.dpGrid[e-1][t].value-this.gap,this.dpGrid[e][t-1].value-this.gap)),this.dpGrid[e][t].value==this.dpGrid[e-1][t-1].value+this.scores[e-1][t-1]?(this.dpGrid[e][t].parentI=e-1,this.dpGrid[e][t].parentJ=t-1):this.dpGrid[e][t].value==this.dpGrid[e-1][t].value-this.gap?(this.dpGrid[e][t].parentI=e-1,this.dpGrid[e][t].parentJ=t):(this.dpGrid[e][t].parentI=e,this.dpGrid[e][t].parentJ=t-1)}gridFromName(e){switch(e){case"BLOSUM45":this.alignGrid=this.BLOSUM45,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM50":this.alignGrid=this.BLOSUM50,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM62":this.alignGrid=this.BLOSUM62,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM80":this.alignGrid=this.BLOSUM80,this.connections=this.CONBLO,this.step=1;break;case"BLOSUM90":this.alignGrid=this.BLOSUM90,this.connections=this.CONBLO,this.step=1;break;case"PAM30":this.alignGrid=this.PAM30,this.connections=this.CONBLO,this.step=1;break;case"PAM70":this.alignGrid=this.PAM70,this.connections=this.CONBLO,this.step=1;break;case"PAM250":this.alignGrid=this.PAM250,this.connections=this.CONBLO,this.step=1;break;case"NUCLEOTIDES":this.alignGrid=this.NUCLEOTIDES,this.connections=this.CONNUCL,this.step=1;break;case"TRANS":this.alignGrid=this.TRANS,this.connections=this.CONNUCL,this.step=1;break;case"SCHNEIDER":this.alignGrid=this.SCHNEIDER,this.connections=this.CONSCHN,this.step=3}this.fillScores()}constructResult(e,t){let n="",i="",o="";const r=this.dpGrid[e][t].value;for(let e=0;e<this.step;e++)o+="|";for(;e>0||t>0;){this.dpGrid[e][t].parentI==e?(n=o+n,i=this.seq2.substr((t-1)*this.step,this.step)+i):this.dpGrid[e][t].parentJ==t?(i=o+i,n=this.seq1.substr((e-1)*this.step,this.step)+n):(n=e-1>=0?this.seq1.substr((e-1)*this.step,this.step)+n:o+n,i=t-1>=0?this.seq2.substr((t-1)*this.step,this.step)+i:o+i);const r=e;e=this.dpGrid[e][t].parentI,t=this.dpGrid[r][t].parentJ}return new ht(n,i,r)}fillScores(){this.scores=[];for(let e=0;e<this.len1;e++){this.scores.push([]);for(let t=0;t<this.len2;t++)this.scores[e].push(this.alignGrid[this.connections[this.seq1.substr(e*this.step,this.step)]][this.connections[this.seq2.substr(t*this.step,this.step)]])}}typeRec(){if(/[ATGC]*/.test(this.seq1)&&/[ATGC]*/.test(this.seq2))return"NUCLEOTIDES";if(/[ARNDCQEGHILKMFPSTWYVBZX*]*/.test(this.seq1)&&/[ARNDCQEGHILKMFPSTWYVBZX*]*/.test(this.seq2))return"BLOSUM62";throw Error("Can't recognize sequence type")}needlemanWunsch(){this.dpGrid=[];for(let e=0;e<this.len1+1;e++){const e=[];for(let t=0;t<this.len2+1;t++)e.push(new ut);this.dpGrid.push(e)}this.fillNeedleman();for(let e=1;e<=this.len1;e++)for(let t=1;t<=this.len2;t++)this.fillOne(e,t);return this.constructResult(this.len1,this.len2)}smithWaterman(){this.dpGrid=[];for(let e=0;e<this.len1+1;e++){const e=[];for(let t=0;t<this.len2+1;t++)e.push(new ut);this.dpGrid.push(e)}let e=0,t=0,n=0;for(let i=1;i<=this.len1;i++)for(let o=1;o<=this.len2;o++)this.fillOne(i,o),this.dpGrid[i][o].value<=0?(this.dpGrid[i][o].value=0,this.dpGrid[i][o].parentI=0,this.dpGrid[i][o].parentJ=0):0==this.dpGrid[this.dpGrid[i][o].parentI][this.dpGrid[i][o].parentJ].value&&(this.dpGrid[i][o].parentI=0,this.dpGrid[i][o].parentJ=0),this.dpGrid[i][o].value>e&&(e=this.dpGrid[i][o].value,t=i,n=o);return this.constructResult(t,n)}setSequences(e,t){this.seq1=e,this.seq2=t,this.len1=this.seq1.length/this.step,this.len2=this.seq2.length/this.step,this.fillScores()}setGap(e){this.gap=e}setMethod(e=""){"AUTO"==e&&(e=this.typeRec()),this.gridFromName(e)}constructor(e,t,n,i=""){this.setMethod(i),this.setSequences(e,t),this.setGap(n)}}async function mt(e,t,n="Morgan",i=1,o=.6){const r=e.length,s=To.seqHelper.getSeqHandler(e),l=Array(r);let c=1;const u=new Map,h=e.categories,d=e.getRawData();for(let t=0;t<r;t++){if(null==h[d[t]]||e.isNone(t)){l[t]=null;continue}l[t]="";const n=s.getSplitted(t);for(let e=0;e<n.length;e++){const i=n.getCanonical(e);u.has(i)||(u.set(i,String.fromCharCode(c)),c++),l[t]+=u.get(i)}}let m={};if(t===me.Z.MONOMER_CHEMICAL_DISTANCE||t===me.Z.NEEDLEMANN_WUNSCH){const e=Array.from(u.keys()),r=await async function(e,t="Morgan"){const n=(await(0,ve.pj)()).getMonomerLib(),i=new Array(e.length).fill(0).map(()=>new Array(e.length).fill(0)),o={},r=e.map(e=>n.getMonomer("PEPTIDE",e)?.molfile||n.getMonomer("PEPTIDE",e)?.smiles||""),s=a.Func.find({package:"Chem",name:"getFingerprints"})[0];if(!s)return console.warn('Function "Chem:getFingerprints" is not found in chem package. falling back to Morgan fingerprints'),await Te(e);const l=a.Column.fromStrings("smiles",r),c=(a.DataFrame.fromColumns([l]),(await s.apply({col:l,fingerprintType:t}))?.entries);if(!c)return console.warn(`${t} Fingerprints could not be calculated for monomers from chem package.\n falling back to Morgan fingerprints`),await Te(e);for(let t=0;t<c.length;++t)if(i[t][t]=1,o[e[t]]=t,c[t])for(let e=t+1;e<c.length;++e)c[e]&&(i[t][e]=i[e][t]=(0,H.$1)(c[t],c[e]));return{scoringMatrix:i,alphabetIndexes:o}}(e,n),s={};Object.entries(r.alphabetIndexes).forEach(([e,t])=>{s[u.get(e)]=t});const c=l.reduce((e,t)=>Math.max(e,t?.length||0),0);m={scoringMatrix:r.scoringMatrix,alphabetIndexes:s,maxLength:c},t===me.Z.NEEDLEMANN_WUNSCH&&(m.gapOpen=i,m.gapExtend=o)}return{seqList:l,options:m}}var pt=n(4954);function gt(e){const t=s.divH([],{style:{gap:"10px"}}),n=s.divV([s.divText(e.seqCol.name),s.divText(e.activityCol.name)]);return n.style.fontWeight="bold",n.style.display="flex",n.style.justifyContent="space-between",t.append(n),e.points.forEach(n=>{const i=s.divText(e.activityCol.get(n).toFixed(2));i.style.display="flex",i.style.justifyContent="left",i.style.paddingLeft="30px",t.append(s.divV([s.divText(e.seqCol.get(n)),i]))}),t}function ft(e){const t=s.div();t.append(s.divText(e.seqCol.name,{style:{fontWeight:"bold"}}));const n=new Array(2);e.points.forEach((t,i)=>{n[i]=e.activityCol.get(t)});const i={},o=To.seqHelper.getSeqHandler(e.seqCol),r=o.defaultBiotype,a=bt(o.getSplitted(e.points[0]),o.getSplitted(e.points[1]),r,i);return t.append(s.div(a,{style:{width:"300px",overflow:"scroll"}})),t.append(wt(i)),t.append(yt("Activity delta",Math.abs(n[0]-n[1]))),t.append(yt("Cliff",e.sali)),t}function yt(e,t){return s.divH([s.divText(`${e}: `,{style:{fontWeight:"bold",paddingRight:"5px"}}),s.divText(t.toFixed(2))],{style:{paddingTop:"10px"}})}function bt(e,t,n,i){const o=document.createElement("canvas"),r=o.getContext("2d");o.height=30;const s=To.monomerLib;return Xe(r,0,0,0,30,oe().count(0).take(e.length).map(t=>e.getCanonical(t)).toArray(),oe().count(0).take(t.length).map(e=>t.getCanonical(e)).toArray(),n,s,!0,i),o}function wt(e){const t=s.div();if(Object.keys(e).length>0){const n=s.divV([]);n.append(s.divH([s.divText("Pos",{style:{fontWeight:"bold",width:"30px",borderBottom:"1px solid"}}),s.divText("Difference",{style:{fontWeight:"bold",borderBottom:"1px solid"}})]));for(const t of Object.keys(e))e[t].style.borderBottom="1px solid lightgray",n.append(s.divH([s.divText((parseInt(t)+1).toString(),{style:{width:"30px",borderBottom:"1px solid lightgray"}}),e[t]]));t.append(n)}return t}function vt(e,t){const n=a.Column.string("seq_diff",e.rowCount).init(n=>`${e.get(t[0],n)}#${e.get(t[1],n)}`);n.semType="MacromoleculeDifference",n.meta.units=e.col(t[0]).meta.units,n.setTag(pe.gp.separator,e.col(t[0]).getTag(pe.gp.separator)),e.columns.add(n);const i=e.plot.grid();return i.col(t[0]).visible=!1,i.col(t[1]).visible=!1,i}class Tt extends a.JsViewer{constructor(e,t){super(),this.name="",this.semType="",this.initialized=!1,this.gridSelect=!1,this.maxLimit=100,this.recomputeOnCurrentRowChange=!0,this.skipRecomputingProperies=[],this.debounceTimer=null,this.computeRequested=!1,this.renderPromise=Promise.resolve(),this.limit=this.int("limit",10,{min:1,max:this.maxLimit}),this.targetColumnName=this.string("targetColumnName",null,{...t?{semType:t}:{},nullable:!1}),this.name=e,this.semType=t}init(){this.initialized=!0}detach(){this.subs.forEach(e=>e.unsubscribe())}async onTableAttached(){if(this.init(),this.dataFrame){this.subs.push(a.debounce(this.dataFrame.onRowsRemoved,50).subscribe(e=>this.render(!0)));const e="diversity"!==this.name;this.subs.push(a.debounce(this.dataFrame.onCurrentRowChanged,50).subscribe(t=>{this.gridSelect||this.render(e)})),this.subs.push(a.debounce(this.dataFrame.selection.onChanged,50).subscribe(e=>this.render(!1))),this.subs.push(a.debounce(s.onSizeChanged(this.root),50).subscribe(e=>this.render(!1))),this.targetColumnName??(this.targetColumnName=this.dataFrame.columns.bySemType(this.semType).name),this.targetColumn=this.dataFrame.col(this.targetColumnName),this.getProperty("limit").fromOptions({min:1,max:this.maxLimit})}this.render()}onPropertyChanged(e){if(super.onPropertyChanged(e),this.initialized){if("targetColumnName"===e.name){const t=this.dataFrame.col(e.get(this));t.semType===this.semType&&(this.targetColumn=t)}this.debouncedRender()}}debouncedRender(e=!0){this.debounceTimer&&clearTimeout(this.debounceTimer),this.debounceTimer=setTimeout(()=>{this.render(e),this.debounceTimer=null},100)}render(e=!0){this.renderPromise=this.renderPromise.then(async()=>{this.computeRequested=this.computeRequested||e,await this.renderInt(e)})}async renderInt(e){}beforeRender(){return!(!this.initialized||!this.targetColumnName||this.dataFrame&&this.targetColumnName&&this.dataFrame.col(this.targetColumnName).semType!==this.semType&&(r.shell.error(`${this.targetColumnName} is not ${this.semType} type`),1))}}class Ct extends Tt{distanceMetric;fingerprint;gapOpen;gapExtend;metricsProperties=["distanceMetric","fingerprint","gapOpen","gapExtend"];fingerprintChoices=["Morgan","RDKit","Pattern","AtomPair","MACCS","TopologicalTorsion"];distanceFunctionChoices=[me.Z.NEEDLEMANN_WUNSCH,me.Z.HAMMING,me.Z.LEVENSHTEIN,me.Z.MONOMER_CHEMICAL_DISTANCE];tags=[a.TAGS.UNITS,pe.gp.aligned,pe.gp.separator,pe.gp.alphabet,"cell.renderer"];preComputeDistanceMatrix=!1;requiresSampling=!1;constructor(e,t){super(e,t),this.distanceMetric=this.string("distanceMetric",me.Z.HAMMING,{choices:this.distanceFunctionChoices}),this.fingerprint=this.string("fingerprint",this.fingerprintChoices[0],{choices:this.fingerprintChoices}),this.gapOpen=this.float("gapOpen",1),this.gapExtend=this.float("gapExtend",.6)}async onTableAttached(){if(super.onTableAttached(),this.dataFrame){const e=this.dataFrame.rowCount;this.preComputeDistanceMatrix=e<=1e4,this.requiresSampling=e>1e4}}needsGapPenalties(){return this.distanceMetric===me.Z.NEEDLEMANN_WUNSCH}needsFingerprint(){return this.distanceMetric===me.Z.MONOMER_CHEMICAL_DISTANCE||this.distanceMetric===me.Z.NEEDLEMANN_WUNSCH}}const At={gapPenalty:1,matchScore:1,gapSymbol:we.b9[we.Hi.FASTA],localAlignment:!1};class Et extends Ct{seqHelper;cutoff;hotSearch;similarColumnLabel;sketchedMolecule="";curIdx=0;molCol=null;idxs=null;scores=null;gridSelect=!1;targetMoleculeIdx=0;computeCompleted=new u.Subject;distanceMatrixComputed=!1;mmDistanceMatrix;knn;kPrevNeighbors=0;demo;analysisGrid;subInited=!1;lastDistanceMetric="";lastFingerprint="";lastGapOpen=0;lastGapExtend=0;constructor(e,t){super("similarity",a.SEMTYPE.MACROMOLECULE),this.seqHelper=e,this.cutoff=this.float("cutoff",.01,{min:0,max:1}),this.hotSearch=this.bool("hotSearch",!0),this.similarColumnLabel=this.string("similarColumnLabel",null),this.demo=t}init(){this.hotSearch=!0,this.initialized=!0}async renderInt(e){if(this.beforeRender()&&this.targetColumn){this.curIdx=-1==this.dataFrame.currentRowIdx?0:this.dataFrame.currentRowIdx;const t=this.lastDistanceMetric!==this.distanceMetric||this.lastFingerprint!==this.fingerprint||this.lastGapOpen!==this.gapOpen||this.lastGapExtend!==this.gapExtend;if(e&&!this.gridSelect||t){this.targetMoleculeIdx=(this.dataFrame.currentRowIdx??-1)<0?0:this.dataFrame.currentRowIdx,await this.computeByMM();const e=null!=this.similarColumnLabel?this.similarColumnLabel:`similar (${this.targetColumn})`;this.molCol=a.Column.string(e,this.idxs.length).init(e=>this.targetColumn?.get(this.idxs?.get(e))),this.molCol.semType=a.SEMTYPE.MACROMOLECULE,this.tags.forEach(e=>this.molCol.setTag(e,this.targetColumn.getTag(e)));const t=a.DataFrame.fromColumns([this.idxs,this.molCol,this.scores]);await t.meta.detectSemanticTypes(),await r.data.detectSemanticTypes(t),this.molCol.temp["reference-sequence"]=this.targetColumn.get(this.targetMoleculeIdx),this.molCol.temp[".mm.cellRenderer.maxMonomerLength"]=4;let n=null;t.onCurrentRowChanged.subscribe(e=>{n&&clearTimeout(n),(t.currentRowIdx??-1)<0||(this.dataFrame.currentRowIdx=t.col("indexes").get(t.currentRowIdx),n=setTimeout(()=>{this.createPropertyPanel(t)},300),this.gridSelect=!0)}),this.analysisGrid?(this.analysisGrid.dataFrame=t,this.analysisGrid.invalidate()):(this.analysisGrid=t.plot.grid(),(0,He.Ku)(this.root,this.analysisGrid.root)),this.analysisGrid.col("indexes").visible=!1,(0,He.Kd)(this.analysisGrid,this.molCol.name,450,30,!0);const i=this.idxs?.getRawData().findIndex(e=>e==this.targetMoleculeIdx);this.analysisGrid.cell("score",i).cell.value=null;const o=r.shell.tv;this.subInited||(o.grid.root.addEventListener("click",e=>{this.gridSelect=!1}),this.subInited=!0),this.computeCompleted.next(!0)}}}async computeByMM(){const e=this.targetColumn.length,t=Math.min(this.limit,e-1);if(!this.knn||this.kPrevNeighbors!==t||this.lastDistanceMetric!==this.distanceMetric||this.lastFingerprint!==this.fingerprint||this.lastGapOpen!==this.gapOpen||this.lastGapExtend!==this.gapExtend){const e=this.distanceMetric,n=await mt(this.targetColumn,e,this.fingerprint,this.gapOpen,this.gapExtend),i=n.seqList,o=n.options;this.lastDistanceMetric=this.distanceMetric,this.lastFingerprint=this.fingerprint,this.lastGapOpen=this.gapOpen,this.lastGapExtend=this.gapExtend,this.kPrevNeighbors=t,this.knn=await(new F).getKNN(i,e,t,o)}const n=new Array(t).fill(0).map((e,t)=>({idx:this.knn.knnIndexes[this.targetMoleculeIdx][t],score:1-this.knn.knnDistances[this.targetMoleculeIdx][t]}));n.sort((e,t)=>t.score-e.score),n.unshift({idx:this.targetMoleculeIdx,score:a.FLOAT_NULL}),this.idxs=a.Column.int("indexes",t+1).init(e=>n[e].idx),this.scores=a.Column.float("score",t+1).init(e=>n[e].score)}createPropertyPanel(e){const t=s.div(),n={},i=this.molCol?.name,o=e.col(i),a=this.seqHelper.getSeqHandler(this.targetColumn),l=this.seqHelper.getSeqHandler(o),c=a.getSplitted(this.targetMoleculeIdx),u=l.getSplitted(e.currentRowIdx),h=function(e,t,n={}){const i={...At,...n};function o(e,t){return e===t?i.matchScore:-i.matchScore}const r=e.length,s=t.length,a=Array(r+1).fill(0).map(()=>Array(s+1).fill(0));let l=-9999,c=[1,1];for(let n=1;n<r+1;n++)for(let r=1;r<s+1;r++)a[n][r]=Math.max(0,a[n-1][r-1]+o(e.getCanonical(n-1),t.getCanonical(r-1)),a[n-1][r]-i.gapPenalty,a[n][r-1]-i.gapPenalty),a[n][r]>=l&&(l=a[n][r],c=[n,r]);let u=i.localAlignment?c[0]:r,h=i.localAlignment?c[1]:s,d=new Array(0),m=new Array(0);for(;u>0&&h>0;){const n=Math.max(a[u-1][h-1],a[u-1][h],a[u][h-1]);a[u][h]==a[u-1][h-1]+i.matchScore&&n==a[u-1][h-1]?(d.push(e.getCanonical(u-1)),m.push(t.getCanonical(h-1)),u-=1,h-=1):a[u][h]==a[u-1][h]-i.gapPenalty?(m.push(i.gapSymbol),d.push(e.getCanonical(u-1)),u-=1):a[u][h]==a[u][h-1]-i.gapPenalty?(d.push(i.gapSymbol),m.push(t.getCanonical(h-1)),h-=1):(d.push(e.getCanonical(u-1)),m.push(t.getCanonical(h-1)),u-=1,h-=1)}d=[...oe().count(0).take(u).map(t=>e.getCanonical(t)),...d.reverse(),...i.localAlignment?oe().count(c[0]).take(r).map(t=>e.getCanonical(t)):[]],m=[...oe().count(0).take(h).map(e=>t.getCanonical(e)),...m.reverse(),...i.localAlignment?oe().count(c[1]).take(s).map(e=>t.getCanonical(e)):[]];const p=u,g=h;return p>g?m=[...new Array(p-g).fill(i.gapSymbol.valueOf()),...m]:d=[...new Array(g-p).fill(i.gapSymbol.valueOf()),...d],m.length>d.length?d.push(...new Array(m.length-d.length).fill(i.gapSymbol.valueOf())):m.push(...new Array(d.length-m.length).fill(i.gapSymbol.valueOf())),{seq1:d.join(""),seq2:m.join(""),seq1Splitted:new ke.Mu(d,i.gapSymbol),seq2Splitted:new ke.Mu(m,i.gapSymbol)}}(c,u),d=bt(h.seq1Splitted,h.seq2Splitted,l.defaultBiotype,n);t.append(s.div(d,{style:{width:"300px",overflow:"scroll"}})),c.length!==u.length&&t.append(s.divV([s.divText("Different sequence length:",{style:{fontWeight:"bold"}}),s.divText(`target: ${c.length} monomers`),s.divText(`selected: ${u.length} monomers`)],{style:{paddingBottom:"10px"}})),t.append(wt(n));const m=s.accordion(),p=s.element("i");p.className="grok-icon svg-icon svg-view-layout",m.addTitle(s.span([p,s.label("Similarity search")])),m.addPane("Differences",()=>t,!0),r.shell.o=m.root}}class St extends Ct{seqHelper;diverseColumnLabel;renderMolIds=null;columnNames=[];computeCompleted=new u.Subject;sampledIndices=null;constructor(e){super("diversity",a.SEMTYPE.MACROMOLECULE),this.seqHelper=e,this.diverseColumnLabel=this.string("diverseColumnLabel",null)}async renderInt(e){if(this.beforeRender()&&this.dataFrame&&e&&this.targetColumn){await this.computeByMM();const e=null!=this.diverseColumnLabel?this.diverseColumnLabel:`diverse (${this.targetColumnName})`,t=a.Column.string(e,this.renderMolIds.length).init(e=>this.targetColumn?.get(this.renderMolIds[e]));t.semType=a.SEMTYPE.MACROMOLECULE,this.tags.forEach(e=>t.setTag(e,this.targetColumn.getTag(e)));const n=a.DataFrame.fromColumns([t]);t.temp[".mm.cellRenderer.maxMonomerLength"]=4,n.onCurrentRowChanged.subscribe(e=>{this.dataFrame.currentRowIdx=this.renderMolIds[n.currentRowIdx]});const i=n.plot.grid();(0,He.Kd)(i,t.name,450,30),(0,He.Ku)(this.root,i.root),this.computeCompleted.next(!0)}}async computeByMM(){const e=this.targetColumn.length;let t;this.requiresSampling&&e>1e4?(t=this.createRandomSample(e,1e4),this.sampledIndices=t):(t=Array.from({length:e},(e,t)=>t),this.sampledIndices=null);const n=this.distanceMetric,i=await mt(this.targetColumn,n,this.fingerprint,this.gapOpen,this.gapExtend),o=i.seqList,r=i.options,s=t.map(e=>o[e]),a=new k(!0,!1),l=await a.calc(s,n,!0,r);a.terminate();const c=t.length,u=(d=c,(e,t)=>d*e+t-Math.floor((e+2)*(e+1)/2)),h=function(e,t){function n(e,t){let n=null,i=null;for(const o of e){const e=t(o);(null==i||e>i)&&(n=o,i=e)}return n}const i=[(r=e-1,Math.floor(function(e){return Math.random()*e}(r)))],o=new Set;var r;for(let t=0;t<e;++t)i.includes(t)||o.add(t);for(;i.length<t;){const e=n(o.values(),e=>Math.min.apply(Math,i.map(function(t,n){return l[u(e,t)]})));null!=e&&(i.push(e),o.delete(e))}return i}(c,Math.min(c,this.limit));var d;this.renderMolIds=h.map(e=>t[e])}createRandomSample(e,t){const n=[];for(let t=0;t<e;t++)this.targetColumn.isNone(t)||n.push(t);if(n.length<=t)return n;for(let e=n.length-1;e>0;e--){const t=Math.floor(Math.random()*(e+1)),i=n[e];n[e]=n[t],n[t]=i}return n.slice(0,t)}}var Mt,Pt=n(5433),_t=n(3890),It=n(1687);!function(e){e.TYPE="V2000",e[e.NUM_OF_HEADER_LINES=3]="NUM_OF_HEADER_LINES",e[e.NUM_OF_COUNTS_DIGITS=3]="NUM_OF_COUNTS_DIGITS",e[e.ATOM_TYPE_COL=4]="ATOM_TYPE_COL",e[e.FIRST_BONDED_ATOM_COL=1]="FIRST_BONDED_ATOM_COL",e[e.BOND_TYPE_COL=3]="BOND_TYPE_COL",e[e.RGP_SHIFT=8]="RGP_SHIFT",e[e.MAX_ATOM_COUNT=999]="MAX_ATOM_COUNT",e.RGP_LINE_START="M RGP",e.ATOM_ALIAS_LINE_START="A ",e.END="M END"}(Mt||(Mt={}));class Lt{constructor(e){this.init(e)}init(e){this.fileContent=e.replace(/\r/g,""),this._atomCount=void 0,this._atomTypes=void 0,this._bondCount=void 0,this._bondTypes=void 0,this.xyzAtomCoordinates=void 0,this._pairsOfBondedAtoms=void 0}get atomCount(){return void 0===this._atomCount&&this.setAtomAndBondCounts(),this._atomCount}get bondCount(){return void 0===this._bondCount&&this.setAtomAndBondCounts(),this._bondCount}get x(){var e;return null!==(e=this.xyzAtomCoordinates)&&void 0!==e||(this.xyzAtomCoordinates=this.parseAtomCoordinates()),this.xyzAtomCoordinates.x}get y(){var e;return null!==(e=this.xyzAtomCoordinates)&&void 0!==e||(this.xyzAtomCoordinates=this.parseAtomCoordinates()),this.xyzAtomCoordinates.y}get z(){var e;return null!==(e=this.xyzAtomCoordinates)&&void 0!==e||(this.xyzAtomCoordinates=this.parseAtomCoordinates()),this.xyzAtomCoordinates.z}get atomTypes(){var e;return null!==(e=this._atomTypes)&&void 0!==e||(this._atomTypes=this.parseAtomTypes()),this._atomTypes}get pairsOfBondedAtoms(){var e;return null!==(e=this._pairsOfBondedAtoms)&&void 0!==e||(this._pairsOfBondedAtoms=this.parseBondedAtomPairs()),this._pairsOfBondedAtoms}get bondTypes(){var e;return null!==(e=this._bondTypes)&&void 0!==e||(this._bondTypes=this.parseBondTypes()),this._bondTypes}setAtomAndBondCounts(){const{atomCount:e,bondCount:t}=this.parseAtomAndBondCounts();this._atomCount=e,this._bondCount=t}getNextColumnIdx(e){for(;!this.isWhitespace(e);)++e;for(;this.isWhitespace(e);)++e;return e}shiftIdxToSpecifiedColumn(e,t){let n=e;const i=this.isWhitespace(n)?t:t-1;for(let e=0;e<i;e++)n=this.getNextColumnIdx(n);return n}parseAtomTypes(){const e=this.atomCount,t=new Array(e);let n=this.getAtomBlockIdx();for(let i=0;i<e;i++)n=this.shiftIdxToAtomType(n),t[i]=this.parseAtomType(n),n=this.getNextLineIdx(n);return t}parseAtomCoordinates(){const e=new Float32Array(this.atomCount),t=new Float32Array(this.atomCount),n=new Float32Array(this.atomCount);let i=this.getAtomBlockIdx();for(let o=0;o<this.atomCount;o++){i=this.shiftIdxToXColumn(i);for(const r of[e,t,n])r[o]=this.parseFloatValue(i),i=this.getNextColumnIdx(i);i=this.getNextLineIdx(i)}return{x:e,y:t,z:n}}parseBondedAtomPairs(){const e=new Array(this.bondCount);let t=this.getBondBlockIdx();for(let n=0;n<this.bondCount;n++){t=this.shiftIdxToBondedAtomsPair(t);const i=new Uint16Array(2);i[0]=this.parseIntValue(t),t=this.getNextColumnIdx(t),i[1]=this.parseIntValue(t),e[n]=i,t=this.getNextLineIdx(t)}return e}parseBondTypes(){const e=this.bondCount,t=new Uint16Array(e);let n=this.getBondBlockIdx();for(let i=0;i<e;i++)n=this.shiftIdxToBondType(n),t[i]=this.parseIntValue(n),n=this.getNextLineIdx(n);return t}isWhitespace(e){const t=this.fileContent[e];return" "===t||"\t"===t}getNextLineIdx(e){return"\n"!==this.fileContent[e]?this.fileContent.indexOf("\n",e)+1:e+1}parseFloatValue(e){return this.parseNumericValue(parseFloat,e)}parseIntValue(e){return this.parseNumericValue(parseInt,e)}parseNumericValue(e,t){let n=t+1;for(;!this.isWhitespace(n);)++n;return e(this.fileContent.substring(t,n))}}class xt extends Lt{constructor(e){super(e),this.init(e)}init(e){super.init(e)}parseAtomType(e){let t=e,n=t;return this.isQuote(t)?(n=this.getNextIdenticalChar(t),t++):n=this.fileContent.indexOf(" ",n),this.fileContent.substring(t,n)}isQuote(e){const t=this.fileContent[e].charCodeAt(0);return 39===t||34===t}getNextIdenticalChar(e){const t=this.fileContent[e];return t?this.fileContent.indexOf(t,e+1):-1}isQuery(){return this.isQueryOrFragment((e,t)=>{return 39===e||34===e||76===e&&!((n=this.fileContent.charCodeAt(t+1))>64&&n<91||n>96&&n<123);var n})}isFragment(){return this.isQueryOrFragment(e=>82===e||42===e)}isQueryOrFragment(e){const t=this.atomCount;let n=this.getAtomBlockIdx();for(let i=0;i<t;i++){if(n=this.shiftIdxToAtomType(n),e(this.fileContent.charCodeAt(n),n))return!0;n=this.getNextLineIdx(n)}return!1}}class Nt extends xt{constructor(e){super(e)}getAtomLines(){const e=this.getAtomBlockIdx(),t=this.getBondBlockIdx();return this.fileContent.substring(e,t).split("\n").slice(0,this.atomCount)}getBondLines(){const e=this.getBondBlockIdx();return this.fileContent.substring(e).split("\n").slice(0,this.bondCount)}getRGroupIdToAtomicIdxMap(){const e=new Map,t=this.fileContent.split("\n");t.filter(e=>e.startsWith(Mt.RGP_LINE_START)).forEach(t=>{const n=this.getAtomIdxToRgpIdxList(t);for(const[t,i]of n){if(e.has(t))throw new Error(`R group ${t} is already in the map`);e.set(t,i)}});const n=t.map((e,t)=>{if(e.startsWith(Mt.ATOM_ALIAS_LINE_START))return t}).filter(e=>void 0!==e),i=n.map(e=>t[e]),o=n.map(e=>t[e+1]);i.forEach((t,n)=>{const i=parseInt(t.split(/\s+/)[1])-1,r=parseInt(o[n].substring(1));if(e.has(r))throw new Error(`R group ${r} is already in the map`);e.set(r,i)});const r=this.getRGroupAtomicIndices().filter(t=>!Array.from(e.values()).includes(t));if(0!==r.length)throw new Error(`Unaccounted R group indices: ${r}`);return e}getAtomIdxToRgpIdxList(e){const t=e.split(/\s+/).filter(e=>e).slice(3).map(e=>parseInt(e)),n=new Array(t.length/2);for(let e=0;e<t.length;e+=2)n[e/2]=[t[e+1],t[e]-1];return n}getRGroupAtomicIndices(){return this.atomTypes.map((e,t)=>{if(e.includes("R#"))return t}).filter(e=>void 0!==e)}static isValidMolfile(e){return-1!==e.indexOf(Mt.TYPE)&&-1!==e.indexOf(Mt.END)}shiftIdxToAtomType(e){return this.shiftIdxToSpecifiedColumn(e,Mt.ATOM_TYPE_COL)}getCountsLineIdx(){let e=0;for(let t=0;t<Mt.NUM_OF_HEADER_LINES;++t)e=this.getNextLineIdx(e);return e}getAtomBlockIdx(){let e=this.getCountsLineIdx();return e=this.getNextLineIdx(e),e}shiftIdxToXColumn(e){return this.getNextColumnIdx(e)}shiftIdxToBondedAtomsPair(e){return this.shiftIdxToSpecifiedColumn(e,Mt.FIRST_BONDED_ATOM_COL)}shiftIdxToBondType(e){return this.shiftIdxToSpecifiedColumn(e,Mt.BOND_TYPE_COL)}getBondBlockIdx(){let e=this.getAtomBlockIdx();for(let t=0;t<this.atomCount;t++)e=this.getNextLineIdx(e);return e}parseAtomAndBondCounts(){let e=this.getCountsLineIdx(),t=e+Mt.NUM_OF_COUNTS_DIGITS;const n=parseInt(this.fileContent.substring(e,t));return e=t,t+=Mt.NUM_OF_COUNTS_DIGITS,{atomCount:n,bondCount:parseInt(this.fileContent.substring(e,t))}}}class Rt extends xt{constructor(e){super(e),this.init(e)}getAtomLines(){const e=this.getAtomBlockIdx(),t=this.getBondBlockIdx();return this.fileContent.substring(e,t).split("\n").slice(0,this.atomCount)}getBondLines(){const e=this.getBondBlockIdx();return this.fileContent.substring(e).split("\n").slice(0,this.bondCount)}getRGroupIdToAtomicIdxMap(){const e=new Map;return this.getAtomLines().forEach((t,n)=>{const i=t.match(/RGROUPS=\(([\d\s]+)\)/);if(i){const t=i[1].split(/\s+/).map(e=>parseInt(e));if(t.length>2)throw new Error(`R group data ${t} has more than 2 elements`);const o=t[1];if(e.has(o))throw new Error(`R group ${o} is already in the map`);e.set(o,n)}}),e}shiftIdxToAtomType(e){return this.shiftIdxToSpecifiedColumn(e,4)}getCountsLineIdx(){return this.fileContent.indexOf("M V30 COUNTS ")}getAtomBlockIdx(){let e=this.fileContent.indexOf("M V30 BEGIN ATOM");return e=this.getNextLineIdx(e),e}shiftIdxToXColumn(e){let t=this.shiftIdxToAtomType(e);return this.isQuote(t)?(t=this.getNextIdenticalChar(t),t=this.getNextColumnIdx(t),t):this.shiftIdxToSpecifiedColumn(e,5)}shiftIdxToBondedAtomsPair(e){return this.shiftIdxToSpecifiedColumn(e,5)}shiftIdxToBondType(e){return this.shiftIdxToSpecifiedColumn(e,4)}getBondBlockIdx(){return this.getNextLineIdx(this.fileContent.indexOf("M V30 BEGIN BOND"))}static isValidMolfile(e){return-1!==e.indexOf("V3000")&&-1!==e.indexOf("M END")}parseAtomAndBondCounts(){let e=this.fileContent.indexOf("M V30 COUNTS ")+14,t=this.fileContent.indexOf(" ",e+1);const n=parseInt(this.fileContent.substring(e,t));return e=t+1,t=this.fileContent.indexOf(" ",e+1),{atomCount:n,bondCount:parseInt(this.fileContent.substring(e,t))}}}class $t{constructor(){}static getInstance(e){if($t.isMolfileV2K(e))return new Nt(e);if($t.isMolfileV3K(e))return new Rt(e);throw new Error("Malformed molfile")}static isMolfileV2K(e){return Nt.isValidMolfile(e)}static isMolfileV3K(e){return Rt.isValidMolfile(e)}}var Ht=n(6197),Ot=n(9124),Dt=n(3527);class kt{biotype;id;n;m;type;mt;smiles;get issmiles(){return!!this.smiles}at={R1:"H",R2:"H",R3:"H",R4:"H",R5:"H",R6:"H",R7:"H",R8:"H",R9:"H"};get rs(){return Object.keys(this.at).length}constructor(e,t,n="missing",i=void 0,o=void 0,r=void 0,s){if(this.biotype=e,this.id=t,this.n=n,this.m=i,this.type=o,this.mt=r,this.smiles=s,!this.id)throw new Error("Invalid arg undefined [id].")}static objCounter=-1;objId=++kt.objCounter;className="WebEditorMonomerDummy";toLog(){return`Helm: ${this.className}<${this.objId}>`}}class Ft extends kt{backgroundcolor="#808080";linecolor="#000000";textcolor="#000000";constructor(e,t,n,i,o){super(e,t,i,void 0,void 0,void 0,n),this.at={},o.forEach(e=>{this.at[e]="H"})}}class Gt extends kt{backgroundcolor="#FFFFFF";linecolor="#808080";textcolor="#808080";constructor(e){super(e,"*","gap")}}class Bt extends kt{backgroundcolor="#808080";linecolor="#000000";textcolor="#000000";constructor(e,t){super(e,t,"ambiguous")}}class Vt extends kt{backgroundcolor="#FF4444";linecolor="#800000";textcolor="#FFFFFF";constructor(e,t,n){super(e,t,"missing"),n&&(this.backgroundcolor="#C0C0C0",this.linecolor="#404040",this.textcolor="#404040")}}class Ut extends kt{backgroundcolor="#FFFF44";linecolor="#800000";textcolor="#000000";constructor(e,t){super(e,t,"broken")}}class Wt{id;m;n;na;type;mt;at;smiles;get rs(){return Object.keys(this.at).length}get issmiles(){return!!this.smiles}linecolor;backgroundcolor;textcolor;constructor(e,t,n,i,o,r,s,a){this.id=e,this.m=t,this.n=n,this.na=i,this.type=o,this.mt=r,this.at=s,this.smiles=a}static fromMonomer(e,t,n){let i={};const o=t.symbol,r=t.smiles;if(t.rgroups.length>0)t.rgroups.forEach(e=>{i[e.label]=e.capGroupName});else{if(!r){if(t.lib)return new Ut(e,o);throw new Error("Unexpected missing monomer without .lib")}i=n.getRS(r)}const s=new Wt(t.symbol,t.molfile,t.name,t.naturalAnalog,t.polymerType,t.monomerType,i),a=n.getMonomerColors(e,t.symbol);return a&&(s.textcolor=a?.textcolor,s.linecolor=a?.linecolor,s.backgroundcolor=a?.backgroundcolor),s}}const qt={[Be.o.BASE]:{A:"#20E040",G:"#040404",T:"#FF8080",C:"#2060FF",U:"#FF8080"},[Be.o.NUCLEOTIDE]:{A:"#20E040",G:"#040404",T:"#FF8080",C:"#2060FF",U:"#FF8080"},[Be.o.LINKER]:{P:"#9aa5e1",p:"#9aa5e1"},[Be.o.SUGAR]:{R:"#7a85c1",r:"#7a85c1"},[Be.o.AA]:{A:"rgb(44,160,44)",R:"rgb(23,190,207)",N:"rgb(235,137,70)",D:"rgb(31,119,180)",C:"rgb(188,189,34)",E:"rgb(31, 120, 150)",Q:"rgb(205, 111, 71)",G:"rgb(214,39,40)",H:"rgb(158,218,229)",I:"rgb(23,103,57)",L:"rgb(30,110,96)",K:"rgb(108, 218, 229)",M:"rgb(60,131,95)",F:"rgb(24,110,79)",P:"rgb(255,152,150)",S:"rgb(255,187,120)",T:"rgb(245,167,100)",W:"rgb(182, 223, 138)",Y:"rgb(152,223,138)",V:"rgb(74,160,74)"},[Be.o.CHEM]:{R:"#eeeeee"},[Be.o.BLOB]:{B:"#999999",G:"#e2e2e2"}};class Yt{constructor(e,t=[],n={}){this.onItemChanged=new u.Subject,this.onAddingItemChanged=new u.Subject,this.onItemAdded=new u.Subject,this.onItemRemoved=new u.Subject,this.options={removeButtonTooltip:"Remove item",addButtonTooltip:"Add item",allowAdd:!0,allowRemove:!0},this.addingItemInputs={},this.properties=e,this.options=Object.assign(Object.assign({},this.options),n),this._root=s.divV([],{style:{display:"grid",gridTemplateColumns:`repeat(${this.properties.length}, 1fr)`,alignItems:"center",gap:"12px"},classes:"ui-items-grid"}),this._items=t,this.render()}get root(){return this._root}get items(){return this._items}set items(e){this._items=e,this.render()}addItem(e,t=!0){this._items.push(e),this.render(),t&&this.onItemAdded.next(e)}removeItem(e,t=!0){-1!==this._items.indexOf(e)&&(this._items.splice(this._items.indexOf(e),1),this.render(),t&&this.onItemRemoved.next(e))}removeAtIndex(e,t=!0){if(e<0||e>=this._items.length)return;const n=this._items.splice(e,1);this.render(),t&&this.onItemRemoved.next(n[0])}removeAllItems(){this._items=[],this.render()}render(){var e,t,n,i,o;if(s.empty(this._root),!this.options.horizontalInputNames)for(const n of this.properties){let i=null!==(e=n.caption)&&void 0!==e?e:n.name;(null===(t=this.options.customLabels)||void 0===t?void 0:t[n.name])&&(i=this.options.customLabels[n.name]);const o=s.divText(i);o.style.fontWeight="bold",this._root.appendChild(o)}for(const e of this._items){const t=this.getItemDiv(e);for(const e of t)this._root.appendChild(e)}if(this.options.allowAdd){const e=this.getItemDiv(null!==(o=null===(i=(n=this.options).newItemFunction)||void 0===i?void 0:i.call(n))&&void 0!==o?o:void 0,!0);for(const t of e)this._root.appendChild(t)}}get addingItem(){const e={};return Object.keys(this.addingItemInputs).forEach(t=>{e[t]=this.addingItemInputs[t].value}),e}getItemDiv(e={},t){var n,i;const o=[],r={};let l=null;for(const c of this.properties){void 0===e[c.name]&&(e[c.name]=null);const u=(null===(n=this.options.customInputs)||void 0===n?void 0:n[c.name])?this.options.customInputs[c.name](e):s.input.forProperty(c,e),h=null===(i=this.options.validators)||void 0===i?void 0:i[c.name];h&&u.addValidator(h),o.push(this.options.horizontalInputNames?u.root:this.hideLabel(u.root)),c.propertyType!==a.TYPE.BOOL&&"color"!==c.name.toLowerCase()&&u.input&&(u.input.style.width="100%"),r[c.name]=u,u.onChanged.subscribe(()=>{e[c.name]=u.value,t?this.onAddingItemChanged.next({item:e,fieldName:c.name}):this.onItemChanged.next({item:e,fieldName:c.name})}),u.root.style.alignItems="center",l=u}let c=null;if(t)this.addingItemInputs=r,c=s.icons.add(()=>{const e=this.options.newItemFunction?this.options.newItemFunction():{};Object.keys(r).forEach(t=>{e[t]=r[t].value}),this._items.push(e),this.onItemAdded.next(e),this.render()},this.options.addButtonTooltip);else{if(!this.options.allowRemove)return o;c=s.icons.delete(()=>{this._items.splice(this._items.indexOf(e),1),this.onItemRemoved.next(e),this.render()},this.options.removeButtonTooltip)}return l&&l.addOptions?l.addOptions(c):null==l||l.root.appendChild(c),c.style.color="#2083d5",o}hideLabel(e){return e.getElementsByTagName("label")[0]&&e.removeChild(e.getElementsByTagName("label")[0]),e}hasErrors(){return this._root.querySelectorAll(".d4-invalid").length>0}}const jt={A:new V.A(new Uint32Array([2,0,0,0,16,0,0,0,134217728,0,0,0,32,0,33554432,0,0,0,0,0,1024,0,0,0,262144,128,0,0,0,0,0,0,0,2,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1048576,0,536870912,0,0,0,0]),2048),C:new V.A(new Uint32Array([2,0,65536,0,0,0,0,32,0,0,2,0,32,0,0,0,0,0,0,0,1024,0,0,0,262144,128,0,0,0,0,0,0,0,65536,0,0,524288,0,0,0,0,0,0,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,34603008,0,536870912,64,0,0,0]),2048),D:new V.A(new Uint32Array([2,0,65600,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,0,262400,128,0,0,0,0,0,0,0,0,0,2097152,524288,0,0,0,1024,0,0,0,524288,0,0,0,0,0,0,0,0,0,512,0,0,34603008,0,536870912,0,0,0,0]),2048),E:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,8,262144,128,0,0,16,134217728,0,0,0,0,0,0,524288,0,0,0,128,0,0,0,524288,0,0,0,268435456,0,0,0,0,0,512,2147483648,0,34603008,0,536870912,0,0,0,0]),2048),F:new V.A(new Uint32Array([2,0,98304,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,0,262144,128,33554432,0,0,0,0,33554432,0,1024,1,0,524288,32768,32,0,0,0,0,16,524288,0,0,0,0,0,0,0,0,0,71303168,0,0,34603008,131072,536870912,0,0,0,0]),2048),G:new V.A(new Uint32Array([134217728,0,65536,0,0,0,0,0,0,0,0,0,32,0,0,0,0,0,0,0,1024,0,0,0,0,128,0,0,0,0,2097216,0,0,0,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,512,0,0,0,0,536870912,0,0,0,0]),2048),H:new V.A(new Uint32Array([2,0,1073840128,0,0,0,0,0,0,0,0,67108864,32,0,0,0,0,0,0,0,1024,0,512,0,262144,192,0,268435456,0,0,8200,0,0,0,67108864,0,524296,0,32,0,0,0,0,16,524288,0,0,2147483648,0,0,8,0,0,0,0,0,0,34603008,131072,536870920,4194304,0,0,0]),2048),I:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,150994944,64,0,0,32,0,0,0,0,0,0,0,1024,0,8388608,0,327680,128,0,0,0,0,0,0,0,2,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,256,0,0,0,0,8388608,0,33554432,0,1048576,0,536870912,0,0,0,0]),2048),K:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,0,0,0,0,268435488,0,0,0,0,0,0,0,1024,0,0,8,262144,128,0,0,0,0,2097152,0,0,67108864,0,0,524288,0,0,0,8,0,0,0,524288,0,0,8192,0,0,0,0,0,0,0,2147483648,0,34668544,0,545259520,0,0,0,0]),2048),L:new V.A(new Uint32Array([2,0,65536,0,0,0,0,0,134217728,0,0,0,32,512,0,0,0,0,0,0,1024,256,0,8388608,262400,128,0,0,0,0,0,0,0,2,0,0,524288,0,0,0,0,0,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,42991616,0,536870912,0,0,0,0]),2048),M:new V.A(new Uint32Array([2050,0,65536,1048576,0,0,0,0,0,0,0,0,1056,0,0,0,0,0,0,0,1024,0,0,8,262144,128,0,0,0,0,0,536870912,0,2,0,0,1074266112,0,0,0,0,0,0,0,524288,0,0,0,4194304,0,0,0,0,0,0,2147483648,0,34603008,0,536870912,4194304,0,0,0]),2048),N:new V.A(new Uint32Array([2,0,65536,0,4096,0,0,0,0,0,0,16777216,32,0,0,0,0,0,0,0,1024,0,0,0,262400,128,0,0,0,0,0,0,0,0,0,0,524288,0,0,0,1024,0,0,0,524288,0,0,0,0,0,0,0,0,0,0,0,0,34603008,0,536871936,67108864,0,0,0]),2048),P:new V.A(new Uint32Array([0,0,1024,0,0,0,0,0,0,131072,0,1024,32,0,0,0,0,512,0,0,1024,0,0,64,0,128,0,0,1073741824,0,0,138412032,16,0,67108864,0,0,0,0,0,0,8192,0,0,8388608,0,0,8,0,0,0,0,0,0,256,0,0,0,0,553648128,0,0,0,0]),2048),Q:new V.A(new Uint32Array([2,0,65536,0,4096,0,0,0,0,0,0,0,32,0,0,0,0,2,0,0,1024,0,0,8,262144,128,0,0,16,0,0,0,0,0,0,0,524288,0,0,0,0,0,0,0,524288,0,0,0,268435456,0,0,0,0,0,16777216,2147483648,0,34603008,0,536871936,0,0,0,0]),2048),R:new V.A(new Uint32Array([2,0,65536,0,4096,0,32,0,0,0,0,0,268435488,0,0,0,0,0,0,32768,134218752,0,16,8,262144,128,0,1073741824,0,0,8388608,0,0,0,65536,0,524289,0,0,0,0,0,0,0,524288,2048,0,0,0,0,0,0,0,0,0,2147483648,0,34603008,1048576,545259520,0,0,0,0]),2048),S:new V.A(new Uint32Array([2,0,65536,0,0,0,1073741824,0,0,0,0,0,32,0,0,4,0,0,0,0,1024,0,0,0,262144,128,0,0,0,0,0,0,0,0,0,0,524288,0,0,1048576,0,0,0,0,524288,0,0,0,0,0,0,0,0,0,8388608,0,0,34603008,0,536870912,0,0,0,0]),2048),T:new V.A(new Uint32Array([2,0,0,0,0,0,0,8,134217728,0,0,67108864,32,0,0,0,0,0,0,0,1024,0,8388608,0,262144,128,0,0,0,0,0,0,0,2,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,536870912,0,0,0,0,1048576,67108864,536870912,0,0,0,0]),2048),V:new V.A(new Uint32Array([2,0,0,0,0,0,0,0,134217728,0,0,0,32,0,0,0,0,0,0,0,1024,0,8388608,0,262144,128,0,0,0,0,0,1073741824,128,2,0,524288,524288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,8192,0,1048576,0,536870912,0,0,0,0]),2048),W:new V.A(new Uint32Array([2,0,98304,8388608,0,0,0,0,0,0,256,4096,32,0,0,0,0,0,0,0,1024,0,0,0,262144,192,0,0,0,0,0,0,0,0,67108865,0,524288,32768,32,0,0,0,8224,16,524288,0,0,0,0,32,128,0,2097152,0,4194304,8388608,0,34603008,8519680,536870912,131072,262144,0,0]),2048),Y:new V.A(new Uint32Array([2,0,98304,0,0,0,0,0,0,4194304,0,0,32,0,0,0,0,0,0,0,1024,0,0,512,262144,128,33554432,0,0,0,0,33554432,0,0,0,0,524288,0,32,0,0,2,0,16,524288,0,0,0,0,0,4,0,0,0,71303168,262144,0,34603008,131072,536870912,0,0,0,0]),2048)},Kt={RNA:{A:new V.A(new Uint32Array([0,0,0,0,0,0,0,0,0,1024,0,67108864,0,0,0,512,0,0,0,8388608,0,0,512,0,0,64,4,0,0,0,4,0,0,0,67108864,0,524289,0,0,0,0,0,0,16,0,659456,0,256,0,16,0,0,0,268435456,0,0,262144,0,131072,0,0,0,8388608,0]),2048),C:new V.A(new Uint32Array([0,1073741824,0,0,0,0,0,2147483648,4,67108864,0,67108864,0,256,0,0,0,0,0,0,1024,0,128,0,0,64,0,0,0,0,0,0,0,0,67108864,0,524289,0,65536,0,0,0,0,16,0,131072,0,4,0,0,0,0,0,0,4194304,0,0,2147483648,131072,0,4096,0,0,0]),2048),G:new V.A(new Uint32Array([0,0,0,0,1024,0,0,0,0,67109888,16384,67108864,0,0,0,0,0,0,0,33562624,1024,33554432,512,16384,0,64,4,0,0,33554432,0,0,0,0,67108864,0,524289,0,0,0,0,0,0,16,0,135168,0,268435456,0,0,0,0,0,268435456,131072,0,0,2147483648,131072,0,0,0,8388608,0]),2048),T:new V.A(new Uint32Array([8388608,0,0,0,0,0,0,0,0,67108864,0,0,0,4,0,0,0,0,0,0,1024,0,0,16384,0,64,0,0,0,0,0,0,0,2,67108864,0,0,0,0,0,0,0,0,40976,0,0,0,0,0,0,0,0,0,67108864,131072,524288,0,0,8519680,0,1,33554432,1048576,0]),2048),U:new V.A(new Uint32Array([0,0,131072,1073741824,0,0,0,0,0,67108864,0,0,0,0,0,0,0,0,0,0,1024,0,128,0,0,64,0,0,0,0,0,0,0,32768,67108864,0,0,0,0,0,0,0,0,16,0,0,0,4,0,0,2048,0,0,0,4341760,0,0,0,131072,0,0,33554432,1048576,0]),2048)},PEPTIDE:jt};async function zt(e,t,n=0){if(!Object.keys(Kt).includes(t))return null;const i=await async function(e){const t=a.Func.find({package:"Chem",name:"getMorganFingerprint"})?.[0];if(!t)return null;try{const n=(await t.apply({molString:e}))?.getBuffer().buffer;if(n)return new V.A(new Uint32Array(n),2048)}catch(e){return null}}(e);if(!i)return null;if(!Kt[t])return null;const o=Kt[t];let r=0,s=null;for(const[e,t]of Object.entries(o)){const o=(0,H.$1)(i,t);o>r&&o>=n&&(r=o,s=e)}return s}var Zt=n(857),Xt={};Xt.styleTagTransform=C(),Xt.setAttributes=b(),Xt.insert=f().bind(null,"head"),Xt.domAPI=p(),Xt.insertStyleElement=v(),d()(Zt.A,Xt),Zt.A&&Zt.A.locals&&Zt.A.locals;const Jt=[{alternateId:"R1-H",capGroupName:"H",capGroupSmiles:"[*:1][H]",label:"R1"},{alternateId:"R2-OH",capGroupName:"OH",capGroupSmiles:"O[*:2]",label:"R2"},{alternateId:"R3-H",capGroupName:"H",capGroupSmiles:"[*:3][H]",label:"R3"},{alternateId:"R4-H",capGroupName:"H",capGroupSmiles:"[*:4][H]",label:"R4"},{alternateId:"R5-H",capGroupName:"H",capGroupSmiles:"[*:5][H]",label:"R5"},{alternateId:"R6-H",capGroupName:"H",capGroupSmiles:"[*:6][H]",label:"R6"}];var Qt;!function(e){e.MONOMER="Monomer",e.SYMBOL="Symbol",e.NAME="Name",e.R_GROUPS="~R-Groups",e.MONOMER_TYPE="Monomer Type",e.POLYMER_TYPE="Polymer Type",e.NATURAL_ANALOG="Natural Analog",e.AUTHOR="Author",e.CREATE_DATE="Create Date",e.ID="ID",e.META="Meta",e.SOURCE="Source"}(Qt||(Qt={}));const en={[Qt.MONOMER]:a.COLUMN_TYPE.STRING,[Qt.SYMBOL]:a.COLUMN_TYPE.STRING,[Qt.NAME]:a.COLUMN_TYPE.STRING,[Qt.R_GROUPS]:a.COLUMN_TYPE.STRING,[Qt.MONOMER_TYPE]:a.COLUMN_TYPE.STRING,[Qt.POLYMER_TYPE]:a.COLUMN_TYPE.STRING,[Qt.NATURAL_ANALOG]:a.COLUMN_TYPE.STRING,[Qt.AUTHOR]:a.COLUMN_TYPE.STRING,[Qt.CREATE_DATE]:a.COLUMN_TYPE.DATE_TIME,[Qt.ID]:a.COLUMN_TYPE.INT,[Qt.META]:a.COLUMN_TYPE.STRING,[Qt.SOURCE]:a.COLUMN_TYPE.STRING};async function tn(e){const t=await nn(e);if(e.length!==t.rowCount)throw new Error(`Monomers length ${e.length} does not match dataframe row count ${t.rowCount}`);return await Promise.all(new Array(e.length).fill(null).map(async(e,n)=>mn(t.rows.get(n))))}async function nn(e){try{const t=a.DataFrame.create(e.length),n=new Set;for(const t of e)t.rgroups.forEach(e=>{e.label&&n.add(e.label)});const i=Array.from(n);i.sort();for(const[e,n]of Object.entries(en))if(t.columns.addNew(e,n),e===Qt.R_GROUPS)for(const e of i)t.columns.addNew(e,a.COLUMN_TYPE.STRING);t.col(Qt.SYMBOL).semType="Monomer",t.col(Qt.SYMBOL).setTag(Oe.Mn.applyToBackground,"true"),t.col(Qt.SYMBOL).setTag(we.qE.polymerTypeColumnName,Qt.POLYMER_TYPE);const o=a.TaskBarProgressIndicator.create("Creating Monomers DataFrame...");for(let n=0;n<e.length;n++){n%20==0&&o.update((n+1)/e.length*100,"Creating Monomers DataFrame...");const r=()=>{let o=un(e[n].rgroups,e[n].smiles,e[n].molfile);o=rn(o),e[n].rgroups=ln(e[n].rgroups);const r=i.map(t=>{const i=e[n].rgroups.find(e=>e.label===t);return i?an(i,"capGroupSmiles"):""});let s=null;if(e[n].createDate)try{s=Date.parse(e[n].createDate)}catch(t){console.error(`Error parsing date ${e[n].createDate}`)}t.rows.setValues(n,[o,e[n].symbol,e[n].name,JSON.stringify(e[n].rgroups??[]),...r,e[n].monomerType,e[n].polymerType,e[n].naturalAnalog,e[n].author,s,e[n].id,JSON.stringify(e[n].meta??{}),e[n].lib?.source??""],!1);try{s&&t.col(Qt.CREATE_DATE)?.set(n,s,!1)}catch(t){console.error(`Error setting date ${e[n].createDate}`,t)}};await new Promise(e=>{const t=()=>{try{r(),e()}catch(t){console.error("Error in doFill",t),e()}};n%20==0?setTimeout(()=>{t()}):t()})}return o.close(),t.col(Qt.MONOMER).semType=a.SEMTYPE.MOLECULE,i.forEach(e=>{t.col(e).semType=a.SEMTYPE.MOLECULE}),t}catch(e){throw r.shell.error("Error creating monomers dataframe"),console.error(e),e}}class on{monomerLibManamger;adjustTable(){this.tv?.dataFrame&&(r.data.detectSemanticTypes(this.tv.dataFrame),this.tv.dataFrame.meta.detectSemanticTypes()),setTimeout(()=>{this.tv?.grid&&(this.tv.grid.props.allowEdit=!1,this.tv.grid.col(Qt.NAME).width=100,this.tv.grid.col(Qt.SYMBOL).width=70)},200)}static VIEW_NAME="Manage Monomers";_newMonomer=fe.pe;_newMonomerForm;monomerLib;tv=null;libInput;static instance;activeMonomerLib=null;constructor(e){this.monomerLibManamger=e,this.monomerLib=e.getBioLib(),this._newMonomerForm=new cn(e,()=>this.activeMonomerLib,async e=>{const t=await this.getMonomersDf(this.libInput.value);this.tv?.dataFrame&&(this.tv.dataFrame=t,this.adjustTable(),null!=e&&setTimeout(()=>{const n=t.col(Qt.SYMBOL).toList().indexOf(e);-1!==n&&(this.tv?.grid.scrollToCell(t.columns.byIndex(0),n),t.currentRow=t.rows.get(n))},500))},()=>this.tv?.dataFrame)}static async getInstance(){if(!this.instance){const e=await kn.getInstance();await e.awaitLoaded(),this.instance=new on(e)}return this.instance}static async getNewInstance(){const e=await kn.getInstance();return await e.awaitLoaded(),new on(e)}async createNewMonomerLib(e,t,n){this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!0);try{const i=(await this.monomerLibManamger.getProviders()).find(t=>t.name===e);if(!i)throw new Error(`Provider ${e} not found`);const o=n.map(e=>({...e,lib:void 0,wem:void 0}));await i.addOrUpdateLibrary(t,o),await this.monomerLibManamger.loadMonomerLib(!1),r.shell.v=await this.getViewRoot(t)}catch(e){r.shell.error("Error creating library"),console.error(e)}finally{this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!1)}}async createNewLibDialog(e){const t=await this.monomerLibManamger.getAvaliableLibraryNames(),n=s.input.string("Library Name",{placeholder:"Enter library name",nullable:!1,onValueChanged:()=>{const e=i(n.value);l.getButton("Create")?.classList?.toggle("d4-disabled",!!e)}});function i(e){return e&&e.trim()?t.includes(e)||t.includes(e+".json")?"Library with this name already exists":null:"Library name cannot be empty"}n.addValidator(i);const o=(await this.monomerLibManamger.getProviders()).map(e=>e.name),a=s.input.choice("Storage",{items:o,value:o[0],nullable:!1,tooltipText:"Select storage provider for the new library"});1===o.length&&(a.readOnly=!0);const l=s.dialog("Create New Library").add(a).add(n).addButton("Create",async()=>{const t=i(n.value);if(t)r.shell.warning(t);else if(a.value){try{await this.createNewMonomerLib(a.value,n.value,e??[])}catch(e){r.shell.error("Error creating library"),console.error(e)}l.close()}else r.shell.warning("Please select storage provider")}).show();l.getButton("Create")?.classList?.toggle("d4-disabled",!0)}get newMonomer(){return this._newMonomer}getNewMonomerForm(){return this._newMonomerForm}_contextMenuSub=null;async getMonomersTableView(e,t=!0){const n=await this.getMonomersDf(e);return this.tv=a.TableView.create(n,t),this.adjustTable(),this._contextMenuSub?.unsubscribe(),this._contextMenuSub=r.events.onContextMenu.subscribe(({args:e})=>{if(!e||!e.menu||!e.context||e.context.type!==a.VIEWER.GRID||!e.context.tableView||e.context.tableView.id!==(this.tv.id??"")||!e.item||!e.item.isTableCell||(e.item.tableRowIndex??-1)<0)return;const t=e.item.tableRowIndex;e.menu.item("Edit Monomer",async()=>{await this.editMonomer(this.tv.dataFrame.rows.get(t))}),e.menu.item("Fix all monomers",()=>{this.fixAllMonomers()}),this.tv.dataFrame.selection.trueCount>0?(e.menu.item("Remove Selected Monomers",async()=>{const e=await Promise.all(Array.from(this.tv.dataFrame.selection.getSelectedIndexes()).map(e=>mn(this.tv.dataFrame.rows.get(e))));this._newMonomerForm.removeMonomers(e,this.libInput.value)}),e.menu.item("Selection To New Library",async()=>{const e=await Promise.all(Array.from(this.tv.dataFrame.selection.getSelectedIndexes()).map(e=>mn(this.tv.dataFrame.rows.get(e))));this.createNewLibDialog(e)})):e.menu.item("Remove Monomer",async()=>{const e=await mn(this.tv.dataFrame.rows.get(t));this._newMonomerForm.removeMonomers([e],this.libInput.value)})}),this.tv.grid&&(this.tv.grid.props.allowEdit=!1),this.tv}static closeAllMonomerManagers(){Array.from(r.shell.tableViews??[]).filter(e=>e.name===on.VIEW_NAME).forEach(e=>e.close())}findActiveManagerView(){if(!this.tv)return null;const e=Array.from(r.shell.tableViews??[]).find(e=>e.id===this.tv.id);return e?r.shell.v=e:on.closeAllMonomerManagers(),e??null}_skipLibInputOnchange=!1;async getViewRoot(e,t=!0){const n=await this.monomerLibManamger.getAvaliableLibraryNames();if(this._newMonomerForm.molSketcher.resize(),t&&(this.tv=this.findActiveManagerView())&&(e??this.libInput.value)){try{this._skipLibInputOnchange=!0,this.libInput&&(this.libInput.items=n),e&&(this.libInput.value=e)}catch(e){r.shell.error("Error updating library list"),console.error(e)}finally{this._skipLibInputOnchange=!1}const t=await this.getMonomersDf(e);return this.tv.dataFrame=t,this.adjustTable(),this.tv}e??=n[0],this.tv=await this.getMonomersTableView(e,t);let i=this.tv.getRibbonPanels();i.forEach((e,t)=>{i[t]=e.filter(e=>0!==e.getElementsByClassName("grok-icon-filter").length)}),i=i.filter(e=>e.length>0);const o=s.icons.add(()=>{this._newMonomerForm.setEmptyMonomer()},"Add New Monomer"),l=s.iconFA("wand-magic",()=>{this.fixAllMonomers()},"Fix all monomers"),c=s.icons.edit(async()=>{(this.tv?.dataFrame?.currentRowIdx??-1)<0||await this.editMonomer(this.tv.dataFrame.rows.get(this.tv.dataFrame.currentRowIdx))},"Edit Monomer"),u=s.icons.delete(async()=>{const e=this.tv?.dataFrame?.currentRowIdx??-1,t=Array.from(this.tv?.dataFrame?.selection?.getSelectedIndexes()??[]);if(e<0&&0===t.length)return;if(t.length>0){const e=await Promise.all(t.map(e=>mn(this.tv.dataFrame.rows.get(e))));return void await this._newMonomerForm.removeMonomers(e,this.libInput.value)}const n=await mn(this.tv.dataFrame.rows.get(e));await this._newMonomerForm.removeMonomers([n],this.libInput.value)});s.tooltip.bind(u,()=>(this.tv?.dataFrame?.selection?.trueCount??0)>0?"Delete selected monomers":"Delete monomer");const h=s.iconFA("arrow-to-bottom",async()=>{const e=this.libInput.value;if(!e)return r.shell.error("No library selected");let t=null;try{const n=await(0,ve.pY)(await this.monomerLibManamger.getProviders(),e);if(!n)throw new Error(`Library ${e} not found in any provider`);t=await n.getLibraryAsString(e)}catch(t){return r.shell.error(`Error reading library ${e}`),console.error(t)}if(!t)return r.shell.error(`Library ${e} is empty`);a.Utils.download(e,t,"text/plain")},"Download Monomer Library");i.push([o,c,l,u,h]),this.tv.setRibbonPanels(i),this.tv.name=on.VIEW_NAME,this.libInput=s.input.choice("Monomer Library",{value:e,items:n,nullable:!1,onValueChanged:async()=>{try{if(this._skipLibInputOnchange)return;const e=await this.getMonomersDf(this.libInput.value);this.tv.dataFrame=e,this.adjustTable()}catch(e){console.error(e)}}}),this.libInput.addOptions(s.icons.add(()=>{this.createNewLibDialog()},"Create new monomer library..."));const d=this._newMonomerForm.form;return d.prepend(this.libInput.root),s.tools.waitForElementInDom(this.tv.root).then(()=>{this.tv.dockManager.dock(d,a.DOCK_TYPE.LEFT,null,void 0,.4)}),this.tv}async editMonomer(e){return this._newMonomer=await mn(e),this._newMonomerForm.setMonomer(this._newMonomer),this._newMonomer}async getMonomersDf(e){this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!0);try{let t=null;const n=await this.monomerLibManamger.getProviders();if(0===n.length)throw new Error("No monomer library providers available");if(e){if(t=await(0,ve.pY)(n,e),!t)throw new Error(`Library ${e} not found in any provider`)}else t=n[0],e=(await t.listLibraries())[0];if(this.activeMonomerLib=await this.monomerLibManamger.readSingleLibrary(t.name,e),!this.activeMonomerLib)return r.shell.error(`Library ${e} not found`),a.DataFrame.create();const i=this.activeMonomerLib.getPolymerTypes().flatMap(e=>this.activeMonomerLib.getMonomerSymbolsByType(e).map(t=>this.activeMonomerLib.getMonomer(e,t)));return await nn(i)}catch(e){throw r.shell.error("Error creating monomers dataframe"),console.error(e),e}finally{this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!1)}}async fixAllMonomers(){s.dialog("Fix All Monomers").add(s.divText("This action will fix all monomers in the library, standardize their smiles, molblocks and r-groups, assign correct natural analogs and save the library.")).add(s.divText("Do you wish to continue?")).onOK(async()=>{const e=this.tv?.dataFrame,t=this.libInput.value;if(e&&t){this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!0);try{const n=await(0,ve.pY)(await this.monomerLibManamger.getProviders(),t);if(!n)throw new Error(`Library ${t} not found in any provider`);const i=(await Promise.all(new Array(e.rowCount).fill(0).map((t,n)=>mn(e.rows.get(n))))).map(e=>({...e,lib:void 0,wem:void 0}));await n.addOrUpdateLibrary(t,i),await this.monomerLibManamger.loadMonomerLib(!0),r.shell.v=await this.getViewRoot(t)}catch(e){r.shell.error("Error saving library"),console.error(e)}finally{this.tv?.grid&&s.setUpdateIndicator(this.tv.grid.root,!1)}}else r.shell.error("No monomer library loaded")}).show()}resetCurrentRowFollowing(){this._newMonomerForm.molChanged=!1}}function rn(e){let t=e.replaceAll(/\[R[1-9]\]/g,e=>`[*:${e[2]}]`);return t=t.replaceAll(/\[\d\*\]/g,e=>`[*:${e[1]}]`),t.replaceAll(/\[\d\*\:\d\]/g,e=>`[*:${e[1]}]`)}const sn=["alternateId","capGroupName","capGroupSMILES","label"];function an(e,t){const n=Object.keys(e).find(e=>e.toLowerCase()===t.toLowerCase());if(n)return e[n]}function ln(e){return e.map(e=>{const t=function(e,t){const n={};return e.forEach(e=>{const i=Object.keys(t).find(t=>t.toLowerCase()===e.toLowerCase());i&&(n[e]=t[i])}),n}(sn,e),n=an(t,"capGroupSMILES"),i=an(t,"alternateId"),o=an(t,"capGroupName"),r=an(t,"label")??"R1";if(n&&i&&o||r.length<2)return t;if(i&&-1!==i.indexOf(`${r}-`)){const e=i.replace(`${r}-`,"");o||(t.capGroupName=e),n||(t.capGroupSMILES=`[*:${r.substring(1)}][${e}]`)}else o&&(n||(t.capGroupSMILES=`[*:${r.substring(1)}][${o}]`),i||(t.alternateId=`${r}-${o}`));return t}).sort((e,t)=>e.label?.localeCompare(t.label??"")??0)}class cn{monomerLibManager;getMonomerLib;refreshTable;getMonomersDataFrame;molSketcher;monomerTypeInput;polymerTypeInput;monomerSymbolInput;monomerNameInput;monomerIdInput;monomerNaturalAnalogInput;rgroupsGrid;metaGrid;colors;colorsEditor;saveButton;rgroupsGridRoot;_molChanged=!1;get molChanged(){return this._molChanged}set molChanged(e){this._molChanged=e}saveValidationResult=null;triggerMolChange=!0;inputsTabControl;constructor(e,t,n,i){this.monomerLibManager=e,this.getMonomerLib=t,this.refreshTable=n,this.getMonomersDataFrame=i,this.colors={line:"#000000",background:"#000000",text:"#000000"},this.colorsEditor=new pn(this.colors),this.molSketcher=new a.chem.Sketcher,this.molSketcher.root.classList.add("monomer-manager-sketcher"),this.polymerTypeInput=s.input.choice("Polymer Type",{value:"PEPTIDE",items:["PEPTIDE","RNA","CHEM","BLOB","G"],onValueChanged:()=>this.onMonomerInputChanged(),nullable:!1}),this.monomerTypeInput=s.input.choice("Monomer Type",{value:"Backbone",items:["Backbone","Branch","Terminal"],onValueChanged:()=>this.onMonomerInputChanged(),nullable:!1}),this.monomerSymbolInput=s.input.string("Monomer Symbol",{nullable:!1,onValueChanged:()=>this.onMonomerInputChanged()}),this.monomerNameInput=s.input.string("Monomer Name",{nullable:!1,onValueChanged:()=>this.onMonomerInputChanged()}),this.monomerNameInput.nullable=!1,this.monomerIdInput=s.input.int("Monomer ID",{nullable:!0,value:0,onValueChanged:()=>this.onMonomerInputChanged()}),this.monomerNaturalAnalogInput=s.input.string("Natural Analog",{nullable:!0,onValueChanged:()=>this.onMonomerInputChanged()}),this.saveButton=s.bigButton("Save",async()=>{const e=this.validateInputs();e?r.shell.warning(e):await this.saveMonomer()}),this.molSketcher.subs.push(this.molSketcher.onChanged.subscribe(async()=>{if(this.triggerMolChange){try{this.rgroupsGridRoot.style.display="none";const e=this.inputsTabControl.panes.find(e=>"r-groups"===e.name?.toLowerCase());e&&e.header.style.removeProperty("background-color");let t=this.molSketcher.getSmiles();if(!t)return this.rgroupsGrid.items=[],this.rgroupsGrid.render(),this.saveValidationResult="Monomer molecule is required",void this.invalidateSaveButton();t=un([],t);const n=this.findRgroupsInSmiles(t);if(0===n.length)return this.rgroupsGrid.items=[],this.rgroupsGrid.render(),this.saveValidationResult="At least one R-group is required",e&&e.header.style.setProperty("background-color","#ff000030"),void this.invalidateSaveButton();if(new Set(n.map(e=>e[0])).size!==n.length)return this.saveValidationResult="Duplicate R-groups are not allowed",this.rgroupsGridRoot.style.display="flex",e&&e.header.style.setProperty("background-color","#ff000030"),void this.invalidateSaveButton();const i=n.map(e=>Number.parseInt(e[0].match(/[1-9]/g)[0])).map(e=>this.rgroupsGrid.items.find(t=>t.label===`R${e}`)??{capGroupSMILES:`[*:${e}][H]`,alternateId:`R${e}-H`,capGroupName:"H",label:`R${e}`});this.rgroupsGrid.items=i.sort((e,t)=>e.label?.localeCompare(t.label??"")??0),this.rgroupsGrid.render(),this.rgroupsGridRoot.style.display="flex";const o=await zt(dn(t,i),this.polymerTypeInput.value??"");o&&(this.monomerNaturalAnalogInput.value=o)}catch(e){console.error(e)}this.onMonomerInputChanged(),this._molChanged=!0}else this.triggerMolChange=!0}));const o=[a.Property.js("capGroupSMILES",a.TYPE.STRING,{caption:"R-group SMILES",nullable:!1}),a.Property.js("alternateId",a.TYPE.STRING,{caption:"Alternate ID",nullable:!1}),a.Property.js("capGroupName",a.TYPE.STRING,{caption:"R-group name",nullable:!1}),a.Property.js("label",a.TYPE.STRING,{fieldName:"R-group Label",nullable:!1,userEditable:!1})];this.rgroupsGrid=new Yt(o,[],{allowAdd:!1,allowRemove:!1,validators:{capGroupSMILES:e=>e?r.chem.checkSmiles(e)?null:"Invalid SMILES":"Cap group smiles is required",alternateId:e=>e?null:"Alternate ID is required",capGroupName:e=>e?null:"Cap group name is required",label:e=>e?null:"R-group label is required"},customLabels:{capGroupSMILES:"R-group SMILES",alternateId:"Alternate ID",capGroupName:"Cap Group Name",label:"Label"}}),this.rgroupsGrid.onItemChanged.subscribe(()=>this.onMonomerInputChanged()),this.rgroupsGridRoot=s.divV([this.rgroupsGrid.root]),this.rgroupsGridRoot.style.display="none";const l=[a.Property.js("Property",a.TYPE.STRING,{caption:"Property",nullable:!0}),a.Property.js("Value",a.TYPE.STRING,{caption:"Value",nullable:!0})];this.metaGrid=new Yt(l,[]),this.onMonomerInputChanged();const c=s.divV([this.polymerTypeInput,this.monomerTypeInput,this.monomerSymbolInput,this.monomerNameInput,this.monomerIdInput,this.monomerNaturalAnalogInput]);this.inputsTabControl=s.tabControl({Monomer:c,"R-groups":this.rgroupsGridRoot,Meta:s.divV([this.metaGrid.root]),Colors:this.colorsEditor.form},!1)}invalidateSaveButton(){this.saveValidationResult?this.saveButton.classList.add("d4-disabled"):this.saveButton.classList.remove("d4-disabled")}onMonomerInputChanged(){setTimeout(()=>{this.saveValidationResult=this.validateInputs(),this.invalidateSaveButton();const e=this.polymerTypeInput.value&&this.polymerTypeInput.value&&!!this.getMonomerLib()?.getMonomer(this.polymerTypeInput.value,this.monomerSymbolInput.value);this.saveButton.textContent=e?"Save Monomer":"Add Monomer"},200)}setEmptyMonomer(){this.triggerMolChange=!1,this.molSketcher.setSmiles(""),this.monomerSymbolInput.value="",this.monomerNameInput.value="",this.monomerIdInput.value=null,this.monomerNaturalAnalogInput.value=null,this.rgroupsGrid.items=[],this.metaGrid.items=[],this.rgroupsGrid.render(),this.metaGrid.render(),this.rgroupsGridRoot.style.display="none",this.onMonomerInputChanged(),this.colorsEditor.colors={line:"#000000",background:"#000000",text:"#000000"}}setMonomer(e){this.triggerMolChange=!1,this.molSketcher.setSmiles(e.smiles),this.polymerTypeInput.value=e.polymerType,this.monomerTypeInput.value=e.monomerType,this.monomerSymbolInput.value=e.symbol,this.monomerNameInput.value=e.name,this.monomerIdInput.value=e.id,this.monomerNaturalAnalogInput.value=e.naturalAnalog??null,this.rgroupsGrid.items=ln(e.rgroups),this.metaGrid.items=Object.entries(e.meta??{}).filter(([e,t])=>"colors"!==e?.toLowerCase()).map(([e,t])=>({Property:e,Value:t})),this.rgroupsGrid.render(),this.metaGrid.render(),this.rgroupsGridRoot.style.display="flex",this.onMonomerInputChanged(),!e.naturalAnalog&&e.polymerType&&zt(dn(e.smiles,this.rgroupsGrid.items),e.polymerType).then(e=>{e&&(this.monomerNaturalAnalogInput.value=e)});const t=e.meta?.colors??"";let n={};try{n=t?JSON.parse(t)?.default:{}}catch(e){console.error(e)}this.colorsEditor.colors={line:n.line??"#000000",background:n.background??"#000000",text:n.text??"#000000"}}validateInputs(){const e=this.inputsTabControl.panes.find(e=>"r-groups"===e.name?.toLowerCase());if(e&&e.header.style.removeProperty("background-color"),!this.molSketcher.getSmiles())return"Monomer Molecule field is required";for(const e of[this.polymerTypeInput,this.monomerTypeInput,this.monomerSymbolInput,this.monomerNameInput])if(null==e.value||""===e.value)return`${e.caption} field is required`;let t=null;if(this.rgroupsGrid.items.length<1&&(t="At least one R-group is required"),!t)e:for(const e of this.rgroupsGrid.items)for(const[n,i]of Object.entries(e))if(!i){t=`R-group ${n} field is required for ${e.label}`;break e}return!t&&this.rgroupsGrid.hasErrors()&&(t="R-group fields contain errors"),t?(e&&e.header.style.setProperty("background-color","#ff000030"),t):null}findRgroupsInSmiles(e){return[...Array.from(e.matchAll(/\[[1-9]\*\]/g)),...Array.from(e.matchAll(/\[\*\:[1-9]\]/g))]}get form(){this.inputsTabControl.root.classList.add("monomer-manager-form-tab-control"),this.inputsTabControl.header.style.marginBottom="10px";const e=s.buttonsInput([this.saveButton]);return s.tooltip.bind(e,()=>this.saveValidationResult??"Save monomer to library"),s.divV([this.molSketcher.root,this.inputsTabControl.root,e],{classes:"ui-form",style:{paddingLeft:"10px",overflow:"scroll",maxWidth:"unset"}})}get fieldInputs(){return{molecule:this.molSketcher,polymerType:this.polymerTypeInput,monomerType:this.monomerTypeInput,symbol:this.monomerSymbolInput,name:this.monomerNameInput,id:this.monomerIdInput,naturalAnalog:this.monomerNaturalAnalogInput}}get metaInputs(){return[]}get rgroupInputs(){return[]}getMonomerInfoTable(e){const t=un(e.rgroups,e.smiles,e.molfile),n=r.chem.drawMolecule(t,150,150),i=s.tableFromMap({name:e.name,author:e.author,createDate:e.createDate});return s.divH([n,i],{style:{alignItems:"center"}})}async removeMonomers(e,t,n=!0){const i=await(0,ve.pY)(await this.monomerLibManager.getProviders(),t);if(!i)return void r.shell.error(`Library ${t} not found in any provider`);const o=s.divV(e.map(e=>this.getMonomerInfoTable(e)),{style:{maxHeight:"500px",overflow:"scroll"}}),a=e.length>1,l=a?`Are you sure you want to remove monomers ${e.map(e=>e.symbol).join(", ")} from ${t} library?`:`Are you sure you want to remove monomer with symbol ${e[0].symbol} from ${t} library?`,c=s.dialog("Remove Monomer"+(a?"s":"")).add(s.h1(l)).add(o).addButton("Remove",async()=>{await i.deleteMonomersFromLibrary(t,e),await this.monomerLibManager.loadMonomerLib(!0),await this.refreshTable(),n&&r.shell.info(`Monomer${a?"s":""} ${e.map(e=>e.symbol).join(", ")} ${a?"were":"was"} successfully removed from ${t} library`),c.close()}).show()}async addMonomerToLib(e,t){const n=this.getMonomersDataFrame();if(!n)return void r.shell.error("No monomer library loaded");const i=n?.col(Qt.POLYMER_TYPE)?.toList()??[],o=n?.col(Qt.SYMBOL)?.toList()??[],a=n?.col(Qt.MONOMER)?.toList()??[];if(i.length!==o.length||i.length!==a.length)return void r.shell.error("Monomer library data frame is corrupted");const l=i.findIndex((t,n)=>t===e.polymerType&&o[n]===e.symbol),c=a.findIndex(t=>t===e.smiles),u=async()=>{try{const n=await(0,ve.pY)(await this.monomerLibManager.getProviders(),t);if(!n)return void r.shell.error(`Library ${t} not found in any provider`);await n.updateOrAddMonomersInLibrary(t,[{...e,lib:void 0,wem:void 0}]),await this.monomerLibManager.loadMonomerLib(!0),await this.refreshTable(e.symbol),this._molChanged=!1,r.shell.info(`Monomer ${e.symbol} was successfully saved in library ${t}`)}catch(e){r.shell.error("Error saving monomer"),console.error(e)}this.onMonomerInputChanged()};let h=null,d="";if(l>=0)h=this.getMonomerInfoTable(await mn(n.row(l))),d=`Monomer with symbol '${e.symbol}' already exists in library ${t}.\nAre you sure you want to overwrite it?`;else if((c??-1)>=0){const e=await mn(this.getMonomersDataFrame().rows.get(c));h=this.getMonomerInfoTable(e),d=`Monomer with the same structure already exists in library ${t} with different symbol (${e.symbol}).\nAre you sure you want to duplicate it?`}if(h){const e=s.dialog("Save Monomer").add(s.divText(d)).add(h).addButton("Save",()=>{e.close(),u()}).show()}else await u()}async saveMonomer(){let e=this.molSketcher.getSmiles();if(!e||!r.chem.checkSmiles(e))return void r.shell.warning("Invalid SMILES");e=un([],e);let t=r.chem.convert(e,a.chem.Notation.Smiles,a.chem.Notation.MolBlock);t=hn(t);const n={};this.metaGrid.items.filter(e=>!!e.Property&&!!e.Value).forEach(e=>{n[e.Property]=e.Value});const i=this.metaGrid.addingItem;i&&i.Property&&i.Value&&(n[i.Property]=i.Value),"#000000"===this.colorsEditor.colors.line&&"#000000"===this.colorsEditor.colors.background&&"#000000"===this.colorsEditor.colors.text||(n.colors={default:this.colorsEditor.colors});const o={symbol:this.monomerSymbolInput.value,name:this.monomerNameInput.value,molfile:t,smiles:e,polymerType:this.polymerTypeInput.value,monomerType:this.monomerTypeInput.value,naturalAnalog:this.monomerNaturalAnalogInput.value?this.monomerNaturalAnalogInput.value:void 0,id:this.monomerIdInput.value??0,rgroups:this.rgroupsGrid.items,author:a.User.current().friendlyName,createDate:(new Date).toISOString(),meta:n},s=this.getMonomerLib()?.source;s?await this.addMonomerToLib(o,s):r.shell.warning("Monomer library source is not specified")}}function un(e,t,n){const i=!t||!r.chem.checkSmiles(t);if(i&&!n)throw new Error("Both SMILES and MOL block are empty or malformed");let o=i?r.chem.convert(n,a.chem.Notation.Unknown,a.chem.Notation.Smiles):t;return o=function(e,t){let n=e;return t.forEach(e=>{const t=e.label[1]??"1",i=new RegExp(`\\[\\${e.capGroupName}:${t}\\]`,"g");n=n.replace(i,`[*:${t}]`)}),n=n.replaceAll(/\[\d[A-Z]{1,2}\]/g,e=>`[*:${e[1]}]`),n}(o,e),o=rn(o),i?o:r.chem.convert(o,a.chem.Notation.Unknown,a.chem.Notation.Smiles)}function hn(e){const t=e.split("\n"),n=t.findIndex(e=>e.startsWith("M")&&e.includes("ISO"));if(-1!==n){const e=t[n].indexOf("ISO");t[n]=t[n].substring(0,e)+"RGP"+t[n].substring(e+3)}const i=t.findIndex(e=>e.includes("V2000"));if(-1===i)return console.error("Mol start line not found"),e;const o=Number.parseInt(t[i].trim().split(" ")[0].slice(0,3).trim()),r={};for(let e=i+1;e<i+1+o;e++){const n=t[e].indexOf("R ");if(-1===n)continue;"#"!==t[e][n+1]&&(t[e]=t[e].replace("R ","R#"));const o=t[e].trim().split(" ").map(e=>e.trim()).filter(Boolean);if(r[e-i]=1,o.length<14)continue;const s=Number.parseInt(o[13]);Number.isNaN(s)||(r[e-i]=s)}const s=Object.keys(r);if(-1===t.findIndex(e=>e.startsWith("M")&&e.includes("RGP"))){const e=`M RGP${s.length.toString().padStart(3," ")}${Object.entries(r).map(([e,t])=>`${e.toString().padStart(4," ")}${t.toString().padStart(4," ")}`).join("")}`,n=t.findIndex(e=>e.startsWith("M")&&e.includes("END"));t.splice(n,0,e)}return s.filter(e=>!!Number.parseInt(e)).map(e=>Number.parseInt(e)+i).forEach(e=>{const n=t[e].split(" "),i=n.findIndex(e=>"R#"===e);if(-1!==i){for(let e=i+1;e<n.length;e++)n[e]&&1==n[e].length&&(Number.parseInt(n[e])??0)>0&&(n[e]="0");t[e]=n.join(" ")}}),t.join("\n")}function dn(e,t){let n=e;return t.forEach(e=>{const t=e.label[1]??"1",i=an(e,"capGroupName");n=n.replace(`[*:${t}]`,`[${i}]`)}),n}async function mn(e){let t;try{t=JSON.parse(e.get(Qt.META)??"{}");for(const e in t)"object"==typeof t[e]&&(t[e]=JSON.stringify(t[e])),("string"!=typeof t[e]||t[e]!==a.INT_NULL.toString()&&t[e]!==a.FLOAT_NULL.toString())&&("number"!=typeof t[e]||t[e]!==a.INT_NULL&&t[e]!==a.FLOAT_NULL)||(t[e]=null)}catch(e){console.error(e)}const n=e.get(Qt.MONOMER);if(!n)throw new Error("Monomer SMILES is empty");let i="";try{i=r.chem.convert(n,a.chem.Notation.Smiles,a.chem.Notation.MolBlock),i=hn(i)}catch(e){r.shell.error(`Error converting SMILES to molfile, \n ${n}`),console.error(e)}let o=e.get(Qt.NATURAL_ANALOG);const s=e.get(Qt.POLYMER_TYPE);let l=[];try{if(l=JSON.parse(e.get(Qt.R_GROUPS)??"[]"),!o&&s){const e=await zt(dn(n,l),s);e&&(o=e)}}catch(e){l??=[]}return{symbol:e.get(Qt.SYMBOL),name:e.get(Qt.NAME),molfile:i,smiles:n,polymerType:s,monomerType:e.get(Qt.MONOMER_TYPE),naturalAnalog:o,id:e.get(Qt.ID),rgroups:l,meta:t,author:e.get(Qt.AUTHOR),createDate:e.get(Qt.CREATE_DATE)}}class pn{_colors;_colorInputs;constructor(e){this._colors=e,this._colorInputs={line:s.input.color("Line",{value:e.line,onValueChanged:e=>this._colors.line=e}),background:s.input.color("Background",{value:e.background,onValueChanged:e=>this._colors.background=e}),text:s.input.color("Text",{value:e.text,onValueChanged:e=>this._colors.text=e})}}get colors(){return this._colors}set colors(e){const t={line:a.Color.toHtml(a.Color.fromHtml(e.line??"#000000")),background:a.Color.toHtml(a.Color.fromHtml(e.background??"#000000")),text:a.Color.toHtml(a.Color.fromHtml(e.text??"#000000"))};this._colors=t;for(const e in this._colorInputs)this._colorInputs[e].value=t[e]}get colorsMetaFormat(){return{colors:{default:this._colors}}}get form(){return s.form(Object.values(this._colorInputs))}}const gn=/.*\|\$.*R.*\$\|/,fn=/\[R(\d+)\]/,yn=/\[R(\d+)\]/g,bn=/\[\*:(\d+)\]/g;function wn(e,t){const n=Array.from(e.matchAll(yn)).map(e=>e[1]),i={name:"Explicit SMILES Monomer",smiles:e,polymerType:t??"CHEM",molfile:"",rgroups:n.map(e=>({label:`R${e}`,capGroupName:"H",capGroupSmiles:`[*:${e}][H]`,alternateId:`R${e}-H`})),author:"Datagrok auto-generated",id:0,createDate:null,monomerType:"Backbone"};try{let t=e;i.rgroups.forEach(e=>{const n=e.label.substring(1);t=t.replace(`[R${n}]`,`[*:${n}]`)});const n=hn(r.chem.convert(t,r.chem.Notation.Smiles,r.chem.Notation.MolBlock));i.molfile=n,i.smiles=t}catch(t){To.logger.error(`getMonomerFromRSmiles: cannot convert SMILES to Molfile: ${e}\n${t}`)}return i}const vn=/[\w()]+/,Tn=RegExp(String.raw`\(${vn}(,${vn})+\)`),Cn=e=>{const t=s.canvas(250,250);return r.chem.canvasMol(0,0,250,250,t,e),t},An=new Dt.Mi([255,255,255]),En=new Dt.Mi([0,0,0]),Sn=.7*(0,j.wQ)(An);class Mn{_monomers;source;_isEmpty;get isEmpty(){return this._isEmpty}_onChanged=new u.Subject;get onChanged(){return this._onChanged}constructor(e,t){this._monomers=e,this.source=t,this._isEmpty=!this._monomers||0===Object.keys(this._monomers).length||Object.entries(this._monomers).every(([e,t])=>0===Object.keys(t).length);for(const[e,t]of Object.entries(this._monomers))for(const[e,n]of Object.entries(t))n.lib=this}getMonomerSymbolsByType(e){const t=Object.keys(this._monomers[e]);return this._smilesMonomerCache[e]&&t.push(...Object.keys(this._smilesMonomerCache[e])),t}_smilesMonomerCache={};addMissingMonomer(e,t){let n=this._monomers[e];n||(n=this._monomers[e]={});let i=t;t==we._S||t===we.b9[we.Hi.HELM]?i="Gap":("PEPTIDE"===e&&"X"===t||"RNA"===e&&"N"===t)&&(i="Any");const o=function(e,t){try{if(gn.test(e)){const n=e.split("|$"),i=n[0].trim(),o=n[1],r=Array.from(o.matchAll(/R(\d+)/g)),s=Array.from(i.matchAll(/(\*)/g));if(r.length!==s.length)return null;let a=i.replaceAll(/\[\*\]/g,"*");const l=r.map(e=>e[1]);for(let e=0;e<l.length;e++){const t=l[e];a=a.replace("*",`[R${t}]`)}return wn(a,t)}let n=e;const i=Array.from(e.matchAll(bn));for(const e of i){const t=e[0],i=e[1];n=n.replace(t,`[R${i}]`)}if(fn.test(n))return wn(n,t)}catch(t){To.logger.error(`smiles2Monomer: cannot parse SMILES: ${e}\n${t}`)}return null}(t,e);if(o){this._smilesMonomerCache[e]=this._smilesMonomerCache[e]??{};const i=this._smilesMonomerCache[e],r=Object.keys(i).length+1;i[t]=`#${e[0]}${r}`;const s={...o,symbol:i[t]},a=new Ft((0,ke.MD)(e),s.symbol,t,`SMILES Monomer ${s.symbol}`,s.rgroups.map(e=>e.label));return s.wem=a,n[s.symbol]=s,s}return n[t]={symbol:t,name:i,molfile:"",author:"MISSING",id:-1,rgroups:oe().count(1).take(9).map(e=>({capGroupSmiles:"",alternateId:"",capGroupName:"",label:`R${e.toString()}`})).toArray(),smiles:"",polymerType:e,monomerType:void 0,createDate:null}}getMonomer(e,t){let n=t;"RNA"==e&&"R"==n&&(n="r"),"RNA"==e&&"P"==n&&(n="p");let i=null;if(e){this._smilesMonomerCache[e]?.[n]&&(n=this._smilesMonomerCache[e][n]);const t=this._monomers[e];i=t?.[n]??null}else{To.logger.warning(`Bio: MonomerLib.getMonomer() symbol '${t}', polymerType not specified.`);for(const[e,t]of Object.entries(this._monomers))if(i=t[n],i)break}return i}getWebEditorMonomer(e,t){const[n,i]=(0,Ot.fA)(e,t),o=(0,Ht.Y)(n);let r=this.getMonomer(o,i);if(r&&n==Be.o.LINKER&&2!=r.rgroups.length)return null;if(r&&n==Be.o.SUGAR&&3!=r.rgroups.length)return null;r||(r=this.addMissingMonomer(o,i));let s=r.wem??null;return s||(i===we._S||"*"==i?s=r.wem=new Gt(n):n===Be.o.NUCLEOTIDE&&"N"===i||n===Be.o.AA&&"X"===i||(Be.o.CHEM,0)||Tn.test(i)?s=r.wem=new Bt(n,i):r.lib||(s=r.wem=new Vt(n,i,this.isEmpty)),s||(s=r.wem=Wt.fromMonomer(n,r,this))),s}getTooltip(e,t){const n=(0,Ht.Y)(e),i=s.div([],{classes:"ui-form ui-tooltip"}),o=this.getWebEditorMonomer(e,t),r=this.getMonomer(n,t);if(r){const e=r.symbol,[t,n,a]=(r.name,o?[o.textcolor,o.backgroundcolor,o.linecolor]:["#202020","#A0A0A0","#202020"]);let l;if(i.append(s.divH([s.div([e],{style:{textWrap:"nowrap",marginLeft:"4px",marginRight:"4px",color:t,backgroundColor:n,borderColor:a,borderWidth:"1px",borderStyle:"solid",borderRadius:"2px",padding:"3px",minWidth:"24px",textAlign:"center"}}),s.div([r.name],{style:{padding:"4px"}})],{style:{display:"flex",flexDirection:"row",justifyContent:"left"}})),l=r.molfile?Cn(r.molfile):r.smiles?s.divV([Cn(r.smiles),s.divText("from smiles",{style:{fontSize:"smaller"}})]):s.divText("No structure",{style:{margin:"6px"}}),i.append(s.div(l,{style:{display:"flex",flexDirection:"row",justifyContent:"center",margin:"6px"}})),r.symbol!=we._S){let e=r.lib?.source;e?(e.endsWith(".json")&&(e=e.substring(0,e.length-5)),e=e.replace(/_/g," ").replace(/-/g," ").replace(/([a-z])([a-z])([A-Z])/g,"$1$2 $3"),i.append(s.divText(e))):i.append(s.divText("Missed in libraries"))}}else i.append(s.divV([s.divText(`Monomer '${t}' of type '${n}' not found.`),s.divText("Open the Context Panel, then expand Manage Libraries")]));return i}getMonomerTextColor(e,t){const n=this.getMonomerColors(e,t),i=e=>{const t=/rgb\(\s*(\d+)\s*,\s*(\d+)\s*,\s*(\d+)\s*\)/.exec(e);if(t)return[parseInt(t[1]),parseInt(t[2]),parseInt(t[3])];const n=a.Color.fromHtml(e);return[a.Color.r(n),a.Color.g(n),a.Color.b(n)]},o=i(n.textcolor),r=new Dt.Mi([...o.map(e=>e+1)]),s=(0,j.KE)(r,An)/((0,j.wQ)(r)*(0,j.wQ)(An)),l=i(n.backgroundcolor),c=new Dt.Mi([...l.map(e=>e+.01)]);let u;u=(0,j.KE)(c,An)/((0,j.wQ)(c)*(0,j.wQ)(An))<s?l:o;let h=new Dt.Mi(u);const d=(0,j.wQ)(h);return d>Sn&&(h=(0,j.dC)(En,h,Sn/d)),`rgb(${h[0]}, ${h[1]}, ${h[2]})`}getMonomerColors(e,t){const n="default";let i=n;const o=(0,Ht.Y)(e),r=this.getMonomer(o,t);let s;if(r){if(r.meta&&r.meta.colors){if("string"==typeof r.meta.colors)try{r.meta.colors=JSON.parse(r.meta.colors)}catch(e){To.logger.error(`Bio: MonomerLib.getMonomerColors() failed to parse monomer.meta.colors: ${e}`)}const e=r.meta.colors;e&&"string"!=typeof e&&!(n in e)&&(i="default"),e&&"string"!=typeof e&&i in e&&(s=e[i])}if(!s){const t=qt[e],n=t?.[r.symbol];n&&(s={textColor:a.Color.toHtml(a.Color.getContrastColor(a.Color.fromHtml(n))),lineColor:"#202020",backgroundColor:n})}const t=r.naturalAnalog;if(!s&&t&&t!==r.symbol)return this.getMonomerColors(e,t)}return s||(s={textColor:"#202020",lineColor:"#202020",backgroundColor:"#A0A0A0"}),{textcolor:s.text??s.textColor,linecolor:s.line??s.lineColor,backgroundcolor:s.background??s.backgroundColor}}getRS(e){const t=e.match(/(?<=\[)[^\][]*(?=])/gm),n={};let i,o="";if(t)for(let e=0;e<t.length;e++)if(null!=t[e]&&/\d/.test(t[e])){i=t[e][t[e].length-1],t[e]=t[e].replace(/[0-9]/g,"");for(let n=0;n<t[e].length;n++)":"!=t[e][n]&&(o+=t[e][n]);n["R"+i]=o,o=""}return n}}var Pn=n(5488),_n={};_n.styleTagTransform=C(),_n.setAttributes=b(),_n.insert=f().bind(null,"head"),_n.domAPI=p(),_n.insertStyleElement=v(),d()(Pn.A,_n),Pn.A&&Pn.A.locals&&Pn.A.locals;class In extends Mn{error;_duplicateMonomers={};get duplicateMonomers(){return this._duplicateMonomers}_duplicatesHandled=!0;get duplicatesHandled(){return this._duplicatesHandled}duplicatesNotified=!1;constructor(e,t,n=void 0){super(e,t),this.error=n}toJSON(){const e=[];for(const t of Object.values(this._monomers))for(const n of Object.values(t))e.push({...n,lib:void 0,wem:void 0});return e}_monomerSets=null;getMonomerSet(e){const t=(0,Ht.Y)(e);if(this._monomerSets||(this._monomerSets={}),!(e in this._monomerSets))for(const[e,n]of Object.entries(this._monomers[t]));return this._monomerSets[e]}getPolymerTypes(){return Object.keys(this._monomers)}getMonomerMolsByPolymerType(e){const t={};return Object.keys(this._monomers[e]??{}).forEach(n=>{t[n]=this._monomers[e][n].molfile}),t}getMonomerSymbolsByRGroup(e,t,n){let i=this.getMonomerSymbolsByType(t).map(e=>this.getMonomer(t,e));return i=i.filter(e=>null!==e),0===i.length?[]:(i=i.filter(t=>{if(!t?.rgroups)return!1;let n=t?.rgroups.length>=e;var i;return i=$t.getInstance(t.molfile).atomTypes,i.map((e,t)=>"R#"===e?t:-1).filter(e=>-1!==e),n&&=!0,n}),i.map(e=>e?.symbol))}_updateLibInt(e){const t=e.getPolymerTypes(),n=this.getPolymerTypes();t.forEach(t=>{n.includes(t)||(this._monomers[t]={}),e.getMonomerSymbolsByType(t).forEach(n=>{this._monomers[t][n]&&(this._duplicateMonomers[t]??={},this._duplicateMonomers[t][n]??=[this._monomers[t][n]],this._duplicateMonomers[t][n].push(e.getMonomer(t,n))),this._monomers[t][n]=e.getMonomer(t,n)})}),this._isEmpty=this.isEmpty&&e.isEmpty}async updateLibs(e,t=!1){t&&(this._monomers={},this._isEmpty=!0),this._duplicateMonomers={};for(const t of e)t.error||this._updateLibInt(t);if(Object.entries(this.duplicateMonomers).length>0){const e=await(0,Ne.u)();this.assignDuplicatePreferences(e)}else this._duplicatesHandled=!0;this._onChanged.next()}assignDuplicatePreferences(e){let t=!0;for(const n in this.duplicateMonomers)for(const i in this.duplicateMonomers[n])if(e.duplicateMonomerPreferences?.[n]?.[i]){const o=e.duplicateMonomerPreferences[n][i],r=this.duplicateMonomers[n][i].find(e=>e.lib?.source===o);r?this._monomers[n][i]=r:t=!1}else t=!1;return this._duplicatesHandled=t,t}clear(){this._monomers={},this._onChanged.next()}getSummaryObj(){const e={},t=this.getPolymerTypes();for(const n of t)e[n]=this.getMonomerSymbolsByType(n).length;return e}getSummaryDf(){const e=this.getPolymerTypes(),t=new Array(e.length);for(const[n,i]of oe().enumerate(e))t[i]=this.getMonomerSymbolsByType(n).length;return a.DataFrame.fromColumns([a.Column.fromStrings("polymerType",e),a.Column.fromList(a.COLUMN_TYPE.INT,"count",t)])}getSummary(){const e=this.getPolymerTypes();return 0==e.length?"empty":e.map(e=>`${e} ${this.getMonomerSymbolsByType(e).length}`).join("\n")}static overrideCounter=0;override(e,t){return new Ln(e,`override: ${++In.overrideCounter}, ${t}`,this)}}class Ln extends Mn{data;base;constructor(e,t,n){super(e,t),this.data=e,this.base=n}get onChanged(){return this.base.onChanged}getMonomerSymbolsByType(e){const t=this.base.getMonomerSymbolsByType(e);for(const n of Object.keys(this.data[e]??{}))t.includes(n)||t.push(n);return t}addMissingMonomer(e,t){return this.base.addMissingMonomer(e,t)}getMonomer(e,t){const n=this.data[e]?.[t];return n??this.base.getMonomer(e,t)}}var xn=n(8604),Nn=n(7433),Rn=n.n(Nn),$n=n(1913),Hn=n.n($n);class On{helmMonomerSchema;validateMonomerSchema;constructor(e){this.helmMonomerSchema=e;const t=new(Rn())({allErrors:!0,strictTuples:!1,allowUnionTypes:!0});Hn()(t),this.validateMonomerSchema=t.compile(this.helmMonomerSchema)}validateFile(e,t){const n=this.parseJson(e,t);return null!=n&&(Array.isArray(n)?this.validateJsonContent(n,t):(console.warn(`Bio: Monomer Library File Validator file '${t}': Invalid JSON format: The file must contain an array of monomers.`),!1))}parseJson(e,t){try{return JSON.parse(e)}catch(e){return console.error(`Bio: Monomer Library File Validator file '${t}': Invalid JSON format:`,e),null}}validateJsonContent(e,t){let n=!0;const i=new Set;for(const o of e){const e=o.symbol??o.id??o.name??"#N/A";if(n=this.validateMonomerSchema(o),!n){console.warn(`Bio: Monomer Library File Validator file ${t}, monomer '${e}' violating JSON schema:`,o,"\nError reason: ",JSON.stringify(this.validateMonomerSchema.errors??{}),`\nThere may be other errors in ${t} since the validation is stopped after the first error.`," Please, verify that the monomer library file satisfies the JSON schema");break}const r=`${o.polymerType??""}-${e}`;i.has(r)&&console.warn(`Bio: Monomer Library File Validator file ${t}, monomer '${e}' is duplicated.`,"Please, verify that the monomer library file does not contain duplicated monomer symbols."),i.add(r)}return n}}class Dn{fileValidator;libHelper;logger;get LIB_PATH(){return"System:AppData/Bio/monomer-libraries/"}get SETS_PATH(){return"System:AppData/Bio/monomer-sets/"}static HELM_JSON_SCHEMA_PATH="System:AppData/Bio/tests/libraries/HELMmonomerSchema.json";static _instance=null;filesPromise=Promise.resolve();name=ve.ic;_onChanged=new u.Subject;get onChanged(){return this._onChanged}constructor(e,t,n){this.fileValidator=e,this.libHelper=t,this.logger=n}static async getInstance(e,t){if(null==this._instance){const n=await r.dapi.files.readAsText(Dn.HELM_JSON_SCHEMA_PATH),i=JSON.parse(n),o=new On(i);Dn._instance=new Dn(o,e,t),Dn._instance.refreshLists()}return Dn._instance}toLog(){return"MonomerLibFileManager"}async validateAgainstHELM(e,t){if(!this.isValidHELMLibrary(e,t))throw new Error(`File ${t} does not satisfy HELM standard`)}isValidHELMLibrary(e,t){return this.fileValidator.validateFile(e,t)}async refreshLists(){await Promise.all([this.updateValidLibList(),this.updateValidSetList()])}async addOrUpdateLibraryString(e,t){e=e.endsWith(".json")?e:`${e}.json`;try{await this.validateAgainstHELM(t,e),await r.dapi.files.writeAsText(this.LIB_PATH+`${e}`,t),await this.updateValidLibList(),await r.dapi.files.exists(this.LIB_PATH+`${e}`)?r.shell.info(`Added ${e} HELM library`):r.shell.error(`Failed to add ${e} library`)}catch(t){this.logger.error(t),r.shell.error(`Failed to add ${e} library`)}}async addOrUpdateLibrary(e,t){const n=JSON.stringify([...t.map(e=>({...e,wem:void 0,lib:void 0}))],null,2);await this.addOrUpdateLibraryString(e,n)}get loadPromise(){return this.filesPromise}async listLibraries(){return this.validLibList}async listSets(){return this.validSetList}async loadLibraries(e,t=!1){let n=[];e=e.map(e=>e.endsWith(".json")?e:`${e}.json`);const i=t?e:e.map(e=>this.LIB_PATH+e),o=[];for(let e=0;e<i.length;e++){const t={};try{const o=await r.dapi.files.readAsText(i[e]);n=JSON.parse(o),n.forEach(e=>{const n=e.polymerType,i=e.symbol;t[n]||(t[n]={}),t[n][i]=e})}catch(t){this.logger.error(`Failed to load monomer library file: ${i[e]}`),this.logger.error(t);continue}finally{o.push(t)}}return o}async loadSets(e){const t=[],n=this.libHelper.getMonomerLib();for(const i of e){const e=i.endsWith(".json")?i:`${i}.json`,o=this.SETS_PATH+e;try{const e=await r.dapi.files.readAsText(o),i=JSON.parse(e),s=i.description,a=Object.entries(i.placeholders).map(([e,t])=>{const i=e,o=t.polymerType,r=t.monomerType,s=t.set;return new ve.lH(n,i,o,r,s)});t.push(new ve.YS(s,a))}catch(e){this.logger.error(`Failed to load monomer set file: ${o}`),this.logger.error(e);continue}}return t}async deleteLibrary(e){const t=e.endsWith(".json")?e:`${e}.json`;await r.dapi.files.delete(this.LIB_PATH+t),await this.updateValidLibList()}async deleteSet(e){const t=e.endsWith(".json")?e:`${e}.json`;await r.dapi.files.delete(this.SETS_PATH+t),await this.updateValidSetList()}async addOrUpdateSetString(e,t){const n=e.endsWith(".json")?e:`${e}.json`;await r.dapi.files.writeAsText(this.SETS_PATH+n,t),await this.updateValidSetList()}async addOrUpdateSet(e,t){const n=JSON.stringify(t,null,2);await this.addOrUpdateSetString(e,n)}async deleteMonomersFromLibrary(e,t){const n=e.endsWith(".json")?e:`${e}.json`,i=this.LIB_PATH+n,o=await r.dapi.files.readAsText(i);let s=JSON.parse(o);s=s.filter(e=>!t.some(t=>e.polymerType===t.polymerType&&e.symbol===t.symbol));const a=JSON.stringify(s,null,2);await r.dapi.files.writeAsText(i,a),await this.updateValidLibList()}validLibList=[];libListHasChanged(e){const t=this.validLibList;return e.length!==t.length||e.some((e,n)=>e!==t[n])}validSetList=[];setListHasChanged(e){const t=this.validSetList;return e.length!==t.length||e.some((e,n)=>e!==t[n])}async getLibraryAsString(e){const t=e.endsWith(".json")?e:`${e}.json`;return r.dapi.files.readAsText(this.LIB_PATH+t)}async getSingleLibrary(e){return(await this.loadLibraries([e]))?.[0]}async getSingleLibraryWithFullPath(e){return(await this.loadLibraries([e],!0))?.[0]}async updateOrAddMonomersInLibrary(e,t){const n=e.endsWith(".json")?e:`${e}.json`,i=this.LIB_PATH+n,o=await r.dapi.files.readAsText(i),s=JSON.parse(o);for(const e of t){const t=s.findIndex(t=>t.polymerType===e.polymerType&&t.symbol===e.symbol);-1!==t?s[t]={...e,lib:void 0,wem:void 0}:s.push({...e,lib:void 0,wem:void 0})}const a=JSON.stringify(s,null,2);await r.dapi.files.writeAsText(i,a),await this.updateValidLibList()}async updateValidLibList(){const e=`${this.toLog()}.updateValidLibList()`;return this.logger.debug(`${e}, start`),this.filesPromise=this.filesPromise.then(async()=>{this.logger.debug(`${e}, IN`);const t=[],n=await this.getLibFileListAtLocation();if(!this.libListHasChanged(n))return void this.logger.debug(`${e}, end, not changed`);for(const e of n){if(!e.endsWith(".json")){t.push(e);continue}const n=await r.dapi.files.readAsText(this.LIB_PATH+`${e}`);this.isValidHELMLibrary(n,e)||t.push(e)}const i=n.filter(e=>!t.includes(e));if(this.libListHasChanged(i)&&(this.validLibList=i,await this.libHelper.loadMonomerLib(!0)),i.some(e=>!e.endsWith(".json"))&&this.logger.warning(`Wrong validation: ${i}`),t.length>0){const e=`Invalid monomer library files in ${this.LIB_PATH}, consider fixing or removing them: ${t.join(", ")}`;this.logger.warning(e)}this.logger.debug(`${e}, OUT`),this._onChanged.next()}),this.logger.debug(`${e}, end`),this.filesPromise}async updateValidSetList(){const e=`${this.toLog()}.updateValidSetList()`;return this.logger.debug(`${e}, start`),this.filesPromise=this.filesPromise.then(async()=>{this.logger.debug(`${e}, IN`);const t=[],n=await this.getSetFileListAtLocation();if(!this.setListHasChanged(n))return void this.logger.debug(`${e}, end, not changed`);for(const e of n)e.endsWith(".json")||t.push(e);const i=n.filter(e=>!t.includes(e));this.setListHasChanged(i)&&(this.validSetList=i,this.libHelper.loadMonomerSets(!0)),this.logger.debug(`${e}, OUT`),this._onChanged.next()}),this.logger.debug(`${e}, end`),this.filesPromise}async getLibFileListAtLocation(){const e=`${this.toLog()}.getLibFileListAtLocation()`;this.logger.debug(`${e}, start`);const t=await r.dapi.files.list(this.LIB_PATH).then(e=>e.filter(e=>e.isFile).map(e=>e.fullPath)),n=[];return n.push(...t),n.map(e=>e.substring(this.LIB_PATH.length))}async getSetFileListAtLocation(){const e=`${this.toLog()}.getSetFileListAtLocation()`;this.logger.debug(`${e}, start`);const t=await r.dapi.files.list(this.SETS_PATH).then(e=>e.map(e=>e.fullPath)),n=[];return n.push(...t),n.map(e=>e.substring(this.SETS_PATH.length))}}class kn{logger;_monomerLib=new In({},"MAIN");_monomerSets=new ve.YS("MAIN",[]);_initialLoadCompleted=!1;get initialLoadCompleted(){return this._initialLoadCompleted}_providersDataChanged=new u.Subject;get providersDataChanged(){return this._providersDataChanged}_fileUploadRequested=new u.Subject;get fileUploadRequested(){return this._fileUploadRequested}requestFileUpload(){this._fileUploadRequested.next()}_selectionChanged=new u.Subject;get librarySelectionChanged(){return this._selectionChanged}notifyLibrarySelectionChanged(){this._selectionChanged.next()}async getAvaliableLibraryNames(e=!1){const t=await this.getProviders(),n=[];for(const i of t){e&&await i.refreshLists();const t=await i.listLibraries();n.push(...t)}return n}async refreshValidLibraryLists(){const e=await this.getProviders();await Promise.all(e.map(async e=>e.refreshLists()))}async getAvailableLibrariesPerProvider(){const e=await this.getProviders(),t=new Map;for(const n of e){const e=await n.listLibraries();t.set(n.name,e)}return t}async awaitLoaded(e=1/0){return e=e===1/0?6e4:e,await Promise.race([(async()=>{const e=await this.getProviders();return await Promise.all(e.map(async e=>e.loadPromise)),await this.loadLibrariesPromise,!0})(),(async()=>(await(0,et.cb)(e),!1))()]).then(t=>{if(!t)throw new Error(`Loading monomer libraries timeout ${e} ms.`)})}_monomerLibProviders=null;async getProviders(){if(null==this._monomerLibProviders){const e=a.Func.find({tags:["monomer-lib-provider"]});this._monomerLibProviders=await Promise.all(e.map(async e=>await e.apply({}))),this._monomerLibProviders.push(await Dn.getInstance(this,To.logger)),a.debounce((0,u.merge)(...this._monomerLibProviders.map(e=>e.onChanged)),200).subscribe(()=>{this._providersDataChanged.next()})}return this._monomerLibProviders}constructor(e){this.logger=e}static objCounter=-1;objId=(()=>{if(++kn.objCounter>0)throw new Error("MonomerLibManager MUST be a singleton.");return kn.objCounter})();toLog(){return`MonomerLibManager<${this.objId}>`}getMonomerLib(){return this._monomerLib}getBioLib(){return this.getMonomerLib()}getMonomerSets(){return this._monomerSets}get duplicateMonomers(){return this._monomerLib.duplicateMonomers}get duplicatesHandled(){return this._monomerLib.duplicatesHandled}assignDuplicatePreferances(e){this._monomerLib.assignDuplicatePreferences(e)}loadLibrariesPromise=Promise.resolve();async loadMonomerLib(e=!1){const t=`${this.toLog()}.loadMonomerLib()`;return this.logger.debug(`${t}, start`),this.loadLibrariesPromise=this.loadLibrariesPromise.then(async()=>{this.logger.debug(`${t}, IN`);const n=a.TaskBarProgressIndicator.create("Loading monomers ...");try{const t=await(0,Ne.u)(),i=await this.getProviders(),o=await Promise.all(i.map(async e=>e.listLibraries()));o.forEach((e,n)=>{o[n]=e.filter(e=>{const n=!t.exclude.includes(e),i=0===(t.explicit?.length??0)||t.explicit.includes(e);return n&&i})});let s=0;const a=[];for(let e=0;e<i.length;e++){const t=i[e],l=o[e];try{const e=await t.loadLibraries(l);for(let t=0;t<e.length;t++)a.push(new In(e[t],l[t]))}catch(e){r.shell.warning(`Loading monomer libraries from provider '${t.name}' failed: `),this.logger.error(`Loading monomer libraries from provider '${t.name}' failed: ${e instanceof Error?e.message:e.toString()}`)}n.update(Math.round(100*++s/i.length),`Loading monomers ${s}/${i.length}`)}this._monomerLib.updateLibs(a,e),this._initialLoadCompleted=!0}catch(e){const t=`Loading monomer libraries error: ${e instanceof Error?e.message:e.toString()}`;r.shell.warning(t);const n=e instanceof Error?e.stack:void 0;this.logger.error(t,void 0,n)}finally{n.close(),this.logger.debug(`${t}, OUT`)}}),this.logger.debug(`${t}, end`),this.loadLibrariesPromise}async loadLibraries(e){return this.loadMonomerLib(e)}loadSetsPromise=Promise.resolve();async loadMonomerSets(e=!1){const t=`${this.toLog()}.loadMonomerSets()`;return this.logger.debug(`${t}, start`),this.loadSetsPromise=this.loadSetsPromise.then(async()=>{this.logger.debug(`${t}, IN`);const e=a.TaskBarProgressIndicator.create("Loading monomer sets ...");try{const t=await this.getProviders(),n=await Promise.all(t.map(async e=>e.listSets())),i=[];let o=0;for(let s=0;s<t.length;s++){const a=t[s],l=n[s];try{const e=await a.loadSets(l);for(let t=0;t<e.length;t++)i.push(e[t])}catch(e){r.shell.warning(`Loading monomer sets from provider '${a.name}' failed: `),this.logger.error(`Loading monomer sets from provider '${a.name}' failed: ${e instanceof Error?e.message:e.toString()}`)}e.update(Math.round(100*++o/t.length),`Loading monomer sets ${o}/${t.length}`)}this._monomerSets.updateSets(i)}catch(e){const t=`Loading monomer sets error: ${e instanceof Error?e.message:e.toString()}`;r.shell.warning(t);const n=e instanceof Error?e.stack:void 0;this.logger.error(t,void 0,n)}finally{e.close(),this.logger.debug(`${t}, OUT`)}}),this.logger.debug(`${t}, end`),this.loadSetsPromise}async loadMonomerLibForTests(){await(0,Ne.E)(xn.G),await this.awaitLoaded(1e4),await this.loadMonomerLib(!0)}async readSingleLibrary(e,t){const n=(await this.getProviders()).find(t=>t.name===e);if(!n)return this.logger.error(`Provider '${e}' not found.`),null;try{const i=await n.loadLibraries([t]);return 0===i.length?(this.logger.error(`Library '${t}' not found in provider '${e}'.`),null):new In(i[0],t)}catch(e){return this.logger.error(`Loading monomer library '${t}' from provider '${n.name}' failed: ${e instanceof Error?e.message:e.toString()}`),null}}async readLibraryFromFilePath(e){const t=(await this.getProviders()).find(e=>e.name===ve.ic);if(!t)throw new Error(`Provider '${ve.ic}' not found.`);const n=await t.getSingleLibraryWithFullPath(e);if(!n)throw new Error(`Library at path '${e}' not found.`);return new In(n,e)}async readSingleLibraryByName(e){const t=await this.getProviders(),n=await(0,ve.pY)(t,e);return n?this.readSingleLibrary(n.name,e):(this.logger.error(`No provider found for library '${e}'.`),null)}async readSingleSet(e,t){const n=(await this.getProviders()).find(t=>t.name===e);if(!n)return this.logger.error(`Provider '${e}' not found.`),null;try{const i=await n.loadSets([t]);return 0===i.length?(this.logger.error(`Set '${t}' not found in provider '${e}'.`),null):i[0]}catch(e){return this.logger.error(`Loading monomer set '${t}' from provider '${n.name}' failed: ${e instanceof Error?e.message:e.toString()}`),null}}static async getInstance(){let e=window.$monomerLibHelperPromise;return null==e&&(e=window.$monomerLibHelperPromise=(async()=>new kn(To.logger))()),e}}var Fn=n(1757),Gn=n.n(Fn);class Bn{monomer;root=s.divV([],{classes:"monomer-card-root"});_selected=!1;get selected(){return this._selected}set selected(e){this._selected=e,this.root.style.border=e?"2px solid var(--green-2)":"2px solid var(--grey-2)"}constructor(e){this.monomer=e}render(){s.empty(this.root);const e=this.monomer.smiles&&r.chem.checkSmiles(this.monomer.smiles)?r.chem.drawMolecule(this.monomer.smiles,200,200):r.chem.drawMolecule(this.monomer.molfile??"",200,200);this.root.appendChild(e);const t=s.divH([s.divText("Monomer Name: "),s.divText(this.monomer.name)],{classes:"monomer-card-info-row"});if(this.root.appendChild(t),s.tooltip.bind(t,this.monomer.name),this.monomer.lib?.source){const e=s.divH([s.divText("Source: "),s.divText(this.monomer.lib.source)],{classes:"monomer-card-info-row"});this.root.appendChild(e),s.tooltip.bind(e,this.monomer.lib.source)}const n=s.divH([s.divText("Polymer Type: "),s.divText(this.monomer.polymerType)],{classes:"monomer-card-info-row"});this.root.appendChild(n),s.tooltip.bind(n,this.monomer.polymerType),s.tooltip.bind(this.root,"Select Monomer")}}class Vn{monomerSymbol;monomers;root=s.divH([],{style:{alignItems:"center",width:"100%",overflow:"hidden",visibility:"visible"},classes:"duplicate-monomer-symbol-row"});monomerCards;constructor(e,t,n,i){this.monomerSymbol=e,this.monomers=t,this.monomerCards=t.map(e=>new Bn(e));const o=s.divH([],{style:{overflowX:"auto",width:"100%"}}),r=s.h1(e,{style:{lineHeight:"2em",fontSize:"1.5em",marginRight:"20px",width:"100px",overflow:"hidden",textOverflow:"elipsis"}});s.tooltip.bind(r,e),this.root.appendChild(r),this.root.appendChild(o),this.monomerCards.forEach(e=>{e.root.onclick=()=>{this.monomerCards.forEach(e=>e.selected=!1),e.selected=!0,i(e.monomer)},n&&e.monomer===n&&(e.selected=!0),o.appendChild(e.root)})}render(){this.monomerCards.forEach(e=>e.render())}}class Un{monomerCardRows=[];saveSettingsPromise=Promise.resolve();searchInput;_root;monomers;settings;filteredMonomerRows=[];static _instance;vv;static async getInstance(){return Un._instance||(Un._instance=new Un,await Un._instance.refresh(),(await kn.getInstance()).getMonomerLib().onChanged.subscribe(async()=>await Un._instance.refresh())),Un._instance.refresh(),Un._instance}async refresh(){this.settings=await(0,Ne.u)();const e=await kn.getInstance();await e.awaitLoaded(),this.monomers=e.duplicateMonomers,this.monomerCardRows=[];for(const t in this.monomers)for(const n in this.monomers[t]){const i=this.settings.duplicateMonomerPreferences?.[t]?.[n]??null,o=i?this.monomers[t][n].find(e=>e.lib?.source===i)??null:null;this.monomerCardRows.push(new Vn(n,this.monomers[t][n],o,async i=>{this.saveSettingsPromise=this.saveSettingsPromise.then(async()=>{i.lib?.source&&(this.settings.duplicateMonomerPreferences=this.settings.duplicateMonomerPreferences??{},this.settings.duplicateMonomerPreferences[t]=this.settings.duplicateMonomerPreferences[t]??{},this.settings.duplicateMonomerPreferences[t][n]=i.lib.source,await(0,Ne.E)(this.settings),e.assignDuplicatePreferances(this.settings),r.shell.info(`Monomer '${i.name}' from source '${i.lib.source}' selected for symbol '${n}'.`))})}))}const t=s.divText("Set Default");if(t.addEventListener("click",async()=>{if(0===Object.keys(this.monomers??{}).length)return void r.shell.info("No Duplicate Monomers found");const t=new Set;for(const e in this.monomers)for(const n in this.monomers[e])for(const i of this.monomers[e][n])i.lib?.source&&t.add(i.lib.source);if(0===t.size)return void r.shell.info("No Duplicate Monomers found");const n=Array.from(t),i=s.input.choice("Default Library",{items:n,nullable:!0});s.dialog("Set Default Monomer Source for Duplicates").add(i).onOK(async()=>{if(i.value){for(const e in this.monomers)for(const t in this.monomers[e]){const n=this.monomers[e][t];n?.some(e=>e.lib?.source===i.value)&&(this.settings.duplicateMonomerPreferences=this.settings.duplicateMonomerPreferences??{},this.settings.duplicateMonomerPreferences[e]=this.settings.duplicateMonomerPreferences[e]??{},this.settings.duplicateMonomerPreferences[e][t]=i.value)}await(0,Ne.E)(this.settings),e.assignDuplicatePreferances(this.settings),r.shell.info(`Default Monomer Source for Duplicates set to '${i.value}'.`),setTimeout(()=>this.refresh(),100)}else r.shell.info("No library selected")}).show()}),this.filteredMonomerRows=this.monomerCardRows,this.vv)this.vv.setData(this.filteredMonomerRows.length,e=>(this.filteredMonomerRows[e].render(),this.filteredMonomerRows[e].root));else{this.vv=s.virtualView(this.monomerCardRows.length,e=>(this.monomerCardRows[e].render(),this.monomerCardRows[e].root)),this.vv.root.classList.add("duplicate-monomers-virtual-view"),this.searchInput=s.input.string("Search",{placeholder:"Monomer Symbol",value:"",onValueChanged:()=>e(this.searchInput.value)}),this.searchInput.root.style.justifyContent="center",this.searchInput.addOptions(t),this.searchInput.input.style.width="200px",this._root=s.divV([s.h1("Manage Duplicate Monomer Symbols",{style:{textAlign:"center"}}),this.searchInput.root,s.divV([this.vv.root],{style:{overflowY:"auto",height:"100%"}})],{style:{height:"100%"}});const e=e=>{this.filteredMonomerRows=this.monomerCardRows.filter(t=>t.monomerSymbol.toLowerCase().includes(e.toLowerCase())),this.vv.setData(this.filteredMonomerRows.length,e=>(this.filteredMonomerRows[e].render(),this.filteredMonomerRows[e].root))}}}constructor(){}get root(){return this._root}}var Wn=n(3017),qn={};async function Yn(){await Xn.showDialog()}async function jn(e=!0){return await Jn.showView(e)}qn.styleTagTransform=C(),qn.setAttributes=b(),qn.insert=f().bind(null,"head"),qn.domAPI=p(),qn.insertStyleElement=v(),d()(Wn.A,qn),Wn.A&&Wn.A.locals&&Wn.A.locals;class Kn{_widget;get widget(){return this._widget}constructor(){}static instancePromise;libHelper;static async getInstance(){return null==Kn.instancePromise&&(Kn.instancePromise=(async()=>{const e=new Kn,t=await(0,ve.pj)();return e.libHelper=t,e._widget=await e.createWidget(),e})()),Kn.instancePromise}static async reloadWidget(){const e=await Kn.getInstance();e._widget=await e.createWidget()}_fileUploadSubscription=null;async createWidget(){const e=await this.getWidgetContent(),t=await(0,ve.pj)();return this._fileUploadSubscription?.unsubscribe(),this._fileUploadSubscription=t.fileUploadRequested.subscribe(()=>this.promptToAddLibraryFiles()),new a.Widget(e)}async getWidgetContent(){const e=await zn.createControlsForm();return Gn()(e).addClass("monomer-lib-controls-form"),setTimeout(()=>{e&&Gn()(e)&&Gn()(e).removeClass("ui-form-condensed")},200),s.divV([e])}async promptToAddLibraryFiles(){a.Utils.openFile({accept:".json",open:async e=>{const t=async t=>{const n=e.name;if((await t.listLibraries()).includes(n)&&!await new Promise(e=>{s.dialog("Confirm Library Update").add(s.divText(`Library '${n}' already exists. Do you want to overwrite it?`)).onOK(()=>e(!0)).onCancel(()=>e(!1)).show()}))return;const i=await e.text(),o=a.TaskBarProgressIndicator.create(`Adding ${n} as a monomer library`);try{await t.addOrUpdateLibraryString(n,i)}catch(e){r.shell.error(`File ${n} is not a valid monomer library, verify it is aligned to HELM JSON schema.`),console.error(e)}finally{o.close()}},n=await this.libHelper.getProviders();if(0===n.length)return void r.shell.error("No monomer library providers available to add the library.");if(1===n.length)return void await t(n[0]);const i=s.dialog("Select storage for new monomer library"),o=s.input.choice("Storage",{items:n.map(e=>e.name),value:n[0].name,nullable:!1,tooltipText:"Storage provider for new monomer library"});i.add(o).onOK(async()=>{const e=n.find(e=>e.name===o.value);await t(e)}).show()}})}}class zn{libHelper;userLibSettings;constructor(e,t){this.libHelper=e,this.userLibSettings=t,this.libHelper.providersDataChanged.subscribe(async()=>{await this.updateControlsForm()})}toLog(){return"LibraryControlsManager<#>"}static async createControlsForm(){To.logger.debug("LibraryControlsForm.createControlsForm(), start");const e=await(0,Ne.u)(),t=await(0,ve.pj)();return new zn(t,e)._createControlsForm()}async _createControlsForm(){const e=await this.createLibraryControls(),t=s.wideForm(e,void 0);return Gn()(t).addClass("monomer-lib-controls-form"),t}async updateControlsForm(){const e=await this._createControlsForm();Gn()(".monomer-lib-controls-form").replaceWith(e)}async createLibraryControls(){return(await this.libHelper.getAvaliableLibraryNames()).map(e=>this.createLibInput(e))}createLibInput(e){const t=`${this.toLog()}.createLibInput()`;To.logger.debug(`${t}, libFileName = '${e}', start`);const n=!this.userLibSettings.exclude.includes(e),i=s.input.bool(e,{value:n,onValueChanged:()=>{Zn(i.value,e)}});s.tooltip.bind(i.root,`Include monomers from ${e}`);const o=s.iconFA("trash-alt",()=>this.promptForLibraryDeletion(e)),a=s.icons.edit(async()=>{r.shell.v=await(await on.getInstance()).getViewRoot(e)},"Edit monomer library");return s.tooltip.bind(o,`Delete ${e}`),i.addOptions(a),i.addOptions(o),To.logger.debug(`${t}, libFileName = '${e}', end`),i}promptForLibraryDeletion(e){s.dialog("Warning").add(s.divText(`Are you sure you want to delete library "${e}"?`)).onOK(async()=>{try{const t=a.TaskBarProgressIndicator.create(`Deleting ${e} library`);await Zn(!1,e);const n=await(0,ve.pY)(await this.libHelper.getProviders(),e);if(!n)throw new Error(`Cannot find provider for library ${e}`);await n.deleteLibrary(e),t.close()}catch(t){console.error(t),r.shell.error(`Failed to delete ${e} library`)}}).showModal(!1)}}async function Zn(e,t){const n=await(0,Ne.u)();!function(e,t,n){t?e.exclude=e.exclude.filter(e=>e!==n):e.exclude.includes(n)||e.exclude.push(n)}(n,e,t),await(0,Ne.E)(n);const i=await(0,ve.pj)();await i.loadMonomerLib(!0),r.shell.info("Monomer library user settings saved"),i.notifyLibrarySelectionChanged()}class Xn{constructor(){}static _instance;dialog;closeDialogSubject$=new u.Subject;static async showDialog(){Xn._instance||(Xn._instance=new Xn,Xn._instance.closeDialogSubject$.subscribe(()=>{Xn._instance.dialog=void 0})),Xn._instance.dialog||(Xn._instance.dialog=await Xn._instance.getDialog()),Xn._instance.dialog.show()}async getDialog(){const e=(await Kn.getInstance()).widget,t=await(0,ve.pj)(),n=s.dialog({title:"Manage monomer libraries",helpUrl:"/help/datagrok/solutions/domains/bio/bio.md#manage-monomer-libraries"});Gn()(n.root).css("width","350px"),n.clear(),n.addButton("Add",()=>t.requestFileUpload(),void 0,"Upload new HELM monomer library"),n.add(e);const i=n.onClose.subscribe(()=>{this.closeDialogSubject$.next(),i.unsubscribe()});return n}}class Jn{constructor(){}static _instance;static viewName="Manage Monomer Libraries";_view;_duplicateManager;libManager;async getView(e=!0){const t=(await Kn.getInstance()).widget,n=s.bigButton("Add",()=>this.libManager.requestFileUpload(),"Upload new HELM monomer library"),i=s.bigButton("Merge",()=>{this.mergeSelectedLibs()},"Merge selected libraries into one"),o=s.splitH([s.divV([t.root,s.buttonsInput([n,i])],{classes:"ui-form"}),this._duplicateManager.root],{style:{width:"100%",height:"100%"}},!0);if(this._view)try{this._view.subs.forEach(e=>e.unsubscribe()),this._view.detach(),this._view.close()}catch(e){}return this._view=a.View.fromRoot(o),this._view.name=Jn.viewName,e&&r.shell.addView(this._view),s.tools.waitForElementInDom(o).then(()=>{setTimeout(()=>{const e=Array.from(o.children).filter(e=>e.classList.contains("ui-box"));if(2!==e.length)return;const[t,n]=e,i=t.getBoundingClientRect().width+n.getBoundingClientRect().width,r=.3*i;t.style.width=`${r}px`;const s=i-r;n.style.width=`${s}px`},100),this._view.subs.push(r.events.onCurrentViewChanged.subscribe(()=>{try{const e=Jn._instance;e&&e._view&&r.shell.v&&"id"in r.shell.v&&r.shell.v.id===e._view.id&&e._duplicateManager?.refresh()}catch(e){console.error(e)}}))}),this._view}static async showView(e=!0){return Jn._instance||(Jn._instance=new Jn),Jn._instance._duplicateManager||(Jn._instance._duplicateManager=await Un.getInstance()),Jn._instance.libManager||(Jn._instance.libManager=await kn.getInstance()),e&&Jn._instance._view&&Array.from(r.shell.views).find(e=>e.id&&e.id===Jn._instance._view.id)?(r.shell.v=Jn._instance._view,await Jn._instance._duplicateManager.refresh(),Jn._instance._view):(Jn.closeExistingViews(),Jn._instance.getView(e))}static closeExistingViews(){Array.from(r.shell.views).filter(e=>e.name===Jn.viewName).forEach(e=>e.close())}async mergeSelectedLibs(){const e="Library with this name already exists",t=await kn.getInstance();if(await t.awaitLoaded(),!t.duplicatesHandled)return void r.shell.warning("Selected libraries contain repeating symbols with different monomers.\n Please choose the correct monomer for each symbol using duplicate monomomer manager.");const n=t.getBioLib().toJSON(),i=s.dialog("Merge selected libraries"),o=s.input.string("Library Name",{placeholder:"Enter new library name",nullable:!1,onValueChanged:()=>{const t=c(o.value);i.getButton("Download")?.classList?.toggle("d4-disabled",!!t&&t!==e),i.getButton("Save")?.classList?.toggle("d4-disabled",!!t)}}),l=await this.libManager.getAvaliableLibraryNames();function c(t){return t&&t.trim()?l.includes(t)||l.includes(t+".json")?e:null:"Library name cannot be empty"}o.addValidator(c);const u=await this.libManager.getProviders();if(0===u.length)return void r.shell.error("No monomer library providers available to save the merged library.");const h=s.input.choice("Storage",{items:u.map(e=>e.name),value:u[0].name,nullable:!1,tooltipText:"Storage provider for saving new monomer library"});i.add(h).add(o).add(s.divText(`Total monomers: ${n.length}`)).addButton("Download",()=>{a.Utils.download((()=>{let e=o.value.trim();return e||(e="New"),e.toLowerCase().endsWith(".json")||(e+=".json"),e})(),JSON.stringify(n))}).addButton("Save",async()=>{if(!o.value||!o.value.trim()||!h.value)return h.validate(),void o.validate();i.close();const e=o.value,t=JSON.stringify(n);this._view&&s.setUpdateIndicator(this._view.root,!0);try{const n=u.find(e=>e.name===h.value);await n.addOrUpdateLibraryString(e,t);const i=await(0,Ne.u)();i.exclude=l,await(0,Ne.E)(i),await this.libManager.loadMonomerLib(!0),await Kn.reloadWidget()}catch(t){r.shell.error(`Failed to save library ${e}. see console for details.`),console.error(t)}finally{this._view&&s.setUpdateIndicator(this._view.root,!1)}}).show(),i.getButton("Download")?.classList?.add("d4-disabled"),i.getButton("Save")?.classList?.add("d4-disabled")}}var Qn,ei=function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})};class ti{_setBreadcrumbsInViewName(){var e,t;const n=["Home","Demo",...(null!==(e=this._path)&&void 0!==e?e:"").split("/")],i=s.breadcrumbs(n);if(i.onPathClick.subscribe(e=>ei(this,void 0,void 0,function*(){const t=e[e.length-1];if(t===i.path[i.path.length-1])return;const n=r.shell.browsePanel.mainTree.getOrCreateGroup("Apps").getOrCreateGroup("Demo");n.currentItem="Demo"===t?n:n.items.find(e=>e.text===t)})),r.shell.v){if(0!==i.path.length&&"Home"===i.path[0]){const e=s.iconFA("home",()=>{r.shell.v.close(),r.shell.v=a.View.createByType(a.VIEW_TYPE.HOME)});e.classList.add("demo-breadcrumbs-home-element"),i.root.firstElementChild.replaceWith(e)}const e=null===(t=r.shell.v.ribbonMenu.root.parentElement)||void 0===t?void 0:t.getElementsByClassName("d4-ribbon-name")[0];e&&(e.textContent="",e.appendChild(i.root))}}constructor(e,t,n=!1,i){var o,r;this.name="",this.description="",this._isAutomatic=!1,this._autoStartFirstStep=!1,this._currentStep=0,this._isStopped=!1,this._isCancelled=!1,this._isStepProcessed=!1,this._root=s.div([],{id:"demo-script",classes:"tutorials-root tutorials-track demo-app-script"}),this._steps=[],this._mainHeader=s.panel([],"tutorials-main-header"),this._header=s.h2(""),this._headerDiv=s.divH([],"tutorials-root-header"),this._stopStartBtn=s.button(s.iconFA("pause"),()=>ei(this,void 0,void 0,function*(){return yield this._changeStopState()}),"Play / pause"),this._restartBtn=s.button(s.iconFA("redo"),()=>ei(this,void 0,void 0,function*(){return yield this._restartScript()}),"Restart"),this._nextStepBtn=s.button(s.iconFA("play"),()=>ei(this,void 0,void 0,function*(){this._isStepProcessed||(yield this._nextStep())}),"Next step"),this._activity=s.panel([],"tutorials-root-description"),this._progressDiv=s.divV([],"tutorials-root-progress"),this._progress=s.element("progress"),this._progressSteps=s.divText(""),this._closeBtn=s.button(s.iconFA("chevron-left"),()=>this._closeDock(),"Back to demo"),this.DEMO_PATH="apps/Tutorials/Demo",this.name=e,this.description=t,this._isAutomatic=n,this._autoStartFirstStep=null!==(o=null==i?void 0:i.autoStartFirstStep)&&void 0!==o&&o,this._path=null!==(r=null==i?void 0:i.path)&&void 0!==r?r:"",this._progress.max=0,this._progress.value=1,ti.currentObject=this}get steps(){return this._steps}get stepNumber(){return this._steps.length}_addHeader(){this._createHeaderDiv(),this._createProgressDiv(),this._mainHeader.append(this._headerDiv,this._progressDiv)}_createHeaderDiv(){this._header.innerText=this.name,this._headerDiv.append(this._closeBtn),this._headerDiv.append(this._header),this._nextStepBtn.firstChild.className="grok-icon fas fa-play",this._headerDiv.append(this._isAutomatic?this._stopStartBtn:this._nextStepBtn)}_createProgressDiv(){this._progress.max=this.stepNumber,this._progressDiv.append(this._progress),this._progressSteps=s.divText(`Step: ${this._progress.value} of ${this.stepNumber}`),this._progressDiv.append(this._progressSteps)}_addDescription(){var e;this._activity.append(s.div(this.description,"tutorials-root-description"));for(let t=0;t<this.stepNumber;t++){let n=s.iconFA("clock");this._isAutomatic||0===t&&(n=s.iconFA("play",()=>this._nextStep(),"Next step"),n.className="grok-icon fas fa-play");const i=s.div(this._steps[t].name,"grok-tutorial-entry-instruction"),o=s.div(null===(e=this._steps[t].options)||void 0===e?void 0:e.description,"grok-tutorial-step-description hidden"),r=s.divH([n,i],"grok-tutorial-entry");this._activity.append(r,o)}}_initRoot(){r.shell.windows.showContextPanel=!0,r.shell.windows.showHelp=!1,this._node=r.shell.dockManager.dock(this._root,a.DOCK_TYPE.FILL,r.shell.dockManager.findNode(r.shell.browsePanel.root),this.name),this._node.container.containerElement.classList.add("tutorials-demo-script-container"),this._addHeader(),this._root.append(this._mainHeader),this._addDescription(),this._root.append(this._activity)}_setViewParams(){var e;r.shell.v&&(r.shell.v.name=this.name,r.shell.v.path=`${this.DEMO_PATH}/${(null!==(e=this._path)&&void 0!==e?e:"").replaceAll(" ","-")}`,this._setBreadcrumbsInViewName())}_nextStep(){return ei(this,void 0,void 0,function*(){var e,t;this._isStepProcessed=!0,this._isAutomatic||(this._nextStepBtn.classList.add("disabled"),this._nextStepBtn.firstChild.classList.add("fa-disabled"));const n=this._activity.getElementsByClassName("grok-tutorial-entry")[this._currentStep],i=this._activity.getElementsByClassName("grok-icon")[this._currentStep],o=this._activity.getElementsByClassName("grok-tutorial-step-description")[this._currentStep];i.className="grok-icon far fa-spinner-third fa-spin",o.classList.remove("hidden"),o.classList.add("visible");const l=n,c=(null===(e=this._steps[this._currentStep].options)||void 0===e?void 0:e.delay)?null===(t=this._steps[this._currentStep].options)||void 0===t?void 0:t.delay:2e3;try{this._setViewParams(),yield this._steps[this._currentStep].func(),this._setViewParams()}catch(e){console.error(e)}this._scrollTo(this._root,l.offsetTop-this._mainHeader.offsetHeight),this._isAutomatic&&(yield this._countdown(n,i,c),yield(0,et.cb)(c));const u=s.iconFA("check");if(i.replaceWith(u),u.className="grok-icon far fa-check",this._progress.value++,this._progressSteps.innerText=`Step: ${this._progress.value} of ${this.stepNumber}`,this._currentStep++,this._isStepProcessed=!1,this._currentStep!==this.stepNumber){if(!this._isAutomatic){const e=this._activity.getElementsByClassName("grok-icon")[this._currentStep],t=s.iconFA("play",()=>this._nextStep(),"Next step");t.className="grok-icon fas fa-play",e.replaceWith(t),this._nextStepBtn.classList.remove("disabled"),this._nextStepBtn.firstChild.classList.remove("fa-disabled")}r.shell.v instanceof a.TableView&&(yield r.data.detectSemanticTypes(r.shell.tv.dataFrame))}else this._isAutomatic?this._stopStartBtn.replaceWith(this._restartBtn):this._nextStepBtn.replaceWith(this._restartBtn)})}_startScript(){return ei(this,void 0,void 0,function*(){for(let e=this._currentStep;e<this.stepNumber&&!this._isStopped&&!this._isCancelled;e++)yield this._nextStep()})}_scrollTo(e,t){e.focus(),e.scrollTop=t}_countdown(e,t,n){return ei(this,void 0,void 0,function*(){const i=s.div([],"demo-script-countdown");t.classList.add("hidden");let o=n/1e3;const r=this._createSVGIndicator(o);i.append(r),e.prepend(i);const a=setInterval(()=>{o--,0===o&&(clearInterval(a),i.remove(),t.classList.remove("hidden"),t.classList.add("visible"))},1e3)})}_createSVGIndicator(e){const t=document.createElementNS("http://www.w3.org/2000/svg","svg"),n=document.createElementNS("http://www.w3.org/2000/svg","circle");return n.setAttributeNS(null,"cx","7"),n.setAttributeNS(null,"cy","7"),n.setAttributeNS(null,"r","6"),n.setAttributeNS(null,"style",`animation: countdown ${e}s linear infinite forwards`),t.append(n),t}_changeStopState(){return ei(this,void 0,void 0,function*(){const e=this._stopStartBtn.getElementsByClassName("grok-icon");e[0].className="grok-icon fas fa-play",this._isStopped=!this._isStopped,this._isStopped||(e[0].className="grok-icon fal fa-pause",this._isStepProcessed||(yield this._startScript()))})}_restartScript(){return ei(this,void 0,void 0,function*(){r.shell.dockManager.close(this._node),this._clearRoot(),this._setInitParams(),yield this.start()})}_clearRoot(){this._root=s.div([],{id:"demo-script",classes:"tutorials-root tutorials-track demo-app-script"}),this._mainHeader=s.panel([],"tutorials-main-header"),this._header=s.h2(""),this._headerDiv=s.divH([],"tutorials-root-header"),this._activity=s.panel([],"tutorials-root-description"),this._progressDiv=s.divV([],"tutorials-root-progress"),this._progress=s.element("progress"),this._progressSteps=s.divText(""),this._progress.max=0,this._progress.value=1}_setInitParams(){this._currentStep=0,this._isStopped=!1,this._isCancelled=!1,this._stopStartBtn.getElementsByClassName("grok-icon")[0].className="grok-icon fal fa-pause",this._nextStepBtn.classList.remove("disabled")}_closeDock(){r.shell.dockManager.close(this._node),this.cancelScript()}cancelScript(){this._isCancelled=!0,ti.currentObject=null}step(e,t,n){return this._steps[this.steps.length]={name:e,func:t,options:n},this}start(){return ei(this,void 0,void 0,function*(){this._initRoot(),r.shell.v.name===this.name&&(r.shell.v.close(),this._node=r.shell.dockManager.dock(this._root,a.DOCK_TYPE.FILL,r.shell.dockManager.findNode(r.shell.browsePanel.root),this.name)),this._isAutomatic?yield this._startScript():this._autoStartFirstStep&&(yield this._nextStep())})}}ti.currentObject=null,function(e){e.X="Embed_X",e.Y="Embed_Y"}(Qn||(Qn={}));var ni=n(966),ii=n(608),oi=n(1619);class ri{urlParams;funcName;options;df;view;constructor(e,t,n={}){this.urlParams=e,this.funcName=t,this.options=n}async init(e){this.df=e,await this.buildView()}async buildView(){const e=oe()(this.urlParams.entries()).map(([e,t])=>`${e}=${encodeURIComponent(t)}`).toArray().join("&");this.view=r.shell.addTableView(this.df),this.view.path=this.view.basePath=`func/${To.name}.${this.funcName}?${e}`;const t={...this.options,sequenceColumnName:"sequence"};for(const[e,n]of this.urlParams.entries())switch(e){case ot.n5.fixWidth:case ot.n5.fitArea:t[e]=(e=>["1","on","true"].includes(e.toLowerCase()))(n);break;default:t[e]=n}const n=await this.view.dataFrame.plot.fromType("WebLogo",t);this.view.dockManager.dock(n,a.DOCK_TYPE.DOWN,null,"WebLogo",.35)}}class si{tableInput;seqColInput;funcParamsDiv;get funcParams(){return{table:this.tableInput.value,sequence:this.seqColInput.value}}get paramsUI(){return this.funcParamsDiv}constructor(){this.tableInput=s.input.table("Table",{value:r.shell.tv.dataFrame,onValueChanged:()=>{this.onTableInputChanged()}});const e=this.tableInput.value.columns.bySemType(a.SEMTYPE.MACROMOLECULE);this.seqColInput=s.input.column("Sequence",{table:this.tableInput.value,value:e,filter:e=>e.semType===a.SEMTYPE.MACROMOLECULE}),this.funcParamsDiv=s.inputs([this.tableInput,this.seqColInput],{style:{minWidth:"320px"}})}onTableInputChanged(){this.seqColInput=s.input.column("Sequence",{table:this.tableInput.value,value:this.tableInput.value.columns.bySemType(a.SEMTYPE.MACROMOLECULE)})}}var ai=n(6869);new class{tooltipHandlerTemp="tooltip-handler.Monomer"};const li="-";class ci extends We{constructor(e,t){super(e,t)}render(e,t,n,i,o,r,s){e.save(),e.beginPath(),e.rect(t,n,i,o),e.clip();try{if(!r.isTableCell)return;const s=r.cell?.column&&r.cell.column?.dart&&"true"===r.cell.column.getTag(Oe.Mn.applyToBackground);e.font="12px monospace",e.textBaseline="middle",e.textAlign="left";let a=r.cell.value;a&&a!==we._S||(a=li);const l=a.split(we.ot).map(e=>e&&e!==we._S?e.trim():li),c=l.map(e=>(0,pe.zS)(e,Math.max(2,Math.floor(.15*i/l.length)))),u=c.map(t=>e.measureText(t).width),h=u.reduce((e,t)=>e+t,0);let d=t+(i-h)/2;const m=this.tableCol.getTag(we.gp.alphabet),p=m===pe.YI.RNA||m===pe.YI.DNA?ai.o.NUCLEOTIDE:ai.o.AA;for(let a=0;a<c.length;a++){const h=l[a],m=this.getHelmType(r,p);let g=De.S$,f="rgb(255, 255, 255)";if(this.monomerLib)if(s){const e=this.monomerLib.getMonomerColors(m,h);g=e?.textcolor??g,f=e?.backgroundcolor??f}else g=this.monomerLib.getMonomerTextColor(m,h);s&&1==l.length&&(e.fillStyle=f,e.fillRect(t,n,i,o)),e.fillStyle=g,e.fillText(c[a],d,n+o/2,i),d+=u[a]}}finally{e.restore()}}onMouseMove(e,t){const[n,i,o]=(0,Ge.BG)(e);if(e.grid.dart!=this.gridCol?.grid.dart||n?.dart!=this.gridCol?.dart||!i||!e.isTableCell)return!1;const r=i.getTag(we.gp.alphabet),a=e.cell.value,l=e.grid.canvas.getBoundingClientRect(),c=e.bounds.right+l.left-4,u=e.bounds.bottom+l.top-4;if(!a||a==we._S||a==li)return s.tooltip.show(s.divText("gap"),c,u),!0;if(!this.monomerLib)return s.tooltip.show(s.divText("Monomer library is not available."),c,u),!0;const h=r===pe.YI.RNA||r===pe.YI.DNA?ai.o.NUCLEOTIDE:ai.o.AA,d=a.split(we.ot).map(t=>{if(!t||t===we._S||t===li)return s.divText("gap");const n=this.getHelmType(e,h);return this.monomerLib.getTooltip(n,t)}),m=s.divH(d,{style:{alignItems:"top"}}),p=Array.from(m.querySelectorAll("canvas"));if(p.length>2){const e=Math.floor(550/p.length);p.forEach(t=>{t.style.setProperty("max-width",`${e}px`,"important"),t.style.setProperty("max-height",`${e}px`,"important")})}return s.tooltip.show(m,c,u),!0}getHelmType(e,t){let n=t;const[i,o,r]=(0,Ge.BG)(e);if((e.tableRowIndex??-1)>-1&&o?.getTag(we.qE.polymerTypeColumnName)){const t=o.getTag(we.qE.polymerTypeColumnName),i=o.dataFrame?.col(t);if(i){const t=i.get(e.tableRowIndex);t&&["BLOB","CHEM","G","PEPTIDE","RNA"].includes(t)&&(n=(0,ke.MD)(t))}}return n}async awaitRendered(e=1e4,t=`${e} timeout`){return Promise.resolve()}static getOrCreate(e){const[t,n,i]=(0,Ge.BG)(e);let o=i.rendererBack;return o||(o=i.rendererBack=new ci(t,n)),o}}class ui extends a.GridCellRenderer{get name(){return qe.uF.MONOMER}get cellType(){return qe.uF.MONOMER}get defaultHeight(){return 15}get defaultWidth(){return 40}render(e,t,n,i,o,r,s){ci.getOrCreate(r).render(e,t,n,i,o,r,s)}onMouseMove(e,t){ci.getOrCreate(e).onMouseMove(e,t),t.preventDefault()}}class hi{constructor(e,t,n=""){this.target=e,this.debugEnabled=t,this.prefix=n}error(e,t,n){return this.target.error(this.prefix+e,t,n)}warning(e,t){return this.target.warning(this.prefix+e,t)}info(e,t){return this.target.info(this.prefix+e,t)}debug(e,t){if(this.debugEnabled)return this.target.debug(this.prefix+e,t)}}class di extends Map{_onPropertyChanged=new u.Subject;get onPropertyChanged(){return this._onPropertyChanged}get fontSize(){const e=super.get("FontSize");return e&&!isNaN(e)?Number.parseInt(e):12}set fontSize(e){super.set("FontSize",e),this._onPropertyChanged.next("FontSize")}get maxMonomerLength(){const e=super.get("MaxMonomerLength");return"long"===e?null:parseInt(e)}set maxMonomerLength(e){const t=null==e?"long":e.toString();super.set("MaxMonomerLength",t),this._onPropertyChanged.next("MaxMonomerLength")}get tooltipWebLogo(){return super.get("TooltipWebLogo")}set tooltipWebLogo(e){super.set("TooltipWebLogo",e),this._onPropertyChanged.next("TooltipWebLogo")}get defaultSeparator(){return super.get("DefaultSeparator")}set defaultSeparator(e){if(1!==e.length)throw new Error("The separator must be of length one.");super.set("DefaultSeparator",e),this._onPropertyChanged.next("DefaultSeparator")}constructor(e){super(Object.entries(e))}}class mi extends a.Package{_properties;_seqHelper;get seqHelper(){if(!this._seqHelper)throw new Error("Package Bio .seqHelper is not initialized.");return this._seqHelper}_monomerLib;get monomerLib(){if(!this._monomerLib)throw new Error("Package Bio .monomerLib is not initialized.");return this._monomerLib}_monomerSets;get monomerSets(){if(!this._monomerSets)throw new Error("Package Bio .monomerSets is not initialized.");return this._monomerSets}_rdKitModule;get rdKitModule(){if(!this._rdKitModule)throw new Error("Package Bio .rdKitModule is not initialized.");return this._rdKitModule}get properties(){return this._properties}set properties(e){this._properties=e}_initialized=!1;get initialized(){return this._initialized}constructor(e={debug:!1}){super(),super._logger=new hi(super.logger,e.debug)}completeInit(e,t,n,i){this._seqHelper=e,this._monomerLib=t,this._monomerSets=n,this._rdKitModule=i,this._initialized=!0}handleErrorUI(e){const[t,n]=(0,Ce.AP)(e);r.shell.error(t),this.logger.error(t,void 0,n)}}var pi=n(6307),gi=n(5999),fi={};fi.styleTagTransform=C(),fi.setAttributes=b(),fi.insert=f().bind(null,"head"),fi.domAPI=p(),fi.insertStyleElement=v(),d()(gi.A,fi),gi.A&&gi.A.locals&&gi.A.locals;class yi extends a.Widget{seqCol;seqHelper;get type(){return"MacromoleculeColumnWidget"}viewed=!1;wlViewer=null;constructor(e,t){super(s.divV([])),this.seqCol=e,this.seqHelper=t}async init(){const e=this.seqHelper.getSeqHandler(this.seqCol),t=To.properties.tooltipWebLogo,n=this.seqCol.getTag(tt.gp.tooltipWebLogo);!1===t||["false","off","disable","disabled"].includes(n)||(this.wlViewer=await this.seqCol.dataFrame.plot.fromType("WebLogo",{sequenceColumnName:this.seqCol.name,backgroundColor:0,positionHeight:"Entropy",positionWidth:e.getAlphabetIsMultichar()?24:16,fixWidth:!0,fitArea:!1,positionNames:"",endPositionName:"50"}),this.wlViewer.root.style.height="50px",this.root.appendChild(this.wlViewer.root),this.root.style.width="100%")}detach(){this.wlViewer&&(this.wlViewer.detach(),this.wlViewer=null),super.detach()}}function bi(e,t,n,i){const o=To.seqHelper.getSeqHandler(e);let r=null,s=null;for(let e=0;e<o.posList.length;++e)o.posList[e]==t&&(r=e),o.posList[e]==n&&(s=e);if(null==r&&null!==t)throw new Error(`Start position ${t} not found.`);if(null==s&&null!==n)throw new Error(`End position ${n} not found.`);if(o.posList.length<s)throw new Error(`End position ${s} exceeds positions length`);const a=i||`${e.name}: (${t??""}-${n??""})`;return o.getRegion(r,s,a)}const wi={df:a.DataFrame.fromCsv("seq,value\nATCCGTCGT,0.5\nTGTTCGTCA,0.4\nATGGTCGTA,0.7\nATCCGTGCA,0.1"),colName:"seq",positionNames:["1","1A","1C","2","4","4A","4B","5","6"].join(pe.z1),regions:[{name:"first region",start:"1",end:"2"},{name:"second region",start:"1C",end:"4"},{name:"overlapping second",start:"1C",end:"4A"},{name:"whole sequence",start:"1",end:"6"},{name:"bad start",start:"0",end:"6"},{name:"bad end",start:"1",end:"4C"},{name:"bad start & end",start:"0",end:"4C"}]};class vi{urlParams;funcName;view;data;constructor(e,t){this.urlParams=e,this.funcName=t}async init(e){this.data=e??wi;const t=this.data.df.getCol(this.data.colName);this.data.positionNames&&t.setTag(pe.gp.positionNames,this.data.positionNames),this.data.regions&&t.setTag(pe.gp.regions,JSON.stringify(this.data.regions)),await this.buildView()}async buildView(){await r.data.detectSemanticTypes(this.data.df),this.view=r.shell.addTableView(this.data.df),this.view.path=this.view.basePath=`func/${To.name}.${this.funcName}`;const e=await this.view.dataFrame.plot.fromType("WebLogo",{sequenceColumnName:this.data.colName});this.view.dockManager.dock(e,a.DOCK_TYPE.DOWN,null,"WebLogo",.35)}}class Ti{call;seqHelper;inputs=new class{table;sequence;region;start;end;name};constructor(e,t){this.call=e,this.seqHelper=t;const n=e=>this.call.inputParams[e].property.description;this.inputs.table=s.input.table("Table",{value:this.call.inputParams.table.value??r.shell.tv.dataFrame});const i=this.call.inputParams.sequence.value??this.inputs.table.value.columns.bySemType(a.SEMTYPE.MACROMOLECULE);this.inputs.sequence=s.input.column("Sequence",{table:r.shell.tv.dataFrame,value:i,onValueChanged:this.sequenceInputChanged.bind(this),filter:e=>e.semType===a.SEMTYPE.MACROMOLECULE}),this.inputs.start=s.input.choice("Start",{onValueChanged:this.startInputChanged.bind(this)}),this.inputs.end=s.input.choice("End",{onValueChanged:this.endInputChanged.bind(this)}),this.inputs.region=s.input.choice("Region",{value:null,items:[],onValueChanged:this.regionInputChanged.bind(this)}),this.inputs.name=s.input.string("Column name",{value:this.getDefaultName(),onValueChanged:this.nameInputChanged.bind(this),clearIcon:!0}),this.inputs.name.onInput.subscribe(()=>this.nameInputInput.bind(this));for(const e in this.call.inputParams)s.tooltip.bind(this.inputs[e].captionLabel,n(e));this.sequenceInputChanged()}sequenceInputChanged(){const e=this.inputs.sequence.value;e&&this.seqHelper.getSeqHandler(e),this.updateRegionItems(),this.updateStartEndInputItems(),this.updateRegion(!0),this.updateNameInput()}fixRegion=!1;regionInputChanged(){this.fixRegion=!0;try{const e=this.inputs.region.stringValue,t=e?JSON.parse(e):null;if(null!==t)this.inputs.start.value=t?.start,this.inputs.end.value=t?.end;else{const e=this.seqHelper.getSeqHandler(this.inputs.sequence.value);this.inputs.start.value=e.posList[0],this.inputs.end.value=e.posList[e.posList.length-1]}}finally{this.fixRegion=!1}}startInputChanged(){this.updateRegion(!1),this.updateNameInput()}endInputChanged(){this.updateRegion(!1),this.updateNameInput()}nameInputChanged(){this.defaultNameUpdating||(this.defaultName=!1)}nameInputInput(){this.inputs.name.value||(this.defaultName=!0,this.inputs.name.input.focus())}updateStartEndInputItems(){const e=this.inputs.sequence.value,t=e?this.seqHelper.getSeqHandler(e):null,n=this.inputs.start.input,i=this.inputs.end.input;for(let e=n.options.length-1;e>=0;--e)n.options.remove(e);for(let e=i.options.length-1;e>=0;--e)i.options.remove(e);for(const e of t?.posList??[]){const t=document.createElement("option"),o=document.createElement("option");t.text=o.text=e,t.value=o.value=e,n.options.add(t),i.options.add(o)}n.value=t?.posList[0]??"",i.value=t?.posList[t?.posList.length-1]??""}updateRegionItems(){const e=this.inputs.sequence.value,t=e?e.getTag(pe.gp.regions):null,n=t?JSON.parse(t):null,i=this.inputs.region.input;for(let e=i.options.length-1;e>=0;--e)i.options.remove(e);const o=document.createElement("option");if(o.text="",o.value=JSON.stringify(null),i.options.add(o),null!=n){this.inputs.region.root.style.removeProperty("display");for(const e of n){const t=document.createElement("option");t.text=`${e.name}: ${e.start}-${e.end}`,t.value=JSON.stringify(e),i.options.add(t)}}else this.inputs.region.root.style.display="none"}updateRegion(e){const t=this.inputs.start.stringValue??"",n=this.inputs.end.stringValue??"";if(!this.fixRegion){const e=this.inputs.region.input;e.selectedIndex=-1;for(let i=e.options.length-1;i>=0;--i){const o=e.options[i],r=JSON.parse(o.value);r&&t===r.start&&n===r.end&&(e.selectedIndex=i)}}}defaultName=!0;defaultNameUpdating=!1;updateNameInput(){this.defaultNameUpdating=!0;try{this.defaultName&&(this.inputs.name.value=this.getDefaultName())}finally{this.defaultNameUpdating=!1}}getDefaultName(){const e=this.inputs.region.stringValue,t=e?JSON.parse(e):null,n=this.inputs.sequence.value,i=this.inputs.start.stringValue??"",o=this.inputs.end.stringValue??"";return null!=t?`${n.name}(${t.name}): ${t.start}-${t.end}`:`${n?.name}: (${i}-${o})`}getParams(){return{table:this.inputs.table.value,sequence:this.inputs.sequence.value,start:this.getStart(),end:this.getEnd(),name:this.getName()}}getStart(){return this.inputs.start.stringValue}getEnd(){return this.inputs.end.stringValue}getName(){const e=this.inputs.name.stringValue;return""==e?null:e}dialog(){const e=s.inputs(Object.values(this.inputs),{style:{minWidth:"320px"}});s.dialog({title:"Get Region"}).add(e).onOK(()=>{(async()=>{const e=this.getParams();await this.call.func.prepare(e).call(!0)})().catch(e=>{To.handleErrorUI(e)})}).show()}widget(){const e=s.inputs(Object.entries(this.inputs).filter(([e,t])=>!["table","sequence"].includes(e)).map(([e,t])=>t)),t=s.button("Get Region",()=>{(async()=>{const e=this.getParams();await this.call.func.prepare(e).call(!0)})().catch(e=>{To.handleErrorUI(e)})});return a.Widget.fromRoot(s.divV([e,s.div(t)]))}}var Ci=n(8754);async function Ai(e,t,n,i,o){const s=await async function(e,t,n,i,o){const s=ye(t,o),l=o.getSeqHandler(t).getNewColumnFromList("ref",[n]),c=o.getSeqHandler(l).getSplitted(0),u=i===be.IDENTITY?function(e,t){const n=t.columns.length,i=new Array(n),o=new Array(n),r=new Array(n);for(let s=0;s<n;++s){const n=t.columns.byIndex(s);i[s]=n.getRawData(),o[s]=n.categories.indexOf("");const a=s<e.length?e.getOriginal(s):we._S;r[s]=n.categories.indexOf(a)}const s=a.Column.float("Identity",t.rowCount),l=s.getRawData();for(let n=0;n<t.rowCount;++n){l[n]=0;for(let t=0;t<e.length;++t)(i[t]?i[t][n]:0)===r[t]&&++l[n];l[n]/=e.length}return s}(c,s):i===be.SIMILARITY?await async function(e,t,n){const i=t.columns.toList(),o=await async function(e,t,n){e instanceof a.Column&&(e=ye(e,n).columns.toList());const i=(await(0,ve.pj)()).getMonomerLib(),o=new Array(e.length),s=e[0].length,l=new Float32Array(s);for(let n=0;n<e.length;++n){const c=n<t.length?t.getCanonical(n):we._S,u=i.getMonomer("PEPTIDE",c)?.smiles??"",h=e[n],d=h.getRawData(),m=h.categories,p=m.indexOf("");if(o[n]={categories:m,data:d,emptyIndex:p},void 0===c)continue;const g=a.Column.fromStrings("smiles",m.map(e=>i.getMonomer("PEPTIDE",e)?.smiles??"")),f=(a.DataFrame.fromColumns([g]),await r.chem.getSimilarities(g,u)),y=f?f.getRawData():null;for(let e=0;e<s;++e){const t=d[e];c!==we._S&&t!==p?l[e]+=y[t]:c===we._S&&t===p&&(l[e]+=1)}}for(let n=0;n<l.length;++n){let i=l[n]/t.length;for(let r=0;r<e.length;++r){const e=o[r];if(r>=t.length&&e.data[n]!==e.emptyIndex||e.data[n]===e.emptyIndex&&r<t.length){i=a.FLOAT_NULL;break}}l[n]=i}return a.Column.fromFloat32Array("Similarity",l)}(i,e,n);return o}(c,s,o):null;if(null===u)throw new Error(`In bio library: Unknown sequence scoring method: ${i}`);return u.name=e.columns.getUnusedName(u.name),e.columns.add(u),u}(e,t,n,i,o);for(let e=0;e<s.length;e++)t.isNone(e)&&s.set(e,null,!1);return s}var Ei=n(294),Si=n(330);const Mi=OCL;var Pi=n(2582);class _i{monomerSymbol;constructor(e){this.monomerSymbol=e}atoms;bonds;rGroups;get atomCount(){return this.atoms.count}get bondCount(){return this.bonds.count}shiftR1GroupToOrigin(){const e=this.rGroups.getAtomicIdx(1);if(null==e)return;const{x:t,y:n}=this.atoms.atomCoordinates[e];this.atoms.shift({x:-t,y:-n})}alignR2AlongX(){const e=this.rGroups.getAtomicIdx(2);if(null==e)throw new Error(`Cannot find R2 group for monomer ${this.monomerSymbol}`);const t=this.atoms.atomCoordinates[e],n=t.y/t.x,i=Math.atan(n);if(isNaN(i))throw new Error(`Cannot calculate angle for R2 group for monomer ${this.monomerSymbol}`);this.rotateCoordinates(-i)}shiftMonomerToDefaultPosition(){this.shiftR1GroupToOrigin(),null!==this.rGroups.getAtomicIdx(2)&&this.alignR2AlongX()}deleteBondLineWithSpecifiedRGroup(e){this.rGroups.deleteBondLineWithSpecifiedRGroup(e)}shiftCoordinates(e){this.atoms.shift(e)}rotateCoordinates(e){this.atoms.rotate(e)}getBondLines(){return this.bonds.getBondLines()}getAtomLines(){return this.atoms.atomLines}removeRGroups(e){this.rGroups.removeRGroups(e)}replaceRGroupWithAttachmentAtom(e,t){this.rGroups.replaceRGroupWithAttachmentAtom(e,t)}getAttachmentAtomByRGroupId(e){return this.rGroups.getAttachmentAtomIdByRGroupId(e)}shiftBonds(e){this.bonds.shift(e)}capRGroups(e){this.rGroups.capRGroups(e)}}var Ii=n(6956);class Li{atoms;bonds;constructor(e,t,n){this.atoms=t,this.bonds=n,this.rGroupIdToAtomicIndexMap=e.getRGroupIdToAtomicIdxMap()}rGroupIdToAtomicIndexMap;rGroupBondPositionMap=new Map;getAtomicIdx(e){const t=this.rGroupIdToAtomicIndexMap.get(e);return null==t?null:t}removeRGroupsFromAtomBlock(e){e.forEach(e=>{if(null==this.rGroupIdToAtomicIndexMap.get(e))throw new Error(`Cannot find atomic index for R group ${e}`)});const t=Array.from(this.rGroupIdToAtomicIndexMap.entries()).filter(([t,n])=>e.includes(t)).map(([e,t])=>t);this.atoms.deleteAtoms(t)}removeRGroups(e){this.removeRGroupsFromAtomBlock(e),e.forEach(e=>{const t=this.replaceRGroupInBondsByDummy(e);this.rGroupBondPositionMap.set(e,t)})}replaceRGroupInBondsByDummy(e){const t=this.rGroupIdToAtomicIndexMap.get(e);if(this.rGroupBondPositionMap.has(e))throw new Error(`R group ${e} is already handled`);const n=this.bonds.getPositionsInBonds(t+1);if(0===n.length)throw new Error(`Cannot find position for R group ${e}`);if(n.length>1)throw new Error(`More than one position for R group ${e}`);const i=n[0];return this.bonds.replacePositionsInBondsByDummy([i]),this.bonds.removeAtomIdFromBonds(t+1),this.removeRGroupFromAtomicIdxMap(e,t),i}removeRGroupFromAtomicIdxMap(e,t){this.rGroupIdToAtomicIndexMap.delete(e);for(const[e,n]of this.rGroupIdToAtomicIndexMap)n>t&&this.rGroupIdToAtomicIndexMap.set(e,n-1)}deleteBondLineWithSpecifiedRGroup(e){const t=this.rGroupBondPositionMap.get(e);if(!t)throw new Error(`Cannot find position for R group ${e}`);const{bondLineIdx:n}=t;this.bonds.deleteBondLines([n]),this.rGroupBondPositionMap.delete(e),this.rGroupIdToAtomicIndexMap.delete(e),this.rGroupBondPositionMap.forEach(e=>{e.bondLineIdx>n&&(e.bondLineIdx-=1)})}replaceRGroupWithAttachmentAtom(e,t){const n=this.rGroupBondPositionMap.get(e);if(!n)throw new Error(`Cannot find position for R group ${e}`);const{bondLineIdx:i,nodeIdx:o}=n;this.bonds.bondedAtoms[i][o]=t}getAttachmentAtomIdByRGroupId(e){const t=this.rGroupBondPositionMap.get(e);if(!t)throw new Error(`Cannot find position for R group ${e}`);const{bondLineIdx:n,nodeIdx:i}=t;return this.bonds.bondedAtoms[n][(i+1)%2]}capRGroups(e){this.rGroupIdToAtomicIndexMap.forEach((t,n)=>{const i=e[n-1];i===Ii.m?(this.removeRGroups([n]),this.deleteBondLineWithSpecifiedRGroup(n)):this.atoms.replaceRGroupSymbolByElement(t,i)})}}class xi{coordinates=[];rawAtomLines=[];get count(){return this.coordinates.length}get atomCoordinates(){return this.coordinates}replaceRGroupSymbolByElement(e,t){this.rawAtomLines[e]=this.rawAtomLines[e].replace("R#",t)}deleteAtoms(e){this.coordinates=this.coordinates.filter((t,n)=>!e.includes(n)),this.rawAtomLines=this.rawAtomLines.filter((t,n)=>!e.includes(n))}shift(e){this.coordinates=this.coordinates.map(t=>{const n=t.x+e.x,i=t.y+e.y;if(isNaN(n)||isNaN(i))throw new Error(`Cannot shift coordinates by ${e.x}, ${e.y}`);return{x:n,y:i}})}rotate(e){this.coordinates=this.coordinates.map(t=>{const n=t.x,i=t.y,o=n*Math.cos(e)-i*Math.sin(e),r=n*Math.sin(e)+i*Math.cos(e);if(isNaN(o)||isNaN(r))throw new Error(`Cannot rotate coordinates by ${e}`);return{x:o,y:r}})}}class Ni extends xi{constructor(e){super(),this.rawAtomLines=e.getAtomLines(),this.coordinates=this.rawAtomLines.map(e=>({x:parseFloat(e.substring(0,10)),y:parseFloat(e.substring(10,20))}))}get atomLines(){return this.rawAtomLines.map((e,t)=>{const n=this.coordinates[t];return`${n.x.toFixed(4).padStart(10," ")}${n.y.toFixed(4).padStart(10," ")}${e.substring(20)}`})}}class Ri{bondedAtomPairs=[];rawBondLines=[];get count(){return this.bondedAtomPairs.length}get bondedAtoms(){return this.bondedAtomPairs}deleteBondLines(e){this.rawBondLines=this.rawBondLines.filter((t,n)=>!e.includes(n)),this.bondedAtomPairs=this.bondedAtomPairs.filter((t,n)=>!e.includes(n))}getPositionsInBonds(e){const t=[];return this.bondedAtomPairs.forEach((n,i)=>{n.forEach((n,o)=>{n===e&&t.push({bondLineIdx:i,nodeIdx:o})})}),t}replacePositionsInBondsByDummy(e,t){null==t&&(t=-1),e.forEach(e=>{const{bondLineIdx:n,nodeIdx:i}=e;this.bondedAtomPairs[n][i]=t})}removeAtomIdFromBonds(e){this.bondedAtomPairs=this.bondedAtomPairs.map(t=>t.map(t=>t>e?t-1:t))}shift(e){this.bondedAtomPairs=this.bondedAtomPairs.map(t=>t.map(t=>t+e))}}class $i extends Ri{constructor(e){super(),this.rawBondLines=e.getBondLines(),this.bondedAtomPairs=this.rawBondLines.map(e=>[parseInt(e.substring(0,3)),parseInt(e.substring(3,6))])}getBondLines(){return this.bondedAtomPairs.map((e,t)=>{if(e.some(e=>-1===e))throw new Error(`Bonded pair ${e} contains -1`);return`${e[0].toString().padStart(3," ")}${e[1].toString().padStart(3," ")}${this.rawBondLines[t].substring(6)}`})}}class Hi extends _i{constructor(e,t){super(t);const n=$t.getInstance(e);this.atoms=new Ni(n),this.bonds=new $i(n),this.rGroups=new Li(n,this.atoms,this.bonds),this.shiftMonomerToDefaultPosition()}}class Oi extends xi{molfileHandler;constructor(e){super(),this.molfileHandler=e,this.rawAtomLines=e.getAtomLines(),this.coordinates=this.getCoordinates()}getCoordinates(){const e=this.molfileHandler.x,t=this.molfileHandler.y;return Array.from(e).map((e,n)=>({x:e,y:t[n]}))}get atomLines(){const e=/^(M V30 [^-]*)(-?\d+\.\d+)( )(-?\d+\.\d+)( -?\d+\.\d+.*)$/,t=/\sRGROUPS=\(\d+(\s+\d+)*\)/;return this.rawAtomLines.map((n,i)=>{const o=this.coordinates[i],r=o.x.toFixed(4)+"00",s=o.y.toFixed(4)+"00";return n.replace(e,(e,t,n,i,o,a)=>t+r+i+s+a).replace(t,"")})}replaceRGroupSymbolByElement(e,t){super.replaceRGroupSymbolByElement(e,t);const n=this.rawAtomLines[e].substring(3).split(" ");n.length>7&&(this.rawAtomLines[e]=`M ${n.slice(0,7).join(" ")}`)}}class Di extends Ri{molfileHandler;constructor(e){super(),this.molfileHandler=e,this.rawBondLines=e.getBondLines(),this.bondedAtomPairs=this.getBondedAtomPairs()}getBondedAtomPairs(){return this.molfileHandler.pairsOfBondedAtoms.map(e=>[e[0],e[1]])}getBondLines(){const e=/^(M\s+V30\s+\d+\s+\d+\s+)(\d+)(\s+)(\d+)(.*)$/;return this.bondedAtomPairs.map((t,n)=>{if(t.some(e=>-1===e))throw new Error(`Bonded pair ${t} contains -1`);return this.rawBondLines[n].replace(e,(e,n,i,o,r,s)=>`${n}${t[0]}${o}${t[1]}${s}`)})}}class ki extends _i{constructor(e,t){super(t);const n=$t.getInstance(e);this.atoms=new Oi(n),this.bonds=new Di(n),this.rGroups=new Li(n,this.atoms,this.bonds),this.shiftMonomerToDefaultPosition()}}class Fi{static getInstance(e,t){if($t.isMolfileV2K(e))return new Hi(e,t);if($t.isMolfileV3K(e))return new ki(e,t);throw new Error("Unsupported molfile version")}}class Gi{monomerSymbol;monomerIdx;helm;monomerLib;molfileWrapper;capGroupElements=[];static molfileV2KToV3KCache=new Map;constructor(e,t,n,i,o,r){this.monomerSymbol=e,this.monomerIdx=t,this.helm=n,this.monomerLib=r;const s=this.getLibraryMonomerObject();let a=s.molfile;$t.isMolfileV2K(a)&&(a=this.convertMolfileToV3KFormat(a,e,o)),this.molfileWrapper=Fi.getInstance(a,e),this.capGroupElements=this.getCapGroupElements(s),this.removeRGroups(n.bondedRGroupsMap[t]),this.capRemainingRGroups(),this.shiftCoordinates(i)}get atomCount(){return this.molfileWrapper.atomCount}get bondCount(){return this.molfileWrapper.bondCount}convertMolfileToV3KFormat(e,t,n){if(Gi.molfileV2KToV3KCache.has(e))return Gi.molfileV2KToV3KCache.get(e);let i=null;try{if(i=n.get_mol(e,JSON.stringify({mergeQueryHs:!0})),i){const t=i.get_v3Kmolblock();return Gi.molfileV2KToV3KCache.set(e,t),t}throw new Error(`Cannot convert ${t} to molV3000`)}finally{i?.delete()}}getLibraryMonomerObject(){const e=this.helm.getPolymerTypeByMonomerIdx(this.monomerIdx),t=this.monomerLib.getMonomer(e,this.monomerSymbol);if(!t)throw new Error(`Monomer ${this.monomerSymbol} is not found in the library`);return t}getCapGroupElements(e){return e.rgroups.map(e=>(e.capGroupSmiles||e.capGroupSMILES).replace(/(\[|\]|\*|:|\d)/g,""))}shiftCoordinates(e){this.molfileWrapper.shiftCoordinates(e)}getAtomLines(){return this.molfileWrapper.getAtomLines()}getBondLines(){return this.molfileWrapper.getBondLines()}removeRGroups(e){this.molfileWrapper.removeRGroups(e)}capRemainingRGroups(){this.molfileWrapper.capRGroups(this.capGroupElements)}replaceRGroupWithAttachmentAtom(e,t){this.molfileWrapper.replaceRGroupWithAttachmentAtom(e,t)}getAttachmentAtomByRGroupId(e){return this.molfileWrapper.getAttachmentAtomByRGroupId(e)}deleteBondLineWithSpecifiedRGroup(e){this.molfileWrapper.deleteBondLineWithSpecifiedRGroup(e)}shiftBonds(e){this.molfileWrapper.shiftBonds(e)}}class Bi{rdKitModule;monomerLib;constructor(e,t,n){this.rdKitModule=t,this.monomerLib=n,this.helm=new Pi.f(e)}monomerWrappers=[];helm;addMonomer(e,t,n){if(e===we.b9[pe.Hi.HELM])return;const i=this.monomerWrappers.length,o=new Gi(e,i,this.helm,n,this.rdKitModule,this.monomerLib);this.monomerWrappers.push(o)}getAtomNumberShifts(){const e=[];let t=0;return this.monomerWrappers.forEach(n=>{e.push(t),t+=n.getAtomLines().length}),e}restoreBondsBetweenMonomers(){this.helm.bondData.forEach(e=>{const t=e.map(e=>e.monomerIdx),n=e.map(e=>e.rGroupId),i=t.map(e=>this.monomerWrappers[e]),o=i[1].getAttachmentAtomByRGroupId(n[1]);i[0].replaceRGroupWithAttachmentAtom(n[0],o),i[1].deleteBondLineWithSpecifiedRGroup(n[1])})}compileToMolfile(){const e=[],t=[],n=this.getAtomNumberShifts();this.monomerWrappers.forEach((e,t)=>{e.shiftBonds(n[t])}),this.restoreBondsBetweenMonomers();const i=new Ei.Cg;for(const[n,o]of oe().enumerate(this.monomerWrappers)){const r=e.length,s=t.length;e.push(...n.getAtomLines()),t.push(...n.getBondLines());const a="RNA"==this.helm.getPolymerTypeByMonomerIdx(o)?Be.o.NUCLEOTIDE:Be.o.AA;i.set(o,{biotype:a,symbol:n.monomerSymbol,atoms:oe().count(r).take(n.atomCount).toArray(),bonds:oe().count(s).take(n.bondCount).toArray()})}const o=e.length,r=t.length;return{molfile:[this.getV3KHeader(o,r),this.getV3KAtomBlock(e),this.getV3KBondBlock(t),"M V30 END CTAB\nM END"].join("\n"),monomers:i}}getV3KHeader(e,t){return`\n Datagrok\n\n 0 0 0 0 0 0 0 0 0 0999 V3000\nM V30 BEGIN CTAB\nM V30 COUNTS ${e} ${t} 0 0 1`}getV3KAtomBlock(e){const t=/^(M V30 )(\d+)( .*)$/;return["M V30 BEGIN ATOM",...e.map((e,n)=>{const i=n+1;return e.replace(t,(e,t,n,o)=>t+i+o)}),"M V30 END ATOM"].join("\n")}getV3KBondBlock(e){const t=/^(M V30 )(\d+)( .*)$/;return["M V30 BEGIN BOND",...e.map((e,n)=>{const i=n+1;return e.replace(t,(e,t,n,o)=>t+i+o)}),"M V30 END BOND"].join("\n")}}class Vi{constructor(e){this.molfileHandler=$t.getInstance(e)}molfileHandler;get monomerSymbols(){return this.molfileHandler.atomTypes}getMonomerShifts(e){return{x:this.molfileHandler.x[e],y:this.molfileHandler.y[e]}}}class Ui{helmHelper;rdKitModule;monomerLib;constructor(e,t,n){this.helmHelper=e,this.rdKitModule=t,this.monomerLib=n}convertToSmiles(e){const t=e.dataFrame,n=this.getSmilesList(e),i=`smiles(${e.name})`,o=t?t.columns.getUnusedName(i):i;return a.Column.fromStrings(o,n.map(e=>null==e?"":e))}getSmilesList(e){return this.convertToMolfileV3KColumn(e).toList().map(e=>a.chem.convert(e,a.chem.Notation.MolBlock,a.chem.Notation.Smiles))}molV3KtoMolV3KOCL(e){try{if(!e)return"";return Mi.Molecule.fromMolfile(e).toMolfileV3().replace("STERAC1","STEABS")}catch(e){const[t,n]=(0,Ce.AP)(e);return To.logger.error(t,void 0,n),""}}getMolV3000ViaOCL(e,t){const n=e.map(e=>{if(null==e)return"";const t=e.get_v3Kmolblock();return e.delete(),t}),i=new Array(n.length),o=a.TaskBarProgressIndicator.create("Handling chirality...");for(let e=0;e<n.length;e++){i[e]=this.molV3KtoMolV3KOCL(n[e]);const t=e/n.length*100;o.update(t,`${t?.toFixed(2)}% of molecules completed`)}return o.close(),a.Column.fromStrings(t,i)}convertToRdKitBeautifiedMolfileColumn(e,t,n,i){const o=e.dataFrame,r=this.convertToMolfileV3KColumn(e).toList().map(e=>{if(""===e)return null;const t=n.get_mol(e);return t?(t.set_new_coords(),t.normalize_depiction(1),t.straighten_depiction(!0),t):null}),s=`molfile(${e.name})`,l=o?o.columns.getUnusedName(s):s;return t?this.getMolV3000ViaOCL(r,l):a.Column.fromStrings(l,r.map(e=>{if(null==e)return"";const t=e.get_v3Kmolblock();return e.delete(),t}))}convertToMolfileV3KColumn(e){const t=e.dataFrame,n=this.convertToMolfileV3K(e.toList()).map(e=>e.molfile),i=(0,Si.kA)(t,`molfileV3K(${e.name})`);return a.Column.fromList("string",i,n)}convertToMolfileV3K(e){const t=new Array(e.length);for(let n=0;n<e.length;++n){const i=e[n];if(!i){t[n]=Ei.vF.createEmpty();continue}let o;try{o=this.getPolymerMolfile(i)}catch(e){const[t,n]=(0,Ce.AP)(e);To.logger.error(t,void 0,n),o=Ei.vF.createEmpty()}t[n]=o}return t}getPolymerGraphColumn(e){const t=e.toList(),n=this.helmHelper.getMolfiles(t);return a.Column.fromStrings("mols",n)}getPolymerMolfile(e){const t=this.helmHelper.removeGaps(e),n=t.resHelm,i=new Map;for(const[e,n]of t.monomerMap?.entries()??[])i.set(n,e);const o=this.helmHelper.getMolfiles([n])[0],r=new Vi(o),s=new Bi(n,this.rdKitModule,this.monomerLib);r.monomerSymbols.forEach((e,t)=>{const n=r.getMonomerShifts(t);s.addMonomer(e,t,n)});const a=s.compileToMolfile(),l=new Ei.Cg;for(const[e,t]of a.monomers.entries()){const n=i.get(e);l.set(n,t)}return new Ei.vF(a.molfile,l)}}var Wi=n(2738);class qi{seqHelper;_column;_units;_notation;_defaultGapOriginal;_notationProvider=null;_tempReadForNotProvider=!1;get notationProvider(){return this._tempReadForNotProvider||(this._tempReadForNotProvider=!0,this._notationProvider=this._notationProvider??this._column.temp[$e.j.notationProvider]??null),this._notationProvider}set notationProvider(e){this._notationProvider=e}_splitter=null;_refinerPromise=Promise.resolve();get refinerPromise(){return this._refinerPromise}constructor(e,t){if(this.seqHelper=t,e.type!==a.TYPE.STRING)throw new Error(`Unexpected column type '${e.type}', must be '${a.TYPE.STRING}'.`);this._column=e;const n=this._column.meta.units;if(!n)throw new Error("Units are not specified in column");this._units=n,this._notation=this.getNotation(),(this.isCustom()||this.isBiln())&&(this.notationProvider=this.column.temp[$e.j.notationProvider]??null);const i=this.isFasta()?we.b9[pe.Hi.FASTA]:this.isSeparator()?we.b9[pe.Hi.SEPARATOR]:this.isHelm()?we.b9[pe.Hi.HELM]:this.isCustom()||this.isBiln()?this.notationProvider?.defaultGapOriginal??we.b9[pe.Hi.SEPARATOR]:void 0;if(null==i)throw new Error(`Unexpected defaultGapOriginal for notation '${this.notation}'`);if(this._defaultGapOriginal=i,!this.column.tags.has(pe.gp.aligned)||!this.column.tags.has(pe.gp.alphabet)||!this.column.tags.has(pe.gp.alphabetIsMultichar)&&!this.isHelm()&&this.alphabet===pe.YI.UN)if(this.isFasta())this.seqHelper.setUnitsToFastaColumn(this);else if(this.isSeparator()){const t=e.getTag(pe.gp.separator);this.seqHelper.setUnitsToSeparatorColumn(this,t)}else if(this.isHelm())this.seqHelper.setUnitsToHelmColumn(this);else{if(!this.isCustom()&&!this.isBiln())throw new Error(`Unexpected units '${this.column.meta.units}'.`);this.notationProvider?.setUnits(this)}if(!this.column.tags.has(pe.gp.alphabetIsMultichar))if(this.isHelm())this.column.setTag(pe.gp.alphabetIsMultichar,"true");else if(["UN"].includes(this.alphabet))throw new Error(`For column '${this.column.name}' of alphabet '${this.alphabet}' tag '${pe.gp.alphabetIsMultichar}' is mandatory.`);this.columnVersion=this.column.version,!this.isSeparator()||(this.isCustom()||this.isBiln())&&this.notationProvider||e.temp.seqHandlerRefined||(this._refinerPromise=this.refineSeparatorNotation(),e.temp.seqHandlerRefined=!0)}async refineSeparatorNotation(){const e=((e,t,n)=>{const i={};let o=!0,r=null;for(const t of e){const e=t?n(t):[];if(null==r?r=e.length:e.length!==r&&(o=!1),e.length>=3)for(const t of e)t in i||(i[t]=0),i[t]+=1}return{freq:i,sameLength:o}})([...new Set((this.column.length<100?oe().count(0).take(Math.min(100,this.column.length)).map(e=>this.column.get(e)):this.column.categories.slice(0,100)).map(e=>e?e.substring(0,500):"").filter(e=>0!==e.length))],0,e=>e.split(this.separator));let t=!1;const n=a.Func.find({tags:["notationRefiner"]});for(const i of n)try{const n=i.prepare({col:this.column,stats:e,separator:this.separator}),o=(await n.call()).getOutputParamValue();t||=o}catch(e){console.error(e)}t&&(this._tempReadForNotProvider=!1,delete this.column.temp[$e.j.seqHandler],this.column.fireValuesChanged())}static setTags(e){const t=e.column.meta.units;if([pe.Hi.FASTA,pe.Hi.SEPARATOR].includes(t)){if(!e.column.getTag(pe.gp.alphabet)&&0===Object.keys(e.stats.freq).length)throw new Error("Alphabet is empty and not annotated.");let t=e.column.getTag(pe.gp.aligned);null==t&&(t=e.stats.sameLength?"SEQ.MSA":"SEQ",e.column.setTag(pe.gp.aligned,t));let n=e.column.getTag(pe.gp.alphabet);if(null==n&&(n=(0,ke.pc)(e.stats.freq,pe.q7),e.column.setTag(pe.gp.alphabet,n)),n===pe.YI.UN){const t=Object.keys(e.stats.freq).length,n=Object.keys(e.stats.freq).some(e=>e.length>1);e.column.setTag(pe.gp.alphabetSize,t.toString()),e.column.setTag(pe.gp.alphabetIsMultichar,n?"true":"false")}}else if(t===pe.Hi.HELM){let t=e.column.getTag(pe.gp.alphabet);if(null==t){const n=pe.q7.map(e=>new Wi.a(e.name,e.alphabet,.9));t=(0,ke.p0)(e.stats.freq,n,e.defaultGapOriginal),e.column.setTag(pe.gp.alphabet,t)}}}get column(){return this._column}get length(){return this._column.length}get units(){return this._units}get notation(){return this._notation}get defaultGapOriginal(){return this._defaultGapOriginal}get separator(){const e=this.column.getTag(pe.gp.separator)??void 0;if(this.notation===pe.Hi.SEPARATOR&&null==e)throw new Error(`Separator is mandatory for column '${this.column.name}' of notation '${this.notation}'.`);return e}get aligned(){const e=this.column.getTag(pe.gp.aligned);if(!e&&(this.isFasta()||this.isSeparator()))throw new Error("Tag aligned not set");return e}get alphabet(){const e=this.column.getTag(pe.gp.alphabet);if(!e&&(this.isFasta()||this.isSeparator()))throw new Error("Tag alphabet not set");return e}get defaultBiotype(){return this.alphabet===pe.YI.RNA||this.alphabet===pe.YI.DNA?Be.o.NUCLEOTIDE:Be.o.AA}get helmCompatible(){return this.column.getTag(pe.gp.isHelmCompatible)}getAlphabetSize(){if(this.notation==pe.Hi.HELM||this.alphabet==pe.YI.UN){const e=this.column.getTag(pe.gp.alphabetSize);let t;if(e)t=parseInt(e);else{const e=this.stats;t=Object.keys(e.freq).length}return t}switch(this.alphabet){case pe.YI.PT:return 20;case pe.YI.DNA:case pe.YI.RNA:return 4;case"NT":return console.warn("Unexpected alphabet 'NT'."),4;default:throw new Error(`Unexpected alphabet '${this.alphabet}'.`)}}getAlphabetIsMultichar(){return this.notation===pe.Hi.HELM||this.alphabet===pe.YI.UN&&"true"===this.column.getTag(pe.gp.alphabetIsMultichar)}cached=!0;_splitted=null;columnVersion=null;getSplitted(e,t){if(this.cached&&void 0===t){this.column.version===this.columnVersion&&null!=this._splitted||(this.columnVersion=this.column.version,this._splitted=new Array(this.column.length));let t=this._splitted[e]?this._splitted[e].deref():void 0;if(!t){const n=this.column.get(e);t=this.splitter(n),this._splitted[e]=new WeakRef(t)}return t}{const n=this.column.get(e);return this.getSplitter(t)(n)}}getMonomerAtPosition(e,t,n){if(this.isCanonicalAlphabet&&this.isFasta()&&!this.getAlphabetIsMultichar()){const i=(this.column.get(e)??"")[t];return n?i===we.b9[pe.Hi.FASTA]?we._S:i??we._S:i??""}const i=this.getSplitted(e);return t<0||t>=i.length?this.defaultGapOriginal:n?i.getCanonical(t):i.getOriginal(t)}getMonomersAtPosition(e,t){const n=this.column.length,i=new Array(n).fill(we._S);if(this.isCanonicalAlphabet&&this.isFasta()&&!this.getAlphabetIsMultichar()){const o=this.column.categories,r=this.column.getRawData();for(let s=0;s<n;s++){const n=o[r[s]]??"";if(e<n.length){const o=n[e];i[s]=t?o===we.b9[pe.Hi.FASTA]?we._S:o??we._S:o??""}}}else for(let o=0;o<n;o++){const n=this.getSplitted(o);e>=0&&e<n.length&&(i[o]=t?n.getCanonical(e):n.getOriginal(e))}return i}getValue(e,t){return this.column.get(e),new $e.C(e,this)}getHelm(e){let t;const n=this.column.get(e);return t=this.notation===pe.Hi.HELM?n:this.notation===pe.Hi.CUSTOM||this.notation===pe.Hi.BILN?this.notationProvider.getHelm(n,{}):this.getConverter(pe.Hi.HELM)(n),t}_stats=null;get isCanonicalAlphabet(){const e=this.alphabet;return e===pe.YI.DNA||e===pe.YI.RNA||e===pe.YI.PT}get stats(){if(null==this._stats){const e={};let t=!0,n=null;const i=this.column.length;for(let o=0;o<i;++o){const i=this.getSplitted(o);null==n?n=i.length:i.length!==n&&(t=!1);for(let t=0;t<i.length;++t){const n=i.getCanonical(t);n in e||(e[n]=0),e[n]+=1}}this._stats={freq:e,sameLength:t}}return this._stats}_maxLength=null;get maxLength(){return null==this._maxLength&&(this._maxLength=0===this.column.length?0:oe().count(0).take(this.column.length).map(e=>this.getSplitted(e).length).reduce((e,t)=>e>t?e:t,0)),this._maxLength}_posList=null;get posList(){if(null==this._posList){const e=this.column.getTag(pe.gp.positionNames);this._posList=e?e.split(pe.z1).map(e=>e.trim()):oe().count(1).take(this.maxLength).map(e=>e.toString()).toArray()}return this._posList}isFasta(){return this.notation===pe.Hi.FASTA}isSeparator(){return this.notation===pe.Hi.SEPARATOR||!!this.separator}isFastaOrSeparator(){return this.isFasta()||this.isSeparator()}isHelm(){return this.notation===pe.Hi.HELM}isCustom(){return this.notation===pe.Hi.CUSTOM}isBiln(){return this.notation===pe.Hi.BILN}isRna(){return this.alphabet===pe.YI.RNA}isDna(){return this.alphabet===pe.YI.DNA}isPeptide(){return this.alphabet===pe.YI.PT}isMsa(){return!!this.aligned&&this.aligned.toUpperCase().includes("MSA")}isHelmCompatible(){return"true"===this.helmCompatible}isGap(e){return!e||e===this._defaultGapOriginal}getNotation(){if(this.units.toLowerCase().startsWith(pe.Hi.FASTA))return pe.Hi.FASTA;if(this.units.toLowerCase().startsWith(pe.Hi.SEPARATOR))return pe.Hi.SEPARATOR;if(this.units.toLowerCase().startsWith(pe.Hi.HELM))return pe.Hi.HELM;if(this.units.toLowerCase().startsWith(pe.Hi.CUSTOM))return pe.Hi.CUSTOM;if(this.units.toLowerCase().startsWith(pe.Hi.BILN))return pe.Hi.BILN;throw new Error(`Column '${this.column.name}' has unexpected notation '${this.units}'.`)}getHelmWrappers(){return[this.isDna()||this.isRna()||this.isHelmCompatible()?"RNA1{":"PEPTIDE1{",this.isDna()?"d(":this.isRna()?"r(":"",this.isDna()||this.isRna()?")p":"","}$$$$"]}getNewColumn(e,t,n,i){const o=this.column,r=e.toLowerCase()+"("+o.name+")",s=n??o.dataFrame?.columns.getUnusedName(r)??r,l=a.Column.fromList("string",s,i??new Array(this.column.length).fill(""));if(l.semType=a.SEMTYPE.MACROMOLECULE,l.meta.units=e,e===pe.Hi.SEPARATOR){if(!t)throw new Error(`Notation '${pe.Hi.SEPARATOR}' requires separator value.`);l.setTag(pe.gp.separator,t)}l.setTag(a.TAGS.CELL_RENDERER,e===pe.Hi.HELM?"helm":"sequence");const c=o.getTag(pe.gp.aligned);c&&l.setTag(pe.gp.aligned,c);let u=o.getTag(pe.gp.alphabet);u||this.notation!==pe.Hi.HELM||e===pe.Hi.HELM||(u=pe.YI.UN),null!=u&&l.setTag(pe.gp.alphabet,u);let h=o.getTag(pe.gp.alphabetSize);null!=u&&h&&l.setTag(pe.gp.alphabetSize,h);const d=o.getTag(pe.gp.alphabetIsMultichar);return null!=u&&void 0!==d&&l.setTag(pe.gp.alphabetIsMultichar,d),e==pe.Hi.HELM&&(h=this.getAlphabetSize().toString(),l.setTag(pe.gp.alphabetSize,h)),e===pe.Hi.BILN&&(l.setTag(pe.gp.separator,"-"),l.meta.units=pe.Hi.SEPARATOR),l}getNewColumnFromList(e,t){return this.getNewColumn(this.notation,this.separator,e,t)}static unitsStringIsValid(e){return e=e.toLowerCase(),[pe.Hi.FASTA,pe.Hi.SEPARATOR,pe.Hi.HELM].some(t=>e.startsWith(t.toLowerCase()))}static getNewColumnFromParams(e,t,n){if(!qi.unitsStringIsValid(n))throw new Error("Invalid format of 'units' parameter");const i=a.Column.fromList("string",t,new Array(e).fill(""));return i.semType=a.SEMTYPE.MACROMOLECULE,i.meta.units=n,i}get splitter(){return null==this._splitter&&(this._splitter=this.getSplitter()),this._splitter}getSplitter(e){let t=null;if(t=this.notationProvider?this.notationProvider.splitter:null,t)return t;if(this.units.toLowerCase().startsWith(pe.Hi.FASTA))return null===this.column.getTag(pe.gp.alphabet)||this.getAlphabetIsMultichar()?pe.J9:ke.tm;if(this.units.toLowerCase().startsWith(pe.Hi.SEPARATOR))return(0,pe.dh)(this.separator,e);if(this.units.toLowerCase().startsWith(pe.Hi.HELM))return pe.qp;throw new Error(`Unexpected units ${this.units} .`)}split(e){return this.splitter(e)}getDistanceFunctionName(){if(!this.isFasta())throw new Error("Only FASTA notation is supported");if(this.isMsa())return me.Z.HAMMING;switch(this.alphabet){case pe.YI.DNA:case pe.YI.RNA:case pe.YI.PT:}return me.Z.LEVENSHTEIN}getDistanceFunction(){return me.V[this.getDistanceFunctionName()]()}async checkHelmCompatibility(){if(this.column.tags.has(pe.gp.isHelmCompatible))return"true"===this.column.getTag(pe.gp.isHelmCompatible);const e=(await(0,ve.pj)()).getMonomerLib().getMonomerSymbolsByType("PEPTIDE"),t=new Set(e),n=((0,pe.dh)(this.separator),new Set),i=this.column.length,o=this.column.getRawData();for(let e=0;e<i;++e){const i=o[e];if(!(i in n)){n.add(i);const o=this.getSplitted(e);for(let e=0;e<o.length;++e){const n=o.getCanonical(e);if(!t.has(n))return this.column.setTag(pe.gp.isHelmCompatible,"false"),!1}}}return this.column.setTag(pe.gp.isHelmCompatible,"true"),!0}toFasta(e){return e===pe.Hi.FASTA}toSeparator(e){return e===pe.Hi.SEPARATOR}toHelm(e){return e===pe.Hi.HELM}convertHelmToFastaSeparator(e,t,n,i){i||(i=this.toFasta(t)?we.b9[pe.Hi.FASTA]:we.b9[pe.Hi.SEPARATOR]),n||(n=this.toFasta(t)?"":this.separator);const o=e.startsWith("RNA"),r=(0,pe.qp)(e),s=[];for(let e=0;e<r.length;++e){let n=r.getOriginal(e);if(o&&(n=n.replace(fe.EK,"$1")),n===we.b9[pe.Hi.HELM])s.push(i);else if(this.toFasta(t)&&n.length>1){const e="["+n+"]";s.push(e)}else s.push(n)}return s.join(n)}convert(e,t){const n=this.getJoiner({notation:e,separator:t}),i=this.getNewColumn(e,t);return i.init(e=>{const t=this.getSplitted(e);return n(t)}),i}getRegion(e,t,n){const i=this.getNewColumn(this.notation,this.separator);i.name=n;const o=e??0,r=t??this.maxLength-1,s=this.getJoiner(),a=r-o+1,l=we.b9[this.notation];i.init(e=>{const t=this.getSplitted(e),n=new Array(a);for(let e=0;e<a;++e){const i=o+e;n[e]=i<t.length?t.getOriginal(i):l}return s(new ke.Mu(n,l))});const c=e=>{const t=e.split(",").map(e=>e.trim()),n=new Array(a);for(let e=0;e<a;++e){const i=o+e;n[e]=i<t.length?t[i]:"?"}return n.join(pe.z1)},u=this.column.getTag(pe.gp.positionNames);u&&i.setTag(pe.gp.positionNames,c(u));const h=this.column.getTag(pe.gp.positionLabels);return h&&i.setTag(pe.gp.positionLabels,c(h)),i}_joiner=void 0;get joiner(){return this._joiner||(this._joiner=this.getJoiner()),this._joiner}getJoiner(e){const t=e?e.notation:this.notation,n=e?e.separator:this.separator;let i;const o=this;switch(t){case pe.Hi.FASTA:i=function(e){return o.joinToFasta(e,o.isHelm())};break;case pe.Hi.SEPARATOR:if(!n)throw new Error(`Separator is mandatory for notation '${t}'.`);i=function(e){return Yi(e,n,o.isHelm())};break;case pe.Hi.HELM:{const e=o.alphabet===pe.YI.DNA||o.alphabet===pe.YI.RNA,t=o.getHelmWrappers();i=function(n){return ji(n,t,e)};break}case pe.Hi.BILN:i=function(e){return Ki(e)};break;default:throw new Error(`Unexpected notation '${t}'.`)}return i}getConverter(e,t=void 0){if(e===pe.Hi.SEPARATOR&&!t)throw new Error(`Target separator is not specified for target units '${pe.Hi.SEPARATOR}'.`);const n=this;if(e===pe.Hi.FASTA)return function(e){return n.convertToFasta(e)};if(e===pe.Hi.HELM)return function(e){return n.convertToHelm(e)};if(e===pe.Hi.SEPARATOR)return function(e){return n.convertToSeparator(e,t)};if(e===pe.Hi.BILN)return function(e){return n.convertToBiln(e)};throw new Error("Unexpected target units '"+e+"'.")}static forColumn(e,t){let n=e.temp[$e.j.seqHandler];return n&&n.columnVersion===e.version||(n=e.temp[$e.j.seqHandler]=new qi(e,t)),n}joinToFasta(e,t){const n=new Array(e.length);for(let i=0;i<e.length;++i){const o=e.getOriginal(i);let r=e.getOriginal(i);t&&(r=r.replace(fe.EK,"$1")),o===we._S?r=we.b9[pe.Hi.FASTA]:o===fe.q7?r="":r.length>1&&(r="["+r+"]"),n[i]=r}return n.join("")}convertToFasta(e){const t=this.splitter,n=this.isHelm()?this.splitterAsHelmNucl(e):t(e);return this.joinToFasta(n,this.isHelm())}convertToSeparator(e,t){return Yi(this.isHelm()?this.splitterAsHelmNucl(e):this.splitter(e),t,this.isHelm())}convertToHelm(e){if(this.notation==pe.Hi.HELM)return e;const t=this.getHelmWrappers(),n=this.isDna()||this.isRna();return ji(this.splitter(e),t,n)}convertToBiln(e){return this.notation==pe.Hi.BILN?e:Ki(this.splitter(e))}splitterAsHelmNucl(e){const t=this.splitter(e),n=new Array(t.length),i=e.startsWith("DNA"),o=e.startsWith("RNA");for(let e=0;e<t.length;++e){let r=t.getOriginal(e);(i||o)&&(r=r.replace(fe.EK,"$1"),r=r===fe.q7?null:r),n[e]=r||null}return new ke.Mu(n.filter(e=>!!e),we.b9[pe.Hi.HELM])}getRendererBack(e,t){const n=this.column.temp;let i=n.rendererBack;return i||(i=n.rendererBack=this.notationProvider?.createCellRendererBack(e,t)),i}}function Yi(e,t,n){const i=new Array(e.length);for(let t=0;t<e.length;++t){const o=e.getCanonical(t);let r=e.getOriginal(t);n&&(r=r.replace(fe.EK,"$1")),o===we._S?r=we.b9[pe.Hi.SEPARATOR]:o===fe.q7&&(r=""),i[t]=r}return i.join(t)}function ji(e,t,n){if(e.graphInfo&&(e.graphInfo.connections?.length??0)>0){const i=n?"RNA":"PEPTIDE",o="$$$",r=e.graphInfo.disjointSeqStarts,s=t[1],a=t[2],l=[];for(let t=0;t<r.length;t++){const o=r[t],c=t+1<r.length?r[t+1]:e.length,u=new Array(c-o);for(let t=o;t<c;++t){const i=e.getCanonical(t);let r=i;i===we._S?r=we.b9[pe.Hi.HELM]:(n&&(r=r.replace(fe.EK,"$1")),r=1===r.length?`${s}${r}${a}`:`${s}[${r}]${a}`),u[t-o]=r}l.push(`${i}${t+1}{${u.join(".")}}`)}return`${l.join("|")}$${e.graphInfo.connections.map(e=>`${i}${e.seqIndex1+1},${i}${e.seqIndex2+1},${e.monomerIndex1+1}:R${e.rGroup1}-${e.monomerIndex2+1}:R${e.rGroup2}`).join("|")}${o}V2.0`}{const[i,o,r,s]=t,a=new Array(e.length);for(let t=0;t<e.length;++t){const i=e.getCanonical(t);let s=i;i===we._S?s=we.b9[pe.Hi.HELM]:(n&&(s=s.replace(fe.EK,"$1")),s=1===s.length?`${o}${s}${r}`:`${o}[${s}]${r}`),a[t]=s}return`${i}${a.join(".")}${s}`}}function Ki(e){const t=e=>e&&(e.includes("-")||e.includes("*")||e.includes("[R"));if(e.graphInfo&&(e.graphInfo.connections?.length??0)>0){const n=e.graphInfo.disjointSeqStarts,i=new Array(e.length);for(let n=0;n<e.length;++n){const o=e.getCanonical(n);t(o)?i[n]=`[${o}]`:i[n]=o}for(let t=0;t<e.graphInfo.connections.length;t++){const o=e.graphInfo.connections[t],r=`${t+1}`,s=o.seqIndex1,a=o.seqIndex2,l=n[s]+o.monomerIndex1,c=n[a]+o.monomerIndex2,u=`${i[l]}(${r},${o.rGroup1})`,h=`${i[c]}(${r},${o.rGroup2})`;i[l]=u,i[c]=h}return n.map((t,o)=>{const r=o+1<n.length?n[o+1]:e.length;return i.slice(t,r).join("-")}).join(".")}{const n=new Array(e.length);for(let i=0;i<e.length;++i){const o=e.getCanonical(i);t(o)?n[i]=`[${o}]`:n[i]=o}return n.join("-")}}class zi{libHelper;rdKitModule;constructor(e,t){this.libHelper=e,this.rdKitModule=t}getSeqHandler(e){return qi.forColumn(e,this)}getSeqMonomers(e){const t=this.getSeqHandler(e);return Object.keys(t.stats.freq)}async getHelmToMolfileConverter(e){const t=await(0,Ot.b2)();return new Ui(t,this.rdKitModule,e)}helmToAtomicLevelSingle(e,t,n,i=!0){if(!e)return Ei.vF.createEmpty();const o=t.convertToMolfileV3K([e])[0];if(!o||!o.molfile)return Ei.vF.createEmpty();let r=null;try{let e=o.molfile;if(i){if(r=this.rdKitModule.get_mol(e),!r)return Ei.vF.createEmpty();r.set_new_coords(),r.normalize_depiction(1),r.straighten_depiction(!0),e=r.get_v3Kmolblock()}return n&&(e=t.molV3KtoMolV3KOCL(e)),new Ei.vF(e,o.monomers)}catch(e){const[t,n]=(0,Ce.AP)(e);return To.logger.error(t,void 0,n),Ei.vF.createEmpty()}finally{r?.delete()}}async helmToAtomicLevel(e,t,n,i){const o=i??this.libHelper.getMonomerLib(),s=e.dataFrame,l=(0,Si.qj)(s,e.name),c=await this.getHelmToMolfileConverter(o),u=e.toList(),h=new Array(e.length),d=a.Func.find({package:"Chem",name:"beautifyMols"})[0],m=a.Func.find({package:"Chem",name:"convertToV3KViaOCL"})[0];for(let n=0;n<e.length;n++)h[n]=this.helmToAtomicLevelSingle(u[n],c,t&&!m,!d).molfile;if(d){const t=await d.apply({mols:h});if(t&&Array.isArray(t)&&t.length===e.length)for(let n=0;n<e.length;n++)t[n]&&(h[n]=t[n])}if(t&&m){const t=await m.apply({mols:h});if(t&&Array.isArray(t)&&t.length===e.length)for(let n=0;n<e.length;n++)t[n]&&(h[n]=t[n]);else r.shell.warning("OCL function returned an unexpected result")}const p=a.Column.fromStrings(l,h);return p.semType=a.SEMTYPE.MOLECULE,p.meta.units=a.UNITS.Molecule.MOLBLOCK,p.setTag(".sequence-src-col",e.name),{molCol:p,warnings:[]}}setUnitsToFastaColumn(e){if(e.column.semType!==a.SEMTYPE.MACROMOLECULE||e.column.meta.units!==pe.Hi.FASTA)throw new Error(`The column of notation '${pe.Hi.FASTA}' must be '${a.SEMTYPE.MACROMOLECULE}'.`);e.column.meta.units=pe.Hi.FASTA,qi.setTags(e)}setUnitsToSeparatorColumn(e,t){if(e.column.semType!==a.SEMTYPE.MACROMOLECULE)throw new Error(`The column of notation '${pe.Hi.SEPARATOR}' must be '${a.SEMTYPE.MACROMOLECULE}'.`);if(!t)throw new Error(`The column of notation '${pe.Hi.SEPARATOR}' must have the separator tag.`);e.column.meta.units=pe.Hi.SEPARATOR,e.column.setTag(pe.gp.separator,t),qi.setTags(e)}setUnitsToHelmColumn(e){if(e.column.semType!==a.SEMTYPE.MACROMOLECULE)throw new Error(`The column of notation '${pe.Hi.HELM}' must be '${a.SEMTYPE.MACROMOLECULE}'`);e.column.meta.units=pe.Hi.HELM,qi.setTags(e)}}async function Zi(e){let t="";try{if(!e||!e.value)return t="No sequence provided",{errorText:t,mol:""};if(!(e.cell&&e.cell.dart&&e.cell.dataFrame&&e.cell.column))return t="Atomic level conversion requeires a sequence column",{errorText:t,mol:""};if(![pe.Hi.FASTA,pe.Hi.SEPARATOR,pe.Hi.HELM,pe.Hi.BILN].includes(e.cell.column.meta.units?.toLowerCase()??""))return t="Unsupported sequence notation. please use Bio | Polytool | Convert",{errorText:t,mol:""};const n=(await Ao.getSeqHelper()).getSeqHandler(e.cell.column);if(!n)return t="No sequence handler found",{errorText:t,mol:""};if((n.getSplitted(e.cell.rowIndex,60)?.length??100)>50)return t="Maximum number of monomers is 50",{errorText:t,mol:""};const i=a.Column.fromStrings("singleVal",[e.value]),o=a.DataFrame.fromColumns([i]);Object.entries(e.cell.column.tags).forEach(([e,t])=>{i.setTag(e,t)}),e.cell.column.temp[$e.j.notationProvider]&&(i.temp[$e.j.notationProvider]=e.cell.column.temp[$e.j.notationProvider]);const r=n.getSplitted(e.cell.rowIndex),s=(r.graphInfo?.connections?.length??0)>0,l=n.isHelm()&&new Set(r.graphInfo?.polymerTypes??[]).size>1;if(await Ao.toAtomicLevel(o,i,s||l,!1),o.columns.length<2)return t="No structure generated",{errorText:t,mol:""};const c=o.columns.byIndex(1).get(0);return c?{errorText:"",mol:c}:(t="No structure generated",{errorText:t,mol:""})}catch(e){To.logger.error(e)}return t="No Structure generated",{errorText:t,mol:""}}const Xi="#333333",Ji="rgba(60, 177, 115, 0.1)",Qi="rgba(240, 240, 240, 0.5)",eo="rgba(100, 100, 100, 0.3)";class to{constructor(e=oo.DEFAULT_TRACK_HEIGHT,t=oo.MIN_TRACK_HEIGHT,n=""){this.ctx=null,this.visible=!0,this.title="",this.tooltipEnabled=!1,this.tooltipContent=null,this.height=e,this.defaultHeight=e,this.minHeight=t,this.title=n}init(e){this.ctx=e}getMonomerAt(e,t,n){return null}enableTooltip(e){this.tooltipEnabled=e}setTooltipContentGenerator(e){this.tooltipContent=e}getTooltipContent(e,t){if(!this.tooltipEnabled||!this.tooltipContent)return null;const n=this.getPositionData(e)??new Map;return this.tooltipContent(e,t,n)}getPositionData(e){return null}setVisible(e){this.visible=e}getHeight(){return this.visible?this.height:0}getDefaultHeight(){return this.defaultHeight}getMinHeight(){return this.minHeight}setHeight(e){this.height=Math.max(this.minHeight,e)}resetHeight(){this.height=this.defaultHeight}isVisible(){return this.visible}setTitle(e){this.title=e}getTitle(){return this.title}}class no extends to{constructor(e=new Map,t=oo.DEFAULT_TRACK_HEIGHT,n="",i="WebLogo"){super(t,oo.DEFAULT_TRACK_HEIGHT,i),this.data=new Map,this.monomerLib=null,this.biotype="HELM_AA",this.hoveredPosition=-1,this.hoveredMonomer=null,this.data=e,this.visible=e.size>0}setHovered(e,t){this.hoveredPosition=e,this.hoveredMonomer=t}getPositionData(e){return this.data.get(e)||null}setupDefaultTooltip(){this.enableTooltip(!0),this.setTooltipContentGenerator((e,t,n)=>this.createTooltipContent(e,t,n))}createFrequencyTable(e){let t;switch(this.biotype){case"HELM_BASE":case"HELM_SUGAR":case"HELM_NUCLETIDE":t=Be.o.NUCLEOTIDE;break;default:t=Be.o.AA}const n=Array.from(e.values()).reduce((e,t)=>e+t,0),i={};for(const[t,o]of e.entries())i[t]=Math.max(1,Math.round(o/n*100));const o=(0,pi.F)(i,t,this.monomerLib);return o.style.fontSize="11px",o.style.marginTop="4px",o}createTooltipContent(e,t,n){const i=[];if(i.push(s.divText(`Position: ${e+1}`,{style:{fontWeight:"bold",marginBottom:"6px",fontSize:"13px"}})),t&&(i.push(s.divText(`Monomer: ${t}`,{style:{marginBottom:"6px",fontSize:"13px"}})),n.has(t)&&i.push(s.divText(`${(100*n.get(t)).toFixed(2)}%`,{style:{marginBottom:"6px",fontSize:"13px"}}))),n&&n.size>0){const e=this.createFrequencyTable(n);i.push(e)}else i.push(s.divText("No data available",{style:{fontStyle:"italic",color:"#666"}}));const o=s.divV(i);return o.style.maxHeight="80vh",o}setMonomerLib(e){this.monomerLib=e}setBiotype(e){this.biotype=e}getMonomerAt(e,t,n){if(!this.ctx||!this.visible||0===this.data.size)return null;const i=this.data.get(n);if(!i||0===i.size)return null;const o=t,r=Array.from(i.entries()).sort((e,t)=>t[1]-e[1]),s=r.reduce((e,[t,n])=>e+n,0),a=this.height;let l=0;for(const[e,t]of r){const n=t*a/s;if(o>=l&&o<l+n)return e;l+=n}return null}updateData(e){this.data=e,this.visible=e.size>0}draw(e,t,n,i,o,r,s,a){if(!this.ctx||!this.visible||0===this.data.size)return;const l=Math.floor(n/r),c=i-4,u=t+2;for(let h=0;h<l;h++)this.drawWebLogoColumn(h,e,t,n,i,o,r,s,a,u,c)}drawWebLogoColumn(e,t,n,i,o,r,s,a,l,c,u){const h=r+e-1;if(h<0||h>=a)return;const d=this.data.get(h);if(!d||0===d.size)return;const m=t+e*s,p=s-2;r+e===l&&(this.ctx.fillStyle=Ji,this.ctx.fillRect(m,n,s,o)),this.ctx.fillStyle=Qi,this.ctx.fillRect(m+1,c,p,u),this.drawLettersInColumn(h,m,p,c,u,d),this.drawColumnBorder(m,c,p,u)}drawLettersInColumn(e,t,n,i,o,r){const s=Array.from(r.entries()).sort((e,t)=>t[1]-e[1]),a=s.reduce((e,[t,n])=>e+n,0),l=Math.min(1,o/(a*o));let c=i;const u=i+o;for(const[i,r]of s){const s=r*o*l,a=Math.max(4,Math.floor(s));if(a<4)continue;const h=e===this.hoveredPosition&&i===this.hoveredMonomer,d=Math.min(a,u-c);if(d<4)break;this.drawLetter(i,t+1,c,n,d,h),c+=d}}drawColumnBorder(e,t,n,i){this.ctx.strokeStyle=eo,this.ctx.lineWidth=1,this.ctx.strokeRect(e+1,t,n,i)}drawLetter(e,t,n,i,o,r=!1){if(!this.ctx)return;const s=this.getMonomerBackgroundColor(e),a=this.getMonomerTextColor(e);this.ctx.fillStyle=s,this.ctx.fillRect(t,n,i,o),r&&(this.ctx.shadowColor="rgba(255, 255, 255, 0.8)",this.ctx.shadowBlur=8,this.ctx.strokeStyle="white",this.ctx.lineWidth=2,this.ctx.strokeRect(t,n,i,o),this.ctx.shadowBlur=0),this.drawLetterSeparators(t,n,i,o),this.drawLetterText(e,t,n,i,o,a)}drawLetterSeparators(e,t,n,i){this.ctx.strokeStyle="rgba(255, 255, 255, 0.4)",this.ctx.lineWidth=1,t+i<t+this.ctx.canvas.height&&(this.ctx.beginPath(),this.ctx.moveTo(e,t+i),this.ctx.lineTo(e+n,t+i),this.ctx.stroke())}drawLetterText(e,t,n,i,o,r){const s=Math.min(.8*o,.8*i);s>=7&&(this.ctx.fillStyle=r,this.ctx.font=`bold ${s}px Roboto, Roboto Local`,this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(e,t+i/2,n+o/2))}getMonomerBackgroundColor(e){if(this.monomerLib)try{const t=this.monomerLib.getMonomerColors(this.biotype,e);if(t&&t.backgroundcolor)return t.backgroundcolor}catch(e){console.warn("Error getting background color from monomerLib:",e)}return"#CCCCCC"}getMonomerTextColor(e){const t=this.getMonomerBackgroundColor(e);try{const e=a.Color.fromHtml(t),n=a.Color.getContrastColor(e);return a.Color.toHtml(n)}catch(e){return console.warn("Error calculating contrast color:",e),"#000000"}}}class io extends to{constructor(e,t=oo.DEFAULT_TRACK_HEIGHT,n="default",i="Conservation"){super(t,oo.MIN_TRACK_HEIGHT,i),this.data=e,this.colorScheme=n,this.visible=e.length>0}updateData(e){this.data=e,this.visible=e.length>0}draw(e,t,n,i,o,r,s,a){if(!this.ctx||!this.visible||0===this.data.length)return;const l=Math.floor(n/r);for(let n=0;n<l;n++){const l=o+n;if(l>s)break;const c=e+n*r,u=r,h=c+u/2;l-1<this.data.length&&(this.drawConservationBar(l-1,c,u,h,t,i),l===a&&(this.ctx.fillStyle=Ji,this.ctx.fillRect(c,t,u,i)))}}drawConservationBar(e,t,n,i,o,r){if(!this.ctx)return;const s=this.data[e];this.ctx.fillStyle=Qi,this.ctx.fillRect(t+2,o,n-4,r);let a="#3CB173";if("default"===this.colorScheme)s<.5?a="#E74C3C":s<.75&&(a="#F39C12");else if("rainbow"===this.colorScheme)a=s<.2?"#E74C3C":s<.4?"#FF7F00":s<.6?"#FFFF00":s<.8?"#00FF00":"#0000FF";else if("heatmap"===this.colorScheme){const e=Math.round(255*s);a=`rgb(255, ${e}, ${e})`}const l=s*r;this.ctx.fillStyle=a,this.ctx.fillRect(t+2,o+r-l,n-4,l),this.ctx.strokeStyle=eo,this.ctx.lineWidth=1,this.ctx.strokeRect(t+2,o,n-4,r),n>20&&(this.ctx.fillStyle=Xi,this.ctx.font="9px monospace",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(`${Math.round(100*s)}%`,i,o+r/2))}}const oo={TITLE_HEIGHT:16,TRACK_GAP:4,DOTTED_CELL_HEIGHT:30,SLIDER_HEIGHT:8,TOP_PADDING:5,DEFAULT_TRACK_HEIGHT:45,MIN_TRACK_HEIGHT:35},ro={BASE:oo.DOTTED_CELL_HEIGHT+oo.SLIDER_HEIGHT,WITH_TITLE:function(){return this.BASE+oo.TITLE_HEIGHT+oo.TRACK_GAP},WITH_WEBLOGO:function(){return this.WITH_TITLE()+oo.DEFAULT_TRACK_HEIGHT+oo.TRACK_GAP},WITH_BOTH:function(){return this.WITH_WEBLOGO()+oo.DEFAULT_TRACK_HEIGHT+oo.TRACK_GAP}};class so{constructor(e,t){this.gridColumn=t,this.canvas=null,this.ctx=null,this.tracks=new Map,this.currentHoverPosition=-1,this.currentHoverTrack=null,this.currentHoverMonomer=null,this.previousHoverPosition=-1,this.previousHoverTrack=null,this.previousHoverMonomer=null,this.dataFrame=null,this.seqHandler=null,this.seqColumn=null,this.onSelectionCallback=null,this.trackButtons=[],this.userSelectedTracks=null,this.config={x:e.x||0,y:e.y||0,width:e.width||0,height:e.height||0,windowStartPosition:e.windowStartPosition||1,positionWidth:e.positionWidth||15,totalPositions:e.totalPositions||5e3,headerHeight:e.headerHeight||ro.BASE,sliderHeight:e.sliderHeight||oo.SLIDER_HEIGHT,currentPosition:e.currentPosition||1,cellBackground:void 0===e.cellBackground||e.cellBackground,sliderColor:e.sliderColor||"rgba(220, 220, 220, 0.4)",onPositionChange:e.onPositionChange||((e,t)=>{}),onHeaderHeightChange:e.onHeaderHeightChange||(()=>{}),...e},this.eventElement=s.div(),this.eventElement.style.position="absolute",this.config.canvas.parentElement?.appendChild(this.eventElement),this.state={isDragging:!1,dragStartX:0},this.setupEventListeners(),this.init()}determineVisibleTracks(){const e=this.config.headerHeight,t=this.getTrack("weblogo"),n=this.getTrack("conservation");if(this.tracks.forEach(e=>{e.setVisible(!1),e.setHeight(oo.DEFAULT_TRACK_HEIGHT)}),!(e<ro.WITH_TITLE()||e<ro.WITH_WEBLOGO()))if(e<ro.WITH_BOTH()){if(t){t.setVisible(!0);const n=e-ro.WITH_WEBLOGO();t.setHeight(oo.DEFAULT_TRACK_HEIGHT+n)}}else{if(t&&t.setVisible(!0),n&&n.setVisible(!0),t&&e>ro.WITH_BOTH()){const n=e-ro.WITH_BOTH();t.setHeight(oo.DEFAULT_TRACK_HEIGHT+n)}this.userSelectedTracks&&(this.tracks.forEach((e,t)=>{this.userSelectedTracks[t]||e.setVisible(!1)}),e<ro.WITH_WEBLOGO()&&t&&t.setVisible(!1),e<ro.WITH_BOTH()&&n&&n.setVisible(!1))}}drawTrackButtons(){if(!this.ctx||this.config.width<280)return;this.trackButtons=[];const e=this.getTrack("conservation"),t=this.getTrack("weblogo"),n=e?.isVisible()??!1,i=t?.isVisible()??!1;let o=this.config.width-16;const r=this.config.headerHeight>=ro.WITH_TITLE()?(oo.TITLE_HEIGHT-14)/2:2;n&&i||(!n&&e&&(o-=70,this.drawTrackButton("conservation","Conservation",o,r,70,14),o-=4),!i&&t&&(o-=70,this.drawTrackButton("weblogo","WebLogo",o,r,70,14)))}drawTrackButton(e,t,n,i,o,r,s=!1){this.ctx&&(this.trackButtons.push({id:e,label:t,x:n,y:i,width:o,height:r}),this.ctx.fillStyle=s?"rgba(100, 150, 200, 0.8)":"rgba(240, 240, 240, 0.8)",this.ctx.fillRect(n,i,o,r),this.ctx.strokeStyle=s?"rgba(70, 120, 170, 0.8)":"rgba(180, 180, 180, 0.8)",this.ctx.lineWidth=1,this.ctx.strokeRect(n,i,o,r),this.ctx.fillStyle=s?"#ffffff":"#666666",this.ctx.font="9px Roboto, Roboto Local",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(t,n+o/2,i+r/2))}handleTrackButtonClick(e,t){for(const n of this.trackButtons)if(e>=n.x&&e<=n.x+n.width&&t>=n.y&&t<=n.y+n.height)return this.snapToTrackHeight(n.id),!0;return!1}isInsideColumnHeaderArea(e,t){return t<(this.config.headerHeight>=ro.WITH_TITLE()?oo.TITLE_HEIGHT:0)}snapToTrackHeight(e){let t;if("weblogo"===e)t=ro.WITH_WEBLOGO();else{if("conservation"!==e)return;t=ro.WITH_BOTH()}this.userSelectedTracks||(this.userSelectedTracks={},this.tracks.forEach((e,t)=>{this.userSelectedTracks[t]=!1})),"conservation"===e?(this.userSelectedTracks.weblogo=!0,this.userSelectedTracks.conservation=!0):"weblogo"===e&&(this.userSelectedTracks.weblogo=!0),this.config.onHeaderHeightChange&&this.config.onHeaderHeightChange(t),window.requestAnimationFrame(()=>this.redraw())}resetToAutoMode(){this.userSelectedTracks=null;const e=this.tracks.size>0?ro.WITH_BOTH():ro.BASE;this.config.onHeaderHeightChange&&this.config.onHeaderHeightChange(e),window.requestAnimationFrame(()=>this.redraw())}drawColumnTitle(e,t,n,i){this.ctx&&i&&this.config.headerHeight>=ro.WITH_TITLE()&&(this.ctx.fillStyle="rgba(255, 255, 255, 0.95)",this.ctx.fillRect(e,t,n,oo.TITLE_HEIGHT),this.ctx.fillStyle=Xi,this.ctx.font="bold 13px Roboto, Roboto Local",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(i,e+n/2,t+oo.TITLE_HEIGHT/2))}clearHoverStates(){(-1!==this.previousHoverPosition||null!==this.previousHoverTrack||null!==this.previousHoverMonomer)&&(this.previousHoverPosition=-1,this.previousHoverTrack=null,this.previousHoverMonomer=null,this.tracks.forEach(e=>{e instanceof no&&e.setHovered(-1,null)}),window.requestAnimationFrame(()=>this.redraw()))}redraw(){this.draw(this.config.x,this.config.y,this.config.width,this.config.height,this.config.currentPosition,this.config.windowStartPosition,{preventDefault:()=>{}},this.seqColumn?.name)}setSelectionData(e,t,n,i){this.dataFrame=e,this.seqColumn=t,this.seqHandler=n,this.onSelectionCallback=i||null}setupTooltipHandling(){this.eventElement.addEventListener("mousemove",this.handleTooltipMouseMove.bind(this)),this.eventElement.addEventListener("mouseleave",this.handleTooltipMouseLeave.bind(this))}handleTooltipMouseMove(e){if(!this.isValid)return;const{x:t,y:n}=this.getCoords(e),i=this.config.positionWidth,o=Math.floor(t/i),r=this.config.windowStartPosition+o-1;if(r<0||r>=this.config.totalPositions)return this.hideTooltip(),void this.clearHoverStates();const a=this.config.headerHeight>=ro.WITH_TITLE()?oo.TITLE_HEIGHT:0,l=this.config.headerHeight-oo.SLIDER_HEIGHT-oo.DOTTED_CELL_HEIGHT,c=l-oo.TRACK_GAP;if(n>=l||n<a)return this.hideTooltip(),void this.clearHoverStates();let u=null,h=0;const d=[],m=this.getTrack("weblogo");m&&m.isVisible()&&d.push({id:"weblogo",track:m});const p=this.getTrack("conservation");p&&p.isVisible()&&d.push({id:"conservation",track:p});let g=c;for(const{id:e,track:t}of d){const i=g-t.getHeight();if(n>=i&&n<g){u=e,h=n-i;break}g=i-oo.TRACK_GAP}let f=null;if(u){const e=this.tracks.get(u);e&&(f=e.getMonomerAt(t,h,r))}if((this.previousHoverPosition!==r||this.previousHoverTrack!==u||this.previousHoverMonomer!==f)&&(this.previousHoverPosition=r,this.previousHoverTrack=u,this.previousHoverMonomer=f,u)){const e=this.tracks.get(u);e instanceof no&&(e.setHovered(r,f),window.requestAnimationFrame(()=>this.redraw()))}if((r!==this.currentHoverPosition||u!==this.currentHoverTrack||f!==this.currentHoverMonomer)&&(this.currentHoverPosition=r,this.currentHoverTrack=u,this.currentHoverMonomer=f,u)){const t=this.tracks.get(u);if(t){const n=t.getTooltipContent(r,f);if(n)return void s.tooltip.show(n,e.clientX+16,e.clientY+16)}}u&&f||(this.hideTooltip(),this.clearHoverStates())}handleTooltipMouseLeave(){this.hideTooltip(),this.clearHoverStates(),window.requestAnimationFrame(()=>this.draw(this.config.x,this.config.y,this.config.width,this.config.height,this.config.currentPosition,this.config.windowStartPosition,{preventDefault:()=>{}},this.seqColumn?.name))}hideTooltip(){this.currentHoverPosition=-1,this.currentHoverTrack=null,s.tooltip.hide()}draw(e,t,n,i,o,r,s,a){if(Object.assign(this.config,{x:e,y:t,width:n,height:i,currentPosition:o,windowStartPosition:r}),!this.isValid)return void(this.eventElement.style.display="none");this.ctx.save(),this.ctx.clearRect(e,t,n,i),this.ctx.translate(e,t),this.ctx.rect(0,0,n,i),this.ctx.clip(),this.determineVisibleTracks();const l=this.config.headerHeight>=ro.WITH_TITLE();l&&oo.TITLE_HEIGHT,a&&l&&this.drawColumnTitle(0,0,n,a);const c=i-oo.SLIDER_HEIGHT,u=c-oo.DOTTED_CELL_HEIGHT,h=u-oo.TRACK_GAP,d=[],m=[],p=this.getTrack("weblogo");p&&p.isVisible()&&m.push({id:"weblogo",track:p});const g=this.getTrack("conservation");g&&g.isVisible()&&m.push({id:"conservation",track:g});let f=h;for(const{track:e}of m){const t=e.getHeight(),i=f-t;e.draw(0,i,n,t,this.config.windowStartPosition,this.config.positionWidth,this.config.totalPositions,this.config.currentPosition),d.unshift({y:i,height:t}),f=i-oo.TRACK_GAP}if(this.drawDottedCells(0,u,n,oo.DOTTED_CELL_HEIGHT,c),d.push({y:u,height:oo.DOTTED_CELL_HEIGHT}),this.config.currentPosition>=1&&this.config.currentPosition<=this.config.totalPositions){const e=this.config.positionWidth,t=this.config.currentPosition-this.config.windowStartPosition;if(t>=0&&t<Math.floor(n/e)){const n=t*e+e/2;for(let e=0;e<d.length-1;e++){const t=d[e],i=d[e+1];this.ctx.strokeStyle="rgba(60, 177, 115, 0.4)",this.ctx.lineWidth=1,this.ctx.beginPath(),this.ctx.moveTo(n,t.y+t.height),this.ctx.lineTo(n,i.y),this.ctx.stroke()}}}this.drawTrackButtons(),this.ctx.restore(),s.preventDefault(),this.setupEventElement()}drawDottedCells(e,t,n,i,o){if(!this.ctx)return;const r=this.config.totalPositions,s=this.config.positionWidth,a=this.config.currentPosition,l=this.config.windowStartPosition,c=Math.floor(n/s),u=t+oo.TOP_PADDING;this.drawSlider(e,o,n);for(let n=0;n<c;n++){const c=l+n;if(c>r)break;const h=e+n*s,d=s,m=h+d/2;this.config.cellBackground&&(this.ctx.fillStyle=n%2==0?"rgba(248, 248, 248, 0.3)":"rgba(242, 242, 242, 0.2)",this.ctx.fillRect(h,t,d,i),this.ctx.strokeStyle="rgba(220, 220, 220, 0.7)",this.ctx.beginPath(),this.ctx.moveTo(h,t),this.ctx.lineTo(h,o),this.ctx.stroke()),this.ctx.fillStyle="#999999",this.ctx.beginPath(),this.ctx.arc(m,u+5,1,0,2*Math.PI),this.ctx.fill(),(c===a||(1===c||c%10==0)&&Math.abs(c-a)>1)&&(this.ctx.fillStyle=Xi,this.ctx.font="12px monospace",this.ctx.textAlign="center",this.ctx.textBaseline="middle",this.ctx.fillText(c.toString(),m,u+15)),c===a&&(this.ctx.fillStyle="rgba(60, 177, 115, 0.2)",this.ctx.fillRect(h,t,d,i))}}drawSlider(e,t,n){if(!this.ctx)return;this.ctx.fillStyle=this.config.sliderColor,this.ctx.fillRect(e,t,n,oo.SLIDER_HEIGHT);const i=Math.floor(n/this.config.positionWidth),o=this.config.windowStartPosition,r=this.config.totalPositions-i,s=this.sliderWidth,a=r<=0?0:(o-1)/r*(n-s),l=r<=0?n:s;if(this.ctx.fillStyle="rgba(150, 150, 150, 0.5)",this.ctx.fillRect(e+a,t,l,oo.SLIDER_HEIGHT),this.config.currentPosition>=1&&this.config.currentPosition<=this.config.totalPositions){const i=(this.config.currentPosition-1)/(this.config.totalPositions-1),o=Math.round(i*n);this.ctx.fillStyle="#3CB173",this.ctx.fillRect(e+o-1,t-2,3,oo.SLIDER_HEIGHT+4)}}setupEventElement(){this.eventElement.style.display="block",this.eventElement.style.left=`${this.config.x}px`,this.eventElement.style.top=`${this.config.y}px`,this.eventElement.style.width=`${this.config.width}px`,this.eventElement.style.height=`${this.config.height}px`}getCoords(e){const t=this.canvas.getBoundingClientRect();return{x:e.clientX-t.left-this.config.x,y:e.clientY-t.top-this.config.y}}isInHeaderArea(e){const{x:t,y:n}=this.getCoords(e);return t>=0&&t<=this.config.width&&n>=0&&n<=this.config.headerHeight}get positionWidth(){return this.config.positionWidth}set positionWidth(e){this.config.positionWidth=e}isInSliderArea(e){const{y:t}=this.getCoords(e),n=this.config.headerHeight-oo.SLIDER_HEIGHT;return t>n&&t<n+oo.SLIDER_HEIGHT}get sliderWidth(){const e=this.config.width/this.config.totalPositions*(this.config.width/this.config.positionWidth);return Math.max(e,20)}isInSliderDraggableArea(e){const{x:t,y:n}=this.getCoords(e),i=this.config.headerHeight-oo.SLIDER_HEIGHT,o=Math.floor(this.config.width/this.config.positionWidth),r=this.config.windowStartPosition,s=this.config.totalPositions-o,a=s<=0?0:(r-1)/s*(this.config.width-this.sliderWidth);return n>i&&n<i+oo.SLIDER_HEIGHT&&t>=a&&t<a+this.sliderWidth}setupEventListeners(){this.eventElement.addEventListener("mousemove",e=>{this.isValid&&(this.isInSliderDraggableArea(e)?this.eventElement.style.cursor="grab":this.isInSliderArea(e)||this.isInHeaderArea(e)?this.eventElement.style.cursor="pointer":this.eventElement.style.cursor="default")}),this.eventElement.addEventListener("mousedown",this.handleMouseDown.bind(this)),this.eventElement.addEventListener("mousemove",this.handleMouseMove.bind(this)),this.eventElement.addEventListener("mouseup",this.handleMouseUp.bind(this)),this.eventElement.addEventListener("mouseleave",this.handleMouseUp.bind(this)),this.eventElement.addEventListener("click",this.handleSelectionClick.bind(this)),this.eventElement.addEventListener("click",this.handleClick.bind(this)),this.eventElement.addEventListener("wheel",this.handleMouseWheel.bind(this)),window.addEventListener("keydown",this.handleKeyDown.bind(this))}handleSelectionClick(e){if(!(this.isValid&&this.dataFrame&&this.seqColumn&&this.seqHandler))return;const{x:t,y:n}=this.getCoords(e);if(this.handleTrackButtonClick(t,n))return;if(this.isInsideColumnHeaderArea(t,n))return;const i=this.config.positionWidth,o=Math.floor(t/i),r=this.config.windowStartPosition+o-1;if(r<0||r>=this.config.totalPositions)return;const s=this.config.headerHeight>=ro.WITH_TITLE()?oo.TITLE_HEIGHT:0,a=this.config.headerHeight-oo.SLIDER_HEIGHT-oo.DOTTED_CELL_HEIGHT,l=a-oo.TRACK_GAP;if(n>=a||n<s)return;let c=null,u=0;const h=[],d=this.getTrack("weblogo");d&&d.isVisible()&&h.push({id:"weblogo",track:d});const m=this.getTrack("conservation");m&&m.isVisible()&&h.push({id:"conservation",track:m});let p=l;for(const{id:e,track:t}of h){const i=p-t.getHeight();if(n>=i&&n<p){c=e,u=n-i;break}p=i-oo.TRACK_GAP}if(c){const n=this.tracks.get(c);if(n){const i=n.getMonomerAt(t,u,r);if(i){if(this.onSelectionCallback)return void this.onSelectionCallback(r,i);this.selectRowsWithMonomerAtPosition(r,i),e.stopPropagation(),e.stopImmediatePropagation()}}}}selectRowsWithMonomerAtPosition(e,t){if(this.dataFrame&&this.seqHandler)try{const n=this.dataFrame.selection,i=this.seqHandler.getMonomersAtPosition(e,!0);n.init(e=>i[e]===t)}catch(e){console.error("Error selecting rows:",e)}}init(){if(this.canvas=this.config.canvas,!this.canvas)return void console.error("Canvas not found");const e=this.canvas.getContext("2d");e?(this.ctx=e,this.tracks.forEach(t=>t.init(e))):console.error("Failed to get 2D context from canvas")}addTrack(e,t){this.ctx&&t.init(this.ctx),this.tracks.set(e,t)}removeTrack(e){this.tracks.delete(e)}getTrack(e){return this.tracks.get(e)}updateTrack(e,t){const n=this.getTrack(e);n&&t(n)}get isValid(){const e=this.gridColumn,t=e?.grid,n=t?.horzScroll?.min||0,i=t?.horzScroll?.max||1e7;return!!this.canvas&&!!this.ctx&&this.config.height>=ro.WITH_TITLE()&&t&&(ao(e.left??0,n,i)||ao(e.right??1/0,n,i))}handleMouseDown(e){if(!this.isValid)return;const{x:t}=this.getCoords(e);this.isInSliderDraggableArea(e)&&(this.state.isDragging=!0,this.state.dragStartX=t,this.handleSliderDrag(t),e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation())}handleMouseWheel(e){if(this.isValid&&this.isInHeaderArea(e)){e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation();const t=e.shiftKey?Math.sign(e.deltaY):Math.sign(e.deltaX||e.deltaY),n=e.shiftKey?3:1,i=this.config.windowStartPosition+t*n,o=Math.floor(this.config.width/this.config.positionWidth),r=this.config.totalPositions-o+1;this.config.windowStartPosition=Math.max(1,Math.min(r,i)),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}}handleMouseMove(e){if(!this.state.isDragging||!this.isValid)return;const t=this.canvas.getBoundingClientRect(),n=e.clientX-t.left-this.config.x;this.handleSliderDrag(n),e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation()}handleKeyDown(e){if(this.isValid&&!(this.config.currentPosition<1)&&document.activeElement?.contains(this.eventElement)&&"block"===this.eventElement.style.display){if("ArrowLeft"===e.key||"ArrowRight"===e.key){e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation();const t="ArrowLeft"===e.key?-1:1,n=Math.min(Math.max(this.config.currentPosition+t,1),this.config.totalPositions);if(n===this.config.currentPosition)return;this.config.currentPosition=n;const i=Math.floor(this.config.width/this.config.positionWidth),o=this.config.windowStartPosition;(n<o||n>o+i-1)&&(this.config.windowStartPosition=t<0?n:Math.max(1,n-i+1))}else{if("Escape"!==e.key)return;this.config.currentPosition=-2,e.preventDefault(),e.stopPropagation(),e.stopImmediatePropagation()}"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}}handleMouseUp(){this.state.isDragging=!1}handleSliderDrag(e){if(!this.isValid)return;const t=this.sliderWidth,n=this.config.width-t,i=Math.max(0,Math.min(this.config.width,e)),o=Math.floor(this.config.width/this.config.positionWidth),r=Math.floor(this.config.width/this.config.positionWidth),s=this.config.totalPositions-r,a=Math.max(0,i-t/2)/n*s;this.config.windowStartPosition=Math.max(1,Math.min(a,this.config.totalPositions-o+1)),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}get headerHeight(){return this.config.headerHeight}set headerHeight(e){this.config.headerHeight=e}handleClick(e){if(!this.isValid)return;e.clientX,this.canvas.getBoundingClientRect().left,e.clientY,this.canvas.getBoundingClientRect().top;const{x:t,y:n}=this.getCoords(e);if(this.handleTrackButtonClick(t,n))return e.preventDefault(),void e.stopPropagation();if(!this.isInsideColumnHeaderArea(t,n)&&n<this.config.headerHeight-oo.SLIDER_HEIGHT&&n>=0){const e=this.config.positionWidth,n=Math.round(t/e-.5),i=this.config.windowStartPosition+n;i>=1&&i<=this.config.totalPositions&&(this.config.currentPosition=i,"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange()))}}getWindowRange(){return{start:this.config.windowStartPosition,end:Math.min(this.config.totalPositions,this.config.windowStartPosition+Math.floor(this.config.width/this.config.positionWidth))}}updateConfig(e){Object.assign(this.config,e),this.config.currentPosition=Math.min(this.config.currentPosition,this.config.totalPositions),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}getCurrentPosition(){return this.config.currentPosition}setCurrentPosition(e){this.config.currentPosition=Math.max(1,Math.min(this.config.totalPositions,e)),"function"==typeof this.config.onPositionChange&&this.config.onPositionChange(this.config.currentPosition,this.getWindowRange())}getHeightThresholds(){return{BASE:ro.BASE,WITH_TITLE:ro.WITH_TITLE(),WITH_WEBLOGO:ro.WITH_WEBLOGO(),WITH_BOTH:ro.WITH_BOTH()}}}function ao(e,t,n){return e>=t&&e<=n}class lo{static conservationCache=new a.LruCache(100);static webLogoCache=new a.LruCache(100);static lastInvalidationTime=0;static CHUNK_SIZE=50;static clearAllCaches(){lo.conservationCache=new a.LruCache(100),lo.webLogoCache=new a.LruCache(100),lo.lastInvalidationTime=Date.now()}static getLastInvalidationTime(){return lo.lastInvalidationTime}static getChunkCacheKey(e,t,n){const i=e.dataFrame;return`${i.id}_${e.name}_f${i.filter.version}_${t}_${n}`}static getConservationChunk(e,t,n,i){return lo.conservationCache.getOrCreate(i,()=>{const o=lo.getWebLogoChunk(e,t,n,i),r=new Array(n-t).fill(0);for(let i=t;i<n;i++){const n=o.get(i);if(!n||0===n.size)continue;let s=0,a=0;const l=e.defaultGapOriginal;for(const[e,t]of n.entries())e&&e!==l&&(s+=t,t>a&&(a=t));r[i-t]=s>0?a/s:0}return r})}static getWebLogoChunk(e,t,n,i){return lo.webLogoCache.getOrCreate(i,()=>{const i=e.column.dataFrame,o=new Map,r=i.filter.trueCount;if(r<=1)return o;for(let e=t;e<n;e++)o.set(e,new Map);const s=i.filter,a=1/r;for(let i=-1;-1!==(i=s.findNext(i,!0));){const r=e.getSplitted(i).getOriginalRegion(t,n);if(0!==r.length)for(let e=0;e<r.length;e++){const n=r[e],i=o.get(t+e);i.set(n,(i.get(n)||0)+a)}}return o})}static getConservationForViewport(e,t,n,i){const o=new Array(i).fill(0),r=Math.floor(t/lo.CHUNK_SIZE)*lo.CHUNK_SIZE,s=Math.ceil(n/lo.CHUNK_SIZE)*lo.CHUNK_SIZE;for(let t=r;t<s;t+=lo.CHUNK_SIZE){const n=Math.min(t+lo.CHUNK_SIZE,i),r=lo.getChunkCacheKey(e.column,t,n),s=lo.getConservationChunk(e,t,n,r);for(let e=0;e<s.length&&t+e<i;e++)o[t+e]=s[e]}return o}static getWebLogoForViewport(e,t,n,i){const o=new Map,r=Math.floor(t/lo.CHUNK_SIZE)*lo.CHUNK_SIZE,s=Math.ceil(n/lo.CHUNK_SIZE)*lo.CHUNK_SIZE;for(let t=r;t<s;t+=lo.CHUNK_SIZE){const n=Math.min(t+lo.CHUNK_SIZE,i),r=lo.getChunkCacheKey(e.column,t,n),s=lo.getWebLogoChunk(e,t,n,r);for(const[e,t]of s.entries())e<i&&o.set(e,t)}return o}}class co extends no{seqHandler;maxLength;lastViewportStart=-1;lastViewportEnd=-1;lastInvalidationTime=0;forceNextUpdate=!1;constructor(e,t,n=45,i="WebLogo"){super(new Map,n,"",i),this.seqHandler=e,this.maxLength=t,this.visible=e.column.dataFrame.filter.trueCount>1}forceUpdate(){this.forceNextUpdate=!0}resetViewportTracking(){this.lastViewportStart=-1,this.lastViewportEnd=-1}updateForViewport(e,t){const n=lo.getLastInvalidationTime(),i=n>this.lastInvalidationTime;if(!(Math.abs(this.lastViewportStart-e)>=10||Math.abs(this.lastViewportEnd-t)>=10||i||this.forceNextUpdate))return;this.forceNextUpdate=!1,this.lastViewportStart=e,this.lastViewportEnd=t,this.lastInvalidationTime=n;const o=Math.max(0,e-20),r=Math.min(this.maxLength,t+20),s=lo.getWebLogoForViewport(this.seqHandler,o,r,this.maxLength);this.updateData(s)}draw(e,t,n,i,o,r,s,a){const l=Math.ceil(n/r)+2,c=Math.min(o+l,s);this.updateForViewport(o-1,c-1),super.draw(e,t,n,i,o,r,s,a)}}class uo extends io{seqHandler;maxLength;lastViewportStart=-1;lastViewportEnd=-1;lastInvalidationTime=0;forceNextUpdate=!1;constructor(e,t,n=45,i="default",o="Conservation"){super([],n,i,o),this.seqHandler=e,this.maxLength=t,this.visible=e.column.dataFrame.filter.trueCount>1}forceUpdate(){this.forceNextUpdate=!0}resetViewportTracking(){this.lastViewportStart=-1,this.lastViewportEnd=-1}updateForViewport(e,t){const n=lo.getLastInvalidationTime(),i=n>this.lastInvalidationTime;if(!(Math.abs(this.lastViewportStart-e)>=10||Math.abs(this.lastViewportEnd-t)>=10||i||this.forceNextUpdate))return;this.forceNextUpdate=!1,this.lastViewportStart=e,this.lastViewportEnd=t,this.lastInvalidationTime=n;const o=Math.max(0,e-20),r=Math.min(this.maxLength,t+20),s=lo.getConservationForViewport(this.seqHandler,o,r,this.maxLength);this.updateData(s)}draw(e,t,n,i,o,r,s,a){const l=Math.ceil(n/r)+2,c=Math.min(o+l,s);this.updateForViewport(o-1,c-1),super.draw(e,t,n,i,o,r,s,a)}}const ho="__msa-scroller-initialized",mo="__msa-scroller-subscription";class po{separator;seqHelper;seqCol;splitter;get defaultGapOriginal(){return""}constructor(e,t,n){this.separator=e,this.seqHelper=t,this.seqCol=n,this.splitter=ke.bR.bind(this)}setUnits(){}getHelm(e,t){const n=this.splitter(e);return this.seqHelper.getSeqHandler(this.seqCol).getJoiner({notation:we.Hi.HELM})(n)}createCellRendererBack(e,t){const n=To.properties.maxMonomerLength||4,i=new go(e,t,n,this.seqHelper);return i.init().then(()=>{}),i}}class go extends De.Jy{constructor(e,t,n,i){super(e,t,To.logger,n,()=>{const e=i.getSeqHandler(t),{font:n,fontWidth:o}=De.Jy.getFontSettings(t);return{seqHandler:e,font:n,fontCharWidth:o,separatorWidth:0,monomerToShort:ke.zS}})}}var fo,yo;!function(e){e.embed=async function(e){return await r.functions.call("Bio:Embed",{molecule:e})},e.molToHelmConverterPy=async function(e,t,n){return await r.functions.call("Bio:MolToHelmConverterPy",{moleculesDataframe:e,moleculesColumn:t,libraryJSON:n})},e.sequenceGenerator=async function(e,t,n,i,o,s,a,l,c,u,h,d,m,p,g,f,y){return await r.functions.call("Bio:SequenceGenerator",{clusters:e,num_sequences:t,alphabet_key:n,motif_length:i,max_variants_position:o,random_length:s,dispersion:a,activity_range:l,cliff_probability:c,cliff_strength:u,cliff_strength_dispersion:h,assay_noise_levels:d,assay_scales:m,disable_negatives:p,fasta_separator:g,helm_library_file:f,helm_connection_mode:y})}}(fo||(fo={})),function(e){e.test1=async function(){return await r.functions.call("Bio:Test1",{})},e.getMonomerLibHelper=async function(){return await r.functions.call("Bio:GetMonomerLibHelper",{})},e.initBio=async function(){return await r.functions.call("Bio:InitBio",{})},e.sequenceTooltip=async function(e){return await r.functions.call("Bio:SequenceTooltip",{col:e})},e.standardiseMonomerLibrary=async function(e){return await r.functions.call("Bio:StandardiseMonomerLibrary",{library:e})},e.matchWithMonomerLibrary=async function(e,t,n){return await r.functions.call("Bio:MatchWithMonomerLibrary",{table:e,molecules:t,polymerType:n})},e.getBioLib=async function(){return await r.functions.call("Bio:GetBioLib",{})},e.getSeqHandler=async function(e){return await r.functions.call("Bio:GetSeqHandler",{sequence:e})},e.getRegionPanel=async function(e){return await r.functions.call("Bio:GetRegionPanel",{seqCol:e})},e.libraryPanel=async function(e){return await r.functions.call("Bio:LibraryPanel",{seqColumn:e})},e.getRegionEditor=async function(e){return await r.functions.call("Bio:GetRegionEditor",{call:e})},e.splitToMonomersEditor=async function(e){return await r.functions.call("Bio:SplitToMonomersEditor",{call:e})},e.sequenceSpaceEditor=async function(e){return await r.functions.call("Bio:SequenceSpaceEditor",{call:e})},e.seqActivityCliffsEditor=async function(e){return await r.functions.call("Bio:SeqActivityCliffsEditor",{call:e})},e.customSequenceCellRenderer=async function(){return await r.functions.call("Bio:CustomSequenceCellRenderer",{})},e.fastaSequenceCellRenderer=async function(){return await r.functions.call("Bio:FastaSequenceCellRenderer",{})},e.separatorSequenceCellRenderer=async function(){return await r.functions.call("Bio:SeparatorSequenceCellRenderer",{})},e.bilnSequenceCellRenderer=async function(){return await r.functions.call("Bio:BilnSequenceCellRenderer",{})},e.refineNotationProviderForBiln=async function(e,t,n){return await r.functions.call("Bio:RefineNotationProviderForBiln",{col:e,stats:t,separator:n})},e.macroMolColumnPropertyPanel=async function(e){return await r.functions.call("Bio:MacroMolColumnPropertyPanel",{molColumn:e})},e.compositionAnalysisWidget=async function(e){return await r.functions.call("Bio:CompositionAnalysisWidget",{sequence:e})},e.macromoleculeDifferenceCellRenderer=async function(){return await r.functions.call("Bio:MacromoleculeDifferenceCellRenderer",{})},e.sequenceAlignment=async function(e,t,n,i,o){return await r.functions.call("Bio:SequenceAlignment",{alignType:e,alignTable:t,gap:n,seq1:i,seq2:o})},e.webLogoViewer=async function(){return await r.functions.call("Bio:WebLogoViewer",{})},e.vdRegionsViewer=async function(){return await r.functions.call("Bio:VdRegionsViewer",{})},e.getRegion=async function(e,t,n,i){return await r.functions.call("Bio:GetRegion",{sequence:e,start:t,end:n,name:i})},e.getRegionTopMenu=async function(e,t,n,i,o){return await r.functions.call("Bio:GetRegionTopMenu",{table:e,sequence:t,start:n,end:i,name:o})},e.activityCliffs=async function(e,t,n,i,o,s,a,l,c){return await r.functions.call("Bio:ActivityCliffs",{table:e,molecules:t,activities:n,similarity:i,methodName:o,similarityMetric:s,preprocessingFunction:a,options:l,demo:c})},e.macromoleculePreprocessingFunction=async function(e,t,n,i,o){return await r.functions.call("Bio:MacromoleculePreprocessingFunction",{col:e,metric:t,gapOpen:n,gapExtend:i,fingerprintType:o})},e.helmPreprocessingFunction=async function(e,t){return await r.functions.call("Bio:HelmPreprocessingFunction",{col:e,_metric:t})},e.sequenceSpaceTopMenu=async function(e,t,n,i,o,s,a,l,c){return await r.functions.call("Bio:SequenceSpaceTopMenu",{table:e,molecules:t,methodName:n,similarityMetric:i,plotEmbeddings:o,preprocessingFunction:s,options:a,clusterEmbeddings:l,isDemo:c})},e.moleculesToHelmTopMenu=async function(e,t){return await r.functions.call("Bio:MoleculesToHelmTopMenu",{table:e,molecules:t})},e.toAtomicLevel=async function(e,t,n,i){return await r.functions.call("Bio:ToAtomicLevel",{table:e,seqCol:t,nonlinear:n,highlight:i})},e.toAtomicLevelAction=async function(e){return await r.functions.call("Bio:ToAtomicLevelAction",{seqCol:e})},e.toAtomicLevelPanel=async function(e){return await r.functions.call("Bio:ToAtomicLevelPanel",{sequence:e})},e.sequence3dStructureWidget=async function(e){return await r.functions.call("Bio:Sequence3dStructureWidget",{sequence:e})},e.multipleSequenceAlignmentDialog=async function(){return await r.functions.call("Bio:MultipleSequenceAlignmentDialog",{})},e.alignSequences=async function(e,t,n){return await r.functions.call("Bio:AlignSequences",{sequenceCol:e,clustersCol:t,options:n})},e.compositionAnalysis=async function(){return await r.functions.call("Bio:CompositionAnalysis",{})},e.importFasta=async function(e){return await r.functions.call("Bio:ImportFasta",{fileContent:e})},e.importBam=async function(e){return await r.functions.call("Bio:ImportBam",{fileContent:e})},e.convertDialog=async function(){return await r.functions.call("Bio:ConvertDialog",{})},e.convertColumnAction=async function(e){return await r.functions.call("Bio:ConvertColumnAction",{col:e})},e.monomerCellRenderer=async function(){return await r.functions.call("Bio:MonomerCellRenderer",{})},e.testDetectMacromolecule=async function(e){return await r.functions.call("Bio:TestDetectMacromolecule",{path:e})},e.splitToMonomersTopMenu=async function(e,t){return await r.functions.call("Bio:SplitToMonomersTopMenu",{table:e,sequence:t})},e.getHelmMonomers=async function(e){return await r.functions.call("Bio:GetHelmMonomers",{sequence:e})},e.similaritySearchViewer=async function(){return await r.functions.call("Bio:SimilaritySearchViewer",{})},e.similaritySearchTopMenu=async function(){return await r.functions.call("Bio:SimilaritySearchTopMenu",{})},e.diversitySearchViewer=async function(){return await r.functions.call("Bio:DiversitySearchViewer",{})},e.diversitySearchTopMenu=async function(){return await r.functions.call("Bio:DiversitySearchTopMenu",{})},e.searchSubsequenceEditor=async function(e){return await r.functions.call("Bio:SearchSubsequenceEditor",{call:e})},e.subsequenceSearchTopMenu=async function(e){return await r.functions.call("Bio:SubsequenceSearchTopMenu",{macromolecules:e})},e.sequenceIdentityScoring=async function(e,t,n){return await r.functions.call("Bio:SequenceIdentityScoring",{table:e,macromolecule:t,reference:n})},e.sequenceSimilarityScoring=async function(e,t,n){return await r.functions.call("Bio:SequenceSimilarityScoring",{table:e,macromolecule:t,reference:n})},e.manageMonomerLibraries=async function(){return await r.functions.call("Bio:ManageMonomerLibraries",{})},e.manageLibrariesView=async function(){return await r.functions.call("Bio:ManageLibrariesView",{})},e.manageMonomersView=async function(){return await r.functions.call("Bio:ManageMonomersView",{})},e.manageMonomerLibrariesView=async function(){return await r.functions.call("Bio:ManageMonomerLibrariesView",{})},e.manageMonomerLibrariesViewTreeBrowser=async function(e){return await r.functions.call("Bio:ManageMonomerLibrariesViewTreeBrowser",{treeNode:e})},e.saveAsFasta=async function(){return await r.functions.call("Bio:SaveAsFasta",{})},e.bioSubstructureFilter=async function(){return await r.functions.call("Bio:BioSubstructureFilter",{})},e.bioSubstructureFilterTest=async function(){return await r.functions.call("Bio:BioSubstructureFilterTest",{})},e.webLogoLargeApp=async function(){return await r.functions.call("Bio:WebLogoLargeApp",{})},e.webLogoAggApp=async function(){return await r.functions.call("Bio:WebLogoAggApp",{})},e.getRegionApp=async function(){return await r.functions.call("Bio:GetRegionApp",{})},e.getRegionHelmApp=async function(){return await r.functions.call("Bio:GetRegionHelmApp",{})},e.longSeqTableSeparator=async function(){return await r.functions.call("Bio:LongSeqTableSeparator",{})},e.longSeqTableFasta=async function(){return await r.functions.call("Bio:LongSeqTableFasta",{})},e.longSeqTableHelm=async function(){return await r.functions.call("Bio:LongSeqTableHelm",{})},e.addCopyMenu=async function(e,t){return await r.functions.call("Bio:AddCopyMenu",{cell:e,menu:t})},e.demoBioSimilarityDiversity=async function(){return await r.functions.call("Bio:DemoBioSimilarityDiversity",{})},e.demoBioSequenceSpace=async function(){return await r.functions.call("Bio:DemoBioSequenceSpace",{})},e.demoBioActivityCliffs=async function(){return await r.functions.call("Bio:DemoBioActivityCliffs",{})},e.demoBioAtomicLevel=async function(){return await r.functions.call("Bio:DemoBioAtomicLevel",{})},e.sdfToJsonLib=async function(e){return await r.functions.call("Bio:SdfToJsonLib",{table:e})},e.seq2atomic=async function(e,t){return await r.functions.call("Bio:Seq2atomic",{seq:e,nonlinear:t})},e.seqIdentity=async function(e,t){return await r.functions.call("Bio:SeqIdentity",{seq:e,ref:t})},e.detectMacromoleculeProbe=async function(e,t,n){return await r.functions.call("Bio:DetectMacromoleculeProbe",{file:e,colName:t,probeCount:n})},e.getSeqHelper=async function(){return await r.functions.call("Bio:GetSeqHelper",{})},e.getMolFromHelm=async function(e,t,n){return await r.functions.call("Bio:GetMolFromHelm",{df:e,helmCol:t,chiralityEngine:n})}}(yo||(yo={}));var bo=function(e,t,n,i){var o,r=arguments.length,s=r<3?t:null===i?i=Object.getOwnPropertyDescriptor(t,n):i;if("object"==typeof Reflect&&"function"==typeof Reflect.decorate)s=Reflect.decorate(e,t,n,i);else for(var a=e.length-1;a>=0;a--)(o=e[a])&&(s=(r<3?o(s):r>3?o(t,n,s):o(t,n))||s);return r>3&&s&&Object.defineProperty(t,n,s),s},wo=function(e,t){if("object"==typeof Reflect&&"function"==typeof Reflect.metadata)return Reflect.metadata(e,t)},vo=function(e,t){return function(n,i){t(n,i,e)}};const To=new mi;let Co=null;r.decorators||(r.decorators={}),["func","init","param","panel","editor","demo","app","appTreeBrowser","fileHandler","fileExporter","model","viewer","filter","cellRenderer","autostart","dashboard","folderViewer","semTypeDetector","packageSettingsEditor","functionAnalysis","converter","fileViewer","model","treeBrowser","polyfill"].forEach(e=>{r.decorators[e]||(r.decorators[e]=function(e){return function(e,t,n){}})});class Ao{static async getMonomerLibHelper(){return await kn.getInstance()}static async initBio(){null==Co&&(Co=async function(){const e="Bio: _package.initBio()";To.logger.debug(`${e}, start`);const t=window.performance.now(),n=await(0,Re.j)(),i=await To.getProperties(),o=new di(i);To.properties=o;const s=await kn.getInstance(),l=await(0,Ne.u)();l.explicit&&(l.explicit=[],await(0,Ne.E)(l)),await s.awaitLoaded(1/0),s.initialLoadCompleted||await s.loadMonomerLib(),s.loadMonomerSets();const c=s.getMonomerLib(),h=s.getMonomerSets(),d=window.performance.now();To.logger.debug(`${e}, loading ET: ${d-t} ms`);const m=new zi(s,n);To.completeInit(m,c,h,n),To.logger.debug(`${e}, end`),function(){const e=t=>{setTimeout(()=>{if(t.isDetached)return;const n=t.dataFrame;if(!n)return;const i=n.columns.bySemTypeAll(a.SEMTYPE.MACROMOLECULE);t.temp[mo]?.unsubscribe(),t.temp[mo]=a.debounce(u.merge(n.onColumnsAdded,n.onSemanticTypeDetected),200).subscribe(()=>e(t)),t.sub(t.temp[mo]);for(const e of i){const i=t.col(e.name);if(!i)continue;if(i.temp[ho])continue;i.temp[ho]=!0;let o=null;try{o=To.seqHelper.getSeqHandler(e)}catch(t){console.warn(`Failed to get SeqHandler for column ${e.name}`);continue}if(!o)continue;if(o.isHelm()||o.alphabet===pe.YI.UN)continue;let s=!!t.tableView&&Array.from(t.tableView.viewers).some(e=>"Sequence Position Statistics"===e.type);const l=(e,t)=>Number.isNaN(e)||null==e?t:e,c=()=>l(Math.max(Number.parseInt(e.getTag(pe.gp.positionShift)??"0"),0),0)+1,h=()=>l(Number.parseInt(e.getTag(pe.gp.selectedPosition)??"-2"),-2),d=()=>De.Jy.getFontSettings(e).fontWidth;let m=0,p=0;const g=e.categories;for(let e=0;e<g.length;e++){const t=g[e];t&&t.length>p&&(p=t.length,m=e)}const f=g[m],y=o.splitter(f),b=y?y.length:30,w={WITH_TITLE:58,WITH_WEBLOGO:107,WITH_BOTH:156};let v;v=e.length>1e5||b<50?w.WITH_TITLE:e.length>5e4?w.WITH_WEBLOGO:w.WITH_BOTH;let T=null,C=null;const A=a.debounce(u.merge(n.onFilterChanged,n.onDataChanged.pipe((0,$.filter)(t=>t?.args?.column===e))),100).subscribe(()=>{lo.clearAllCaches(),T&&(T.resetViewportTracking(),T.forceUpdate()),C&&(C.resetViewportTracking(),C.forceUpdate()),setTimeout(()=>{t.isDetached||t.invalidate()},50)});t.sub(A);const E=r=>{const l=[],u=new uo(o,b,45,"default","Conservation");C=u,l.push({id:"conservation",track:u,priority:1});const m=new co(o,b,45,"WebLogo");T=m,r&&(m.setMonomerLib(r),m.setBiotype(o.defaultBiotype||"HELM_AA")),m.setupDefaultTooltip(),l.push({id:"weblogo",track:m,priority:2});const p=new so({canvas:t.overlay,headerHeight:v,totalPositions:b+1,onPositionChange:(n,i)=>{setTimeout(()=>{const o=c(),r=h();if(o!==i.start&&e.setTag(pe.gp.positionShift,(i.start-1).toString()),r!==n&&(e.setTag(pe.gp.selectedPosition,n.toString()),n>=0&&!s&&t.tableView&&oe()(t.dataFrame?.columns.numerical).find(e=>!0))){s=!0;const n=t.tableView.addViewer("Sequence Position Statistics",{sequenceColumnName:e.name});t.tableView.dockManager.dock(n,a.DOCK_TYPE.DOWN,null,"Sequence Position Statistics",.4)}})},onHeaderHeightChange:e=>{t.isDetached||e<w.WITH_TITLE||setTimeout(()=>t.props.colHeaderHeight=e)}},i);p.setupTooltipHandling(),l.forEach(({id:e,track:t})=>{p.addTrack(e,t)}),p.setSelectionData(n,e,o),b>50&&(t.props.colHeaderHeight=v,setTimeout(()=>{t.isDetached||(i.width=400)},300)),t.sub(t.onCellRender.subscribe(t=>{const n=t.cell;if(!n||!n.isColHeader||n?.gridColumn?.name!==i?.name)return;const o=t.bounds;if(!o)return;p.headerHeight=o.height;const r=d();p.positionWidth=r+8;const s=c();p.draw(o.x,o.y,o.width,o.height,h(),s,t,e.name)}))};(0,ve.pj)().then(e=>{const t=e.getMonomerLib();E(t)}).catch(e=>{r.shell.warning("Failed to initialize monomer library"),console.error("Failed to initialize monomer library:",e)})}},1e3)},t=(r.events.onViewerAdded.subscribe(t=>{if(!(t.args&&t.args.viewer instanceof a.Grid))return;const n=t.args.viewer;e(n)}),r.shell.tableViews);for(const n of t){const t=n?.grid;t&&e(t)}}()}()),await Co}static sequenceTooltip(e){const t=new yi(e,To.seqHelper);return t.init().then(()=>{}).catch(e=>{const t=e instanceof Error?e.message:e.toString();r.shell.error(t)}),t}static async standardiseMonomerLibrary(e){return await async function(e){const t=JSON.parse(e);if(!t||!Array.isArray(t)||0===t.length)throw new Error("Invalid library format, expected an array of monomers");const n=(await tn(t)).map(e=>({...e,lib:void 0,wem:void 0}));return JSON.stringify(n,null,2)}(e)}static async matchWithMonomerLibrary(e,t,n="PEPTIDE"){const i=await async function(e,t,n,i="PEPTIDE"){const o=n.duplicateMonomers?.[i]??{},s=a.Func.find({package:"Chem",name:"convertMoleculeNotation"})[0];if(!s)throw new Error("Function convertMoleculeNotation not found, please install Chem package");const l=n.getMonomerSymbolsByType(i).map(e=>n.getMonomer(i,e)).filter(e=>e&&(e.smiles||e.molfile)),c=await tn(l);c.forEach((e,t)=>{e.lib=l[t].lib});const u=c.filter(e=>!!e.smiles).reduce((e,t)=>(e[t.smiles]={symbol:t.symbol,smiles:t.smiles,original:t.smiles,source:t.lib?.source},e),{}),h=c.map((e,t)=>({symbol:e.symbol,smiles:dn(e.smiles??"",e.rgroups??[]),original:e.smiles,source:l[t]?.lib?.source})).filter(e=>!!e?.smiles&&!e.smiles.includes("[*:")),d=a.Column.fromList(a.COLUMN_TYPE.STRING,"MonomerSmiles",h.map(e=>e.smiles));d.semType=a.SEMTYPE.MOLECULE;const m=await s.apply({molecule:d,targetNotation:a.chem.Notation.Smiles});if(!m||m.length!==d.length)throw new Error("Error canonicalizing monomer smiles");m.toList().forEach((e,t)=>h[t].smiles=e);const p=h.reduce((e,t)=>(e[t.smiles]=t,e),{}),g=e.col(t).toList().map(e=>{if(!e)return e;try{const t=e.includes("\n");return un([],t?void 0:e,t?e:void 0)}catch(t){return e}}),f=a.Column.fromList(a.COLUMN_TYPE.STRING,"MoleculesOriginalCorrected",g);f.semType=a.SEMTYPE.MOLECULE,a.DataFrame.fromColumns([f]);const y=await s.apply({molecule:f,targetNotation:a.chem.Notation.Smiles});if(!y||y.length!==f.length)throw new Error("Error canonicalizing molecules");const b=y.toList(),w=e.clone(),v=w.columns.addNewString(w.columns.getUnusedName("Matched monomer smiles"));v.semType=a.SEMTYPE.MOLECULE;const T=w.columns.addNewString(w.columns.getUnusedName("Matched monomer symbol"));T.semType="Monomer";const C=w.columns.addNewString(w.columns.getUnusedName("Matched monomer source"));w.columns.setOrder([t,T.name,v.name,C.name]);for(let e=0;e<b.length;e++){const t=b[e];if(!t)continue;let n=p[t]??u[t];if(!n){const e=dn(t,Jt);if(e!==t){const t=r.chem.convert(e,a.chem.Notation.Unknown,a.chem.Notation.Smiles);n=p[t]??u[t]}}if(n){const t=n.symbol,i=(o[t]?.length??0)>0?o[t].map(e=>e?.lib?.source).filter(e=>!!e).join(", "):n.source??"",r=n.original??n.smiles;v.set(e,r,!1),T.set(e,t,!1),C.set(e,i,!1)}}return w}(e,t.name,To.monomerLib,n);r.shell.addTableView(i)}static getBioLib(){return To.monomerLib}static getSeqHandler(e){return To.seqHelper.getSeqHandler(e)}static getRegionPanel(e){const t="getRegionTopMenu",n=a.Func.find({package:To.name,name:t});if(1!==n.length)throw new Error(`Package '${To.name}' func '${t}' not found`);const i=n[0].prepare({table:e.dataFrame,sequence:e});return new Ti(i,To.seqHelper).widget()}static async libraryPanel(e){return async function(){const e=s.label("Manage monomer libraries");return Gn()(e).addClass("d4-link-action"),e.onclick=async()=>await Yn(),new a.Widget(e)}()}static GetRegionEditor(e){try{new Ti(e,To.seqHelper).dialog()}catch(e){const t=e instanceof Error?e.message:e.toString(),n=e instanceof Error?e.stack:void 0;r.shell.error(`Get region editor error: ${t}`),To.logger.error(t,void 0,n)}}static SplitToMonomersEditor(e){const t=new si;s.dialog({title:"Split to Monomers"}).add(t.paramsUI).onOK(async()=>e.func.prepare(t.funcParams).call(!0)).show()}static SequenceSpaceEditor(e){const t=new R({semtype:a.SEMTYPE.MACROMOLECULE}),n=s.dialog({title:"Sequence Space"}).add(t.getEditor()).onOK(async()=>{const n=t.getParams();return e.func.prepare({molecules:n.col,table:n.table,methodName:n.methodName,similarityMetric:n.similarityMetric,plotEmbeddings:n.plotEmbeddings,options:n.options,preprocessingFunction:n.preprocessingFunction,clusterEmbeddings:n.clusterEmbeddings}).call()});n.history(()=>({editorSettings:t.getStringInput()}),e=>t.applyStringInput(e.editorSettings)),n.show()}static SeqActivityCliffsEditor(e){const t=new Ee({semtype:a.SEMTYPE.MACROMOLECULE}),n=s.dialog({title:"Activity Cliffs"}).add(t.getEditor()).onOK(async()=>{const n=t.getParams();return e.func.prepare({table:n.table,molecules:n.col,activities:n.activities,similarity:n.similarityThreshold,methodName:n.methodName,similarityMetric:n.similarityMetric,preprocessingFunction:n.preprocessingFunction,options:n.options}).call()});n.history(()=>({editorSettings:t.getStringInput()}),e=>t.applyStringInput(e.editorSettings)),n.show()}static customSequenceCellRenderer(){return new Ke}static fastaSequenceCellRenderer(){return new Ke}static separatorSequenceCellRenderer(){return new Ke}static bilnSequenceCellRenderer(){return new Ke}static refineNotationProviderForBiln(e,t,n){return"-"===n&&(!(!Object.keys(t.freq).some(e=>e.match(/^.+\(\d{1,2},\d{1,2}\)$/))&&!Object.keys(t.freq).some(e=>e.includes("[")||e.includes("]")))&&(e.setTag("aligned","SEQ"),e.setTag("alphabet","UN"),e.setTag(".alphabetIsMultichar","true"),e.meta.units=pe.Hi.BILN,e.temp[$e.j.notationProvider]=new po(n,To.seqHelper,e),!0))}static macroMolColumnPropertyPanel(e){return function(e){const t=Array.from(e.dataFrame.columns).filter(e=>e.semType===a.SEMTYPE.MOLECULE).map(e=>e.name);new Set(t).delete(e.name);let n=To.properties?To.properties.maxMonomerLength:4;if(Oe.gp.maxMonomerLength in e.tags){const t=parseInt(e.getTag(Oe.gp.maxMonomerLength));n=isNaN(t)?n:t}if(".mm.cellRenderer.maxMonomerLength"in e.temp){const t=parseInt(e.temp[".mm.cellRenderer.maxMonomerLength"]);n=isNaN(t)?n:t}const i=s.input.int("Max Monomer Length",{value:n,nullable:!0,min:1,max:50,step:1,onValueChanged:t=>{if(0==t)setTimeout(()=>{i.value=null},0);else{const n=t??"",i=null==n?"":n.toString();e.temp[".mm.cellRenderer.maxMonomerLength"]=i,e.temp[".mm.cellRenderer.settingsChanged"]=Ve.s.true,e.dataFrame.fireValuesChanged()}},tooltipText:"The max length of monomer symbol displayed without shortening, empty to no limit"});let o=To.properties?To.properties.fontSize:12;".mm.cellRenderer.fontSize"in e.temp&&e.temp[".mm.cellRenderer.fontSize"]&&!isNaN(e.temp[".mm.cellRenderer.fontSize"])&&(o=e.temp[".mm.cellRenderer.fontSize"]);const r=s.input.int("Font Size",{value:o,nullable:!0,min:1,max:50,step:1,onValueChanged:t=>{if(t&&t>0){const n=t??12;e.temp[".mm.cellRenderer.fontSize"]=n,e.temp[".mm.cellRenderer.settingsChanged"]=Ve.s.true,e.dataFrame.fireValuesChanged()}},tooltipText:"The font size of monomer symbol in sequence renderer"}),l=s.input.int("Monomer Margin",{value:e.temp[".mm.cellRenderer.gapLength"]??0,onValueChanged:t=>{e.temp[".mm.cellRenderer.gapLength"]=t,e.temp[".mm.cellRenderer.settingsChanged"]=Ve.s.true,e.dataFrame.fireValuesChanged()},tooltipText:"The size of margin between monomers (in pixels)"}),c=s.input.bool("Color Code",{value:null==e?.temp["color-code"]||e.temp["color-code"],onValueChanged:t=>{e.temp["color-code"]=t,e.dataFrame.fireValuesChanged()},tooltipText:"Color code"}),u=s.input.string("Reference Sequence",{value:null!=e?.temp["reference-sequence"]?e?.temp["reference-sequence"]:"",nullable:!0,onValueChanged:t=>{e.temp["reference-sequence"]=t,e.dataFrame.fireValuesChanged()},tooltipText:"Reference sequence is not empty, then the sequence will be render \nas a difference from the reference sequence"}),h=s.input.bool("Compare with current",{value:null==e?.temp["compare-with-current"]||e.temp["compare-with-current"],onValueChanged:t=>{e.temp["compare-with-current"]=t,e.dataFrame.fireValuesChanged()},tooltipText:'When on, all sequences get rendered in the "diff" mode'});let d=null;e.meta.units!==pe.Hi.HELM&&(d=s.input.bool("Multiline Rendering",{value:"true"===e.getTag("renderMultiline"),onValueChanged:t=>{e.tags.renderMultiline=t?"true":"false",e.dataFrame.fireValuesChanged()},tooltipText:"Render sequences across multiple lines when they exceed cell width"}));const m=[r,i,l,u,c,h];d&&m.push(d);const p=s.inputs(m);return new a.Widget(p)}(e)}static compositionAnalysisWidget(e){return function(e,t,n){const i=s.div();i.classList.add("macromolecule-cell-comp-analysis-host");const o=e.cell.column.tags[pe.gp.alphabet],r=o===pe.YI.DNA||o===pe.YI.RNA?Be.o.NUCLEOTIDE:Be.o.AA,l={},c=n.getSeqHandler(e.cell.column),u=e.cell.rowIndex,h=c.getSplitted(u),d={};oe().count(0).take(h.length).filter(e=>!h.isGap(e)).forEach(e=>{let t=h.getCanonical(e);r===Be.o.NUCLEOTIDE&&c.isHelm()&&"("===t[1]&&")"===t[t.length-2]&&(t=t.substring(2,t.length-2));const n=l[t]||0;if(l[t]=n+1,!d[t]&&h.graphInfo?.polymerTypes){const n=h.graphInfo.polymerTypes[e];d[t]=(0,ke.MD)(n)}});const m=(0,pi.F)(l,r,t,Object.keys(d).length?d:void 0);return Array.from(m.rows).forEach(e=>{const t=e.getElementsByClassName("macromolecule-cell-comp-analysis-bar")[0].style.backgroundColor;e.cells[0].style.color=t}),i.appendChild(m),new a.Widget(i)}(e,To.monomerLib,To.seqHelper)}static macromoleculeDifferenceCellRenderer(){return new Ze}static sequenceAlignment(e,t,n,i,o){const r=new dt(i,o,n,t);return"Local alignment"==e?r.smithWaterman():r.needlemanWunsch()}static webLogoViewer(){return new ot.oP}static vdRegionsViewer(){return new ct}static getRegion(e,t,n,i){return bi(e,t??null,n??null,i??null)}static async getRegionTopMenu(e,t,n,i,o){const s=bi(t,n??null,i??null,o??null);t.dataFrame.columns.add(s),await r.data.detectSemanticTypes(t.dataFrame)}static async activityCliffs(e,t,n,i,o,u,h,d,m){if(e.name!==r.shell.tv.dataFrame.name)return void r.shell.error(`Table ${e.name} is not a current table view`);if(!(0,ni.V)(t,"Activity Cliffs"))return;const p=_e(e),g={units:t.meta.units,aligned:t.getTag(pe.gp.aligned),separator:t.getTag(pe.gp.separator),alphabet:t.getTag(pe.gp.alphabet)},f=u,y=t,b=async()=>await de(e,y,p,"Activity cliffs",n,i,f,o,{...d??{}},a.SEMTYPE.MACROMOLECULE,g,h,gt,ft,vt,void 0,m),w=o===c.c.UMAP?2e5:2e4,v=o===c.c.UMAP?5e3:2e3;if(e.rowCount>w)return void r.shell.warning(`Too many rows, maximum for sequence activity cliffs is ${w}`);const T=a.TaskBarProgressIndicator.create("Running sequence activity cliffs ..."),C=await new Promise((t,n)=>{e.rowCount>v&&!d?.[l.vb]?s.dialog().add(s.divText("Activity cliffs analysis might take several minutes.\n Do you want to continue?")).onOK(async()=>{b().then(e=>t(e)).catch(e=>n(e))}).onCancel(()=>{t(void 0)}).show():b().then(e=>t(e)).catch(e=>n(e))}).catch(e=>{const[t,n]=(0,Ce.AP)(e);throw To.logger.error(t,void 0,n),e}).finally(()=>{T.close()});return C?.props?.xColumnName&&C?.props?.yColumnName&&e.col(C.props.xColumnName)&&e.col(C.props.yColumnName)&&(e.col(C.props.xColumnName).set(0,e.col(C.props.xColumnName).get(0)),e.col(C.props.yColumnName).set(0,e.col(C.props.yColumnName).get(0))),C}static async macromoleculePreprocessingFunction(e,t,n=1,i=.6,o="Morgan"){if(e.semType!==a.SEMTYPE.MACROMOLECULE)return{entries:e.toList(),options:{}};const{seqList:r,options:s}=await mt(e,t,o,n,i);return{entries:r,options:s}}static async helmPreprocessingFunction(e,t){e.version!==e.temp["last-invalidated-version"]&&await(0,pt.BQ)(e,To.seqHelper,!1);const n=e.temp["monomeric-mols"],i=await r.functions.call("Chem:getMorganFingerprints",{molColumn:n}),o=new Array(i.length).fill(null);for(let e=0;e<i.length;e++){if(i.isNone(e)||!i.get(e))continue;const t=i.get(e);o[e]=V.A.fromUint32Array(t.length,new Uint32Array(t.getBuffer().buffer))}return{entries:o,options:{}}}static async sequenceSpaceTopMenu(e,t,n,i,o,s,c,u,h){if(e.name!==r.shell.tv.dataFrame.name)return void r.shell.error(`Table ${e.name} is not a current table view`);const d=r.shell.tv.dataFrame==e?r.shell.tv:void 0;return(0,ni.V)(t,"Sequence Space")?(s||(s=a.Func.find({name:"macromoleculePreprocessingFunction",package:"Bio"})[0]),c??={},await Le(e,[t],n,[i],[1],[s],"MANHATTAN",o,u??!1,{...c,preprocessingFuncArgs:[c.preprocessingFuncArgs??{}]},{fastRowCount:1e4,scatterPlotName:"Sequence space",bypassLargeDataWarning:c?.[l.vb],tableView:d})):void 0}static async moleculesToHelmTopMenu(e,t){const n=To.monomerLib,i=JSON.stringify(n.toJSON());await fo.molToHelmConverterPy(e,t,i);const o=e.columns.toList().find(e=>e.name.toLowerCase().includes("regenerated sequence")&&e.semType!==a.SEMTYPE.MACROMOLECULE);o&&(o.meta.units=pe.Hi.HELM,o.semType=a.SEMTYPE.MACROMOLECULE,o.setTag("cell.renderer","helm"))}static async toAtomicLevel(e,t,n=!0,i=!1){const o=a.TaskBarProgressIndicator.create("Converting to atomic level ...");try{await Co;const o=t.temp[".mm.cellRenderer.overriddenLibrary"]??To.monomerLib,r=To.seqHelper,s=To.rdKitModule;await(0,Ci.V)(e,t,n,i,o,r,s)}finally{o.close()}}static async toAtomicLevelAction(e){if(!e?.dataFrame)throw new Error("Sequence column is not found or its data frame is not empty");const t=a.Func.find({name:"toAtomicLevel",package:"Bio"})[0];if(!t)throw new Error("To Atomic level Function not found");t.prepare({table:e.dataFrame,seqCol:e}).edit()}static async toAtomicLevelPanel(e){return async function(e){const t=await Zi(e);if(t.errorText||!t.mol)return a.Widget.fromRoot(s.divText(t.errorText??"No structure generated"));try{const e=a.SemanticValue.fromValueType(t.mol,a.SEMTYPE.MOLECULE),n=s.panels.infoPanel(e);let i=null;n&&(i=a.Widget.fromRoot(n.root));const o=r.chem.drawMolecule(t.mol,300,300,!1);return o.style.cursor="pointer",s.tooltip.bind(o,"Click to expand"),o.onclick=()=>{const e=window.innerWidth-200,n=window.innerHeight-200,i=r.chem.drawMolecule(t.mol,e,n,!1);s.dialog({title:"Molecule"}).add(i).showModal(!0)},i&&i.root.prepend(o),i??a.Widget.fromRoot(o)}catch(e){To.logger.error(e)}return a.Widget.fromRoot(s.divText("No structure generated"))}(e)}static async sequence3dStructureWidget(e){return async function(e){const t=a.TaskBarProgressIndicator.create("Creating 3D view");let n,i="";try{await(a.Func.find({name:"getPdbHelper"})[0]?.apply({}));try{const o=await Zi(e);if(o.errorText||!o.mol)return n=s.divText(o.errorText??"No structure generated"),t.close(),new a.Widget(n);const l=o.mol;i=await r.functions.call("Bio:Embed",{molecule:l});const c=Mi.Molecule.fromMolfile(i);c?i=c.toMolfile():console.warn("Failed to convert molv3 to molv2")}catch(e){console.warn(e)}try{i=i.replaceAll("\\n","\n");const e=new Blob([i],{type:"text/plain"}),t=s.div([],{classes:"d4-ngl-viewer",id:"ngl-3d-host"});t.style.setProperty("height","100%","important");const o=new NGL.Stage(t,{backgroundColor:"white"});o.loadFile(e,{ext:"sdf"}).then(function(e){o.setSize(300,300),e.addRepresentation("ball+stick"),e.autoView()}),n=s.div([t],{style:{aspectRatio:"1"}})}catch(e){n=s.divText("Couldn't get 3D structure")}}catch(e){n=s.divText("Couldn't get 3D structure")}return t.close(),new a.Widget(n)}(e)}static multipleSequenceAlignmentDialog(){(0,oi.D)({},To.seqHelper).catch(e=>{const[t,n]=(0,Ce.AP)(e);if(e instanceof ii.Ap)return r.shell.warning(e.element),void To.logger.warning(t);r.shell.error(t),To.logger.error(t,void 0,n)})}static async alignSequences(e=null,t=null,n){return(0,oi.D)({col:e,clustersCol:t,...n},To.seqHelper)}static async compositionAnalysis(){const e=r.shell.tv,t=e.dataFrame.columns.toList().filter(e=>e.semType==a.SEMTYPE.MACROMOLECULE&&(To.seqHelper.getSeqHandler(e),!0)),n=async t=>{if(!(0,ni.V)(t,"Composition"))return;const n=e.addViewer("WebLogo",{sequenceColumnName:t.name});r.shell.tv.dockManager.dock(n,a.DOCK_TYPE.DOWN,null,"Composition analysis",.25)};let i=null;if(0!=t.length){if(t.length>1){const e=t.map(e=>e.name),i=t.find(e=>To.seqHelper.getSeqHandler(e).isMsa()),o=s.input.choice("Column",{value:i?i.name:e[0],items:e});s.dialog({title:"Composition Analysis",helpUrl:"https://datagrok.ai/help/datagrok/solutions/domains/bio/#sequence-composition"}).add(s.div([o])).onOK(async()=>{const e=t.find(e=>e.name==o.value)??null;e&&await n(e)}).show()}else i=t[0];i&&await n(i)}else r.shell.error("Current table does not contain sequences")}static importFasta(e){return new ge.m(e).importFasta()}static importBam(e){return console.log(e),[]}static convertDialog(){const e=(0,He.me)()[0];(0,Pt.C)(e,To.seqHelper)}static convertColumnAction(e){(0,Pt.C)(e,To.seqHelper)}static monomerCellRenderer(){return new ui}static async testDetectMacromolecule(e){const t=a.TaskBarProgressIndicator.create("Test detectMacromolecule..."),n=(await r.dapi.files.list(e,!0,"")).filter(e=>e.fileName.endsWith(".csv"));let i=0;const o=[];for(const s of n)try{const t=await r.dapi.files.readAsText(e+s.fullPath),n=a.DataFrame.fromCsv(t);for(const e of n.columns)await r.functions.call("Bio:detectMacromolecule",{col:e})===a.SEMTYPE.MACROMOLECULE&&o.push({file:s.path,result:"detected",column:e.name,message:`units: ${e.meta.units}`})}catch(e){o.push({file:s.path,result:"error",column:null,message:e instanceof Error?e.message:e.toString()})}finally{i+=1,t.update(100*i/n.length,`Test ${s.fileName}`)}r.shell.info("Test Demo:Files for detectMacromolecule finished."),t.close();const s=a.DataFrame.fromObjects(o);return s.name=`datasets_detectMacromolecule_${e}`,s}static async splitToMonomersTopMenu(e,t){return await async function(e,t){if(await(0,et.cb)(10),!(0,ni.V)(t,"Sequence space"))return e;const n=ye(t,To.seqHelper);n.name="splitToMonomers";const i=t.dataFrame;for(const e of n.columns)e.semType=qe.uF.MONOMER,e.setTag(we.gp.alphabet,t.getTag(we.gp.alphabet));const o=/(\d+)(?: \((\d+)\))?/,s=e=>{o.lastIndex=0;const t=e.match(o);return t?`${t[1]} (${parseInt(t[2]??"0")+1})`:e};for(let e=0;e<n.columns.length;e++){const o=n.columns.byIndex(e);o.semType=qe.uF.MONOMER,o.setTag(we.gp.alphabet,t.getTag(we.gp.alphabet));const r=100;let a=0;for(;i.columns.byName(o.name)&&a<r;)o.name=s(o.name),a++;i.columns.add(o)}await r.data.detectSemanticTypes(i);for(let e=0;e<n.columns.length;e++){const t=n.columns.byIndex(e);t.setTag(a.TAGS.CELL_RENDERER,"Monomer"),t.setTag(".use-as-filter","false")}return i}(e,t)}static getHelmMonomers(e){return To.seqHelper.getSeqMonomers(e)}static similaritySearchViewer(){return new Et(To.seqHelper)}static similaritySearchTopMenu(){const e=r.shell.v,t=e.addViewer("Sequence Similarity Search");e.dockManager.dock(t,"down")}static diversitySearchViewer(){return new St(To.seqHelper)}static diversitySearchTopMenu(){const e=r.shell.v,t=e.addViewer("Sequence Diversity Search");e.dockManager.dock(t,"down")}static searchSubsequenceEditor(e){const t=(0,He.me)();1===t.length?e.func.prepare({macromolecules:t[0]}).call(!0):new pt.a7(t,To.seqHelper)}static SubsequenceSearchTopMenu(e){r.shell.tv.getFiltersGroup({createDefaultFilters:!1}).updateOrAdd({type:"Bio:bioSubstructureFilter",column:e.name,columnName:e.name}),r.shell.tv.grid.scrollToCell(e,0)}static async sequenceIdentityScoring(e,t,n){const i=To.seqHelper;return Ai(e,t,n,be.IDENTITY,i)}static async sequenceSimilarityScoring(e,t,n){const i=To.seqHelper;return Ai(e,t,n,be.SIMILARITY,i)}static async manageMonomerLibraries(){Yn()}static async manageLibrariesView(){await jn()}static async manageMonomersView(){const e=await on.getInstance();await e.getViewRoot()}static async manageMonomerLibrariesView(){return await jn(!1)}static async manageMonomerLibrariesViewTreeBrowser(e){(await(await kn.getInstance()).getAvaliableLibraryNames()).forEach(t=>{const n=t.endsWith(".json")?t.substring(0,t.length-5):t;e.item(n).onSelected.subscribe(async()=>{const e=await on.getInstance();await e.getViewRoot(t,!0),e.resetCurrentRowFollowing()})})}static saveAsFasta(){(0,_t.TE)()}static bioSubstructureFilter(){return new It._i(To.seqHelper,To.logger)}static bioSubstructureFilterTest(){return new It._i(To.seqHelper,To.logger)}static async webLogoLargeApp(){const e=a.TaskBarProgressIndicator.create("WebLogo");try{const e=new URLSearchParams(window.location.search),t=new ri(e,"webLogoLargeApp"),n=await To.files.readCsv("data/sample_PT_100000x5.csv");await r.data.detectSemanticTypes(n),await t.init(n)}finally{e.close()}}static async webLogoAggApp(){const e=a.TaskBarProgressIndicator.create("WebLogo ...");try{const e=new URLSearchParams(window.location.search),t=new ri(e,"webLogoAggApp"),n=await To.files.readCsv("samples/FASTA_PT_activity.csv");await r.data.detectSemanticTypes(n),await t.init(n)}finally{e.close()}}static async getRegionApp(){const e=a.TaskBarProgressIndicator.create("getRegion ...");try{const e=new URLSearchParams(window.location.search),t=new vi(e,"getRegionApp");await t.init()}finally{e.close()}}static async getRegionHelmApp(){const e=a.TaskBarProgressIndicator.create("getRegion ...");try{const e=new URLSearchParams(window.location.search),t=await To.files.readCsv("samples/HELM_empty_vals.csv"),n=new vi(e,"getRegionHelmApp");await n.init({df:t,colName:"HELM"})}finally{e.close()}}static longSeqTableSeparator(){const e=a.DataFrame.fromColumns((0,xe.dW)());r.shell.addTableView(e)}static longSeqTableFasta(){const e=a.DataFrame.fromColumns([(0,xe.Hx)(To.seqHelper,pe.Hi.FASTA)]);r.shell.addTableView(e)}static longSeqTableHelm(){const e=a.DataFrame.fromColumns([(0,xe.Hx)(To.seqHelper,pe.Hi.HELM)]);r.shell.addTableView(e)}static addCopyMenu(e,t){!function(e,t,n){const i=Object.values(pe.Hi).filter(e=>e!==pe.Hi.CUSTOM);t.group("Copy").items(i,t=>{const i=e.column,o=e.rowIndex,s=n.getSeqHandler(i),a=t===pe.Hi.SEPARATOR?To.properties.defaultSeparator??"-":void 0,l=s.getJoiner({notation:t,separator:a})(s.getSplitted(o));navigator.clipboard?(navigator.clipboard.writeText(l),r.shell.info(`Value of notation '${t}' copied to clipboard`)):r.shell.warning("The clipboard functionality requires a secure origin — either HTTPS or localhost")})}(e,t,To.seqHelper)}static async demoBioSimilarityDiversity(){await async function(){const e=await To.files.readCsv("samples/peptides-non-natural.csv");e.name="Similarity and Diversity Demo",e.col("activity").setTag("format","3 significant digits"),e.col("sequence").temp[".mm.cellRenderer.maxMonomerLength"]=4;const t=r.shell.addTableView(e);await e.meta.detectSemanticTypes(),await r.data.detectSemanticTypes(e);const n=t.addViewer("Sequence Similarity Search",{limit:20}),i=t.dockManager.dock(n,a.DOCK_TYPE.RIGHT,null,"Similarity search",.45);(0,He.Kd)(t.grid,"sequence",500,30);const o=t.addViewer("Sequence Diversity Search",{limit:20});t.dockManager.dock(o,a.DOCK_TYPE.DOWN,i,"Diversity search",.4),r.functions.call("Dendrogram:HierarchicalClustering",{df:r.shell.t,colNameList:["sequence"],distance:"euclidian",linkage:"complete"})}()}static async demoBioSequenceSpace(){await async function(){const e=await r.functions.eval("Bio:SeqSpaceDemo"),t=await r.dapi.projects.find(e.id);await t.open(),r.shell.windows.help.showHelp("/help/datagrok/solutions/domains/bio/bio.md#sequence-space")}()}static async demoBioActivityCliffs(){await async function(){const e=await To.files.readCsv("tests/helm_cyclic_cliffs.csv");e.name="Activity Cliffs Demo",await r.data.detectSemanticTypes(e),await e.meta.detectSemanticTypes();const t=r.shell.addTableView(e);s.setUpdateIndicator(t.root,!0);try{const n=a.Func.find({name:"macromoleculePreprocessingFunction",package:"Bio"})[0],i=await Ao.activityCliffs(e,e.getCol("Sequence"),e.getCol("Activity"),96,c.c.UMAP,me.Z.MONOMER_CHEMICAL_DISTANCE,n,{},!0);t.dockManager.dock(i,a.DOCK_TYPE.RIGHT,null,"Activity Cliffs",.65),await a.delay(100),Gn()(i.root).find("button.scatter_plot_link,cliffs_grid").get()[0].click(),await a.delay(100),t.grid.props.rowHeight=180,t.grid.col("sequence")&&(t.grid.col("sequence").width=300),t.grid.col("structure")&&(t.grid.col("structure").width=300);const o=Array.from(t.viewers).find(e=>e!==t.grid&&e.type===a.VIEWER.GRID);o&&(o.props.rowHeight=40,o.col("seq_diff").width=600,t.dockManager.dock(o,a.DOCK_TYPE.DOWN,null,"Cliffs",.35),t.dockManager.dock(i,a.DOCK_TYPE.RIGHT,null,"Activity Cliffs",.55))}catch(e){!function(e){const t=e instanceof Error?e.message:e.toString(),n=e instanceof Error?e.stack:void 0;r.shell.error(t),To.logger.error(e.message,void 0,n)}(e)}finally{s.setUpdateIndicator(t.root,!1)}r.shell.windows.help.showHelp("/help/datagrok/solutions/domains/bio/bio.md#activity-cliffs")}()}static async demoBioAtomicLevel(){await async function(){const e=await To.files.readCsv("samples/HELM_BI_CYCLIC.csv");e.name="To Atomic Level",await e.meta.detectSemanticTypes(),await r.data.detectSemanticTypes(e);const t=r.shell.addTableView(e),n=e.col("HELM");await Ao.toAtomicLevel(e,n,!0,!1),(0,He.Kd)(t.grid,"molfile(HELM)",500,300,!0),(0,He.Kd)(t.grid,"HELM",500,void 0,!0),r.shell.info("Hover over monomers in HELM column to highlight them in molecular structure.",{timeout:10}),r.shell.windows.help.showHelp("/help/datagrok/solutions/domains/bio/bio.md#convert-to-atomic-level")}()}static async sdfToJsonLib(e){const t=function(e){const t=[];for(let n=0;n<e.rowCount;n++){const i={};Object.keys(fe.Ec).forEach(t=>{if("symbol"===t){const o=e.get(fe.Ec[t],n);i[t]="."===o?e.get(fe.yw,n):o}else if("rgroups"===t){const o=e.get(fe.Ec[t],n).split("\n"),r=[];o.forEach(e=>{const t={},n=e.substring(e.lastIndexOf("]")+1),i=e.match(/\[R(\d+)\]/)[1];t.capGroupSmiles="H"===n?`[*:${i}][H]`:`O[*:${i}]`,t.alternateId="H"===n?`R${i}-H`:`R${i}-OH`,t.capGroupName="H"===n?"H":"OH",t.label=`R${i}`,r.push(t)}),i[t]=r}else fe.Ec[t]&&(i[t]=e.get(fe.Ec[t],n))}),i.author??(i.author=""),i.id??(i.id=0),i.smiles??(i.smiles=""),i.monomerType??(i.monomerType="Backbone"),i.createDate??(i.createDate=null),t.push(i)}return t}(e),n=JSON.stringify(t);a.Utils.download(`${e.name}.json`,n)}static async seq2atomic(e,t){if(!e.trim())return"";try{const n=a.Column.fromList(a.COLUMN_TYPE.STRING,"helm",[e]),i=a.DataFrame.fromColumns([n]),o=await r.functions.call("Bio:detectMacromolecule",{col:n});o&&(n.semType=o);const s=(await Ao.getMonomerLibHelper()).getMonomerLib(),l=To.seqHelper,c=await(0,Re.j)(),u=(await(0,Ci.V)(i,n,t,!1,s,l,c))?.molCol?.get(0);return u??void 0}catch(e){const[t,n]=(0,Ce.AP)(e);throw To.logger.error(t,void 0,n),e}}static async seqIdentity(e,t){if(!e.trim())return null;try{const n=a.Column.fromList(a.COLUMN_TYPE.STRING,"seq",[e]),i=a.DataFrame.fromColumns([n]);if(!await r.functions.call("Bio:detectMacromolecule",{col:n}))throw new Error("Macromolecule required");return(await Ai(i,n,t,be.IDENTITY,To.seqHelper)).get(0)}catch(e){const[t,n]=(0,Ce.AP)(e);throw To.logger.error(t,void 0,n),e}}static async detectMacromoleculeProbe(e,t="",n=100){const i=await e.readAsString();await async function(e,t,n){const i=a.TaskBarProgressIndicator.create("detectMacromolecule probe ...");try{let o=0;const s=await r.functions.call("Bio:detectMacromoleculeEnableStore");let l=0;for(let c=0;c<n;++c){const u=a.DataFrame.fromCsv(e),h=t?u.getCol(t):u.columns.byIndex(0);await r.functions.call("Bio:detectMacromolecule",{col:h})!==a.SEMTYPE.MACROMOLECULE&&(++l,console.warn(`Reject reason: ${s.last.rejectReason}`));const d=c/n;d-o>=.1&&(o=d,i.update(100*d,`detectMacromolecule probe ${l}/${c}/${n} ...`),await(0,et.cb)(0))}l>0?r.shell.warning(`detectMacromolecule failed ${l} / ${n}`):r.shell.info(`detectMacromolecule success ${n}`)}finally{i.close()}}(i,t,n)}static async getSeqHelper(){return await Ao.initBio(),To.seqHelper}static async getMolFromHelm(e,t,n=!0){return async function(e,t,n=!0,i){const o=To.seqHelper,r=(await o.getHelmToMolfileConverter(i)).convertToRdKitBeautifiedMolfileColumn(t,n,To.rdKitModule,i);return r.semType=a.SEMTYPE.MOLECULE,r}(0,t,n,To.monomerLib)}}bo([r.decorators.func({description:"Returns an instance of the monomer library helper",outputs:[{type:"object",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getMonomerLibHelper",null),bo([r.decorators.init({}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"initBio",null),bo([r.decorators.func({tags:["tooltip"]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",a.Widget)],Ao,"sequenceTooltip",null),bo([r.decorators.func({}),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Promise)],Ao,"standardiseMonomerLibrary",null),bo([r.decorators.func({"top-menu":"Bio | Manage | Match with Monomer Library...",description:"Matches molecules in a column with monomers from the selected library(s)"}),vo(1,r.decorators.param({type:"column",options:{semType:"Molecule"}})),vo(2,r.decorators.param({type:"string",options:{choices:["PEPTIDE","RNA","CHEM"],initialValue:"PEPTIDE",caption:"Polymer Type"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String]),wo("design:returntype",Promise)],Ao,"matchWithMonomerLibrary",null),bo([r.decorators.func({outputs:[{type:"object",name:"monomerLib"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Object)],Ao,"getBioLib",null),bo([r.decorators.func({outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Object)],Ao,"getSeqHandler",null),bo([r.decorators.panel({name:"Bioinformatics | Get Region",description:"Creates a new column with sequences of the region between start and end"}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",a.Widget)],Ao,"getRegionPanel",null),bo([r.decorators.panel({name:"Bioinformatics | Manage Monomer Libraries",tags:["exclude-actions-panel"]}),vo(0,r.decorators.param({name:"seqColumn",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Promise)],Ao,"libraryPanel",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"GetRegionEditor",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"SplitToMonomersEditor",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"SequenceSpaceEditor",null),bo([r.decorators.editor({}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"SeqActivityCliffsEditor",null),bo([r.decorators.func({name:"customSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=custom"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",a.GridCellRenderer)],Ao,"customSequenceCellRenderer",null),bo([r.decorators.func({name:"fastaSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=fasta"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ke)],Ao,"fastaSequenceCellRenderer",null),bo([r.decorators.func({name:"separatorSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=separator"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ke)],Ao,"separatorSequenceCellRenderer",null),bo([r.decorators.func({name:"bilnSequenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"sequence",columnTags:"quality=Macromolecule, units=biln"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ke)],Ao,"bilnSequenceCellRenderer",null),bo([r.decorators.func({name:"refineNotationProviderForBiln",tags:["notationRefiner"],outputs:[{type:"bool",name:"result"}]}),vo(0,r.decorators.param({type:"column"})),vo(1,r.decorators.param({type:"object"})),vo(2,r.decorators.param({type:"string",options:{nullable:!0,optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.Column,Object,Object]),wo("design:returntype",Boolean)],Ao,"refineNotationProviderForBiln",null),bo([r.decorators.panel({name:"Bioinformatics | Sequence Renderer"}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",a.Widget)],Ao,"macroMolColumnPropertyPanel",null),bo([r.decorators.panel({name:"Composition analysis",tags:["bio","widgets"]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.SemanticValue]),wo("design:returntype",a.Widget)],Ao,"compositionAnalysisWidget",null),bo([r.decorators.func({name:"MacromoleculeDifferenceCellRenderer",tags:["cellRenderer"],meta:{cellType:"MacromoleculeDifference",columnTags:"quality=MacromoleculeDifference"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Ze)],Ao,"macromoleculeDifferenceCellRenderer",null),bo([r.decorators.func({outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({options:{choices:["Local alignment","Global alignment"]}})),vo(1,r.decorators.param({options:{choices:["AUTO","NUCLEOTIDES","BLOSUM45","BLOSUM50","BLOSUM62","BLOSUM80","BLOSUM90","PAM30","PAM70","PAM250","SCHNEIDER","TRANS"]}})),wo("design:type",Function),wo("design:paramtypes",[String,String,Number,String,String]),wo("design:returntype",void 0)],Ao,"sequenceAlignment",null),bo([r.decorators.panel({name:"WebLogo",description:"WebLogo",tags:["viewer"],meta:{icon:"files/icons/weblogo-viewer.svg"},outputs:[{type:"viewer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"webLogoViewer",null),bo([r.decorators.panel({name:"VdRegions",description:"V-Domain regions viewer",tags:["viewer"],meta:{icon:"files/icons/vdregions-viewer.svg"},outputs:[{type:"viewer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"vdRegionsViewer",null),bo([r.decorators.func({name:"getRegion",description:"Gets a new column with sequences of the region between start and end"}),vo(0,r.decorators.param({type:"column"})),vo(1,r.decorators.param({type:"string",options:{optional:!0}})),vo(2,r.decorators.param({type:"string",options:{optional:!0}})),vo(3,r.decorators.param({type:"string",options:{optional:!0,description:"Name of the column to be created"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column,Object,Object,Object]),wo("design:returntype",a.Column)],Ao,"getRegion",null),bo([r.decorators.func({name:"Get Region Top Menu",description:"Get sequences for a region specified from a Macromolecule","top-menu":"Bio | Calculate | Get Region...",editor:"Bio:GetRegionEditor"}),vo(0,r.decorators.param({options:{description:"Input data table"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",description:"Sequence column"}})),vo(2,r.decorators.param({type:"string",options:{optional:!0,description:"Region start position name"}})),vo(3,r.decorators.param({type:"string",options:{optional:!0,description:"Region end position name"}})),vo(4,r.decorators.param({type:"string",options:{optional:!0,description:"Region column name"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,Object,Object,Object]),wo("design:returntype",Promise)],Ao,"getRegionTopMenu",null),bo([r.decorators.func({name:"Sequence Activity Cliffs",description:"Detects pairs of molecules with similar structure and significant difference in any given property","top-menu":"Bio | Analyze | Activity Cliffs...",editor:"Bio:SeqActivityCliffsEditor",outputs:[]}),vo(0,r.decorators.param({options:{description:"Input data table"}})),vo(1,r.decorators.param({type:"string",options:{semType:"Macromolecule",description:"Input data table"}})),vo(3,r.decorators.param({options:{initialValue:"80",description:"Similarity cutoff"}})),vo(4,r.decorators.param({type:"string",options:{choices:["UMAP","t-SNE"]}})),vo(5,r.decorators.param({type:"string",options:{choices:["Hamming","Levenshtein","Monomer chemical distance"]}})),vo(6,r.decorators.param({type:"func"})),vo(7,r.decorators.param({type:"object",options:{optional:!0}})),vo(8,r.decorators.param({options:{optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,a.Column,Number,String,String,a.Func,Object,Boolean]),wo("design:returntype",Promise)],Ao,"activityCliffs",null),bo([r.decorators.func({name:"Encode Sequences",tags:["dim-red-preprocessing-function"],meta:{supportedSemTypes:"Macromolecule",supportedTypes:"string",supportedDistanceFunctions:"Hamming,Levenshtein,Monomer chemical distance,Needlemann-Wunsch"},outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({type:"string"})),vo(2,r.decorators.param({options:{initialValue:"1",caption:"Gap open penalty",optional:!0}})),vo(3,r.decorators.param({options:{initialValue:"0.6",caption:"Gap extension penalty",optional:!0}})),vo(4,r.decorators.param({options:{caption:"Fingerprint type",initialValue:"Morgan",choices:["Morgan","RDKit","Pattern","AtomPair","MACCS","TopologicalTorsion"],optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.Column,String,Number,Number,String]),wo("design:returntype",Promise)],Ao,"macromoleculePreprocessingFunction",null),bo([r.decorators.func({name:"Helm Fingerprints",meta:{supportedSemTypes:"Macromolecule",supportedTypes:"string",supportedUnits:"helm",supportedDistanceFunctions:"Tanimoto,Asymmetric,Cosine,Sokal"},outputs:[{type:"object",name:"result"}]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({type:"string"})),wo("design:type",Function),wo("design:paramtypes",[a.Column,String]),wo("design:returntype",Promise)],Ao,"helmPreprocessingFunction",null),bo([r.decorators.func({name:"Sequence Space",description:"Creates 2D sequence space with projected sequences by pairwise distance","top-menu":"Bio | Analyze | Sequence Space...",editor:"Bio:SequenceSpaceEditor",outputs:[]}),vo(1,r.decorators.param({options:{semType:"Macromolecule"}})),vo(2,r.decorators.param({type:"string",options:{choices:["UMAP","t-SNE"]}})),vo(3,r.decorators.param({type:"string",options:{choices:["Hamming","Levenshtein","Monomer chemical distance"]}})),vo(4,r.decorators.param({options:{initialValue:"true"}})),vo(5,r.decorators.param({type:"func",options:{optional:!0}})),vo(6,r.decorators.param({type:"object",options:{optional:!0}})),vo(7,r.decorators.param({options:{optional:!0,initialValue:"true"}})),vo(8,r.decorators.param({options:{optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String,String,Boolean,a.Func,Object,Boolean,Boolean]),wo("design:returntype",Promise)],Ao,"sequenceSpaceTopMenu",null),bo([r.decorators.func({name:"Molecules to HELM","top-menu":"Bio | Transform | Molecules to HELM...",description:"Converts Peptide molecules to HELM notation by matching with monomer library"}),vo(0,r.decorators.param({name:"table",options:{description:"Input data table"}})),vo(1,r.decorators.param({name:"molecules",options:{semType:"Molecule",description:"Molecule column"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column]),wo("design:returntype",Promise)],Ao,"moleculesToHelmTopMenu",null),bo([r.decorators.func({name:"To Atomic Level",description:"Converts sequences to molblocks","top-menu":"Bio | Transform | To Atomic Level..."}),vo(0,r.decorators.param({options:{description:"Input data table"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",caption:"Sequence"}})),vo(2,r.decorators.param({options:{initialValue:"true",caption:"Non-linear",description:"Slower mode for cycling/branching HELM structures"}})),vo(3,r.decorators.param({options:{initialValue:"false",caption:"Highlight monomers",description:"Highlight monomers' substructures of the molecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,Boolean,Boolean]),wo("design:returntype",Promise)],Ao,"toAtomicLevel",null),bo([r.decorators.func({name:"To Atomic Level...",meta:{action:"to atomic level"}}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Promise)],Ao,"toAtomicLevelAction",null),bo([r.decorators.panel({name:"Molecular Structure",tags:["bio","widgets"]}),vo(0,r.decorators.param({name:"sequence",type:"semantic_value",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.SemanticValue]),wo("design:returntype",Promise)],Ao,"toAtomicLevelPanel",null),bo([r.decorators.panel({name:"Molecular 3D Structure",tags:["bio","widgets"]}),vo(0,r.decorators.param({type:"semantic_value",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.SemanticValue]),wo("design:returntype",Promise)],Ao,"sequence3dStructureWidget",null),bo([r.decorators.panel({name:"MSA",description:"Performs multiple sequence alignment",tags:["bio"],"top-menu":"Bio | Analyze | MSA..."}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"multipleSequenceAlignmentDialog",null),bo([r.decorators.func({name:"Multiple Sequence Alignment",description:"Multiple sequence alignment",tags:["bio"]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({type:"column"})),vo(2,r.decorators.param({type:"object",options:{optional:!0}})),wo("design:type",Function),wo("design:paramtypes",[Object,Object,Object]),wo("design:returntype",Promise)],Ao,"alignSequences",null),bo([r.decorators.func({name:"Composition Analysis",description:"Visualizes sequence composition on a WebLogo plot","top-menu":"Bio | Analyze | Composition",meta:{icon:"files/icons/composition-analysis.svg"},outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"compositionAnalysis",null),bo([r.decorators.fileHandler({name:"importFasta",description:"Opens FASTA file",ext:"fasta, fna, ffn, faa, frn, fa, fst"}),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Array)],Ao,"importFasta",null),bo([r.decorators.fileHandler({name:"importBam",description:"Opens Bam file",ext:"bam, bai"}),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Array)],Ao,"importBam",null),bo([r.decorators.func({name:"convertDialog","top-menu":"Bio | Transform | Convert Sequence Notation..."}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"convertDialog",null),bo([r.decorators.func({name:"Convert Notation...",meta:{action:"Convert Notation..."}}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",void 0)],Ao,"convertColumnAction",null),bo([r.decorators.func({name:"monomerCellRenderer",tags:["cellRenderer"],meta:{cellType:"Monomer",columnTags:"quality=Monomer"},outputs:[{type:"grid_cell_renderer",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",ui)],Ao,"monomerCellRenderer",null),bo([r.decorators.func({name:"testDetectMacromolecule"}),vo(0,r.decorators.param({options:{choices:["Demo:Files/","System:AppData/"]}})),wo("design:type",Function),wo("design:paramtypes",[String]),wo("design:returntype",Promise)],Ao,"testDetectMacromolecule",null),bo([r.decorators.func({name:"Split to Monomers","top-menu":"Bio | Transform | Split to Monomers...",editor:"Bio:SplitToMonomersEditor"}),vo(1,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column]),wo("design:returntype",Promise)],Ao,"splitToMonomersTopMenu",null),bo([r.decorators.func({name:"Bio: getHelmMonomers",outputs:[{name:"result",type:"object"}]}),vo(0,r.decorators.param({type:"column",options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",Array)],Ao,"getHelmMonomers",null),bo([r.decorators.func({name:"Sequence Similarity Search",tags:["viewer"],meta:{icon:"files/icons/sequence-similarity-viewer.svg"},outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Et)],Ao,"similaritySearchViewer",null),bo([r.decorators.func({name:"similaritySearch",description:"Finds similar sequences","top-menu":"Bio | Search | Similarity Search",outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"similaritySearchTopMenu",null),bo([r.decorators.func({name:"Sequence Diversity Search",tags:["viewer"],meta:{icon:"files/icons/sequence-diversity-viewer.svg"},outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",St)],Ao,"diversitySearchViewer",null),bo([r.decorators.func({name:"diversitySearch",description:"Finds the most diverse sequences","top-menu":"Bio | Search | Diversity Search",outputs:[{name:"result",type:"viewer"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"diversitySearchTopMenu",null),bo([r.decorators.editor({name:"SearchSubsequenceEditor"}),wo("design:type",Function),wo("design:paramtypes",[a.FuncCall]),wo("design:returntype",void 0)],Ao,"searchSubsequenceEditor",null),bo([r.decorators.func({name:"Subsequence Search","top-menu":"Bio | Search | Subsequence Search ...",editor:"Bio:SearchSubsequenceEditor"}),wo("design:type",Function),wo("design:paramtypes",[a.Column]),wo("design:returntype",void 0)],Ao,"SubsequenceSearchTopMenu",null),bo([r.decorators.func({name:"Identity",description:"Adds a column with fraction of matching monomers","top-menu":"Bio | Calculate | Identity..."}),vo(0,r.decorators.param({options:{description:"Table containing Macromolecule column"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",description:"Sequences to score"}})),vo(2,r.decorators.param({options:{description:"Sequence,matching column format"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String]),wo("design:returntype",Promise)],Ao,"sequenceIdentityScoring",null),bo([r.decorators.func({name:"Similarity",description:"Adds a column with similarity scores, calculated as sum of monomer fingerprint similarities","top-menu":"Bio | Calculate | Similarity..."}),vo(0,r.decorators.param({options:{description:"Table containing Macromolecule column"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule",description:"Sequences to score"}})),vo(2,r.decorators.param({options:{description:"Sequence,matching column format"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,String]),wo("design:returntype",Promise)],Ao,"sequenceSimilarityScoring",null),bo([r.decorators.func({name:"Manage Monomer Libraries",description:"Manage HELM monomer libraries"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageMonomerLibraries",null),bo([r.decorators.func({name:"Manage Monomer Libraries View","top-menu":"Bio | Manage | Monomer Libraries"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageLibrariesView",null),bo([r.decorators.func({name:"manageMonomersView",description:"Edit and create monomers","top-menu":"Bio | Manage | Monomers"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageMonomersView",null),bo([r.decorators.app({name:"Manage Monomer Libraries",browsePath:"Peptides",icon:"files/icons/monomers.png"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"manageMonomerLibrariesView",null),bo([r.decorators.func({name:"Monomer Manager Tree Browser",meta:{role:"appTreeBrowser"}}),wo("design:type",Function),wo("design:paramtypes",[a.TreeViewGroup]),wo("design:returntype",Promise)],Ao,"manageMonomerLibrariesViewTreeBrowser",null),bo([r.decorators.fileExporter({description:"As FASTA..."}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"saveAsFasta",null),bo([r.decorators.func({name:"Bio Substructure Filter",description:"Substructure filter for macromolecules",tags:["filter"],meta:{semType:"Macromolecule"},outputs:[{type:"filter",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",It._i)],Ao,"bioSubstructureFilter",null),bo([r.decorators.func({name:"Bio Substructure Filter Test",description:"Substructure filter for Helm package tests",outputs:[{name:"result",type:"object"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",It._i)],Ao,"bioSubstructureFilterTest",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"webLogoLargeApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"webLogoAggApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getRegionApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getRegionHelmApp",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"longSeqTableSeparator",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"longSeqTableFasta",null),bo([r.decorators.func(),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",void 0)],Ao,"longSeqTableHelm",null),bo([r.decorators.func(),vo(0,r.decorators.param({type:"object"})),vo(1,r.decorators.param({type:"object"})),wo("design:type",Function),wo("design:paramtypes",[a.Cell,a.Menu]),wo("design:returntype",void 0)],Ao,"addCopyMenu",null),bo([r.decorators.demo({description:"Sequence similarity tracking and evaluation dataset diversity",demoPath:"Bioinformatics | Similarity, Diversity",path:"/apps/Tutorials/Demo/Bioinformatics/Similarity,%20Diversity"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioSimilarityDiversity",null),bo([r.decorators.demo({description:"Exploring sequence space of Macromolecules, comparison with hierarchical clustering results",demoPath:"Bioinformatics | Sequence Space",path:"/apps/Tutorials/Demo/Bioinformatics/Sequence%20Space",meta:{isDemoDashboard:"true"}}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioSequenceSpace",null),bo([r.decorators.demo({description:"Activity Cliffs analysis on Macromolecules data",demoPath:"Bioinformatics | Activity Cliffs",path:"/apps/Tutorials/Demo/Bioinformatics/Activity%20Cliffs"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioActivityCliffs",null),bo([r.decorators.demo({description:"Atomic level structure of Macromolecules",demoPath:"Bioinformatics | Atomic Level",path:"/apps/Tutorials/Demo/Bioinformatics/Atomic%20Level"}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"demoBioAtomicLevel",null),bo([r.decorators.func({name:"SDF to JSON Library"}),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame]),wo("design:returntype",Promise)],Ao,"sdfToJsonLib",null),bo([r.decorators.func({friendlyName:"seq2atomic",description:"Converts a `Macromolecule` sequence to its atomic level `Molecule` representation",outputs:[{name:"molfile",type:"string",options:{semType:"Molecule"}}]}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[String,Boolean]),wo("design:returntype",Promise)],Ao,"seq2atomic",null),bo([r.decorators.func({name:"seqIdentity",friendlyName:"seqIdentity",description:"Gets identity to a reference sequence"}),vo(0,r.decorators.param({options:{semType:"Macromolecule"}})),vo(1,r.decorators.param({options:{semType:"Macromolecule"}})),wo("design:type",Function),wo("design:paramtypes",[String,String]),wo("design:returntype",Promise)],Ao,"seqIdentity",null),bo([r.decorators.func(),vo(2,r.decorators.param({options:{initialValue:"100"}})),wo("design:type",Function),wo("design:paramtypes",[a.FileInfo,String,Number]),wo("design:returntype",Promise)],Ao,"detectMacromoleculeProbe",null),bo([r.decorators.func({outputs:[{type:"object",name:"result"}]}),wo("design:type",Function),wo("design:paramtypes",[]),wo("design:returntype",Promise)],Ao,"getSeqHelper",null),bo([r.decorators.func(),vo(1,r.decorators.param({type:"column"})),vo(2,r.decorators.param({options:{initialValue:"true"}})),wo("design:type",Function),wo("design:paramtypes",[a.DataFrame,a.Column,Boolean]),wo("design:returntype",Promise)],Ao,"getMolFromHelm",null)},7216:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/applicator","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/applicator":true},"$dynamicAnchor":"meta","title":"Applicator vocabulary meta-schema","type":["object","boolean"],"properties":{"prefixItems":{"$ref":"#/$defs/schemaArray"},"items":{"$dynamicRef":"#meta"},"contains":{"$dynamicRef":"#meta"},"additionalProperties":{"$dynamicRef":"#meta"},"properties":{"type":"object","additionalProperties":{"$dynamicRef":"#meta"},"default":{}},"patternProperties":{"type":"object","additionalProperties":{"$dynamicRef":"#meta"},"propertyNames":{"format":"regex"},"default":{}},"dependentSchemas":{"type":"object","additionalProperties":{"$dynamicRef":"#meta"},"default":{}},"propertyNames":{"$dynamicRef":"#meta"},"if":{"$dynamicRef":"#meta"},"then":{"$dynamicRef":"#meta"},"else":{"$dynamicRef":"#meta"},"allOf":{"$ref":"#/$defs/schemaArray"},"anyOf":{"$ref":"#/$defs/schemaArray"},"oneOf":{"$ref":"#/$defs/schemaArray"},"not":{"$dynamicRef":"#meta"}},"$defs":{"schemaArray":{"type":"array","minItems":1,"items":{"$dynamicRef":"#meta"}}}}')},7278:(e,t,n)=>{"use strict";n.d(t,{Iv:()=>S,J9:()=>v,MD:()=>$,Mu:()=>g,Qf:()=>_,SM:()=>N,bR:()=>E,dh:()=>C,mn:()=>R,nq:()=>I,p0:()=>x,pc:()=>L,qp:()=>A,tm:()=>T,vZ:()=>w,zS:()=>P});var i=n(6082),o=n(1991),r=n.n(o),s=n(3527),a=n(3629),l=n(2738),c=n(439),u=n(8924),h=n(1093),d=n(4152),m=n(8438),p=n(3599);class g{get length(){return this.mList.length}get graphInfo(){}isGap(e){return this.getOriginal(e)===this.gapOriginalMonomer}getCanonical(e){if(this.length<=e)throw new Error("Index out of bounds");const t=this.mList[e];return t!==this.gapOriginalMonomer?t:c._S}getOriginal(e){if(this.length<=e)throw new Error("Index out of bounds");return this.mList[e]}getCanonicalRegion(e,t){const n=Math.min(Math.max(0,e),this.length),i=Math.max(Math.min(this.length,t),0)-n,o=this.gapOriginalMonomer;return new Array(i).fill(null).map((e,t)=>{const i=this.mList[t+n];return i===o?c._S:i})}getOriginalRegion(e,t){const n=Math.min(Math.max(0,e),this.length),i=Math.max(Math.min(this.length,t),0);return new Array(i-n).fill(null).map((e,t)=>this.mList[t+n])}get gapOriginal(){return this.gapOriginalMonomer}constructor(e,t){this.mList=e,this.gapOriginalMonomer=t}}class f extends g{constructor(e,t,n,i){super(e.flat(),i),this.mListSeparated=e,this.connections=t,this._graphInfo=void 0,this.polymerTypes=e.map((e,t)=>new Array(e.length).fill(n[t])).flat()}get graphInfo(){return this._graphInfo??(this._graphInfo=this.parseConnections()),this._graphInfo}parseConnections(){const e={connections:[],disjointSeqStarts:[],polymerTypes:this.polymerTypes};if((this.connections?.length??0)>0){let t=0;for(let n=0;n<this.mListSeparated.length;++n)e.disjointSeqStarts.push(t),t+=this.mListSeparated[n].length;const n=(this.connections??"").split("|").filter(e=>(e?.length??0)>0),i=/^(PEPTIDE|RNA|BLOB|CHEM)\d{1,2}$/,o=/^\d{1,2}:R\d{1}-\d{1,2}:R\d{1}$/;for(const t of n){const n=t.split(",");if(3!==n.length||!o.test(n[2])||!i.test(n[0])||!i.test(n[1]))continue;const r=parseInt(n[0].replace(/^(PEPTIDE|RNA|BLOB|CHEM)/,""))-1,s=parseInt(n[1].replace(/^(PEPTIDE|RNA|BLOB|CHEM)/,""))-1,a=n[0].replace(/\d{1,2}$/,""),l=n[1].replace(/\d{1,2}$/,"");if(r<0||r>=this.mListSeparated.length||s<0||s>=this.mListSeparated.length)continue;const c=n[2].split("-");if(2!==c.length)continue;const u=c[0].split(":"),h=c[1].split(":");if(2!==u.length||2!==h.length)continue;const d=parseInt(u[0])-1,m=parseInt(h[0])-1;d<0||d>=this.mListSeparated[r].length||m<0||m>=this.mListSeparated[s].length||e.connections.push({seq1Type:a,seq2Type:l,seqIndex1:r,seqIndex2:s,monomerIndex1:d,monomerIndex2:m,rGroup1:parseInt(u[1].substring(1)),rGroup2:parseInt(h[1].substring(1))})}}return e}}class y extends f{getCanonical(e){if(this.isGap(e))return c._S;let t=this.getOriginal(e);const n=/\(\d{1,2},\d{1,2}\)$/;for(;n.test(t);)t=t.replace(n,"");return t}getOriginal(e){return super.getOriginal(e).replace(/^\[(.*)\]/,"$1")}constructor(e,t){super(e,"",e.map(()=>"PEPTIDE"),t)}parseConnections(){const e={connections:[],disjointSeqStarts:[]},t={};let n=0;for(let i=0;i<this.mListSeparated.length;i++){const o=this.mListSeparated[i];e.disjointSeqStarts.push(n),n+=o.length;for(let n=0;n<o.length;n++){const r=/\(\d{1,2},\d{1,2}\)$/;let s=o[n];for(;r.test(s);){const o=/\(\d{1,2},\d{1,2}\)$/.exec(s)?.[0];if(s=s.replace(r,""),null!=o){const r=o.substring(1,o.length-1).split(",").map(e=>parseInt(e,10));if(2!==r.length||r.some(e=>null==e||Number.isNaN(e)))continue;const s=r[0].toString(),a=r[1];if(s in t){const o=t[s];e.connections.push({seq1Type:"PEPTIDE",seq2Type:"PEPTIDE",seqIndex1:o.seqIndex,seqIndex2:i,monomerIndex1:o.monomerIndex,monomerIndex2:n,rGroup1:o.rGroup,rGroup2:a}),delete t[s]}else t[s]={seqIndex:i,monomerIndex:n,rGroup:a}}}}}return e}}class b{get length(){return this.seqS.length}isGap(e){return this.getOriginal(e)===c.b9[c.Hi.FASTA]}getCanonical(e){if(this.length<=e)throw new Error("Index out of bounds");return this.isGap(e)?c._S:this.seqS[e]}getOriginal(e){if(this.length<=e)throw new Error("Index out of bounds");return this.seqS[e]}getCanonicalRegion(e,t){const n=Math.max(0,e),i=Math.min(this.length,t)-n,o=c.b9[c.Hi.FASTA];return new Array(i).fill(null).map((e,t)=>{const i=this.seqS[t+n];return i===o?c._S:i})}getOriginalRegion(e,t){const n=Math.max(0,e),i=Math.min(this.length,t);return this.seqS.slice(n,i)}get gapOriginal(){return c.b9[c.Hi.FASTA]}constructor(e){this.seqS=e}}function w(e,t,n){const i=e.categories;return function(e,t){const n={};let i=!0,o=null;for(const r of e)if(null==o?o=r.length:r.length!==o&&(i=!1),r.length>=t)for(let e=0;e<r.length;++e){const t=r.getCanonical(e);t in n||(n[t]=0),n[t]+=1}return{freq:n,sameLength:i}}(r().enumerate(e.getRawData()).map(([e,t])=>n(i[e])),t)}const v=e=>{const t=r()(e.toString().matchAll(c.B5)).map(e=>e[2]??e[1]).toArray();return new g(t,c.b9[c.Hi.FASTA])},T=e=>e?new b(e):new g([],c.b9[c.Hi.FASTA]);function C(e,t=void 0){return n=>{if(n){let i;const o=new RegExp(`(?<=^|\\${e})("-"|'-'|[^\\${e}]*)(?=\\${e}|$)`,"g");return null!=t?(o.lastIndex=0,i=r()(n.matchAll(o)).take(t).map(e=>e[0]).toArray()):i=n.replaceAll('"-"',"").replaceAll("'-'","").split(e,t),new g(i,c.b9[c.Hi.SEPARATOR])}return new g([],c.b9[c.Hi.SEPARATOR])}}const A=e=>{const t=e.indexOf("}$"),n=e.substring(0,t+1),i=e.indexOf("$",t+2),o=e.substring(t+2,i),r=n.split("}|");for(let e=0;e<r.length-1;e++)r[e]=r[e]+"}";const s=r.map(e=>(e.match(/(?<=\{).+(?=})/)?.[0]?.split(".")??[]).map(e=>(0,m.D)(e))),a=r.map(e=>e.replace(/\d{1,2}\{.+\}/,""));return new f(s,o??"",a,c.b9[c.Hi.HELM])};function E(e){const t=e.split(".").map(e=>e.replaceAll('"-"',"").replaceAll("'-'","")),n="___TEMP___";for(let e=0;e<t.length;e++){const i=/\[([^\]]+)\]/g;let o,r=t[e];for(;null!==(o=i.exec(t[e]));){const e=o[1],t=e.replaceAll("-",n);r=r.replace(e,t)}t[e]=r}const i=t.map(e=>e.split("-").map(e=>e.replaceAll(n,"-")));return new y(i,c.b9[c.Hi.SEPARATOR])}function S(e,t,n=void 0){if(e.toLowerCase().startsWith(c.Hi.FASTA))return v;if(e.toLowerCase().startsWith(c.Hi.SEPARATOR))return C(t,n);if(e.toLowerCase().startsWith(c.Hi.HELM))return A;if(e.toLowerCase().startsWith(c.Hi.BILN))return E;throw new Error(`Unexpected units ${e} .`)}const M=/([^\W_]+)/g;function P(e,t){if(e.length<=t)return e;const n=e.match(M),i=e.length>t||(n?.length??0)>1,o=n?.[0]??" ";return i?o.substring(0,t-1)+"…":o}function _(e){switch(e){case c.YI.DNA:return c.Vl.fasta.dna;case c.YI.RNA:return c.Vl.fasta.rna;case c.YI.PT:return c.Vl.fasta.peptide;default:throw new Error(`Unsupported alphabet '${e}'.`)}}function I(e,t,n="-"){const i=new Set([...new Set(Object.keys(e)),...t]);i.delete(n);const o=[],r=[];for(const n of i)o.push(n in e?e[n]:0),r.push(t.has(n)?1:0);const l=new s.Mi(o),c=new s.Mi(r);return(0,a.KE)(l,c)/((0,a.wQ)(l)*(0,a.wQ)(c))}function L(e,t,n="-"){const i=t.map(t=>{const i=I(e,t.alphabet,n);return new l.X(t,e,i)});let o;const r=Math.max(...i.map(e=>e.similarity>e.cutoff?e.similarity:-1));return o=r>0?i.find(e=>e.similarity===r).name:c.YI.UN,o}function x(e,t,n="-"){const i=Object.keys(e),o=/\(|\)/;return L(i.filter(e=>3===e.split(o).filter(e=>!!e).length).length>.8*i.length?Object.entries(e).reduce((e,[t,n])=>{const i=t.split(o)[1];return i&&(e[i]=n),e},{}):e,t,n)}function N(e,t,n=5){let o;return o=e.semType==i.SEMTYPE.MACROMOLECULE?t.getSeqHandler(e).alphabet:L(w(e,n,v).freq,c.q7),function(e){switch(e){case c.YI.PT:return u.X.GrokGroups;case c.YI.DNA:case c.YI.RNA:return h.A.Chromatogram;default:return d.oT.Color}}(o)}function R(e){const t=e.columns.bySemTypeAll(i.SEMTYPE.MACROMOLECULE);let n=t.find(e=>{const t=e.meta.units;return!!t&&-1!==t.indexOf("MSA")})??null;return!n&&t.length>0&&(n=t[0]),n}function $(e){switch(e){case"PEPTIDE":default:return p.o.AA;case"RNA":return p.o.NUCLEOTIDE;case"CHEM":return p.o.CHEM;case"BLOB":return p.o.BLOB}}},7307:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(3853),s={keyword:["maxLength","minLength"],type:"string",schemaType:"number",$data:!0,error:{message({keyword:e,schemaCode:t}){const n="maxLength"===e?"more":"fewer";return i.str`must NOT have ${n} than ${t} characters`},params:({schemaCode:e})=>i._`{limit: ${e}}`},code(e){const{keyword:t,data:n,schemaCode:s,it:a}=e,l="maxLength"===t?i.operators.GT:i.operators.LT,c=!1===a.opts.unicode?i._`${n}.length`:i._`${(0,o.useFunc)(e.gen,r.default)}(${n})`;e.fail$data(i._`${c} ${l} ${s}`)}};t.default=s},7362:(e,t,n)=>{"use strict";n.d(t,{e:()=>i});class i{static makePalette(e,t=!1,n=i){const o={};return e.forEach(e=>{const n=e[0],i=e[1];n.forEach((e,n)=>{o[e]=this.colourPalette[i][t?0:n]})}),new n(o)}constructor(e){this._palette=e}get(e,t){return this._palette[e]}}i.undefinedColor="rgb(100,100,100)",i.colourPalette={orange:["rgb(255,187,120)","rgb(245,167,100)","rgb(235,137,70)","rgb(205, 111, 71)"],all_green:["rgb(44,160,44)","rgb(74,160,74)","rgb(23,103,57)","rgb(30,110,96)","rgb(60,131,95)","rgb(24,110,79)","rgb(152,223,138)","rgb(182, 223, 138)","rgb(152, 193, 138)"],all_blue:["rgb(31,119,180)","rgb(23,190,207)","rgb(122, 102, 189)","rgb(158,218,229)","rgb(141, 124, 217)","rgb(31, 120, 150)"],magenta:["rgb(162,106,192)","rgb(197,165,224)","rgb(208,113,218)"],red:["rgb(214,39,40)","rgb(255,152,150)"],st_blue:["rgb(23,190,207)","rgb(158,218,229)","rgb(31,119,180)"],dark_blue:["rgb(31,119,180)","rgb(31, 120, 150)"],light_blue:["rgb(23,190,207)","rgb(158,218,229)","rgb(108, 218, 229)","rgb(23,190,227)"],lilac_blue:["rgb(124,102,211)","rgb(149,134,217)","rgb(97, 81, 150)"],dark_green:["rgb(23,103,57)","rgb(30,110,96)","rgb(60,131,95)","rgb(24,110,79)"],green:["rgb(44,160,44)","rgb(74,160,74)"],light_green:["rgb(152,223,138)","rgb(182, 223, 138)","rgb(152, 193, 138)"],st_green:["rgb(44,160,44)","rgb(152,223,138)","rgb(39, 174, 96)","rgb(74,160,74)"],pink:["rgb(247,182,210)"],brown:["rgb(140,86,75)","rgb(102, 62, 54)"],gray:["rgb(127,127,127)","rgb(199,199,199)","rgb(196,156,148)","rgb(222, 222, 180)"],yellow:["rgb(188,189,34)"],white:["rgb(230,230,230)"]}},7389:e=>{"use strict";e.exports=ui},7433:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.MissingRefError=t.ValidationError=t.CodeGen=t.Name=t.nil=t.stringify=t.str=t._=t.KeywordCxt=t.Ajv2020=void 0;const i=n(4042),o=n(6105),r=n(6653),s=n(9572),a="https://json-schema.org/draft/2020-12/schema";class l extends i.default{constructor(e={}){super({...e,dynamicRef:!0,next:!0,unevaluated:!0})}_addVocabularies(){super._addVocabularies(),o.default.forEach(e=>this.addVocabulary(e)),this.opts.discriminator&&this.addKeyword(r.default)}_addDefaultMetaSchema(){super._addDefaultMetaSchema();const{$data:e,meta:t}=this.opts;t&&(s.default.call(this,e),this.refs["http://json-schema.org/schema"]=a)}defaultMeta(){return this.opts.defaultMeta=super.defaultMeta()||(this.getSchema(a)?a:void 0)}}t.Ajv2020=l,e.exports=t=l,e.exports.Ajv2020=l,Object.defineProperty(t,"__esModule",{value:!0}),t.default=l;var c=n(2586);Object.defineProperty(t,"KeywordCxt",{enumerable:!0,get:function(){return c.KeywordCxt}});var u=n(9029);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return u._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return u.str}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return u.stringify}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return u.nil}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return u.Name}}),Object.defineProperty(t,"CodeGen",{enumerable:!0,get:function(){return u.CodeGen}});var h=n(3558);Object.defineProperty(t,"ValidationError",{enumerable:!0,get:function(){return h.default}});var d=n(4551);Object.defineProperty(t,"MissingRefError",{enumerable:!0,get:function(){return d.default}})},7532:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=[n(4737).default];t.default=i},7602:(e,t,n)=>{"use strict";n.d(t,{g:()=>r});var i,o=n(9192);!function(e){e[e.error=0]="error",e[e.warning=1]="warning",e[e.info=2]="info",e[e.debug=3]="debug"}(i||(i={}));class r{constructor(e){this.logger=e,this.promise=Promise.resolve(),this.errors=[],this.syncCounter=0}sync(e,t){const n=++this.syncCounter;this.logger.debug(`${e}, SYNC syncId = ${n}, IN `),this.promise=this.promise.then(async()=>{this.logger.debug(`${e}, SYNC syncId = ${n}, START `),await t(),this.logger.debug(`${e}, SYNC syncId = ${n}, END `)}).catch(t=>{const[i,r]=(0,o.AP)(t);this.logger.error(`${e}, SYNC syncId = ${n}, ERROR:\n${i}`,void 0,r),this.errors.push(t)})}resetErrors(){const e=this.errors;return this.errors=[],e}}},7652:(e,t)=>{"use strict";var n;Object.defineProperty(t,"__esModule",{value:!0}),t.DiscrError=void 0,function(e){e.Tag="tag",e.Mapping="mapping"}(n||(t.DiscrError=n={}))},7659:e=>{"use strict";var t={};e.exports=function(e,n){var i=function(e){if(void 0===t[e]){var n=document.querySelector(e);if(window.HTMLIFrameElement&&n instanceof window.HTMLIFrameElement)try{n=n.contentDocument.head}catch(e){n=null}t[e]=n}return t[e]}(e);if(!i)throw new Error("Couldn't find a style target. This probably means that the value for the 'insert' parameter is invalid.");i.appendChild(n)}},7825:e=>{"use strict";e.exports=function(e){if("undefined"==typeof document)return{update:function(){},remove:function(){}};var t=e.insertStyleElement(e);return{update:function(n){!function(e,t,n){var i="";n.supports&&(i+="@supports (".concat(n.supports,") {")),n.media&&(i+="@media ".concat(n.media," {"));var o=void 0!==n.layer;o&&(i+="@layer".concat(n.layer.length>0?" ".concat(n.layer):""," {")),i+=n.css,o&&(i+="}"),n.media&&(i+="}"),n.supports&&(i+="}");var r=n.sourceMap;r&&"undefined"!=typeof btoa&&(i+="\n/*# sourceMappingURL=data:application/json;base64,".concat(btoa(unescape(encodeURIComponent(JSON.stringify(r))))," */")),t.styleTagTransform(i,e,t.options)}(t,e,n)},remove:function(){!function(e){if(null===e.parentNode)return!1;e.parentNode.removeChild(e)}(t)}}}},7845:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.ValueScope=t.ValueScopeName=t.Scope=t.varKinds=t.UsedValueState=void 0;const i=n(1520);class o extends Error{constructor(e){super(`CodeGen: "code" for ${e} not defined`),this.value=e.value}}var r;!function(e){e[e.Started=0]="Started",e[e.Completed=1]="Completed"}(r||(t.UsedValueState=r={})),t.varKinds={const:new i.Name("const"),let:new i.Name("let"),var:new i.Name("var")};class s{constructor({prefixes:e,parent:t}={}){this._names={},this._prefixes=e,this._parent=t}toName(e){return e instanceof i.Name?e:this.name(e)}name(e){return new i.Name(this._newName(e))}_newName(e){return`${e}${(this._names[e]||this._nameGroup(e)).index++}`}_nameGroup(e){var t,n;if((null===(n=null===(t=this._parent)||void 0===t?void 0:t._prefixes)||void 0===n?void 0:n.has(e))||this._prefixes&&!this._prefixes.has(e))throw new Error(`CodeGen: prefix "${e}" is not allowed in this scope`);return this._names[e]={prefix:e,index:0}}}t.Scope=s;class a extends i.Name{constructor(e,t){super(t),this.prefix=e}setValue(e,{property:t,itemIndex:n}){this.value=e,this.scopePath=i._`.${new i.Name(t)}[${n}]`}}t.ValueScopeName=a;const l=i._`\n`;t.ValueScope=class extends s{constructor(e){super(e),this._values={},this._scope=e.scope,this.opts={...e,_n:e.lines?l:i.nil}}get(){return this._scope}name(e){return new a(e,this._newName(e))}value(e,t){var n;if(void 0===t.ref)throw new Error("CodeGen: ref must be passed in value");const i=this.toName(e),{prefix:o}=i,r=null!==(n=t.key)&&void 0!==n?n:t.ref;let s=this._values[o];if(s){const e=s.get(r);if(e)return e}else s=this._values[o]=new Map;s.set(r,i);const a=this._scope[o]||(this._scope[o]=[]),l=a.length;return a[l]=t.ref,i.setValue(t,{property:o,itemIndex:l}),i}getValue(e,t){const n=this._values[e];if(n)return n.get(t)}scopeRefs(e,t=this._values){return this._reduceValues(t,t=>{if(void 0===t.scopePath)throw new Error(`CodeGen: name "${t}" has no value`);return i._`${e}${t.scopePath}`})}scopeCode(e=this._values,t,n){return this._reduceValues(e,e=>{if(void 0===e.value)throw new Error(`CodeGen: name "${e}" has no value`);return e.value.code},t,n)}_reduceValues(e,n,s={},a){let l=i.nil;for(const c in e){const u=e[c];if(!u)continue;const h=s[c]=s[c]||new Map;u.forEach(e=>{if(h.has(e))return;h.set(e,r.Started);let s=n(e);if(s){const n=this.opts.es5?t.varKinds.var:t.varKinds.const;l=i._`${l}${n} ${e} = ${s};${this.opts._n}`}else{if(!(s=null==a?void 0:a(e)))throw new o(e);l=i._`${l}${s}${this.opts._n}`}h.set(e,r.Completed)})}return l}}},7870:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.assignDefaults=void 0;const i=n(9029),o=n(4227);function r(e,t,n){const{gen:r,compositeRule:s,data:a,opts:l}=e;if(void 0===n)return;const c=i._`${a}${(0,i.getProperty)(t)}`;if(s)return void(0,o.checkStrictMode)(e,`default is ignored for: ${c}`);let u=i._`${c} === undefined`;"empty"===l.useDefaults&&(u=i._`${u} || ${c} === null || ${c} === ""`),r.if(u,i._`${c} = ${(0,i.stringify)(n)}`)}t.assignDefaults=function(e,t){const{properties:n,items:i}=e.schema;if("object"===t&&n)for(const t in n)r(e,t,n[t].default);else"array"===t&&Array.isArray(i)&&i.forEach((t,n)=>r(e,n,t.default))}},7887:(e,t)=>{"use strict";function n(e,t){return t.rules.some(t=>i(e,t))}function i(e,t){var n;return void 0!==e[t.keyword]||(null===(n=t.definition.implements)||void 0===n?void 0:n.some(t=>void 0!==e[t]))}Object.defineProperty(t,"__esModule",{value:!0}),t.shouldUseRule=t.shouldUseGroup=t.schemaHasRulesForType=void 0,t.schemaHasRulesForType=function({schema:e,self:t},i){const o=t.RULES.types[i];return o&&!0!==o&&n(e,o)},t.shouldUseGroup=n,t.shouldUseRule=i},7923:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(4227),o={keyword:"not",schemaType:["object","boolean"],trackErrors:!0,code(e){const{gen:t,schema:n,it:o}=e;if((0,i.alwaysValidSchema)(o,n))return void e.fail();const r=t.name("valid");e.subschema({keyword:"not",compositeRule:!0,createErrors:!1,allErrors:!1},r),e.failResult(r,()=>e.reset(),()=>e.error())},error:{message:"must NOT be valid"}};t.default=o},7935:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(6250),s={keyword:"const",$data:!0,error:{message:"must be equal to constant",params:({schemaCode:e})=>i._`{allowedValue: ${e}}`},code(e){const{gen:t,data:n,$data:s,schemaCode:a,schema:l}=e;s||l&&"object"==typeof l?e.fail$data(i._`!${(0,o.useFunc)(t,r.default)}(${n}, ${a})`):e.fail(i._`${l} !== ${n}`)}};t.default=s},7939:(e,t,n)=>{"use strict";n.d(t,{A:()=>a});var i=n(1354),o=n.n(i),r=n(6314),s=n.n(r)()(o());s.push([e.id,".scatter_plot_link {\n right: 10px;\n}\n\n.cliffs_div {\n flex-grow: initial!important;\n justify-content: flex-end;\n flex-wrap: wrap;\n}\n\n.cliffs_grid {\n margin: 0!important;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings {\n font-size: 18px;\n position: absolute;\n height: 28px;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings:not(.ml-dim-reduction-column-editor-input-root i) {\n left: -20px;\n}\n.dlg-dimensionality-reduction.ui-form, .dlg-markov-clustering.ui-form, .dlg-markov-clustering.ui-form .ui-form, .dlg-dimensionality-reduction.ui-form .ui-form {\n max-width: unset;\n}\n\n.ml-dim-reduction-column-editor-input-root label {\n display: none !important;\n}\n\n.dim-reduction-dialog-form > .ui-input-root, .dim-reduction-dialog-form > div > .ui-input-root {\n margin-left: 10px;\n}\n\n.ml-dim-reduction-column-editor-input-root input, .ml-dim-reduction-column-editor-input-root select {\n margin-left: 20px !important;\n}\n\nh3.ml-dim-reduction-column-editor-input-root {\n margin: 0 !important;\n}\n\n.ml-dim-reduction-column-editor-root, .ml-dim-reduction-column-editor-header-root {\n display: flex;\n flex-direction: row;\n align-items: center;\n margin-bottom: 10px !important;\n width: 700px !important;\n}\n\n.ml-dim-reduction-column-editor-column-title {\n text-overflow: ellipsis;\n overflow: hidden;\n}\n\n.ml-dim-reduction-column-editor-header-root > h1:not(:first-child) {\n margin-left: 20px !important;\n}\n\n.ml-dim-reduction-column-editor-table-root .header > td:not(:first-child) {\n padding-left: 32px;\n}","",{version:3,sources:["webpack://./node_modules/@datagrok-libraries/ml/css/styles.css"],names:[],mappings:"AAAA;IACI,WAAW;AACf;;AAEA;IACI,4BAA4B;IAC5B,yBAAyB;IACzB,eAAe;AACnB;;AAEA;GACG,mBAAmB;AACtB;;AAEA;IACI,eAAe;IACf,kBAAkB;IAClB,YAAY;AAChB;;AAEA;IACI,WAAW;AACf;AACA;IACI,gBAAgB;AACpB;;AAEA;IACI,wBAAwB;AAC5B;;AAEA;IACI,iBAAiB;AACrB;;AAEA;IACI,4BAA4B;AAChC;;AAEA;IACI,oBAAoB;AACxB;;AAEA;IACI,aAAa;IACb,mBAAmB;IACnB,mBAAmB;IACnB,8BAA8B;IAC9B,uBAAuB;AAC3B;;AAEA;IACI,uBAAuB;IACvB,gBAAgB;AACpB;;AAEA;IACI,4BAA4B;AAChC;;AAEA;IACI,kBAAkB;AACtB",sourcesContent:[".scatter_plot_link {\n right: 10px;\n}\n\n.cliffs_div {\n flex-grow: initial!important;\n justify-content: flex-end;\n flex-wrap: wrap;\n}\n\n.cliffs_grid {\n margin: 0!important;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings {\n font-size: 18px;\n position: absolute;\n height: 28px;\n}\n\n.ml-dim-reduction-settings-input i.grok-icon.grok-font-icon-settings:not(.ml-dim-reduction-column-editor-input-root i) {\n left: -20px;\n}\n.dlg-dimensionality-reduction.ui-form, .dlg-markov-clustering.ui-form, .dlg-markov-clustering.ui-form .ui-form, .dlg-dimensionality-reduction.ui-form .ui-form {\n max-width: unset;\n}\n\n.ml-dim-reduction-column-editor-input-root label {\n display: none !important;\n}\n\n.dim-reduction-dialog-form > .ui-input-root, .dim-reduction-dialog-form > div > .ui-input-root {\n margin-left: 10px;\n}\n\n.ml-dim-reduction-column-editor-input-root input, .ml-dim-reduction-column-editor-input-root select {\n margin-left: 20px !important;\n}\n\nh3.ml-dim-reduction-column-editor-input-root {\n margin: 0 !important;\n}\n\n.ml-dim-reduction-column-editor-root, .ml-dim-reduction-column-editor-header-root {\n display: flex;\n flex-direction: row;\n align-items: center;\n margin-bottom: 10px !important;\n width: 700px !important;\n}\n\n.ml-dim-reduction-column-editor-column-title {\n text-overflow: ellipsis;\n overflow: hidden;\n}\n\n.ml-dim-reduction-column-editor-header-root > h1:not(:first-child) {\n margin-left: 20px !important;\n}\n\n.ml-dim-reduction-column-editor-table-root .header > td:not(:first-child) {\n padding-left: 32px;\n}"],sourceRoot:""}]);const a=s},8070:(e,t,n)=>{"use strict";n.d(t,{Pl:()=>x,bk:()=>G,gM:()=>L,L1:()=>I,cb:()=>F,E3:()=>S,J6:()=>_,Wj:()=>M,Xk:()=>P,Xb:()=>R,N$:()=>$,t6:()=>E,PE:()=>A,CN:()=>m});var i=n(4328),o=n(6082);n(9982);const r=o.DataFrame.fromCsv('countries,fasta,smiles,molregno,LON,Zip Code,Street Address Line 1,ImageUrl,user_id,error_message,xray,flag,magnitude,CS-id,pdb_id,accel_a,time_offset,chart,fit,Questions,empty_number,empty_string\nBelgium,MSNFHNEHVMQFYRNNLKTKGVFGRQ,CC(C(=O)OCCCc1cccnc1)c2cccc(c2)C(=O)c3ccccc3,1480014,36.276729583740234,995042300,14016 ROUTE 31W,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,1,1,1QBS,1,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[2.497360340644872, 1.7058694986686864, 5.278052678195135, 0.16000320889028383],""points"":[{""x"":0.10000000149011612,""y"":2.374499797821045},{""x"":0.6000000238418579,""y"":2.6242473125457764},{""x"":1.100000023841858,""y"":2.367267608642578},{""x"":1.600000023841858,""y"":2.6723148822784424},{""x"":2.0999999046325684,""y"":2.6537344455718994},{""x"":2.5999999046325684,""y"":2.3651671409606934},{""x"":3.0999999046325684,""y"":2.5654284954071045},{""x"":3.5999999046325684,""y"":2.4160959720611572},{""x"":4.099999904632568,""y"":2.286726713180542},{""x"":4.599999904632568,""y"":2.5100042819976807},{""x"":5.099999904632568,""y"":1.6676985025405884},{""x"":5.599999904632568,""y"":0.680136501789093},{""x"":6.099999904632568,""y"":0.3391543924808502},{""x"":6.599999904632568,""y"":0.09038983285427094},{""x"":7.099999904632568,""y"":0.19802775979042053}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[7.525235855508179, 1.3186911876809984, 5.335672608564294, 0.7860743343958098],""points"":[{""x"":0.10000000149011612,""y"":7.988070487976074},{""x"":0.6000000238418579,""y"":7.018453121185303},{""x"":1.100000023841858,""y"":8.115279197692871},{""x"":1.600000023841858,""y"":7.486658096313477},{""x"":2.0999999046325684,""y"":7.396438121795654},{""x"":2.5999999046325684,""y"":7.477052211761475},{""x"":3.0999999046325684,""y"":6.913095474243164},{""x"":3.5999999046325684,""y"":8.01385498046875},{""x"":4.099999904632568,""y"":6.985900402069092},{""x"":4.599999904632568,""y"":6.970335960388184},{""x"":5.099999904632568,""y"":5.448817253112793},{""x"":5.599999904632568,""y"":2.5534818172454834},{""x"":6.099999904632568,""y"":1.893947958946228},{""x"":6.599999904632568,""y"":0.6340042352676392},{""x"":7.099999904632568,""y"":0.8403874039649963}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,100,abc\nBurundi,MDYKETLLMPKTDFPMRGGLPNKEPQIQEKW,COc1ccc2cc(ccc2c1)C(C)C(=O)Oc3ccc(C)cc3OC,1480015,36.276729583740234,995073444,80 STATE HIGHWAY 310,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,2,2,1ZP8,2,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[4.431460753103398, 2.1691498799246745, 5.266445597102774, 0.7825762827017926],""points"":[{""x"":0.10000000149011612,""y"":4.751083850860596},{""x"":0.6000000238418579,""y"":4.203000068664551},{""x"":1.100000023841858,""y"":4.415858745574951},{""x"":1.600000023841858,""y"":4.68414306640625},{""x"":2.0999999046325684,""y"":4.198400974273682},{""x"":2.5999999046325684,""y"":4.179222106933594},{""x"":3.0999999046325684,""y"":4.638473987579346},{""x"":3.5999999046325684,""y"":4.708553314208984},{""x"":4.099999904632568,""y"":4.291589260101318},{""x"":4.599999904632568,""y"":4.038082599639893},{""x"":5.099999904632568,""y"":3.4349939823150635},{""x"":5.599999904632568,""y"":1.2194708585739136},{""x"":6.099999904632568,""y"":1.1920831203460693},{""x"":6.599999904632568,""y"":0.5352635979652405},{""x"":7.099999904632568,""y"":0.3346920311450958}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[2.339458017970126, -1.0734184310171178, 4.746332950550934, 0.2482416857595658],""points"":[{""x"":0.10000000149011612,""y"":0.2139337658882141},{""x"":0.6000000238418579,""y"":0.4269562065601349},{""x"":1.100000023841858,""y"":0.2441573292016983},{""x"":1.600000023841858,""y"":0.146635964512825},{""x"":2.0999999046325684,""y"":0.08818462491035461},{""x"":2.5999999046325684,""y"":0.2560656666755676},{""x"":3.0999999046325684,""y"":0.42434045672416687},{""x"":3.5999999046325684,""y"":0.37111231684684753},{""x"":4.099999904632568,""y"":0.5581737160682678},{""x"":4.599999904632568,""y"":1.183590054512024},{""x"":5.099999904632568,""y"":1.5629843473434448},{""x"":5.599999904632568,""y"":2.3211288452148438},{""x"":6.099999904632568,""y"":2.229961633682251},{""x"":6.599999904632568,""y"":2.2560226917266846},{""x"":7.099999904632568,""y"":2.2142398357391357}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCameroon,MIEVFLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL,COc1ccc2cc(ccc2c1)C(C)C(=O)OCCCc3cccnc3,1480016,36.26095962524414,995153596,30-56 WHITESTONE EXPY,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,3,3,2BDJ,3,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[4.6760652578642325, 0.9046956320756703, 5.651408971856738, 0.07738846012184185],""points"":[{""x"":0.10000000149011612,""y"":4.32425594329834},{""x"":0.6000000238418579,""y"":4.668442249298096},{""x"":1.100000023841858,""y"":4.379785060882568},{""x"":1.600000023841858,""y"":5.0345139503479},{""x"":2.0999999046325684,""y"":4.878653526306152},{""x"":2.5999999046325684,""y"":4.3451313972473145},{""x"":3.0999999046325684,""y"":4.336992263793945},{""x"":3.5999999046325684,""y"":5.037430286407471},{""x"":4.099999904632568,""y"":5.0092692375183105},{""x"":4.599999904632568,""y"":4.151902675628662},{""x"":5.099999904632568,""y"":3.4066951274871826},{""x"":5.599999904632568,""y"":2.3732759952545166},{""x"":6.099999904632568,""y"":1.673728108406067},{""x"":6.599999904632568,""y"":0.48574790358543396},{""x"":7.099999904632568,""y"":0.2783052325248718}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[2.938395863010111, -1.4658480661392117, 5.462702751996584, 0.3473139023615039],""points"":[{""x"":0.10000000149011612,""y"":0.4941710829734802},{""x"":0.6000000238418579,""y"":0.15323974192142487},{""x"":1.100000023841858,""y"":0.46373432874679565},{""x"":1.600000023841858,""y"":0.3370431363582611},{""x"":2.0999999046325684,""y"":0.5179030299186707},{""x"":2.5999999046325684,""y"":0.27899765968322754},{""x"":3.0999999046325684,""y"":0.22075064480304718},{""x"":3.5999999046325684,""y"":0.5789918899536133},{""x"":4.099999904632568,""y"":0.21169911324977875},{""x"":4.599999904632568,""y"":0.27857646346092224},{""x"":5.099999904632568,""y"":1.0906332731246948},{""x"":5.599999904632568,""y"":1.8520300388336182},{""x"":6.099999904632568,""y"":2.7177059650421143},{""x"":6.599999904632568,""y"":2.8680918216705322},{""x"":7.099999904632568,""y"":3.2413077354431152}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCanada,MMELVLKTIIGPIVVGVVLRIVDKWLNKDK,CC(C(=O)NCCS)c1cccc(c1)C(=O)c2ccccc2,1480017,36.26095962524414,99515,30-56 WHITESTONE EXPY,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,4,4,1IAN,4,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[0.8597390975430008, 1.0957625732481946, 5.260537067987958, 0.07974187998177736],""points"":[{""x"":0.10000000149011612,""y"":0.8190152645111084},{""x"":0.6000000238418579,""y"":0.8421689867973328},{""x"":1.100000023841858,""y"":0.8740922212600708},{""x"":1.600000023841858,""y"":0.8924275040626526},{""x"":2.0999999046325684,""y"":0.8249067664146423},{""x"":2.5999999046325684,""y"":0.9327669143676758},{""x"":3.0999999046325684,""y"":0.8522974252700806},{""x"":3.5999999046325684,""y"":0.8174492716789246},{""x"":4.099999904632568,""y"":0.8394647240638733},{""x"":4.599999904632568,""y"":0.7139387726783752},{""x"":5.099999904632568,""y"":0.5561167597770691},{""x"":5.599999904632568,""y"":0.3276226818561554},{""x"":6.099999904632568,""y"":0.12479474395513535},{""x"":6.599999904632568,""y"":0.13006797432899475},{""x"":7.099999904632568,""y"":0.059702079743146896}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.760930219582546, 1.6591793293833013, 4.667155929720851, 0.7858109544121652],""points"":[{""x"":0.10000000149011612,""y"":6.156993389129639},{""x"":0.6000000238418579,""y"":5.236701965332031},{""x"":1.100000023841858,""y"":6.010560512542725},{""x"":1.600000023841858,""y"":5.495512962341309},{""x"":2.0999999046325684,""y"":6.087770462036133},{""x"":2.5999999046325684,""y"":5.79986572265625},{""x"":3.0999999046325684,""y"":5.597546577453613},{""x"":3.5999999046325684,""y"":5.520902156829834},{""x"":4.099999904632568,""y"":5.360654354095459},{""x"":4.599999904632568,""y"":3.5539746284484863},{""x"":5.099999904632568,""y"":1.577236294746399},{""x"":5.599999904632568,""y"":1.0001264810562134},{""x"":6.099999904632568,""y"":0.9305797815322876},{""x"":6.599999904632568,""y"":0.6033638715744019},{""x"":7.099999904632568,""y"":0.4203685522079468}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nColombia,MDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN,FC(F)(F)c1ccc(OC2CCNCC2)cc1,1480029,36.3309440612793,995152050,1 COURT HOUSE SQUARE,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,5,5,4UJ1,5,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[6.4995088314153655, 2.4270351004539914, 5.178659535348579, 0.625653346241577],""points"":[{""x"":0.10000000149011612,""y"":6.496231555938721},{""x"":0.6000000238418579,""y"":6.42543363571167},{""x"":1.100000023841858,""y"":7.040063858032227},{""x"":1.600000023841858,""y"":6.1115403175354},{""x"":2.0999999046325684,""y"":6.680728435516357},{""x"":2.5999999046325684,""y"":6.406774520874023},{""x"":3.0999999046325684,""y"":6.611269474029541},{""x"":3.5999999046325684,""y"":5.889094352722168},{""x"":4.099999904632568,""y"":6.75344705581665},{""x"":4.599999904632568,""y"":6.361435890197754},{""x"":5.099999904632568,""y"":4.1666975021362305},{""x"":5.599999904632568,""y"":1.172118902206421},{""x"":6.099999904632568,""y"":0.801048994064331},{""x"":6.599999904632568,""y"":0.4640021026134491},{""x"":7.099999904632568,""y"":0.0010357667924836278}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[1.4734381347446401, 1.1649805188074196, 4.82958608866421, 0.09500545496710007],""points"":[{""x"":0.10000000149011612,""y"":1.5279096364974976},{""x"":0.6000000238418579,""y"":1.3559974431991577},{""x"":1.100000023841858,""y"":1.5246378183364868},{""x"":1.600000023841858,""y"":1.5567657947540283},{""x"":2.0999999046325684,""y"":1.4114240407943726},{""x"":2.5999999046325684,""y"":1.4045010805130005},{""x"":3.0999999046325684,""y"":1.4769829511642456},{""x"":3.5999999046325684,""y"":1.4875500202178955},{""x"":4.099999904632568,""y"":1.2991987466812134},{""x"":4.599999904632568,""y"":0.922961413860321},{""x"":5.099999904632568,""y"":0.6520044803619385},{""x"":5.599999904632568,""y"":0.15350978076457977},{""x"":6.099999904632568,""y"":0.1078903079032898},{""x"":6.599999904632568,""y"":0.17276449501514435},{""x"":7.099999904632568,""y"":0.14066608250141144}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCosta Rica,MKSTKEEIQTIKTLLKDSRTAKYHKRLQIVL,CC(C)Cc1ccc(cc1)C(C)C(=O)N2CCCC2C(=O)OCCCc3ccccc3,1480018,36.3309440612793,995084218,4041 SOUTHWESTERN BLVD,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,6,6,2BPW,6,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[2.4833641843311227, -1.8945978742090062, 4.671127708092568, 0.24159861311815153],""points"":[{""x"":0.10000000149011612,""y"":0.0969524160027504},{""x"":0.6000000238418579,""y"":0.028483040630817413},{""x"":1.100000023841858,""y"":0.22087176144123077},{""x"":1.600000023841858,""y"":0.0068915546871721745},{""x"":2.0999999046325684,""y"":0.4305879771709442},{""x"":2.5999999046325684,""y"":0.44774115085601807},{""x"":3.0999999046325684,""y"":0.45346319675445557},{""x"":3.5999999046325684,""y"":0.2370593100786209},{""x"":4.099999904632568,""y"":0.4657953977584839},{""x"":4.599999904632568,""y"":1.155200719833374},{""x"":5.099999904632568,""y"":2.2294070720672607},{""x"":5.599999904632568,""y"":2.4311530590057373},{""x"":6.099999904632568,""y"":2.33846116065979},{""x"":6.599999904632568,""y"":2.608201026916504},{""x"":7.099999904632568,""y"":2.8136143684387207}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.224573521642033, 1.4454033924198528, 5.6014197746076535, 0.2823216054197577],""points"":[{""x"":0.10000000149011612,""y"":4.95027494430542},{""x"":0.6000000238418579,""y"":5.1754679679870605},{""x"":1.100000023841858,""y"":5.276752948760986},{""x"":1.600000023841858,""y"":5.589294910430908},{""x"":2.0999999046325684,""y"":5.616994857788086},{""x"":2.5999999046325684,""y"":5.120813846588135},{""x"":3.0999999046325684,""y"":5.340766906738281},{""x"":3.5999999046325684,""y"":4.876471042633057},{""x"":4.099999904632568,""y"":4.94999361038208},{""x"":4.599999904632568,""y"":5.162564754486084},{""x"":5.099999904632568,""y"":4.399557590484619},{""x"":5.599999904632568,""y"":2.7977969646453857},{""x"":6.099999904632568,""y"":1.0229872465133667},{""x"":6.599999904632568,""y"":0.48275601863861084},{""x"":7.099999904632568,""y"":0.10408931970596313}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nCuba,MHAILRYFIRRLFYHIFYKIYSLISKKHQSLPSDVRQF,COc1ccc2c(c1)c(CC(=O)N3CCCC3C(=O)Oc4ccc(C)cc4OC)c(C)n2C(=O)c5ccc(Cl)cc5,1480019,36.33115768432617,995081928,1227 US HIGHWAY 11,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,7,7,1QBS,7,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[3.320838679713925, -1.2421619987316728, 4.831325425225256, 0.3236011098403072],""points"":[{""x"":0.10000000149011612,""y"":0.3727470338344574},{""x"":0.6000000238418579,""y"":0.12365014106035233},{""x"":1.100000023841858,""y"":0.48422467708587646},{""x"":1.600000023841858,""y"":0.2264465093612671},{""x"":2.0999999046325684,""y"":0.16821794211864471},{""x"":2.5999999046325684,""y"":0.3879014551639557},{""x"":3.0999999046325684,""y"":0.5470244884490967},{""x"":3.5999999046325684,""y"":0.3419053554534912},{""x"":4.099999904632568,""y"":0.7655120491981506},{""x"":4.599999904632568,""y"":1.2346516847610474},{""x"":5.099999904632568,""y"":2.453336715698242},{""x"":5.599999904632568,""y"":2.9565491676330566},{""x"":6.099999904632568,""y"":3.335299491882324},{""x"":6.599999904632568,""y"":3.240290880203247},{""x"":7.099999904632568,""y"":3.1107218265533447}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[3.6401853521511094, 1.26211588875013, 5.399028074402744, 0.5089580830068091],""points"":[{""x"":0.10000000149011612,""y"":3.8585598468780518},{""x"":0.6000000238418579,""y"":3.6077206134796143},{""x"":1.100000023841858,""y"":3.855252265930176},{""x"":1.600000023841858,""y"":3.619039297103882},{""x"":2.0999999046325684,""y"":3.839388370513916},{""x"":2.5999999046325684,""y"":3.335283041000366},{""x"":3.0999999046325684,""y"":3.571141481399536},{""x"":3.5999999046325684,""y"":3.4155046939849854},{""x"":4.099999904632568,""y"":3.7316646575927734},{""x"":4.599999904632568,""y"":3.0680155754089355},{""x"":5.099999904632568,""y"":2.891066551208496},{""x"":5.599999904632568,""y"":1.6022753715515137},{""x"":6.099999904632568,""y"":0.7652576565742493},{""x"":6.599999904632568,""y"":0.6875326037406921},{""x"":7.099999904632568,""y"":0.5828871726989746}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nItaly,MSNFHNEHVMQFYRNNLKTKGVFGRQ,CC(C)Cc1ccc(cc1)C(C)C(=O)N2CCCC2C(=O)OCCO[N+](=O)[O-],1480020,36.33115768432617,99502,"168-46 91ST AVE., 2ND FLR",https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,8,8,1ZP8,8,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[2.293592105923809, 1.3781586549141835, 5.1025898038676605, 0.03493851245291291],""points"":[{""x"":0.10000000149011612,""y"":2.1287283897399902},{""x"":0.6000000238418579,""y"":2.267972230911255},{""x"":1.100000023841858,""y"":2.398442506790161},{""x"":1.600000023841858,""y"":2.5130622386932373},{""x"":2.0999999046325684,""y"":2.3255116939544678},{""x"":2.5999999046325684,""y"":2.127340793609619},{""x"":3.0999999046325684,""y"":2.47259783744812},{""x"":3.5999999046325684,""y"":2.131181478500366},{""x"":4.099999904632568,""y"":2.090421438217163},{""x"":4.599999904632568,""y"":2.02299165725708},{""x"":5.099999904632568,""y"":1.1105059385299683},{""x"":5.599999904632568,""y"":0.4494485855102539},{""x"":6.099999904632568,""y"":0.1375635862350464},{""x"":6.599999904632568,""y"":0.036351121962070465},{""x"":7.099999904632568,""y"":0.1619771122932434}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.953125499439879, 1.2528620255306528, 5.187637440149802, 0.3110348753260886],""points"":[{""x"":0.10000000149011612,""y"":5.6585283279418945},{""x"":0.6000000238418579,""y"":5.911152362823486},{""x"":1.100000023841858,""y"":5.924920082092285},{""x"":1.600000023841858,""y"":5.8469438552856445},{""x"":2.0999999046325684,""y"":5.929472923278809},{""x"":2.5999999046325684,""y"":6.190037727355957},{""x"":3.0999999046325684,""y"":6.236179828643799},{""x"":3.5999999046325684,""y"":6.141019344329834},{""x"":4.099999904632568,""y"":5.295210838317871},{""x"":4.599999904632568,""y"":5.265801906585693},{""x"":5.099999904632568,""y"":3.3722851276397705},{""x"":5.599999904632568,""y"":1.8299226760864258},{""x"":6.099999904632568,""y"":0.32690900564193726},{""x"":6.599999904632568,""y"":0.6274543404579163},{""x"":7.099999904632568,""y"":0.8441857099533081}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nRwanda,MPNSEPASLLELFNSIATQGELVRSLKAGNASK,CC(C)Cc1ccc(cc1)C(C)C(=O)N2CCCC2C(=O)OCCO,1480021,36.33137130737305,995037247,"168-46 91ST AVE., 2ND FLR",https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,9,9,2BDJ,9,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[3.8209972202654474, 1.3779216716448506, 5.299882228439686, 0.06040645519069608],""points"":[{""x"":0.10000000149011612,""y"":3.7821109294891357},{""x"":0.6000000238418579,""y"":3.542433023452759},{""x"":1.100000023841858,""y"":3.7008674144744873},{""x"":1.600000023841858,""y"":3.717301607131958},{""x"":2.0999999046325684,""y"":4.024452209472656},{""x"":2.5999999046325684,""y"":4.013899326324463},{""x"":3.0999999046325684,""y"":3.945094347000122},{""x"":3.5999999046325684,""y"":3.866621971130371},{""x"":4.099999904632568,""y"":3.7461626529693604},{""x"":4.599999904632568,""y"":3.3454740047454834},{""x"":5.099999904632568,""y"":2.61944317817688},{""x"":5.599999904632568,""y"":0.999405026435852},{""x"":6.099999904632568,""y"":0.46259793639183044},{""x"":6.599999904632568,""y"":0.054134611040353775},{""x"":7.099999904632568,""y"":0.05711187422275543}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[5.6318079657726035, 1.8495493770000595, 5.391793312471116, 0.17060707587348442],""points"":[{""x"":0.10000000149011612,""y"":5.458079814910889},{""x"":0.6000000238418579,""y"":5.554427146911621},{""x"":1.100000023841858,""y"":5.799983024597168},{""x"":1.600000023841858,""y"":5.364140033721924},{""x"":2.0999999046325684,""y"":5.864485740661621},{""x"":2.5999999046325684,""y"":5.4509806632995605},{""x"":3.0999999046325684,""y"":5.702574729919434},{""x"":3.5999999046325684,""y"":5.7314534187316895},{""x"":4.099999904632568,""y"":5.5123443603515625},{""x"":4.599999904632568,""y"":5.724395751953125},{""x"":5.099999904632568,""y"":4.354506969451904},{""x"":5.599999904632568,""y"":1.7307666540145874},{""x"":6.099999904632568,""y"":0.6305936574935913},{""x"":6.599999904632568,""y"":0.035183437168598175},{""x"":7.099999904632568,""y"":0.7575169205665588}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\nSwitzerland,IRVVGRYLIEVWKAAGMDMDKVLFLWSSDEI,CN1CCC(CC1)Oc2ccc(cc2)C(F)(F)F,1480028,36.33137130737305,99504,92-11 179TH PLACE,https://datagrok.ai/img/slides/access-db-connect.png,id,ErrorMessage,"COMPND \nATOM \nEND",flag,9,10,1IAN,10,1.23,<chart></chart>,"{""series"":[{""name"":""Run:2023-08-08"",""fitFunction"":""sigmoid"",""fitLineColor"":""#1f77b4"",""pointColor"":""#1f77b4"",""showPoints"":""points"",""parameters"":[1.1190255865097471, 2.3163895161544437, 5.4968866182279195, 0.2035204047289052],""points"":[{""x"":0.10000000149011612,""y"":1.1057683229446411},{""x"":0.6000000238418579,""y"":1.1019697189331055},{""x"":1.100000023841858,""y"":1.0818607807159424},{""x"":1.600000023841858,""y"":1.062997817993164},{""x"":2.0999999046325684,""y"":1.046447515487671},{""x"":2.5999999046325684,""y"":1.1217249631881714},{""x"":3.0999999046325684,""y"":1.2166996002197266},{""x"":3.5999999046325684,""y"":1.215477705001831},{""x"":4.099999904632568,""y"":1.0581893920898438},{""x"":4.599999904632568,""y"":1.1747995615005493},{""x"":5.099999904632568,""y"":1.0181127786636353},{""x"":5.599999904632568,""y"":0.5344523191452026},{""x"":6.099999904632568,""y"":0.2569526433944702},{""x"":6.599999904632568,""y"":0.1912207305431366},{""x"":7.099999904632568,""y"":0.15060538053512573}]},{""name"":""Run:2023-08-08"",""fitLineColor"":""#ffbb78"",""pointColor"":""#ffbb78"",""showPoints"":""points"",""parameters"":[3.1038581025805785, 2.0032224204185245, 5.087602825989163, 0.13277988512492753],""points"":[{""x"":0.10000000149011612,""y"":3.0498509407043457},{""x"":0.6000000238418579,""y"":2.805217742919922},{""x"":1.100000023841858,""y"":3.3415253162384033},{""x"":1.600000023841858,""y"":3.0549843311309814},{""x"":2.0999999046325684,""y"":3.250074863433838},{""x"":2.5999999046325684,""y"":3.0432586669921875},{""x"":3.0999999046325684,""y"":3.265852451324463},{""x"":3.5999999046325684,""y"":2.9475724697113037},{""x"":4.099999904632568,""y"":3.1929898262023926},{""x"":4.599999904632568,""y"":2.7460060119628906},{""x"":5.099999904632568,""y"":1.6175861358642578},{""x"":5.599999904632568,""y"":0.3006608486175537},{""x"":6.099999904632568,""y"":0.3444803059101105},{""x"":6.599999904632568,""y"":0.015537971630692482},{""x"":7.099999904632568,""y"":0.5527358055114746}]}],""chartOptions"":{""xAxisName"":""Conc."",""yAxisName"":""Activity"",""title"":""Dose-Response curves""}}",text,,\n,,,,,,,,,,,,,,,,,,,,,');r.columns.add(o.Column.fromList(o.TYPE.BYTE_ARRAY,"BinaryImage",Array.from(new Uint8Array(11))));var s=function(e,t,n,i){return new(n||(n=Promise))(function(o,r){function s(e){try{l(i.next(e))}catch(e){r(e)}}function a(e){try{l(i.throw(e))}catch(e){r(e)}}function l(e){var t;e.done?o(e.value):(t=e.value,t instanceof n?t:new n(function(e){e(t)})).then(s,a)}l((i=i.apply(e,t||[])).next())})};const a=3e4,l=108e5,c=console.log.bind(console),u=console.info.bind(console),h=console.warn.bind(console),d=console.error.bind(console),m={},p="Auto Tests",g="Demo",f="Detectors",y="Core",b={};let w;var v;!function(e){e.notNull=function(e,t){if(null==e)throw new Error(`${null==t?"Value":t} not defined`)}}(v||(v={}));class T{constructor(e,t){this.catchUnhandled=!0,this.report=!1,void 0!==e&&(this.catchUnhandled=e),void 0!==t&&(this.report=t)}}class C{constructor(e,t,n,i){var r;this.category=e,this.name=t,null!=i||(i={}),null!==(r=i.timeout)&&void 0!==r||(i.timeout=a),this.options=i,this.test=()=>s(this,void 0,void 0,function*(){return new Promise((e,t)=>s(this,void 0,void 0,function*(){var i;let r="";try{o.Test.isInDebug;let e=yield n();try{r=null!==(i=null==e?void 0:e.toString())&&void 0!==i?i:""}catch(e){r="Can't convert test's result to string",console.error(`Can't convert test's result to string in the ${this.category}:${this.name} test`)}}catch(e){t(e)}e(r)}))})}}function A(e,t,n,i=0,o="timeout"){return s(this,void 0,void 0,function*(){return new Promise((r,s)=>{const a=e.subscribe(e=>{try{t(e),r("OK")}catch(e){s(e)}finally{a.unsubscribe(),clearTimeout(l)}}),l=setTimeout(()=>{a.unsubscribe(),s(o)},i);n()})})}function E(e,t,n){null==m[w]&&(m[w]={}),null==m[w].tests&&(m[w].tests=[]),m[w].tests.push(new C(w,e,t,n))}function S(e,t=!0,n){if(n=n?`${n}, `:"",e!==t)throw new Error(`${n}Expected "${t}", got "${e}"`)}function M(e,t,n=.001,i){if(e===Number.POSITIVE_INFINITY&&t===Number.POSITIVE_INFINITY||e===Number.NEGATIVE_INFINITY&&t===Number.NEGATIVE_INFINITY||e===Number.NaN&&t===Number.NaN||isNaN(e)&&isNaN(t))return;const o=Math.abs(e-t)<n;if(S(o,!0,`${null!=i?i:""} (tolerance = ${n})`),!o)throw new Error(`Expected ${t}, got ${e} (tolerance = ${n})`)}function P(e,t){for(const[n,i]of Object.entries(t)){if(!e.hasOwnProperty(n))throw new Error(`Expected property "${n}" not found`);const t=e[n];if(t instanceof Array&&i instanceof Array)_(t,i);else if(t instanceof Object&&i instanceof Object)P(t,i);else if(Number.isFinite(t)&&Number.isFinite(i))M(t,i);else if(t!=i)throw new Error(`Expected (${i}) for key '${n}', got (${t})`)}}function _(e,t){const n=e.length,i=t.length;if(n!=i)throw new Error(`Arrays are of different length: actual array length is ${n} and expected array length is ${i}`);for(let i=0;i<n;i++)if(e[i]instanceof Array&&t[i]instanceof Array)_(e[i],t[i]);else if(e[i]instanceof Object&&t[i]instanceof Object)P(e[i],t[i]);else if(e[i]!=t[i])throw new Error(`Expected ${t[i]} at position ${i}, got ${e[i]}`)}function I(e,t,n){var i;w=e,t(),m[w]&&(m[w].clear=null===(i=null==n?void 0:n.clear)||void 0===i||i,m[w].timeout=null==n?void 0:n.timeout,m[w].benchmarks=null==n?void 0:n.benchmarks,m[w].stressTests=null==n?void 0:n.stressTests,m[w].owner=null==n?void 0:n.owner)}function L(e){null==m[w]&&(m[w]={}),m[w].before=e}function x(e){null==m[w]&&(m[w]={}),m[w].after=e}function N(e,t){return e.replace(new RegExp(t.name,"gi"),t.nqName)}function R(e,t){var n,c,u,h,d,w,v,T,A,E;return s(this,void 0,void 0,function*(){const M=e.id;if(b[M])return;const P=t?t.tests:m;if("DevTools"===e.name||t&&"DevTools"===t._package.name)for(const e of window.dartTests){const t=e.name.split(/\s*\|\s*!/g);let i=null!==(n=t.pop())&&void 0!==n?n:e.name,o=t.length?y+": "+t.join(": "):y,r=i.split(" | ");i=r[r.length-1],r.unshift(o),r.pop(),o=r.join(": "),void 0===P[o]&&(P[o]={tests:[],clear:!0}),P[o].tests.push(new C(o,i,e.test,{isAggregated:!1,timeout:null!==(u=null===(c=e.options)||void 0===c?void 0:c.timeout)&&void 0!==u?u:a,skipReason:null===(h=e.options)||void 0===h?void 0:h.skipReason,owner:null===(d=e.options)||void 0===d?void 0:d.owner,benchmark:null!==(v=null===(w=e.options)||void 0===w?void 0:w.benchmark)&&void 0!==v&&v}))}const _=[],I=[],L=[],x=yield i.dapi.functions.filter(`package.id = "${M}"`).list(),R=new RegExp(/skip:\s*([^,\s]+)|wait:\s*(\d+)|cat:\s*([^,\s]+)|timeout:\s*(\d+)/g);for(const t of x){const n=t.options.test,c=t.options.demoPath;if(n&&Array.isArray(n)&&n.length)for(let e=0;e<n.length;e++){const r=n[e].matchAll(R),c={};Array.from(r).forEach(e=>{e[0].startsWith("skip")?c.skip=e[1]:e[0].startsWith("wait")?c.wait=parseInt(e[2]):e[0].startsWith("cat")?c.cat=e[3]:e[0].startsWith("timeout")&&(c.timeout=parseInt(e[4]))});const u=new C(null!==(T=c.cat)&&void 0!==T?T:p,1===n.length?t.name:`${t.name} ${e+1}`,()=>s(this,void 0,void 0,function*(){const o=yield i.functions.eval(N(n[e],t));if(c.wait&&(yield F(c.wait)),"boolean"==typeof o&&!o)throw`Failed: ${n[e]}, expected true, got ${o}`}),{skipReason:c.skip,timeout:o.Test.isInBenchmark?null!==(A=c.benchmarkTimeout)&&void 0!==A?A:l:null!==(E=c.timeout)&&void 0!==E?E:a});if(c.cat){const e=c.cat;void 0===P[e]&&(P[e]={tests:[],clear:!0}),P[e].tests||(P[e].tests=[]),P[e].tests.push(u)}else _.push(u)}if(c){const e=t.options.demoWait?parseInt(t.options.demoWait):void 0,n=new C(g,t.friendlyName,()=>s(this,void 0,void 0,function*(){yield F(300),i.shell.clearLastError(),yield t.apply(),yield F(e||2e3);const n=yield i.shell.lastError;if(n)throw new Error(n)}),{skipReason:t.options.demoSkip});I.push(n)}if(t.hasTag("semTypeDetector")){let n=r;t.options.testData&&(n=yield i.data.files.openTable(`System:AppData/${e.nqName}/${t.options.testData}`));const o=new C(f,t.friendlyName,()=>s(this,void 0,void 0,function*(){const i=[];console.log(`System:AppData/${e.nqName}/${t.options.testData}`);for(const e of n.clone().columns){const n=yield t.apply([e]);i.push(n||e.semType)}const o=i.filter(e=>e);S(o.length,1),t.options.testDataColumnName&&S(o[0],t.options.testDataColumnName)}),{skipReason:t.options.skipTest});L.push(o)}}b[M]=!0,_.length>0&&(P[p]={tests:_,clear:!0}),I.length>0&&(P[g]={tests:I,clear:!0}),L.length>0&&(P[f]={tests:L,clear:!1})})}function $(e){var t,n,r,p,g,f;return s(this,void 0,void 0,function*(){console.log("--------------------");const y=null===(n=null===(t=i.functions.getCurrentCall())||void 0===t?void 0:t.func)||void 0===n?void 0:n.package,b=(null!==(p=(null!==(r=null==y?void 0:y.packageOwner)&&void 0!==r?r:"").match(new RegExp("[^<]*<([^>]*)>")))&&void 0!==p?p:["",""])[1];yield R(y);const w=[];console.log("Running tests"),console.log(e),null!=e||(e={}),null!==(g=(f=e).testContext)&&void 0!==g||(f.testContext=new T),i.shell.clearLastError();const v=function(){const e=[];return console.log=(...t)=>{e.push(...t),c(...t)},console.info=(...t)=>{e.push(...t),u(...t)},console.warn=(...t)=>{e.push(...t),h(...t)},console.error=(...t)=>{e.push(...t),d(...t)},e}();yield function(e,t){var n,r,a,l,m,p,g;return s(this,void 0,void 0,function*(){try{for(const[i,u]of Object.entries(e)){if(!(null==t?void 0:t.category)||(null===(n=t.exclude)||void 0===n?void 0:n.some(e=>i.startsWith(e))))continue;if((!i.toLowerCase().startsWith(`${null==t?void 0:t.category.toLowerCase().trim()} :`)||t.test)&&i.toLowerCase().trim()!==(null==t?void 0:t.category.toLowerCase().trim()))continue;c(`Started ${i} category`);const e=null===(r=u.tests)||void 0===r?void 0:r.every(e=>{var t;return null===(t=e.options)||void 0===t?void 0:t.skipReason});e||(u.beforeStatus=yield C(u.before,null!==(a=t.category)&&void 0!==a?a:""));let h,d=null!==(l=u.tests)&&void 0!==l?l:[];t.stressTest&&(d=d.filter(e=>{var t;return null===(t=e.options)||void 0===t?void 0:t.stressTest}),d=k(d)),(null!==(p=null===(m=t.tags)||void 0===m?void 0:m.length)&&void 0!==p?p:0)>0&&(d=d.filter(e=>{var n,i;return null===(i=null===(n=e.options)||void 0===n?void 0:n.tags)||void 0===i?void 0:i.some(e=>{var n;return(null!==(n=null==t?void 0:t.tags)&&void 0!==n?n:[]).includes(e)})})),u.beforeStatus?(h=Array.from(d.map(e=>({date:(new Date).toISOString(),category:i,name:e.name,success:!1,result:"before() failed",ms:0,skipped:!1,logs:"",owner:null==y?void 0:y.packageOwner,package:y.name,widgetsDifference:0,flaking:o.Test.isReproducing}))),h.forEach(e=>s(this,void 0,void 0,function*(){return H("package",e)}))):h=yield A(u,t);const f=h.filter(e=>"skipped"!=e.result);e||(u.afterStatus=yield C(u.after,null!==(g=t.category)&&void 0!==g?g:"")),u.afterStatus&&f.push({date:(new Date).toISOString(),category:i,name:"after",success:!1,result:u.afterStatus,ms:0,skipped:!1,logs:"",owner:null==y?void 0:y.packageOwner,package:y.name,widgetsDifference:0,flaking:o.Test.isReproducing}),u.beforeStatus&&f.push({date:(new Date).toISOString(),category:i,name:"before",success:!1,result:u.beforeStatus,ms:0,skipped:!1,logs:"",owner:null==y?void 0:y.packageOwner,package:y.name,widgetsDifference:0,flaking:o.Test.isReproducing}),w.push(...f)}}finally{console.log=c,console.info=u,console.warn=h,console.error=d}if(t.testContext.catchUnhandled&&!o.Test.isInBenchmark){yield F(1e3);const e=yield i.shell.lastError,t={logs:"",date:(new Date).toISOString(),category:"Unhandled exceptions",name:"Exception",result:null!=e?e:"",success:!e,ms:0,skipped:!1,owner:null!=b?b:"",package:y.name,widgetsDifference:0};w.push(Object.assign(Object.assign({},t),{flaking:o.Test.isReproducing&&!e})),t.package=y.name,yield H("package",t)}})}(m,e);for(let e of w)e.result=e.result.toString().replace(/"/g,"'"),null!=e.logs&&(e.logs=e.logs.toString().replace(/"/g,"'"));return w;function C(e,t){return s(this,void 0,void 0,function*(){let n;try{void 0!==e&&(yield B(()=>s(this,void 0,void 0,function*(){yield e()}),1e5,`before ${t}: timeout error`))}catch(e){n=yield O(e)}return n})}function A(e,t){var n,r,c,u,h,d,m,p,g,f,w,T,C,A,S,M,P,_;return s(this,void 0,void 0,function*(){let s=null!==(n=e.tests)&&void 0!==n?n:[];const I=[],L=E();if(e.clear)for(let n=0;n<s.length;n++){s[n].options&&void 0===(null===(r=s[n].options)||void 0===r?void 0:r.benchmark)&&(s[n].options||(s[n].options={}),s[n].options.benchmark=null!==(c=e.benchmarks)&&void 0!==c&&c);let T=s[n];if(t.test&&t.test.toLowerCase()!==T.name.toLowerCase())continue;(null==T?void 0:T.options)&&(T.options.owner=null!==(m=null!==(d=null!==(h=null===(u=s[n].options)||void 0===u?void 0:u.owner)&&void 0!==h?h:null==e?void 0:e.owner)&&void 0!==d?d:b)&&void 0!==m?m:"");let C=yield D(T,null==t?void 0:t.test,v,o.Test.isInBenchmark?null!==(g=null===(p=s[n].options)||void 0===p?void 0:p.benchmarkTimeout)&&void 0!==g?g:l:null!==(w=null===(f=s[n].options)||void 0===f?void 0:f.timeout)&&void 0!==w?w:a,y.name,t.verbose);C&&I.push(Object.assign(Object.assign({},C),{widgetsDifference:E()-L})),i.shell.closeAll(),o.Balloon.closeAll()}else for(let n=0;n<s.length;n++){let i=s[n];if(t.test&&t.test.toLowerCase()!==i.name.toLowerCase())continue;(null==i?void 0:i.options)&&(i.options.owner=null!==(S=null!==(A=null!==(C=null===(T=s[n].options)||void 0===T?void 0:T.owner)&&void 0!==C?C:null==e?void 0:e.owner)&&void 0!==A?A:b)&&void 0!==S?S:"");let r=yield D(i,null==t?void 0:t.test,v,o.Test.isInBenchmark?null!==(P=null===(M=s[n].options)||void 0===M?void 0:M.benchmarkTimeout)&&void 0!==P?P:l:null===(_=s[n].options)||void 0===_?void 0:_.timeout,y.name,t.verbose);r&&I.push(Object.assign(Object.assign({},r),{widgetsDifference:E()-L}))}return I})}function E(){var e;let t=-1;try{t=o.Widget.getAll().length}catch(t){console.warn(null!==(e=t.message)&&void 0!==e?e:t)}return t}})}function H(e,t){return s(this,void 0,void 0,function*(){null!=i.shell.reportTest?yield i.shell.reportTest(e,t):yield fetch(`${i.dapi.root}/log/tests/${e}`,{method:"POST",headers:{"Content-Type":"application/json"},credentials:"same-origin",body:JSON.stringify(t)})})}function O(e){return s(this,void 0,void 0,function*(){return`${e.toString()}\n${e.stack?yield o.Logger.translateStackTrace(e.stack):""}`})}function D(e,t,n,r,l,u){var h,m,p,g,f,y,b,w,v,T,C,A,S,M;return s(this,void 0,void 0,function*(){let s;n.length=0;const P=null!=t&&e.name.toLowerCase()!==t.toLowerCase();let _=(null===(h=e.options)||void 0===h?void 0:h.skipReason)||P,I=P?"skipped":null===(m=e.options)||void 0===m?void 0:m.skipReason;if(console.log(E.name,_),o.Test.isInBenchmark&&!(null===(p=e.options)||void 0===p?void 0:p.benchmark))return void c(`SKIPPED: ${e.category} ${e.name} doesnt available in benchmark mode`);_||c(`Started ${e.category} ${e.name}`);const L=Date.now(),x=new Date(L).toISOString();try{if(_)s={name:e.name,owner:null!==(f=null===(g=e.options)||void 0===g?void 0:g.owner)&&void 0!==f?f:"",category:e.category,logs:"",date:x,success:!0,result:I,ms:0,skipped:!0,package:null!=l?l:"",flaking:o.Test.isReproducing};else{let t=null!=r?r:a;o.Test.isProfiling&&console.profile(`${e.category}: ${e.name}`),s={name:e.name,owner:null!==(b=null===(y=e.options)||void 0===y?void 0:y.owner)&&void 0!==b?b:"",category:e.category,logs:"",date:x,success:!0,result:null!==(w=(yield B(e.test,t)).toString())&&void 0!==w?w:"OK",ms:0,skipped:!1,package:null!=l?l:"",flaking:o.Test.isReproducing},o.Test.isProfiling&&(console.profileEnd(`${e.category}: ${e.name}`),i.shell.info(`Profiling of ${e.category}: ${e.name} finished \n Please ensure that you have opened DevTools (F12) / Performance panel before test starts.`))}}catch(t){d(t),s={name:e.name,owner:null!==(T=null===(v=e.options)||void 0===v?void 0:v.owner)&&void 0!==T?T:"",category:e.category,logs:"",date:x,success:!1,result:yield O(t),ms:0,skipped:!1,package:null!=l?l:"",flaking:!1}}if((null===(C=e.options)||void 0===C?void 0:C.isAggregated)&&s.result.constructor===o.DataFrame){const e=s.result.col("success");if(e&&(s.success=e.stats.sum===e.length),!u){const e=s.result;e.columns.remove("stack"),e.rows.removeWhere(e=>e.get("success")),s.result=e}s.result=s.result.toCsv()}if(s.logs=n.join("\n"),s.ms=Date.now()-L,_||c(`Finished ${e.category} ${e.name} for ${s.ms} ms`),s.category=e.category,s.name=e.name,s.owner=null!==(S=null===(A=e.options)||void 0===A?void 0:A.owner)&&void 0!==S?S:"",!P){let t={success:s.success,result:s.result,ms:s.ms,date:s.date,skipped:s.skipped,category:e.category,name:e.name,logs:s.logs,owner:s.owner,flaking:o.Test.isReproducing&&s.success,package:s.package};if(s.result.constructor==Object){const e=Object.keys(s.result).reduce((e,t)=>Object.assign(Object.assign({},e),{["result."+t]:s.result[t]}),{});t=Object.assign(Object.assign({},t),e)}t.result instanceof o.DataFrame&&(t.result=JSON.stringify(null===(M=t.result)||void 0===M?void 0:M.toJson())||""),yield H("package",t)}return s})}function k(e){const t=e.slice();return t.sort(()=>Math.random()-.5),t}function F(e){return s(this,void 0,void 0,function*(){yield new Promise(t=>setTimeout(t,e))})}function G(e,t="Timeout exceeded",n=500,i=50){return s(this,void 0,void 0,function*(){return new Promise((o,r)=>{setTimeout(()=>{clearInterval(s),r(new Error(t))},n);const s=setInterval(()=>{e()&&(clearInterval(s),o(null))},i)})})}function B(e,t,n="EXECUTION TIMEOUT"){return s(this,void 0,void 0,function*(){let i=null;const o=new Promise((e,o)=>{i=setTimeout(()=>{o(n)},t)});try{return yield Promise.race([e(),o])}finally{i&&clearTimeout(i)}})}o.DataFrame.fromColumns([o.Column.fromStrings("col",["val1","val2","val3"])])},8123:(e,t,n)=>{"use strict";n.d(t,{u:()=>i});const i={V2K_RGP_SHIFT:8,V2K_RGP_LINE:"M RGP",V2K_A_LINE:"A ",V3K_COUNTS_SHIFT:14,V3K_IDX_SHIFT:7,V3K_HEADER_FIRST_LINE:"\nDatagrok macromolecule handler\n\n",V3K_HEADER_SECOND_LINE:" 0 0 0 0 0 0 999 V3000\n",V3K_BEGIN_CTAB_BLOCK:"M V30 BEGIN CTAB\n",V3K_END_CTAB_BLOCK:"M V30 END CTAB\n",V3K_BEGIN_COUNTS_LINE:"M V30 COUNTS ",V3K_COUNTS_LINE_ENDING:" 0 0 0\n",V3K_BEGIN_ATOM_BLOCK:"M V30 BEGIN ATOM\n",V3K_END_ATOM_BLOCK:"M V30 END ATOM\n",V3K_BEGIN_BOND_BLOCK:"M V30 BEGIN BOND\n",V3K_END_BOND_BLOCK:"M V30 END BOND\n",V3K_BOND_CONFIG:" CFG=",V3K_BEGIN_DATA_LINE:"M V30 ",V3K_END:"M END",PRECISION_FACTOR:1e4,DEOXYRIBOSE:{polymerType:"RNA",symbol:"d"},RIBOSE:{polymerType:"RNA",symbol:"r"},PHOSPHATE:{polymerType:"RNA",symbol:"p"},OXYGEN:"O",HYDROGEN:"H"}},8152:(e,t,n)=>{"use strict";n.d(t,{GD:()=>d,ZY:()=>u});var i=n(4328),o=n(6082),r=n(2003),s=n(608),a=n(4139),l=n(7150);const c=new class{dcName="bio";async getDockerContainer(){return await i.dapi.docker.dockerContainers.filter(this.dcName).first()}},u=["mafft --auto","mafft","linsi","ginsi","einsi","fftns","fftnsi","nwns","nwnsi"],h=["AlignedSeq","AlignedSubpeptide","HELM","ID","PolymerID"];async function d(e,t,n,i="ginsi",l=1.53,u=0,d=null,p,g=!1){const f=await c.getDockerContainer(),y=t.length;d??=o.Column.int("Clusters",y).init(0),d.type!=o.COLUMN_TYPE.STRING&&(d=d.convertTo(o.TYPE.STRING));const b=d.categories,w=d.getRawData(),v=new Array(b.length),T=new Array(b.length);if(g){const n=e.selection;for(let e=-1;-1!==(e=n.findNext(e,!0));){const n=w[e];if(!b[n])continue;const i=n,o=t.get(e);o&&((v[i]??=[]).push({ID:e.toString(),HELM:o}),(T[n]??=[]).push(e))}}else for(let e=0;e<y;++e){const n=w[e];if(!b[n])continue;const i=n,o=t.get(e);o&&((v[i]??=[]).push({ID:e.toString(),HELM:o}),(T[n]??=[]).push(e))}(0,s.aZ)(T,b);const C=new Array(y).fill(null);for(const e of v){if(!e||0===e.length)continue;const t=(await m(f.id,e,i,l,u,p)).Alignment;for(const e of t)C[parseInt(e.ID)]=Object.entries(e).filter(e=>!h.includes(e[0])).map(e=>"-"!==e[1]?e[1]:"").join(a.J.SEPARATOR)}const A=o.Column.fromStrings(n,C);return A.meta.units=r.Hi.SEPARATOR,A.setTag(r.gp.separator,a.J.SEPARATOR),A.setTag(r.gp.aligned,"SEQ.MSA"),A.setTag(r.gp.alphabet,r.YI.UN),A.setTag(r.gp.alphabetIsMultichar,"true"),A.semType=o.SEMTYPE.MACROMOLECULE,A}async function m(e,t,n,o,r,s){const a={method:"POST",headers:{Accept:"application/json","Content-Type":"application/json"},body:JSON.stringify(t)},c=`/align?method=${n}&gap_open=${o}&gap_extend=${r}`,u=window.performance.now(),h=await i.dapi.docker.dockerContainers.fetchProxy(e,c,a),d=window.performance.now();l._package.logger.debug(`Bio: requestAlignedObjects() dockerContainers.fetchProxy(), ET: ${d-u} ms`);const m="application/json"===h.headers.get("content-type");if(!h.ok&&m){const e=await h.json(),t=e["pepsea-error"];if(t)throw new Error(`PepSeA error: ${t}`);const n=e["datagrok-error"];if(n)throw new Error(`Datagrok error: ${n}`);throw new Error(h.statusText)}if(!h.ok&&!m){const e=await h.text();throw new Error(`Error: ${e}`)}if(!m){const e=await h.text();throw new Error(`Error: PepSeA expected JSON response, got '${e}'.`)}const p=await h.json();if("pepsea-stderr"in p){const e=p["pepsea-stderr"];s?.warning(e)}return p}},8153:(e,t)=>{function n(e){return"number"!=typeof e||isNaN(e)?1:e}t.Fd=function(e){return function(e,t){var n={},i=function(e){return void 0===e?t:e};"function"==typeof t&&(i=t);var o=function(t){return i(t[e])},r=function(){return i(void 0)};return"string"==typeof e?(n.fromAttributes=o,n.fromGraph=function(e,t){return o(e.getEdgeAttributes(t))},n.fromEntry=function(e,t){return o(t)},n.fromPartialEntry=n.fromEntry,n.fromMinimalEntry=n.fromEntry):"function"==typeof e?(n.fromAttributes=function(){throw new Error("graphology-utils/getters/createEdgeValueGetter: irrelevant usage.")},n.fromGraph=function(t,n){var o=t.extremities(n);return i(e(n,t.getEdgeAttributes(n),o[0],o[1],t.getNodeAttributes(o[0]),t.getNodeAttributes(o[1]),t.isUndirected(n)))},n.fromEntry=function(t,n,o,r,s,a,l){return i(e(t,n,o,r,s,a,l))},n.fromPartialEntry=function(t,n,o,r){return i(e(t,n,o,r))},n.fromMinimalEntry=function(t,n){return i(e(t,n))}):(n.fromAttributes=r,n.fromGraph=r,n.fromEntry=r,n.fromMinimalEntry=r),n}(e,n)}},8226:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/content","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/content":true},"$dynamicAnchor":"meta","title":"Content vocabulary meta-schema","type":["object","boolean"],"properties":{"contentEncoding":{"type":"string"},"contentMediaType":{"type":"string"},"contentSchema":{"$dynamicRef":"#meta"}}}')},8312:(e,t,n)=>{"use strict";n.d(t,{Q:()=>o});var i=n(6082);async function o(){const e=i.Func.find({package:"Bio",name:"getSeqHelper"});if(0===e.length)throw new Error("Package 'Bio' must be installed for SeqHelper.");return(await e[0].prepare().call()).getOutputParamValue()}},8343:(e,t,n)=>{"use strict";const{normalizeIPv6:i,normalizeIPv4:o,removeDotSegments:r,recomposeAuthority:s,normalizeComponentEncoding:a}=n(4834),l=n(343);function c(e,t,n,i){const o={};return i||(e=m(u(e,n),n),t=m(u(t,n),n)),!(n=n||{}).tolerant&&t.scheme?(o.scheme=t.scheme,o.userinfo=t.userinfo,o.host=t.host,o.port=t.port,o.path=r(t.path||""),o.query=t.query):(void 0!==t.userinfo||void 0!==t.host||void 0!==t.port?(o.userinfo=t.userinfo,o.host=t.host,o.port=t.port,o.path=r(t.path||""),o.query=t.query):(t.path?("/"===t.path.charAt(0)?o.path=r(t.path):(void 0===e.userinfo&&void 0===e.host&&void 0===e.port||e.path?e.path?o.path=e.path.slice(0,e.path.lastIndexOf("/")+1)+t.path:o.path=t.path:o.path="/"+t.path,o.path=r(o.path)),o.query=t.query):(o.path=e.path,void 0!==t.query?o.query=t.query:o.query=e.query),o.userinfo=e.userinfo,o.host=e.host,o.port=e.port),o.scheme=e.scheme),o.fragment=t.fragment,o}function u(e,t){const n={host:e.host,scheme:e.scheme,userinfo:e.userinfo,port:e.port,path:e.path,query:e.query,nid:e.nid,nss:e.nss,uuid:e.uuid,fragment:e.fragment,reference:e.reference,resourceName:e.resourceName,secure:e.secure,error:""},i=Object.assign({},t),o=[],a=l[(i.scheme||n.scheme||"").toLowerCase()];a&&a.serialize&&a.serialize(n,i),void 0!==n.path&&(i.skipEscape?n.path=unescape(n.path):(n.path=escape(n.path),void 0!==n.scheme&&(n.path=n.path.split("%3A").join(":")))),"suffix"!==i.reference&&n.scheme&&o.push(n.scheme,":");const c=s(n);if(void 0!==c&&("suffix"!==i.reference&&o.push("//"),o.push(c),n.path&&"/"!==n.path.charAt(0)&&o.push("/")),void 0!==n.path){let e=n.path;i.absolutePath||a&&a.absolutePath||(e=r(e)),void 0===c&&(e=e.replace(/^\/\//u,"/%2F")),o.push(e)}return void 0!==n.query&&o.push("?",n.query),void 0!==n.fragment&&o.push("#",n.fragment),o.join("")}const h=Array.from({length:127},(e,t)=>/[^!"$&'()*+,\-.;=_`a-z{}~]/u.test(String.fromCharCode(t))),d=/^(?:([^#/:?]+):)?(?:\/\/((?:([^#/?@]*)@)?(\[[^#/?\]]+\]|[^#/:?]*)(?::(\d*))?))?([^#?]*)(?:\?([^#]*))?(?:#((?:.|[\n\r])*))?/u;function m(e,t){const n=Object.assign({},t),r={scheme:void 0,userinfo:void 0,host:"",port:void 0,path:"",query:void 0,fragment:void 0},s=-1!==e.indexOf("%");let a=!1;"suffix"===n.reference&&(e=(n.scheme?n.scheme+":":"")+"//"+e);const c=e.match(d);if(c){if(r.scheme=c[1],r.userinfo=c[3],r.host=c[4],r.port=parseInt(c[5],10),r.path=c[6]||"",r.query=c[7],r.fragment=c[8],isNaN(r.port)&&(r.port=c[5]),r.host){const e=o(r.host);if(!1===e.isIPV4){const t=i(e.host);r.host=t.host.toLowerCase(),a=t.isIPV6}else r.host=e.host,a=!0}void 0!==r.scheme||void 0!==r.userinfo||void 0!==r.host||void 0!==r.port||void 0!==r.query||r.path?void 0===r.scheme?r.reference="relative":void 0===r.fragment?r.reference="absolute":r.reference="uri":r.reference="same-document",n.reference&&"suffix"!==n.reference&&n.reference!==r.reference&&(r.error=r.error||"URI is not a "+n.reference+" reference.");const e=l[(n.scheme||r.scheme||"").toLowerCase()];if(!(n.unicodeSupport||e&&e.unicodeSupport)&&r.host&&(n.domainHost||e&&e.domainHost)&&!1===a&&function(e){let t=0;for(let n=0,i=e.length;n<i;++n)if(t=e.charCodeAt(n),t>126||h[t])return!0;return!1}(r.host))try{r.host=URL.domainToASCII(r.host.toLowerCase())}catch(e){r.error=r.error||"Host's domain name can not be converted to ASCII: "+e}(!e||e&&!e.skipNormalize)&&(s&&void 0!==r.scheme&&(r.scheme=unescape(r.scheme)),s&&void 0!==r.host&&(r.host=unescape(r.host)),r.path&&(r.path=escape(unescape(r.path))),r.fragment&&(r.fragment=encodeURI(decodeURIComponent(r.fragment)))),e&&e.parse&&e.parse(r,n)}else r.error=r.error||"URI can not be parsed.";return r}const p={SCHEMES:l,normalize:function(e,t){return"string"==typeof e?e=u(m(e,t),t):"object"==typeof e&&(e=m(u(e,t),t)),e},resolve:function(e,t,n){const i=Object.assign({scheme:"null"},n);return u(c(m(e,i),m(t,i),i,!0),{...i,skipEscape:!0})},resolveComponents:c,equal:function(e,t,n){return"string"==typeof e?(e=unescape(e),e=u(a(m(e,n),!0),{...n,skipEscape:!0})):"object"==typeof e&&(e=u(a(e,!0),{...n,skipEscape:!0})),"string"==typeof t?(t=unescape(t),t=u(a(m(t,n),!0),{...n,skipEscape:!0})):"object"==typeof t&&(t=u(a(t,!0),{...n,skipEscape:!0})),e.toLowerCase()===t.toLowerCase()},serialize:u,parse:m};e.exports=p,e.exports.default=p,e.exports.fastUri=p},8438:(e,t,n)=>{"use strict";function i(e){return e.startsWith("[")&&e.endsWith("]")?e.slice(1,-1):e}n.d(t,{D:()=>i})},8498:(e,t,n)=>{"use strict";var i,o,r,s,a,l,c;n.d(t,{EG:()=>a,Pn:()=>o,RR:()=>l,Wn:()=>c,aT:()=>r,m6:()=>s,xL:()=>i}),function(e){e.Levenshtein="Levenshtein",e.JaroWinkler="Jaro-Winkler",e.Manhattan="Manhattan String",e.Onehot="One-Hot"}(i||(i={})),function(e){e.Euclidean="Euclidean",e.Manhattan="Manhattan",e.Cosine="Vector Cosine"}(o||(o={})),function(e){e.Tanimoto="Tanimoto",e.Dice="Dice",e.Asymmetric="Asymmetric",e.BraunBlanquet="Braun-Blanquet",e.Cosine="Cosine",e.Kulczynski="Kulczynski",e.McConnaughey="Mc-Connaughey",e.RogotGoldberg="Rogot-Goldberg",e.Russel="Russel",e.Sokal="Sokal",e.Hamming="Hamming",e.Euclidean="Euclidean BitArray"}(r||(r={})),function(e){e.TanimotoIntArray="TanimotoIntArray"}(s||(s={})),function(e){e.Vector="Vector",e.String="String",e.BitArray="BitArray",e.MacroMolecule="MacroMolecule",e.Number="Number",e.IntArray="IntArray",e.NumberArray="NumberArray"}(a||(a={})),function(e){e.Difference="Difference"}(l||(l={})),function(e){e.CommonItems="Common Items"}(c||(c={}))},8604:(e,t,n)=>{"use strict";n.d(t,{G:()=>i,V:()=>o});const i={explicit:["HELMCoreLibrary.json","polytool-lib.json"],exclude:[],duplicateMonomerPreferences:{}},o={PEPTIDE:334,RNA:383,CHEM:0}},8643:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(9029),o=n(4227),r=n(6250),s={keyword:"enum",schemaType:"array",$data:!0,error:{message:"must be equal to one of the allowed values",params:({schemaCode:e})=>i._`{allowedValues: ${e}}`},code(e){const{gen:t,data:n,$data:s,schema:a,schemaCode:l,it:c}=e;if(!s&&0===a.length)throw new Error("enum must have non-empty array");const u=a.length>=c.opts.loopEnum;let h;const d=()=>null!=h?h:h=(0,o.useFunc)(t,r.default);let m;if(u||s)m=t.let("valid"),e.block$data(m,function(){t.assign(m,!1),t.forOf("v",l,e=>t.if(i._`${d()}(${n}, ${e})`,()=>t.assign(m,!0).break()))});else{if(!Array.isArray(a))throw new Error("ajv implementation error");const e=t.const("vSchema",l);m=(0,i.or)(...a.map((t,o)=>function(e,t){const o=a[t];return"object"==typeof o&&null!==o?i._`${d()}(${n}, ${e}[${t}])`:i._`${n} === ${o}`}(e,o)))}e.pass(m)}};t.default=s},8660:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(5765),o=n(9029),r=n(2023),s=n(4227),a={keyword:"additionalProperties",type:["object"],schemaType:["boolean","object"],allowUndefined:!0,trackErrors:!0,error:{message:"must NOT have additional properties",params:({params:e})=>o._`{additionalProperty: ${e.additionalProperty}}`},code(e){const{gen:t,schema:n,parentSchema:a,data:l,errsCount:c,it:u}=e;if(!c)throw new Error("ajv implementation error");const{allErrors:h,opts:d}=u;if(u.props=!0,"all"!==d.removeAdditional&&(0,s.alwaysValidSchema)(u,n))return;const m=(0,i.allSchemaProperties)(a.properties),p=(0,i.allSchemaProperties)(a.patternProperties);function g(e){t.code(o._`delete ${l}[${e}]`)}function f(i){if("all"===d.removeAdditional||d.removeAdditional&&!1===n)g(i);else{if(!1===n)return e.setParams({additionalProperty:i}),e.error(),void(h||t.break());if("object"==typeof n&&!(0,s.alwaysValidSchema)(u,n)){const n=t.name("valid");"failing"===d.removeAdditional?(y(i,n,!1),t.if((0,o.not)(n),()=>{e.reset(),g(i)})):(y(i,n),h||t.if((0,o.not)(n),()=>t.break()))}}}function y(t,n,i){const o={keyword:"additionalProperties",dataProp:t,dataPropType:s.Type.Str};!1===i&&Object.assign(o,{compositeRule:!0,createErrors:!1,allErrors:!1}),e.subschema(o,n)}t.forIn("key",l,n=>{m.length||p.length?t.if(function(n){let r;if(m.length>8){const e=(0,s.schemaRefOrVal)(u,a.properties,"properties");r=(0,i.isOwnProperty)(t,e,n)}else r=m.length?(0,o.or)(...m.map(e=>o._`${n} === ${e}`)):o.nil;return p.length&&(r=(0,o.or)(r,...p.map(t=>o._`${(0,i.usePattern)(e,t)}.test(${n})`))),(0,o.not)(r)}(n),()=>f(n)):f(n)}),e.ok(o._`${c} === ${r.default.errors}`)}};t.default=a},8708:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.extendErrors=t.resetErrorsCount=t.reportExtraError=t.reportError=t.keyword$DataError=t.keywordError=void 0;const i=n(9029),o=n(4227),r=n(2023);function s(e,t){const n=e.const("err",t);e.if(i._`${r.default.vErrors} === null`,()=>e.assign(r.default.vErrors,i._`[${n}]`),i._`${r.default.vErrors}.push(${n})`),e.code(i._`${r.default.errors}++`)}function a(e,t){const{gen:n,validateName:o,schemaEnv:r}=e;r.$async?n.throw(i._`new ${e.ValidationError}(${t})`):(n.assign(i._`${o}.errors`,t),n.return(!1))}t.keywordError={message:({keyword:e})=>i.str`must pass "${e}" keyword validation`},t.keyword$DataError={message:({keyword:e,schemaType:t})=>t?i.str`"${e}" keyword must be ${t} ($data)`:i.str`"${e}" keyword is invalid ($data)`},t.reportError=function(e,n=t.keywordError,o,r){const{it:l}=e,{gen:u,compositeRule:h,allErrors:d}=l,m=c(e,n,o);(null!=r?r:h||d)?s(u,m):a(l,i._`[${m}]`)},t.reportExtraError=function(e,n=t.keywordError,i){const{it:o}=e,{gen:l,compositeRule:u,allErrors:h}=o;s(l,c(e,n,i)),u||h||a(o,r.default.vErrors)},t.resetErrorsCount=function(e,t){e.assign(r.default.errors,t),e.if(i._`${r.default.vErrors} !== null`,()=>e.if(t,()=>e.assign(i._`${r.default.vErrors}.length`,t),()=>e.assign(r.default.vErrors,null)))},t.extendErrors=function({gen:e,keyword:t,schemaValue:n,data:o,errsCount:s,it:a}){if(void 0===s)throw new Error("ajv implementation error");const l=e.name("err");e.forRange("i",s,r.default.errors,s=>{e.const(l,i._`${r.default.vErrors}[${s}]`),e.if(i._`${l}.instancePath === undefined`,()=>e.assign(i._`${l}.instancePath`,(0,i.strConcat)(r.default.instancePath,a.errorPath))),e.assign(i._`${l}.schemaPath`,i.str`${a.errSchemaPath}/${t}`),a.opts.verbose&&(e.assign(i._`${l}.schema`,n),e.assign(i._`${l}.data`,o))})};const l={keyword:new i.Name("keyword"),schemaPath:new i.Name("schemaPath"),params:new i.Name("params"),propertyName:new i.Name("propertyName"),message:new i.Name("message"),schema:new i.Name("schema"),parentSchema:new i.Name("parentSchema")};function c(e,t,n){const{createErrors:o}=e.it;return!1===o?i._`{}`:function(e,t,n={}){const{gen:o,it:s}=e,a=[u(s,n),h(e,n)];return function(e,{params:t,message:n},o){const{keyword:s,data:a,schemaValue:c,it:u}=e,{opts:h,propertyName:d,topSchemaRef:m,schemaPath:p}=u;o.push([l.keyword,s],[l.params,"function"==typeof t?t(e):t||i._`{}`]),h.messages&&o.push([l.message,"function"==typeof n?n(e):n]),h.verbose&&o.push([l.schema,c],[l.parentSchema,i._`${m}${p}`],[r.default.data,a]),d&&o.push([l.propertyName,d])}(e,t,a),o.object(...a)}(e,t,n)}function u({errorPath:e},{instancePath:t}){const n=t?i.str`${e}${(0,o.getErrorPath)(t,o.Type.Str)}`:e;return[r.default.instancePath,(0,i.strConcat)(r.default.instancePath,n)]}function h({keyword:e,it:{errSchemaPath:t}},{schemaPath:n,parentSchema:r}){let s=r?t:i.str`${t}/${e}`;return n&&(s=i.str`${s}${(0,o.getErrorPath)(n,o.Type.Str)}`),[l.schemaPath,s]}},8727:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.boolOrEmptySchema=t.topBoolOrEmptySchema=void 0;const i=n(8708),o=n(9029),r=n(2023),s={message:"boolean schema is false"};function a(e,t){const{gen:n,data:o}=e,r={gen:n,keyword:"false schema",data:o,schema:!1,schemaCode:!1,schemaValue:!1,params:{},it:e};(0,i.reportError)(r,s,void 0,t)}t.topBoolOrEmptySchema=function(e){const{gen:t,schema:n,validateName:i}=e;!1===n?a(e,!1):"object"==typeof n&&!0===n.$async?t.return(r.default.data):(t.assign(o._`${i}.errors`,null),t.return(!0))},t.boolOrEmptySchema=function(e,t){const{gen:n,schema:i}=e;!1===i?(n.var(t,!1),a(e)):n.var(t,!0)}},8754:(e,t,n)=>{"use strict";n.d(t,{V:()=>u});var i=n(4328),o=n(6077),r=n(2003),s=n(8312),a=n(5553),l=n(966),c=n(330);async function u(e,t,n,u,h,d,m){let p;if(n){const n=await(0,s.Q)(),i=n.getSeqHandler(t);let o,a;i.isHelm()?o=t:(a=t.name,t.name=`__${a}`,o=i.convert(r.Hi.HELM),o.name=a,e.columns.add(o,!1));try{p=await n.helmToAtomicLevel(o,!0,!0,h)}finally{o!==t&&(e.columns.remove(o.name),t.name=a)}}else{if(!(0,l.l)(t,"To Atomic Level",d)[0])return{molCol:null,warnings:["Column is not suitable"]};p=await(0,o.C4)(e,t,h,d,m)}if(p.molCol){const o=(0,c.qj)(e,t.name);p.molCol.name=o,e.columns.add(p.molCol,!0),await(0,a.Qc)(t,p.molCol,h,d,m,n),p.molCol.setTag(".sequence-src-highlight-monomers",String(u)),await i.data.detectSemanticTypes(e)}return p}},8774:(e,t,n)=>{"use strict";n.d(t,{A:()=>i});class i{constructor(e,t=!1){if(this._length=0,this._version=0,this._updateLevel=0,this._selectedCount=0,this._selectedCountVersion=-1,this._selectedIndexesVersion=-1,this._versionedName="",this._versionedNameVersion=-1,this.SHRINK_THRESHOLD=256,"number"==typeof e){const n=e,o=i._createBuffer(n);if(t)for(let e=0;e<o.length;e++)o[e]=-1;this._data=o,this._length=n}else{if(!(e instanceof Uint32Array))throw new Error("Invalid constructor");this._data=e,this._length=t}}getRawData(){return this._data}assureGoez(e,t){if(e<0)throw new Error(`${t} should be greater than zero`)}assureInRange(e,t,n,i){if(e<t||e>n)throw new Error(`Argument ${i} (${e}) out of range (${t}, ${n})`)}copy(e,t,n){for(let i=0;i<n;i++)t[i]=e[i]}copyFrom(e){if(this._length!=e._length)throw new Error(`Lengths differ (${this._length} != ${e._length})`);this.copy(e._data,this._data,this.lengthInInts),this._version++}get length(){return this._length}get buffer(){return this._data}set buffer(e){this._data=e,this._version++}get version(){return this._version}set version(e){this._version=e}incrementVersion(e=!0){this._version++}get lengthInInts(){return Math.floor((this._length+31)/32)}get versionedName(){return this._version==this._versionedNameVersion?this._versionedName:""}set versionedName(e){this._versionedName=e,this._versionedNameVersion=this._version}get self(){return this}setLength(e){if(e<0)throw new Error("should be >= 0");if(e==this._length)return;const t=Math.floor((e+31)/32);if(t>this._data.length||t+this.SHRINK_THRESHOLD<this._data.length){const e=new Uint32Array(t);this.copy(this._data,e,t>this._data.length?this._data.length:t),this._data=e}e>this._length&&(this._length%32>0&&(this._data[this.lengthInInts-1]&=(1<<(this._length%32&31))-1),this._data.fill(0,this.lengthInInts,t)),this._length=e,this._version++}static fromAnd(e,t){if(e._length!=t._length)throw new Error(`Lengths differ (${e._length} != ${t._length})`);const n=new i(e._length);n._length=e._length,n._data=i._createBuffer(n._length),n._version=0;const o=e.lengthInInts;for(let i=0;i<o;i++)n._data[i]=e._data[i]&t._data[i];return n}static _createBuffer(e){return new Uint32Array(Math.floor((e+31)/32))}static fromValues(e){const t=new i(e.length);t._version=0;for(let n=0;n<t._length;n++)e[n]&&(t._data[Math.floor(n/32)]|=1<<(n%32&31));return t}static fromSeq(e,t){const n=new i(e);for(let i=0;i<e;++i)n.setBit(i,t(i));return n._version=0,n}static fromString(e){return i.fromSeq(e.length,t=>"1"==e.charAt(t))}static fromUint32Array(e,t){const n=new i(e);return n._data=t,n}static fromBytes(e){const t=e.length,n=new i(8*t);n._data=new Uint32Array(Math.floor((t+3)/4)),n._length=8*t;let o=0,r=0;for(;t-r>=4;)n._data[o++]=255&e[r]|(255&e[r+1])<<8|(255&e[r+2])<<16|(255&e[r+3])<<24,r+=4;return t-r==3&&(n._data[o]=(255&e[r+2])<<16),t-r==2&&(n._data[o]|=(255&e[r+1])<<8),t-r==1&&(n._data[o]|=255&e[r]),n._version=0,n}toString(){return`${this._length} bits, ${this.countBits(!0)} set`}equals(e){if(this==e)return!0;if(null==e)return!1;if(this._length!=e._length)return!1;if(0==this._length)return!0;for(let t=0;t<this._data.length-1;t++)if(this._data[t]!=e._data[t])return!1;for(let t=8*(this._data.length-1);t<this._length;t++)if(this.getBit(t)!=e.getBit(t))return!1;return!0}clone(){const e=new i(0,!1);return e._data=Uint32Array.from(this._data),e._length=this._length,e._version=this._version,e}init(e,t){this.setAll(!1,!1);for(let t=0;t<this._length;t++)e(t)&&(this._data[Math.floor(t/32)]|=1<<(t%32&31));return this.incrementVersion(t),this}invert(e=!0){for(let e=0;e<this._data.length;e++)this._data[e]^=-1;this.incrementVersion(e)}setAll(e,t=!1){const n=e?-1:0,i=this.lengthInInts;for(let e=0;e<i;e++)this._data[e]=n;this.incrementVersion(t)}setIndexes(e,t=!0,n=!0,i=!0){n&&this.setAll(!t,!1);for(const n of e)this.setFast(n,t);this.incrementVersion(i)}everyIndex(e,t=!0){for(const n of e)if(this.getBit(n)!=t)return!1;return!0}anyIndex(e,t=!0){for(const n of e)if(this.getBit(n)==t)return!0;return!1}setWhere(e,t=!0,n=!0,i=!0,o=!0){if(n&&o&&this.setAll(!t,!1),o)for(let n=0;n<this._length;n++)e(n)&&this.setFast(n,t);else for(let n=0;n<this._length;n++)this.setFast(n,e(n)?t:!t);this.incrementVersion(i)}getRange(e,t){this.assureInRange(e,0,this._length-1,"from"),this.assureInRange(t,0,this._length,"to");const n=[];for(let i=e;i<t;++i)n.push(this.getBit(i));return i.fromValues(n)}getRangeAsList(e,t){this.assureInRange(e,0,this._length-1,"from"),this.assureInRange(t,0,this._length,"to");const n=[];for(let i=e;i<t;++i)n.push(this.getBit(i));return n}setRange(e,t,n,i=!0){this.assureInRange(e,0,this._length-1,"from"),this.assureInRange(t,0,this._length-1,"to");const o=Math.min(e,t),r=Math.max(e,t);if(n)for(let e=o;e<=r;e++)this.setTrue(e);else for(let e=o;e<=r;e++)this.setFalse(e);return this.incrementVersion(i),this}setRandom(e,t,n=!0){if(e<0||e>this._length)throw new Error("n must be >= 0 && <= Count");e>this._length/2&&this.setRandom(this._length-e,!t),this.setAll(!t);for(let n=0;n<e;){const e=Math.floor(Math.random()*this._length);this.getBit(e)!=t&&(this.setFast(e,t),n++)}this.incrementVersion(n)}and(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]&=e._data[t];return this.incrementVersion(t),this}andNot(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");const n=this.lengthInInts;for(let t=0;t<n;t++)this._data[t]&=~e._data[t];return this.incrementVersion(t),this}notAnd(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]=~this._data[t]&e._data[t];return this.incrementVersion(t),this}not(e=!0){for(let e=0,t=this.lengthInInts;e<t;e++)this._data[e]=~this._data[e];return this.incrementVersion(e),this}or(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]|=e._data[t];return this.incrementVersion(t),this}xor(e,t=!0){if(this._length!=e._length)throw new Error("Array lengths differ.");for(let t=0,n=this.lengthInInts;t<n;t++)this._data[t]^=e._data[t];return this.incrementVersion(t),this}insertAt(e,t,n=!1){if(this.assureInRange(e,0,this._length,"pos"),0==t)return;const i=this._length;this.setLength(this._length+t);for(let n=i-1;n>=e;n--)this.setBit(n+t,this.getBit(n));for(let i=e;i<e+t;i++)this.setBit(i,n)}removeAt(e,t=1){if(t<0)throw new Error("n cannot be negative");if(this.assureInRange(e,0,this._length-t,"pos"),this.contains(!0))for(let n=e;n<this._length-t;n++)this.setBit(n,this.getBit(n+t));this.setLength(this._length-t)}removeByMask(e,t=!0){if(this._length!=e.length)throw new Error("length != mask.length");if(e==this)this.setLength(e.countBits(!t)),this.setAll(!t);else{let n=0;for(let i=-1;-1!=(i=e.findNext(i,!t));)this.setFast(n++,this.getBit(i));this._length=n,this._version++}return this}getBit(e){return!!(this._data[Math.floor(e/32)]&1<<(31&e))}setBit(e,t,n=!0){this.setFast(e,t),this._version++}setFast(e,t){t?this._data[Math.floor(e/32)]|=1<<(31&e):this._data[Math.floor(e/32)]&=~(1<<(31&e))}setTrue(e){this._data[Math.floor(e/32)]|=1<<(31&e)}setFalse(e){this._data[Math.floor(e/32)]&=~(1<<(31&e))}trueCount(){return this.countBits(!0)}falseCount(){return this.countBits(!1)}countBits(e){if(0==this._length)return 0;if(this._selectedCountVersion!=this._version){this._selectedCount=0;const e=this.lengthInInts;let t=0;for(;t<e-1;t++)for(let e=this._data[t];0!=e;e>>>=8)this._selectedCount+=i._onBitCount[255&e];let n=this._data[t];const o=31&this._length;for(0!=o&&(n&=~(4294967295<<o));0!=n;n>>>=8)this._selectedCount+=i._onBitCount[255&n];this._selectedCountVersion=this._version}return e?this._selectedCount:this._length-this._selectedCount}countWhere(e){let t=0;if(this.trueCount()==this._length)for(let n=0;n<this._length;n++)t+=e(n)?1:0;else for(let n=-1;-1!=(n=this.findNext(n,!0));)t+=e(n)?1:0;return t}andWithCountBits(e,t){if(0==this._length)return 0;let n=0;const o=this.lengthInInts;let r=0;for(;r<o-1;r++)for(let t=this._data[r]&e._data[r];0!=t;t>>>=8)n+=i._onBitCount[255&t];let s=this._data[r]&e._data[r];const a=31&this._length;for(0!=a&&(s&=~(4294967295<<a));0!=s;s>>>=8)n+=i._onBitCount[255&s];return t?n:this._length-n}clear(){this.setLength(0)}contains(e){return this.findNext(-1,e)>=0}get allTrue(){return this.countBits(!0)==this._length}get allFalse(){return this.countBits(!1)==this._length}get anyTrue(){return this.countBits(!0)>0}get anyFalse(){return this.countBits(!1)>0}findNext(e,t=!0){if(this.assureInRange(e,-1,this._length,"index"),e>=this._length-1)return-1;let n=31&(e=e<0?0:e+1);const o=this.lengthInInts;for(let r=Math.floor(e/32);r<o;r++){let o=t?this._data[r]:~this._data[r];if(0!=n)o&=4294967295<<n&4294967295,n=0;else if(!t&&-4294967296==o)continue;for(let t=0;0!=o;t+=8,o>>>=8){const n=i._firstOnBit[255&o];if(n>=0)return(e=n+32*r+t)>=this._length?-1:e}}return-1}findPrev(e,t=!0){if(0==e)return-1;this.assureInRange(e,-1,this._length,"index");let n=1+(e=e<0?this._length-1:e-1)&31;for(let o=Math.floor(e/32);o>=0;o--){let e=t?this._data[o]:~this._data[o];0!=n&&(e&=~(4294967295<<n),n=0);for(let t=24;0!=e;t-=8,e<<=8){const n=i._lastOnBit[e>>>24];if(n>=0)return n+32*o+t}}return-1}}i._onBitCount=Int8Array.from([0,1,1,2,1,2,2,3,1,2,2,3,2,3,3,4,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,1,2,2,3,2,3,3,4,2,3,3,4,3,4,4,5,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,2,3,3,4,3,4,4,5,3,4,4,5,4,5,5,6,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,3,4,4,5,4,5,5,6,4,5,5,6,5,6,6,7,4,5,5,6,5,6,6,7,5,6,6,7,6,7,7,8]),i._firstOnBit=Int8Array.from([-1,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,6,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,7,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,6,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,5,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0,4,0,1,0,2,0,1,0,3,0,1,0,2,0,1,0]),i._lastOnBit=Int8Array.from([-1,0,1,1,2,2,2,2,3,3,3,3,3,3,3,3,4,4,4,4,4,4,4,4,4,4,4,4,4,4,4,4,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,5,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,6,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7,7])},8903:(e,t,n)=>{var i=n(1736),o=n(8153).Fd,r=n(2561),s=n(1782),a=n(9937);function l(e,t,n){if(!i(t))throw new Error("graphology-layout-forceatlas2: the given graph is not a valid graphology instance.");"number"==typeof n&&(n={iterations:n});var l=n.iterations;if("number"!=typeof l)throw new Error("graphology-layout-forceatlas2: invalid number of iterations.");if(l<=0)throw new Error("graphology-layout-forceatlas2: you should provide a positive number of iterations.");var c=o("getEdgeWeight"in n?n.getEdgeWeight:"weight").fromEntry,u="function"==typeof n.outputReducer?n.outputReducer:null,h=s.assign({},a,n.settings),d=s.validateSettings(h);if(d)throw new Error("graphology-layout-forceatlas2: "+d.message);var m,p=s.graphToByteArrays(t,c);for(m=0;m<l;m++)r(h,p.nodes,p.edges);if(!e)return s.collectLayoutChanges(t,p.nodes);s.assignLayoutChanges(t,p.nodes,u)}var c=l.bind(null,!1);c.assign=l.bind(null,!0),c.inferSettings=function(e){var t="number"==typeof e?e:e.order;return{barnesHutOptimize:t>2e3,strongGravityMode:!0,gravity:.05,scalingRatio:10,slowDown:1+Math.log(t)}},e.exports=c},8924:(e,t,n)=>{"use strict";n.d(t,{X:()=>o});var i=n(7362);class o extends i.e{static get Lesk(){return void 0===this.lesk&&(this.lesk=this.makePalette([[["G","A","S","T"],"orange"],[["C","V","I","L","P","F","Y","M","W"],"all_green"],[["N","Q","H"],"magenta"],[["D","E"],"red"],[["K","R"],"all_blue"]],!1,o)),this.lesk}static get GrokGroups(){return void 0===this.grokGroups&&(this.grokGroups=this.makePalette([[["C","U"],"yellow"],[["G","P"],"red"],[["A","V","I","L","M","F","Y","W"],"all_green"],[["R","H","K"],"light_blue"],[["D","E"],"dark_blue"],[["S","T","N","Q"],"orange"]],!1,o)),this.grokGroups}static get RasMol(){return void 0===this.rasMol&&(this.rasMol=new o({D:"#E60A0A",E:"#E60A0A",C:"#E6E600",M:"#E6E600",K:"#145AFF",R:"#145AFF",S:"#FA9600",T:"#FA9600",F:"#3232AA",Y:"#3232AA",N:"#00DCDC",Q:"#00DCDC",G:"#EBEBEB",L:"#0F820F",V:"#0F820F",I:"#0F820F",A:"#C8C8C8",W:"#B45AB4",H:"#8282D2",P:"#DC9682",others:"#BEA06E"})),this.rasMol}get(e){const t=e in o.aaSynonyms?o.aaSynonyms[e]:e;return super.get(t)}}o.aaSynonyms={MeNle:"L",MeA:"A",MeG:"G",MeF:"F"};class r{static getPalette(e="grok"){switch(e){case"grok":return o.GrokGroups;case"lesk":return o.Lesk;default:throw new Error(`ChemPalette: scheme \`${e}\` does not exist`)}}static getInnerOuter(e){let t=0,n="",i="";for(const o of e)"("==o?t++:")"==o?t--:t?n+=o:i+=o;return isNaN(parseInt(n))?[i,n]:[i,""]}static getColorAAPivot(e="",t="grok"){const n=this.getPalette(t);let[i,o]=this.getInnerOuter(e);if(i=i.length>6?`${i.slice(0,3)}...`:i,o=o.length>6?`${o.slice(0,3)}...`:o,1==e.length||"("==e[1]){const t=e[0]?.toUpperCase();return t in n?[n.get(t),t,o,1]:[this.undefinedColor,i,o,1]}if("d"==e[0]&&e[1]in n&&(2==e.length||"("==e[2])){const t=e[1]?.toUpperCase();return t in n?[n.get(t),t,o,2]:[this.undefinedColor,i,o,2]}if(e.substring(0,3)in this.AAFullNames&&(3==e.length||"("==e[3])){const t=this.AAFullNames[e.substring(0,3)];return t in n?[n.get(t),t,o,3]:[this.undefinedColor,i,o,3]}if(e[0]?.toLowerCase()==e[0]&&e.substring(1,3)in this.AAFullNames&&(4==e.length||"("==e[4])){const t=this.AAFullNames[e.substring(1,3)];return t in n?[n.get(t),t,o,4]:[this.undefinedColor,i,o,4]}return[this.undefinedColor,i,o,0]}}r.SemType="Aminoacids",r.SemTypeMultipleAlignment="AminoacidsMultipleAlignment",r.undefinedColor="rgb(100,100,100)",r.Names={G:"Glycine",L:"Leucine",Y:"Tyrosine",S:"Serine",E:"Glutamic acid",Q:"Glutamine",D:"Aspartic acid",N:"Asparagine",F:"Phenylalanine",A:"Alanine",K:"Lysine",R:"Arginine",H:"Histidine",C:"Cysteine",V:"Valine",P:"Proline",W:"Tryptophan",I:"Isoleucine",M:"Methionine",T:"Threonine"},r.AASmiles={G:"NCC(=O)O",L:"N[C@H](CC(C)C)C(=O)O",Y:"NC(CC1=CC=C(O)C=C1)C(=O)O",S:"NC(CO)C(=O)O",E:"N[C@@H](CCC(O)=O)C(=O)O",Q:"N[C@@H](CCC(N)=O)C(=O)O",D:"N[C@@H](CC(O)=O)C(=O)O",N:"N[C@@H](CC(N)=O)C(=O)O",F:"NC(CC1=CC=CC=C1)C(=O)O",A:"N[C@H](C)C(=O)O",K:"NC(CCCCN)C(=O)O",R:"N[C@H](CCCNC(=N)C)C(=O)O",H:"NC(CC1=CN=C[N]1)C(=O)O",C:"N[C@@H](CS)C(=O)O",V:"NC(C(C)C)C(=O)O",P:"N(CCC1)C1C(=O)O",W:"N[C@@H](Cc1c2ccccc2n([H])c1)C(=O)O",I:"N[C@H]([C@H](C)CC)C(=O)O",M:"NC(CCSC)C(=O)O",T:"NC(C(O)C)C(=O)O"},r.AASmilesTruncated={G:"*C*",L:"CC(C)C[C@H](*)*",Y:"C1=CC(=CC=C1CC(*)*)O",S:"OCC(*)C*",E:"*[C@@H](CCC(O)=O)*",Q:"*N[C@@H](CCC(N)=O)*",D:"*[C@@H](CC(O)=O)*",N:"*[C@@H](CC(N)=O)*",F:"C1=CC=C(C=C1)CC(*)*",A:"C[C@H](*)*",K:"C(CCN)CC(*)*",R:"*[C@H](CCCNC(=N)C)*",H:"C1=C(NC=N1)CC(*)*",C:"C([C@@H](*)*)S",V:"CC(C)C(*)*",P:"C1CCN(*)C1*",W:"*[C@@H](Cc1c2ccccc2n([H])c1)*",I:"CC[C@H](C)[C@H](*)*",M:"CSCCC(*)*",T:"CC(O)C(*)*"},r.AAFullNames={Ala:"A",Arg:"R",Asn:"N",Asp:"D",Cys:"C",Gln:"Q",Glu:"E",Gly:"G",His:"H",Ile:"I",Leu:"L",Lys:"K",Met:"M",Phe:"F",Pro:"P",Ser:"S",Thr:"T",Trp:"W",Tyr:"Y",Val:"V"}},9029:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.or=t.and=t.not=t.CodeGen=t.operators=t.varKinds=t.ValueScopeName=t.ValueScope=t.Scope=t.Name=t.regexpCode=t.stringify=t.getProperty=t.nil=t.strConcat=t.str=t._=void 0;const i=n(1520),o=n(7845);var r=n(1520);Object.defineProperty(t,"_",{enumerable:!0,get:function(){return r._}}),Object.defineProperty(t,"str",{enumerable:!0,get:function(){return r.str}}),Object.defineProperty(t,"strConcat",{enumerable:!0,get:function(){return r.strConcat}}),Object.defineProperty(t,"nil",{enumerable:!0,get:function(){return r.nil}}),Object.defineProperty(t,"getProperty",{enumerable:!0,get:function(){return r.getProperty}}),Object.defineProperty(t,"stringify",{enumerable:!0,get:function(){return r.stringify}}),Object.defineProperty(t,"regexpCode",{enumerable:!0,get:function(){return r.regexpCode}}),Object.defineProperty(t,"Name",{enumerable:!0,get:function(){return r.Name}});var s=n(7845);Object.defineProperty(t,"Scope",{enumerable:!0,get:function(){return s.Scope}}),Object.defineProperty(t,"ValueScope",{enumerable:!0,get:function(){return s.ValueScope}}),Object.defineProperty(t,"ValueScopeName",{enumerable:!0,get:function(){return s.ValueScopeName}}),Object.defineProperty(t,"varKinds",{enumerable:!0,get:function(){return s.varKinds}}),t.operators={GT:new i._Code(">"),GTE:new i._Code(">="),LT:new i._Code("<"),LTE:new i._Code("<="),EQ:new i._Code("==="),NEQ:new i._Code("!=="),NOT:new i._Code("!"),OR:new i._Code("||"),AND:new i._Code("&&"),ADD:new i._Code("+")};class a{optimizeNodes(){return this}optimizeNames(e,t){return this}}class l extends a{constructor(e,t,n){super(),this.varKind=e,this.name=t,this.rhs=n}render({es5:e,_n:t}){const n=e?o.varKinds.var:this.varKind,i=void 0===this.rhs?"":` = ${this.rhs}`;return`${n} ${this.name}${i};`+t}optimizeNames(e,t){if(e[this.name.str])return this.rhs&&(this.rhs=x(this.rhs,e,t)),this}get names(){return this.rhs instanceof i._CodeOrName?this.rhs.names:{}}}class c extends a{constructor(e,t,n){super(),this.lhs=e,this.rhs=t,this.sideEffects=n}render({_n:e}){return`${this.lhs} = ${this.rhs};`+e}optimizeNames(e,t){if(!(this.lhs instanceof i.Name)||e[this.lhs.str]||this.sideEffects)return this.rhs=x(this.rhs,e,t),this}get names(){return L(this.lhs instanceof i.Name?{}:{...this.lhs.names},this.rhs)}}class u extends c{constructor(e,t,n,i){super(e,n,i),this.op=t}render({_n:e}){return`${this.lhs} ${this.op}= ${this.rhs};`+e}}class h extends a{constructor(e){super(),this.label=e,this.names={}}render({_n:e}){return`${this.label}:`+e}}class d extends a{constructor(e){super(),this.label=e,this.names={}}render({_n:e}){return`break${this.label?` ${this.label}`:""};`+e}}class m extends a{constructor(e){super(),this.error=e}render({_n:e}){return`throw ${this.error};`+e}get names(){return this.error.names}}class p extends a{constructor(e){super(),this.code=e}render({_n:e}){return`${this.code};`+e}optimizeNodes(){return`${this.code}`?this:void 0}optimizeNames(e,t){return this.code=x(this.code,e,t),this}get names(){return this.code instanceof i._CodeOrName?this.code.names:{}}}class g extends a{constructor(e=[]){super(),this.nodes=e}render(e){return this.nodes.reduce((t,n)=>t+n.render(e),"")}optimizeNodes(){const{nodes:e}=this;let t=e.length;for(;t--;){const n=e[t].optimizeNodes();Array.isArray(n)?e.splice(t,1,...n):n?e[t]=n:e.splice(t,1)}return e.length>0?this:void 0}optimizeNames(e,t){const{nodes:n}=this;let i=n.length;for(;i--;){const o=n[i];o.optimizeNames(e,t)||(N(e,o.names),n.splice(i,1))}return n.length>0?this:void 0}get names(){return this.nodes.reduce((e,t)=>I(e,t.names),{})}}class f extends g{render(e){return"{"+e._n+super.render(e)+"}"+e._n}}class y extends g{}class b extends f{}b.kind="else";class w extends f{constructor(e,t){super(t),this.condition=e}render(e){let t=`if(${this.condition})`+super.render(e);return this.else&&(t+="else "+this.else.render(e)),t}optimizeNodes(){super.optimizeNodes();const e=this.condition;if(!0===e)return this.nodes;let t=this.else;if(t){const e=t.optimizeNodes();t=this.else=Array.isArray(e)?new b(e):e}return t?!1===e?t instanceof w?t:t.nodes:this.nodes.length?this:new w(R(e),t instanceof w?[t]:t.nodes):!1!==e&&this.nodes.length?this:void 0}optimizeNames(e,t){var n;if(this.else=null===(n=this.else)||void 0===n?void 0:n.optimizeNames(e,t),super.optimizeNames(e,t)||this.else)return this.condition=x(this.condition,e,t),this}get names(){const e=super.names;return L(e,this.condition),this.else&&I(e,this.else.names),e}}w.kind="if";class v extends f{}v.kind="for";class T extends v{constructor(e){super(),this.iteration=e}render(e){return`for(${this.iteration})`+super.render(e)}optimizeNames(e,t){if(super.optimizeNames(e,t))return this.iteration=x(this.iteration,e,t),this}get names(){return I(super.names,this.iteration.names)}}class C extends v{constructor(e,t,n,i){super(),this.varKind=e,this.name=t,this.from=n,this.to=i}render(e){const t=e.es5?o.varKinds.var:this.varKind,{name:n,from:i,to:r}=this;return`for(${t} ${n}=${i}; ${n}<${r}; ${n}++)`+super.render(e)}get names(){const e=L(super.names,this.from);return L(e,this.to)}}class A extends v{constructor(e,t,n,i){super(),this.loop=e,this.varKind=t,this.name=n,this.iterable=i}render(e){return`for(${this.varKind} ${this.name} ${this.loop} ${this.iterable})`+super.render(e)}optimizeNames(e,t){if(super.optimizeNames(e,t))return this.iterable=x(this.iterable,e,t),this}get names(){return I(super.names,this.iterable.names)}}class E extends f{constructor(e,t,n){super(),this.name=e,this.args=t,this.async=n}render(e){return`${this.async?"async ":""}function ${this.name}(${this.args})`+super.render(e)}}E.kind="func";class S extends g{render(e){return"return "+super.render(e)}}S.kind="return";class M extends f{render(e){let t="try"+super.render(e);return this.catch&&(t+=this.catch.render(e)),this.finally&&(t+=this.finally.render(e)),t}optimizeNodes(){var e,t;return super.optimizeNodes(),null===(e=this.catch)||void 0===e||e.optimizeNodes(),null===(t=this.finally)||void 0===t||t.optimizeNodes(),this}optimizeNames(e,t){var n,i;return super.optimizeNames(e,t),null===(n=this.catch)||void 0===n||n.optimizeNames(e,t),null===(i=this.finally)||void 0===i||i.optimizeNames(e,t),this}get names(){const e=super.names;return this.catch&&I(e,this.catch.names),this.finally&&I(e,this.finally.names),e}}class P extends f{constructor(e){super(),this.error=e}render(e){return`catch(${this.error})`+super.render(e)}}P.kind="catch";class _ extends f{render(e){return"finally"+super.render(e)}}function I(e,t){for(const n in t)e[n]=(e[n]||0)+(t[n]||0);return e}function L(e,t){return t instanceof i._CodeOrName?I(e,t.names):e}function x(e,t,n){return e instanceof i.Name?r(e):(o=e)instanceof i._Code&&o._items.some(e=>e instanceof i.Name&&1===t[e.str]&&void 0!==n[e.str])?new i._Code(e._items.reduce((e,t)=>(t instanceof i.Name&&(t=r(t)),t instanceof i._Code?e.push(...t._items):e.push(t),e),[])):e;var o;function r(e){const i=n[e.str];return void 0===i||1!==t[e.str]?e:(delete t[e.str],i)}}function N(e,t){for(const n in t)e[n]=(e[n]||0)-(t[n]||0)}function R(e){return"boolean"==typeof e||"number"==typeof e||null===e?!e:i._`!${D(e)}`}_.kind="finally",t.CodeGen=class{constructor(e,t={}){this._values={},this._blockStarts=[],this._constants={},this.opts={...t,_n:t.lines?"\n":""},this._extScope=e,this._scope=new o.Scope({parent:e}),this._nodes=[new y]}toString(){return this._root.render(this.opts)}name(e){return this._scope.name(e)}scopeName(e){return this._extScope.name(e)}scopeValue(e,t){const n=this._extScope.value(e,t);return(this._values[n.prefix]||(this._values[n.prefix]=new Set)).add(n),n}getScopeValue(e,t){return this._extScope.getValue(e,t)}scopeRefs(e){return this._extScope.scopeRefs(e,this._values)}scopeCode(){return this._extScope.scopeCode(this._values)}_def(e,t,n,i){const o=this._scope.toName(t);return void 0!==n&&i&&(this._constants[o.str]=n),this._leafNode(new l(e,o,n)),o}const(e,t,n){return this._def(o.varKinds.const,e,t,n)}let(e,t,n){return this._def(o.varKinds.let,e,t,n)}var(e,t,n){return this._def(o.varKinds.var,e,t,n)}assign(e,t,n){return this._leafNode(new c(e,t,n))}add(e,n){return this._leafNode(new u(e,t.operators.ADD,n))}code(e){return"function"==typeof e?e():e!==i.nil&&this._leafNode(new p(e)),this}object(...e){const t=["{"];for(const[n,o]of e)t.length>1&&t.push(","),t.push(n),(n!==o||this.opts.es5)&&(t.push(":"),(0,i.addCodeArg)(t,o));return t.push("}"),new i._Code(t)}if(e,t,n){if(this._blockNode(new w(e)),t&&n)this.code(t).else().code(n).endIf();else if(t)this.code(t).endIf();else if(n)throw new Error('CodeGen: "else" body without "then" body');return this}elseIf(e){return this._elseNode(new w(e))}else(){return this._elseNode(new b)}endIf(){return this._endBlockNode(w,b)}_for(e,t){return this._blockNode(e),t&&this.code(t).endFor(),this}for(e,t){return this._for(new T(e),t)}forRange(e,t,n,i,r=(this.opts.es5?o.varKinds.var:o.varKinds.let)){const s=this._scope.toName(e);return this._for(new C(r,s,t,n),()=>i(s))}forOf(e,t,n,r=o.varKinds.const){const s=this._scope.toName(e);if(this.opts.es5){const e=t instanceof i.Name?t:this.var("_arr",t);return this.forRange("_i",0,i._`${e}.length`,t=>{this.var(s,i._`${e}[${t}]`),n(s)})}return this._for(new A("of",r,s,t),()=>n(s))}forIn(e,t,n,r=(this.opts.es5?o.varKinds.var:o.varKinds.const)){if(this.opts.ownProperties)return this.forOf(e,i._`Object.keys(${t})`,n);const s=this._scope.toName(e);return this._for(new A("in",r,s,t),()=>n(s))}endFor(){return this._endBlockNode(v)}label(e){return this._leafNode(new h(e))}break(e){return this._leafNode(new d(e))}return(e){const t=new S;if(this._blockNode(t),this.code(e),1!==t.nodes.length)throw new Error('CodeGen: "return" should have one node');return this._endBlockNode(S)}try(e,t,n){if(!t&&!n)throw new Error('CodeGen: "try" without "catch" and "finally"');const i=new M;if(this._blockNode(i),this.code(e),t){const e=this.name("e");this._currNode=i.catch=new P(e),t(e)}return n&&(this._currNode=i.finally=new _,this.code(n)),this._endBlockNode(P,_)}throw(e){return this._leafNode(new m(e))}block(e,t){return this._blockStarts.push(this._nodes.length),e&&this.code(e).endBlock(t),this}endBlock(e){const t=this._blockStarts.pop();if(void 0===t)throw new Error("CodeGen: not in self-balancing block");const n=this._nodes.length-t;if(n<0||void 0!==e&&n!==e)throw new Error(`CodeGen: wrong number of nodes: ${n} vs ${e} expected`);return this._nodes.length=t,this}func(e,t=i.nil,n,o){return this._blockNode(new E(e,t,n)),o&&this.code(o).endFunc(),this}endFunc(){return this._endBlockNode(E)}optimize(e=1){for(;e-- >0;)this._root.optimizeNodes(),this._root.optimizeNames(this._root.names,this._constants)}_leafNode(e){return this._currNode.nodes.push(e),this}_blockNode(e){this._currNode.nodes.push(e),this._nodes.push(e)}_endBlockNode(e,t){const n=this._currNode;if(n instanceof e||t&&n instanceof t)return this._nodes.pop(),this;throw new Error(`CodeGen: not in block "${t?`${e.kind}/${t.kind}`:e.kind}"`)}_elseNode(e){const t=this._currNode;if(!(t instanceof w))throw new Error('CodeGen: "else" without "if"');return this._currNode=t.else=e,this}get _root(){return this._nodes[0]}get _currNode(){const e=this._nodes;return e[e.length-1]}set _currNode(e){const t=this._nodes;t[t.length-1]=e}},t.not=R;const $=O(t.operators.AND);t.and=function(...e){return e.reduce($)};const H=O(t.operators.OR);function O(e){return(t,n)=>t===i.nil?n:n===i.nil?t:i._`${D(t)} ${e} ${D(n)}`}function D(e){return e instanceof i.Name?e:i._`(${e})`}t.or=function(...e){return e.reduce(H)}},9039:(e,t,n)=>{"use strict";var i;n.d(t,{c:()=>i}),function(e){e.UMAP="UMAP",e.T_SNE="t-SNE"}(i||(i={}))},9124:(e,t,n)=>{"use strict";n.d(t,{b2:()=>r,fA:()=>s});var i=n(7389),o=n(6082);async function r(){const e="Helm",t=o.Func.find({package:e,name:"getHelmHelper"});if(0===t.length)throw new Error(`Package '${e}' must be installed for HelmHelper.`);return(await t[0].prepare().call()).getOutputParamValue()}function s(e,t){if(!e)throw new Error("Argument 'a' of type Atom or HelmType is mandatory.");let n,i;const o=e;return"ATOM"===o.T?(n=o.biotype(),i=o.elem):(n=e,i=t),[n,i]}o.JsInputBase,Error,i.input.helmAsync=async function(e,t){return(await r()).createHelmInput(e,t)}},9192:(e,t,n)=>{"use strict";function i(e){return"string"==typeof e||e instanceof String?e:"StateError"===e.constructor.name?e.message:"StateError"===e.constructor.name&&"$thrownJsError"in e?i(e.$thrownJsError):e instanceof Error?e.message:e.toString()}function o(e){return e instanceof Error?e.stack:"StateError"===e.constructor.name&&"$thrownJsError"in e?o(e.$thrownJsError):void 0}function r(e){return[i(e),o(e)]}n.d(t,{AP:()=>r})},9235:(e,t,n)=>{"use strict";n.d(t,{H:()=>c,R:()=>l});var i=n(6082),o=n(1991),r=n.n(o),s=n(330),a=n(3599);async function l(e,t,o,l,c,u,h){const d=e.length,m=e.dataFrame,p=Math.max(navigator.hardwareConcurrency-2,1),g=new Array(p).fill(null).map(()=>new Worker(new URL(n.p+n.u(455),n.b))),f=d/p,y=new Array(p),b=u.getSeqHandler(e),w="RNA"==l?a.o.NUCLEOTIDE:a.o.AA,v=r().count(0).take(e.length).map(e=>{const t=b.getSplitted(e);return r().count(0).take(t.length).map(e=>({position:e,symbol:t.getCanonical(e),biotype:w})).toArray()}).toArray();for(let e=0;e<p;e++){const n=g[e],i=Math.floor(e*f),r=e===p-1?d:Math.floor((e+1)*f);y[e]=new Promise(e=>{n.onmessage=t=>{e(t.data)}}),n.postMessage({seqList:v,monomersDict:t,alphabet:o,polymerType:l,start:i,end:r})}const T=[],C=[];await Promise.all(y).then(e=>{for(const t of e)T.push(...t.molfiles),C.push(...t.warnings)}),setTimeout(()=>{g.forEach(e=>{e.terminate()})},0);const A=(0,s.qj)(m,e.name),E=i.Column.fromType(i.COLUMN_TYPE.STRING,A,e.length).init(e=>T[e]?.molfile);return E.semType=i.SEMTYPE.MOLECULE,E.meta.units=i.UNITS.Molecule.MOLBLOCK,E.setTag(".sequence-src-col",e.name),{molCol:E,warnings:C}}function c(e,t){const n={},o={};for(const r of e){const e=t.getWebEditorMonomer(r.biotype,r.symbol).backgroundcolor,a=(0,s.vG)(e??i.Color.toRgb(i.Color.mouseOverRows))??[1,0,0,.7];for(const e of r.atoms)n[e]=a;for(const e of r.bonds)o[e]=a}return{atoms:Object.keys(n).map(e=>parseInt(e)),bonds:Object.keys(o).map(e=>parseInt(e)),highlightAtomColors:n,highlightBondColors:o}}},9336:(e,t,n)=>{"use strict";var i=n(2787),o=n(944),r=n(6295),s=n(6863),a=n(8498);const l={[a.Pn.Euclidean]:r.jL,[a.Pn.Manhattan]:r.Hf,[a.Pn.Cosine]:r.w_},c={[a.xL.Levenshtein]:i.I,[a.xL.JaroWinkler]:o.Vb,[a.xL.Manhattan]:function(e,t){if(e.length!==t.length)return 1;{let n=0;for(let i=1;i<e.length;i++)n+=e[i]==t[i]?0:1;return n/e.length}},[a.xL.Onehot]:function(e,t){return e===t?0:1}},u={[a.aT.Tanimoto]:r.tO,[a.aT.Dice]:r.zn,[a.aT.Asymmetric]:r.gt,[a.aT.BraunBlanquet]:r.ij,[a.aT.Cosine]:r.lO,[a.aT.Kulczynski]:r.rR,[a.aT.McConnaughey]:r.lP,[a.aT.RogotGoldberg]:r.TK,[a.aT.Russel]:r.yK,[a.aT.Sokal]:r.Ii,[a.aT.Hamming]:r.be,[a.aT.Euclidean]:r.Qj},h={[a.m6.TanimotoIntArray]:r.v_},d={[a.RR.Difference]:r.T6},m={[a.Wn.CommonItems]:r.Hr},p={[a.EG.Vector]:{[a.Pn.Euclidean]:l[a.Pn.Euclidean],[a.Pn.Manhattan]:l[a.Pn.Manhattan],[a.Pn.Cosine]:l[a.Pn.Cosine]},[a.EG.String]:{[a.xL.Levenshtein]:c[a.xL.Levenshtein],[a.xL.JaroWinkler]:c[a.xL.JaroWinkler],[a.xL.Manhattan]:c[a.xL.Manhattan],[a.xL.Onehot]:c[a.xL.Onehot]},[a.EG.BitArray]:{[a.aT.Tanimoto]:u[a.aT.Tanimoto],[a.aT.Dice]:u[a.aT.Dice],[a.aT.Asymmetric]:u[a.aT.Asymmetric],[a.aT.BraunBlanquet]:u[a.aT.BraunBlanquet],[a.aT.Cosine]:u[a.aT.Cosine],[a.aT.Kulczynski]:u[a.aT.Kulczynski],[a.aT.McConnaughey]:u[a.aT.McConnaughey],[a.aT.RogotGoldberg]:u[a.aT.RogotGoldberg],[a.aT.Russel]:u[a.aT.Russel],[a.aT.Sokal]:u[a.aT.Sokal]},[a.EG.MacroMolecule]:{[s.Z.HAMMING]:s.V[s.Z.HAMMING],[s.Z.LEVENSHTEIN]:s.V[s.Z.LEVENSHTEIN],[s.Z.NEEDLEMANN_WUNSCH]:s.V[s.Z.NEEDLEMANN_WUNSCH],[s.Z.MONOMER_CHEMICAL_DISTANCE]:s.V[s.Z.MONOMER_CHEMICAL_DISTANCE]},[a.EG.Number]:{[a.RR.Difference]:d[a.RR.Difference]},[a.EG.IntArray]:{[a.m6.TanimotoIntArray]:h[a.m6.TanimotoIntArray]},[a.EG.NumberArray]:{[a.Wn.CommonItems]:m[a.Wn.CommonItems]}};Object.keys(p).reduce((e,t)=>{for(const n of Object.keys(p[t]))e[n]=t;return e},{})},9547:e=>{"use strict";e.exports=JSON.parse('{"$schema":"https://json-schema.org/draft/2020-12/schema","$id":"https://json-schema.org/draft/2020-12/meta/unevaluated","$vocabulary":{"https://json-schema.org/draft/2020-12/vocab/unevaluated":true},"$dynamicAnchor":"meta","title":"Unevaluated applicator vocabulary meta-schema","type":["object","boolean"],"properties":{"unevaluatedItems":{"$dynamicRef":"#meta"},"unevaluatedProperties":{"$dynamicRef":"#meta"}}}')},9572:(e,t,n)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0});const i=n(1678),o=n(7216),r=n(9547),s=n(8226),a=n(518),l=n(4588),c=n(5707),u=n(7082),h=["/properties"];t.default=function(e){return[i,o,r,s,a,t(this,l),c,t(this,u)].forEach(e=>this.addMetaSchema(e,void 0,!1)),this;function t(t,n){return e?t.$dataMetaSchema(n,h):n}}},9713:e=>{"use strict";e.exports=rxjs.operators},9857:(e,t)=>{"use strict";Object.defineProperty(t,"__esModule",{value:!0}),t.contentVocabulary=t.metadataVocabulary=void 0,t.metadataVocabulary=["title","description","default","deprecated","readOnly","writeOnly","examples"],t.contentVocabulary=["contentMediaType","contentEncoding","contentSchema"]},9937:e=>{e.exports={linLogMode:!1,outboundAttractionDistribution:!1,adjustSizes:!1,edgeWeightInfluence:1,scalingRatio:1,strongGravityMode:!1,gravity:1,slowDown:1,barnesHutOptimize:!1,barnesHutTheta:.5}},9982:function(e,t,n){var i;!function(){var t={};!function(e){"use strict";e.__esModule=!0,e.digestLength=32,e.blockSize=64;var t=new Uint32Array([1116352408,1899447441,3049323471,3921009573,961987163,1508970993,2453635748,2870763221,3624381080,310598401,607225278,1426881987,1925078388,2162078206,2614888103,3248222580,3835390401,4022224774,264347078,604807628,770255983,1249150122,1555081692,1996064986,2554220882,2821834349,2952996808,3210313671,3336571891,3584528711,113926993,338241895,666307205,773529912,1294757372,1396182291,1695183700,1986661051,2177026350,2456956037,2730485921,2820302411,3259730800,3345764771,3516065817,3600352804,4094571909,275423344,430227734,506948616,659060556,883997877,958139571,1322822218,1537002063,1747873779,1955562222,2024104815,2227730452,2361852424,2428436474,2756734187,3204031479,3329325298]);function n(e,n,i,o,r){for(var s,a,l,c,u,h,d,m,p,g,f,y,b;r>=64;){for(s=n[0],a=n[1],l=n[2],c=n[3],u=n[4],h=n[5],d=n[6],m=n[7],g=0;g<16;g++)f=o+4*g,e[g]=(255&i[f])<<24|(255&i[f+1])<<16|(255&i[f+2])<<8|255&i[f+3];for(g=16;g<64;g++)y=((p=e[g-2])>>>17|p<<15)^(p>>>19|p<<13)^p>>>10,b=((p=e[g-15])>>>7|p<<25)^(p>>>18|p<<14)^p>>>3,e[g]=(y+e[g-7]|0)+(b+e[g-16]|0);for(g=0;g<64;g++)y=(((u>>>6|u<<26)^(u>>>11|u<<21)^(u>>>25|u<<7))+(u&h^~u&d)|0)+(m+(t[g]+e[g]|0)|0)|0,b=((s>>>2|s<<30)^(s>>>13|s<<19)^(s>>>22|s<<10))+(s&a^s&l^a&l)|0,m=d,d=h,h=u,u=c+y|0,c=l,l=a,a=s,s=y+b|0;n[0]+=s,n[1]+=a,n[2]+=l,n[3]+=c,n[4]+=u,n[5]+=h,n[6]+=d,n[7]+=m,o+=64,r-=64}return o}var i=function(){function t(){this.digestLength=e.digestLength,this.blockSize=e.blockSize,this.state=new Int32Array(8),this.temp=new Int32Array(64),this.buffer=new Uint8Array(128),this.bufferLength=0,this.bytesHashed=0,this.finished=!1,this.reset()}return t.prototype.reset=function(){return this.state[0]=1779033703,this.state[1]=3144134277,this.state[2]=1013904242,this.state[3]=2773480762,this.state[4]=1359893119,this.state[5]=2600822924,this.state[6]=528734635,this.state[7]=1541459225,this.bufferLength=0,this.bytesHashed=0,this.finished=!1,this},t.prototype.clean=function(){for(var e=0;e<this.buffer.length;e++)this.buffer[e]=0;for(e=0;e<this.temp.length;e++)this.temp[e]=0;this.reset()},t.prototype.update=function(e,t){if(void 0===t&&(t=e.length),this.finished)throw new Error("SHA256: can't update because hash was finished.");var i=0;if(this.bytesHashed+=t,this.bufferLength>0){for(;this.bufferLength<64&&t>0;)this.buffer[this.bufferLength++]=e[i++],t--;64===this.bufferLength&&(n(this.temp,this.state,this.buffer,0,64),this.bufferLength=0)}for(t>=64&&(i=n(this.temp,this.state,e,i,t),t%=64);t>0;)this.buffer[this.bufferLength++]=e[i++],t--;return this},t.prototype.finish=function(e){if(!this.finished){var t=this.bytesHashed,i=this.bufferLength,o=t/536870912|0,r=t<<3,s=t%64<56?64:128;this.buffer[i]=128;for(var a=i+1;a<s-8;a++)this.buffer[a]=0;this.buffer[s-8]=o>>>24&255,this.buffer[s-7]=o>>>16&255,this.buffer[s-6]=o>>>8&255,this.buffer[s-5]=o>>>0&255,this.buffer[s-4]=r>>>24&255,this.buffer[s-3]=r>>>16&255,this.buffer[s-2]=r>>>8&255,this.buffer[s-1]=r>>>0&255,n(this.temp,this.state,this.buffer,0,s),this.finished=!0}for(a=0;a<8;a++)e[4*a+0]=this.state[a]>>>24&255,e[4*a+1]=this.state[a]>>>16&255,e[4*a+2]=this.state[a]>>>8&255,e[4*a+3]=this.state[a]>>>0&255;return this},t.prototype.digest=function(){var e=new Uint8Array(this.digestLength);return this.finish(e),e},t.prototype._saveState=function(e){for(var t=0;t<this.state.length;t++)e[t]=this.state[t]},t.prototype._restoreState=function(e,t){for(var n=0;n<this.state.length;n++)this.state[n]=e[n];this.bytesHashed=t,this.finished=!1,this.bufferLength=0},t}();e.Hash=i;var o=function(){function e(e){this.inner=new i,this.outer=new i,this.blockSize=this.inner.blockSize,this.digestLength=this.inner.digestLength;var t=new Uint8Array(this.blockSize);if(e.length>this.blockSize)(new i).update(e).finish(t).clean();else for(var n=0;n<e.length;n++)t[n]=e[n];for(n=0;n<t.length;n++)t[n]^=54;for(this.inner.update(t),n=0;n<t.length;n++)t[n]^=106;for(this.outer.update(t),this.istate=new Uint32Array(8),this.ostate=new Uint32Array(8),this.inner._saveState(this.istate),this.outer._saveState(this.ostate),n=0;n<t.length;n++)t[n]=0}return e.prototype.reset=function(){return this.inner._restoreState(this.istate,this.inner.blockSize),this.outer._restoreState(this.ostate,this.outer.blockSize),this},e.prototype.clean=function(){for(var e=0;e<this.istate.length;e++)this.ostate[e]=this.istate[e]=0;this.inner.clean(),this.outer.clean()},e.prototype.update=function(e){return this.inner.update(e),this},e.prototype.finish=function(e){return this.outer.finished?this.outer.finish(e):(this.inner.finish(e),this.outer.update(e,this.digestLength).finish(e)),this},e.prototype.digest=function(){var e=new Uint8Array(this.digestLength);return this.finish(e),e},e}();function r(e){var t=(new i).update(e),n=t.digest();return t.clean(),n}function s(e,t){var n=new o(e).update(t),i=n.digest();return n.clean(),i}function a(e,t,n,i){var o=i[0];if(0===o)throw new Error("hkdf: cannot expand more");t.reset(),o>1&&t.update(e),n&&t.update(n),t.update(i),t.finish(e),i[0]++}e.HMAC=o,e.hash=r,e.default=r,e.hmac=s;var l=new Uint8Array(e.digestLength);e.hkdf=function(e,t,n,i){void 0===t&&(t=l),void 0===i&&(i=32);for(var r=new Uint8Array([1]),c=s(t,e),u=new o(c),h=new Uint8Array(u.digestLength),d=h.length,m=new Uint8Array(i),p=0;p<i;p++)d===h.length&&(a(h,u,n,r),d=0),m[p]=h[d++];return u.clean(),h.fill(0),r.fill(0),m},e.pbkdf2=function(e,t,n,i){for(var r=new o(e),s=r.digestLength,a=new Uint8Array(4),l=new Uint8Array(s),c=new Uint8Array(s),u=new Uint8Array(i),h=0;h*s<i;h++){var d=h+1;a[0]=d>>>24&255,a[1]=d>>>16&255,a[2]=d>>>8&255,a[3]=d>>>0&255,r.reset(),r.update(t),r.update(a),r.finish(c);for(var m=0;m<s;m++)l[m]=c[m];for(m=2;m<=n;m++){r.reset(),r.update(c).finish(c);for(var p=0;p<s;p++)l[p]^=c[p]}for(m=0;m<s&&h*s+m<i;m++)u[h*s+m]=l[m]}for(h=0;h<s;h++)l[h]=c[h]=0;for(h=0;h<4;h++)a[h]=0;return r.clean(),u}}(t);var o=t.default;for(var r in t)o[r]=t[r];"object"==typeof e.exports?e.exports=o:void 0===(i=function(){return o}.call(t,n,t,e))||(e.exports=i)}()}},t={};function n(i){var o=t[i];if(void 0!==o)return o.exports;var r=t[i]={id:i,loaded:!1,exports:{}};return e[i].call(r.exports,r,r.exports,n),r.loaded=!0,r.exports}n.m=e,n.amdO={},n.n=e=>{var t=e&&e.__esModule?()=>e.default:()=>e;return n.d(t,{a:t}),t},n.d=(e,t)=>{for(var i in t)n.o(t,i)&&!n.o(e,i)&&Object.defineProperty(e,i,{enumerable:!0,get:t[i]})},n.u=e=>e+".js",n.g=function(){if("object"==typeof globalThis)return globalThis;try{return this||new Function("return this")()}catch(e){if("object"==typeof window)return window}}(),n.hmd=e=>((e=Object.create(e)).children||(e.children=[]),Object.defineProperty(e,"exports",{enumerable:!0,set:()=>{throw new Error("ES Modules may not assign module.exports or exports.*, Use ESM export syntax, instead: "+e.id)}}),e),n.o=(e,t)=>Object.prototype.hasOwnProperty.call(e,t),n.r=e=>{"undefined"!=typeof Symbol&&Symbol.toStringTag&&Object.defineProperty(e,Symbol.toStringTag,{value:"Module"}),Object.defineProperty(e,"__esModule",{value:!0})},(()=>{var e;n.g.importScripts&&(e=n.g.location+"");var t=n.g.document;if(!e&&t&&(t.currentScript&&"SCRIPT"===t.currentScript.tagName.toUpperCase()&&(e=t.currentScript.src),!e)){var i=t.getElementsByTagName("script");if(i.length)for(var o=i.length-1;o>-1&&(!e||!/^http(s?):/.test(e));)e=i[o--].src}if(!e)throw new Error("Automatic publicPath is not supported in this browser");e=e.replace(/^blob:/,"").replace(/#.*$/,"").replace(/\?.*$/,"").replace(/\/[^\/]+$/,"/"),n.p=e})(),n.b=document.baseURI||self.location.href,n.nc=void 0;var i={};(()=>{"use strict";n.r(i),n.d(i,{_package:()=>Le,initAutoTests:()=>Ne,test:()=>xe,tests:()=>t.CN});var e=n(6082),t=n(8070);(0,t.L1)("_first",()=>{(0,t.t6)("_first",async()=>{})});var o=n(8924),r=n(7362),s=n(1093);(0,t.L1)("Palettes",()=>{(0,t.t6)("testPaletteN",async()=>{await async function(){const e=s.A.Chromatogram;(0,t.E3)(e instanceof r.e,!0),(0,t.E3)(e instanceof s.A,!0)}()}),(0,t.t6)("testPaletteAA",async()=>{await async function(){const e=o.X.Lesk,n=o.X.RasMol,i=o.X.GrokGroups;(0,t.E3)(e instanceof r.e,!0),(0,t.E3)(n instanceof r.e,!0),(0,t.E3)(i instanceof r.e,!0),(0,t.E3)(e instanceof o.X,!0),(0,t.E3)(n instanceof o.X,!0),(0,t.E3)(i instanceof o.X,!0)}()}),(0,t.t6)("testPalettePtMe",async()=>{const e=o.X.GrokGroups.get("MeNle"),n=o.X.GrokGroups.get("MeA"),i=o.X.GrokGroups.get("MeG"),r=o.X.GrokGroups.get("MeF"),s=o.X.GrokGroups.get("L"),a=o.X.GrokGroups.get("A"),l=o.X.GrokGroups.get("G"),c=o.X.GrokGroups.get("F");(0,t.E3)(e,s),(0,t.E3)(n,a),(0,t.E3)(i,l),(0,t.E3)(r,c)})});var a=n(4328),l=n(2003),c=n(8312);class u{units;aligned;alphabet;alphabetSize;alphabetIsMultichar;separator;constructor(e,t,n,i,o,r){this.units=e,this.aligned=t,this.alphabet=n,this.alphabetSize=i,this.alphabetIsMultichar=o,this.separator=r}}async function h(t,n){const i=(await t()).getCol(n),o=await a.functions.call("Bio:detectMacromolecule",{col:i});if(o&&(i.semType=o),i.semType===e.SEMTYPE.MACROMOLECULE){const e=`Negative test detected semType='${i.semType}', units='${i.meta.units}'.`;throw new Error(e)}}async function d(n,i,o,r,s,c,u,h,d=null){const m=(await n()).col(i),p=await a.functions.call("Bio:detectMacromolecule",{col:m});p&&(m.semType=p),(0,t.E3)(m.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(m.meta.units,r),(0,t.E3)(m.getTag(l.gp.aligned),s),(0,t.E3)(m.getTag(l.gp.alphabet),c),d&&(0,t.E3)(m.getTag(l.gp.separator),d);const g=o.getSeqHandler(m);(0,t.E3)(g.getAlphabetSize(),u),(0,t.E3)(g.getAlphabetIsMultichar(),h),g.isHelm()||((0,t.E3)(g.aligned,s),(0,t.E3)(g.alphabet,c))}var m=n(4025);async function p(n,i){const o=e.Column.fromList(e.TYPE.STRING,"seq",n),r=await a.functions.call("Bio:detectMacromolecule",{col:o});r&&(o.semType=r),(0,t.E3)(o.semType,e.SEMTYPE.MACROMOLECULE);const s=i.getSeqHandler(o);return await s.refinerPromise,i.getSeqHandler(o),o}async function g(e,n,i=!1){const o=await p(e,n);(0,t.E3)(o.meta.units===l.Hi.BILN,!i,`Incorrectly detected as ${o.meta.units}`),(0,t.E3)(null!=o.temp[m.j.notationProvider],!i,"No notation provider for BILN")}async function f(e,n,i){const o=await p(e,i),r=i.getSeqHandler(o);for(let i=0;i<e.length;i++){const o=r.getHelm(i);(0,t.E3)(o===n[i],!0,`Incorrect HELM conversion for ${e[i]}: Expected ${n[i]} \n Got ${o}`)}const s=r.getConverter(l.Hi.HELM);for(let i=0;i<e.length;i++){const o=s(e[i]);(0,t.E3)(o===n[i],!0,`Incorrect HELM conversion for ${e[i]}: Expected ${n[i]} \n Got ${o}`)}}async function y(n,i,o){const r=e.Column.fromList(e.TYPE.STRING,"helm",n),s=e.DataFrame.fromColumns([r]);await s.meta.detectSemanticTypes(),await a.data.detectSemanticTypes(s),(0,t.E3)(r.semType===e.SEMTYPE.MACROMOLECULE,!0,`Incorrectly detected as ${r.semType}`),(0,t.E3)(r.meta.units===l.Hi.HELM,!0,`Incorrectly detected as ${r.meta.units}`);const c=o.getSeqHandler(r).getConverter(l.Hi.BILN);for(let e=0;e<n.length;e++){const o=c(n[e]);(0,t.E3)(o===i[e],!0,`Incorrect BILN conversion for ${n[e]}: Expected ${i[e]} \n Got ${o}`)}}const b=[{name:"Valid Biln",seqs:["A-C(1,3)-G-G-H-A-V-E-A-K-Y-L-V-C(3,3)-S.G-I-V-E-A-C(2,3)-C(1,3)-T-S-I-C(2,3)-S-L-Y-Q-L-E-N-Y-C(3,3)-Y","A-C(1,3)-G-G-H-A-V-E-A-K-Y-L-V-C(3,3)-S.G-I-V-E-A-C(2,3)-C(1,3)-T-S-I-C(2,3)-S-L-Y-Q-L-E-N-Y-C(3,3)-Y","C-C(1,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(3,3)-NH2.C(1,1)(2,2)(3,3)","C-C(1,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(3,3)-NH2.[C](1,1)(2,2)(3,3)","D-T-H-F-P-I-C(1,3)-I-F-C(2,3)-C(3,3)-G-C(2,3)-C(4,3)-H-R-S-K-C(3,3)-G-M-C(4,3)-C(1,3)-K-T"],negative:!1},{name:"Simple Separator Neg",seqs:["meI/hHis/Aca/N/T/dE/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe/dV/E/N/D-Orn/D-aThr//Phe_4Me","meI/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Phe_ab-dehydro/N/D-Orn/D-aThr//Phe_4Me","Lys_Boc/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Thr_PO3H2/N/D-Orn/D-aThr//Phe_4Me","meI/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Thr_PO3H2/N/D-Orn/D-aThr//Phe_4Me","meI/hHis/Aca/N/T/dK/Thr_PO3H2/Aca/D-Tyr_Et/Tyr_ab-dehydroMe/dV/Chg/N/D-Orn/D-aThr//Phe_4Me"],negative:!0},{name:"Valid Biln without cyclization",seqs:["meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-E-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-[Phe_ab-dehydro]-N-[D-Orn]-[D-aThr]--Phe_4Me","Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-Chg-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-Tyr_Bn-dV-E-N-dV---Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-Aze-dV-E-N-dV---Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-meQ-dV-E-N-dV---Phe_4Me"],negative:!1}],w=[{name:"Linear",biln:["meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-E-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-[Phe_ab-dehydro]-N-[D-Orn]-[D-aThr]--Phe_4Me","Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-Chg-N-[D-Orn]-[D-aThr]--Phe_4Me"],helm:["PEPTIDE1{[meI].[hHis].[Aca].N.T.[dE].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].E.N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Phe_ab-dehydro].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[Lys_Boc].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].N.T.[dK].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].[Chg].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$"]},{name:"Cyclic",biln:["C-C(1,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(3,3)-NH2.[C](1,1)(2,2)(3,3)","D-T-H-F-P-I-C(1,3)-I-F-C(2,3)-C(3,3)-G-C(2,3)-C(4,3)-H-R-S-K-C(3,3)-G-M-C(4,3)-C(1,3)-K-T","L-C(1,3)-G-S-H-L-V-E-A-L-Y-L-V-C(2,3)-G.G-I-V-E-Q-C(3,3)-C(1,3)-T-S-I-C(3,3)-S-L-Y-Q-L-E-N-Y-C(2,3)-N","H-Aib-E-G-T-F-T-S-D(2,3)-V-S-S-Y-L-E-G-Q-A-A-K(1,3)-E-F-I-A-W-L-V-R-G-R-G.C(2,3)-gGlu-G-G(1,2)","F(4,2).dI(1,1)(3,3)-Trp_Ome-Asp_OMe-Cys_Bn-meG-Phe_3Cl-dD-T-dI(4,3)-T-dK-aG-3Pal-xiIle-meD-Ala_tBu(1,2).L(2,1)-Pro_4Me3OH-S-NMe2Abz-Q-3Pal-xiIle-D-Hyp-Ala_tBu-dI(3,3)-Trp_Ome-Asp_OMe-N-meG-Phe_34diCl-Phe_34diCl(2,2)"],helm:["PEPTIDE1{C.C.S.W.P.A.R.C.L.H.Q.D.L.C.[NH2]}|PEPTIDE2{C}$PEPTIDE1,PEPTIDE2,14:R3-1:R3|PEPTIDE1,PEPTIDE2,8:R3-1:R2|PEPTIDE1,PEPTIDE2,2:R3-1:R1$$$V2.0","PEPTIDE1{D.T.H.F.P.I.C.I.F.C.C.G.C.C.H.R.S.K.C.G.M.C.C.K.T}$PEPTIDE1,PEPTIDE1,10:R3-13:R3|PEPTIDE1,PEPTIDE1,11:R3-19:R3|PEPTIDE1,PEPTIDE1,14:R3-22:R3|PEPTIDE1,PEPTIDE1,7:R3-23:R3$$$V2.0","PEPTIDE1{L.C.G.S.H.L.V.E.A.L.Y.L.V.C.G}|PEPTIDE2{G.I.V.E.Q.C.C.T.S.I.C.S.L.Y.Q.L.E.N.Y.C.N}$PEPTIDE1,PEPTIDE2,2:R3-7:R3|PEPTIDE2,PEPTIDE2,6:R3-11:R3|PEPTIDE1,PEPTIDE2,14:R3-20:R3$$$V2.0","PEPTIDE1{H.[Aib].E.G.T.F.T.S.D.V.S.S.Y.L.E.G.Q.A.A.K.E.F.I.A.W.L.V.R.G.R.G}|PEPTIDE2{C.[gGlu].G.G}$PEPTIDE1,PEPTIDE2,9:R3-1:R3|PEPTIDE1,PEPTIDE2,20:R3-4:R2$$$V2.0","PEPTIDE1{F}|PEPTIDE2{[dI].[Trp_Ome].[Asp_OMe].[Cys_Bn].[meG].[Phe_3Cl].[dD].T.[dI].T.[dK].[aG].[3Pal].[xiIle].[meD].[Ala_tBu]}|PEPTIDE3{L.[Pro_4Me3OH].S.[NMe2Abz].Q.[3Pal].[xiIle].D.[Hyp].[Ala_tBu].[dI].[Trp_Ome].[Asp_OMe].N.[meG].[Phe_34diCl].[Phe_34diCl]}$PEPTIDE1,PEPTIDE2,1:R2-9:R3|PEPTIDE2,PEPTIDE2,1:R1-16:R2|PEPTIDE2,PEPTIDE3,1:R3-11:R3|PEPTIDE3,PEPTIDE3,1:R1-17:R2$$$V2.0"]}],v=[{name:"Linear",biln:["meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-E-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-[Phe_ab-dehydro]-N-[D-Orn]-[D-aThr]--Phe_4Me","Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-[D-Chg]-dV-Thr_PO3H2-N-[D-Orn]-[D-aThr]--Phe_4Me","meI-hHis-Aca-N-T-dK-Thr_PO3H2-Aca-[D-Tyr_Et]-[Tyr_ab-dehydroMe]-dV-Chg-N-[D-Orn]-[D-aThr]--Phe_4Me"],helm:["PEPTIDE1{[meI].[hHis].[Aca].N.T.[dE].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].E.N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Phe_ab-dehydro].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[Lys_Boc].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Thr_PO3H2].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$","PEPTIDE1{[meI].[hHis].[Aca].N.T.[dK].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].[Chg].N.[D-Orn].[D-aThr].*.[Phe_4Me]}$$$$"]},{name:"Cyclic",biln:["C-C(3,3)-S-W-P-A-R-C(2,3)-L-H-Q-D-L-C(1,3)-NH2.C(1,3)(2,2)(3,1)","D-T-H-F-P-I-C(4,3)-I-F-C(1,3)-C(2,3)-G-C(1,3)-C(3,3)-H-R-S-K-C(2,3)-G-M-C(3,3)-C(4,3)-K-T","L-C(1,3)-G-S-H-L-V-E-A-L-Y-L-V-C(3,3)-G.G-I-V-E-Q-C(2,3)-C(1,3)-T-S-I-C(2,3)-S-L-Y-Q-L-E-N-Y-C(3,3)-N","H-Aib-E-G-T-F-T-S-D(1,3)-V-S-S-Y-L-E-G-Q-A-A-K(2,3)-E-F-I-A-W-L-V-R-G-R-G.C(1,3)-gGlu-G-G(2,2)","F(1,2).dI(2,1)(3,3)-Trp_Ome-Asp_OMe-Cys_Bn-meG-Phe_3Cl-dD-T-dI(1,3)-T-dK-aG-3Pal-xiIle-meD-Ala_tBu(2,2).L(4,1)-Pro_4Me3OH-S-NMe2Abz-Q-3Pal-xiIle-D-Hyp-Ala_tBu-dI(3,3)-Trp_Ome-Asp_OMe-N-meG-Phe_34diCl-Phe_34diCl(4,2)"],helm:["PEPTIDE1{C.C.S.W.P.A.R.C.L.H.Q.D.L.C.[NH2]}|PEPTIDE2{C}$PEPTIDE1,PEPTIDE2,14:R3-1:R3|PEPTIDE1,PEPTIDE2,8:R3-1:R2|PEPTIDE1,PEPTIDE2,2:R3-1:R1$$$V2.0","PEPTIDE1{D.T.H.F.P.I.C.I.F.C.C.G.C.C.H.R.S.K.C.G.M.C.C.K.T}$PEPTIDE1,PEPTIDE1,10:R3-13:R3|PEPTIDE1,PEPTIDE1,11:R3-19:R3|PEPTIDE1,PEPTIDE1,14:R3-22:R3|PEPTIDE1,PEPTIDE1,7:R3-23:R3$$$V2.0","PEPTIDE1{L.C.G.S.H.L.V.E.A.L.Y.L.V.C.G}|PEPTIDE2{G.I.V.E.Q.C.C.T.S.I.C.S.L.Y.Q.L.E.N.Y.C.N}$PEPTIDE1,PEPTIDE2,2:R3-7:R3|PEPTIDE2,PEPTIDE2,6:R3-11:R3|PEPTIDE1,PEPTIDE2,14:R3-20:R3$$$V2.0","PEPTIDE1{H.[Aib].E.G.T.F.T.S.D.V.S.S.Y.L.E.G.Q.A.A.K.E.F.I.A.W.L.V.R.G.R.G}|PEPTIDE2{C.[gGlu].G.G}$PEPTIDE1,PEPTIDE2,9:R3-1:R3|PEPTIDE1,PEPTIDE2,20:R3-4:R2$$$V2.0","PEPTIDE1{F}|PEPTIDE2{[dI].[Trp_Ome].[Asp_OMe].[Cys_Bn].[meG].[Phe_3Cl].[dD].T.[dI].T.[dK].[aG].[3Pal].[xiIle].[meD].[Ala_tBu]}|PEPTIDE3{L.[Pro_4Me3OH].S.[NMe2Abz].Q.[3Pal].[xiIle].D.[Hyp].[Ala_tBu].[dI].[Trp_Ome].[Asp_OMe].N.[meG].[Phe_34diCl].[Phe_34diCl]}$PEPTIDE1,PEPTIDE2,1:R2-9:R3|PEPTIDE2,PEPTIDE2,1:R1-16:R2|PEPTIDE2,PEPTIDE3,1:R3-11:R3|PEPTIDE3,PEPTIDE3,1:R1-17:R2$$$V2.0"]}];async function T(t){const n=e.Column.fromList(e.TYPE.STRING,"col1",t);if(await a.functions.call("Bio:detectMacromolecule",{col:n}),n.semType===e.SEMTYPE.MACROMOLECULE){const e=`Negative test detected semType='${n.semType}', units='${n.meta.units}'.`;throw new Error(e)}}async function C(n,i,o,r,s,c,u,h=null){const d=e.Column.fromList(e.TYPE.STRING,"seq",n),m=await a.functions.call("Bio:detectMacromolecule",{col:d});m&&(d.semType=m),(0,t.E3)(d.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(d.meta.units,o),(0,t.E3)(d.getTag(l.gp.aligned),r),(0,t.E3)(d.getTag(l.gp.alphabet),s),h&&(0,t.E3)(d.getTag(l.gp.separator),h);const p=i.getSeqHandler(d);(0,t.E3)(p.getAlphabetSize(),c),(0,t.E3)(p.getAlphabetIsMultichar(),u),p.isHelm()||((0,t.E3)(p.aligned,r),(0,t.E3)(p.alphabet,s))}async function A(e,t,n){const i=await e(),o=[];for(const r of i.columns.names())if(r in t){const i=t[r];try{await d(e,r,n,i.units,i.aligned,i.alphabet,i.alphabetSize,i.alphabetIsMultichar,i.separator)}catch(e){const t=e.toString();o.push(`Positive col '${r}' failed: ${t}`)}}else try{await h(e,r)}catch(e){const t=e.toString();o.push(`Negative col '${r}' failed: ${t}`)}if(o.length>0)throw new Error(o.join("\n"))}(0,t.L1)("detectors",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i={negEmpty:{csv:"id,col1\n1,\n2,\n3,\n4,\n5,",neg:["col1"]},negNum1:{csv:"col1\n1\n2\n3",neg:["col1"]},negNum2:{csv:"col1\n4\n5\n6\n7",neg:["col1"]},negNum3:{csv:"col1\n8\n9\n10\n11\n12",neg:["col1"]},negSmiles:{csv:"col1\nCCCCN1C(=O)CN=C(c2cc(F)ccc12)C3CCCCC3\nC1CCCCC1\nCCCCCC",neg:["col1"]},negSmilesWithSquareBrackets:{csv:"col1\nCl.c1ccc2nc3ccccc3cc2c1\nOc1cccc2cc3ccccc3cc12\n[SeH]c1ccc2ccccc2c1",neg:["col1"]},negFastaUnSingleChar:{csv:"col1\nAlanine\nCysteine\nAspartic acid\nGlutamic acid\nPhenylalanine",neg:["col1"]},fastaMsaSameLength:{csv:"seq\nFWPHEYFWPHEYYV\nYNRQWYVYNRQWYV\nMKPSEYVMKPSEYV",pos:{seq:new u(l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1,void 0)}},fastaExtSameLength:{csv:"seq\nFW[Ac]PHEYFWPH\nYN[Re]VYNRQWYV\n[Me]EYVMPS[Et]",pos:{seq:new u(l.Hi.FASTA,"SEQ",l.YI.UN,16,!0,void 0)}},fastaMsaExtSameLength:{csv:"seq\nFW[Ac]PHEY[Re]WPH\nYN[Re]VYNR[Ac]WYV\n[Me]EYVMPSFW[Me]H",pos:{seq:new u(l.Hi.FASTA,"SEQ.MSA",l.YI.UN,14,!0,void 0)}},fastaMsaExtManyMinus:{csv:"seq\n[D-Tic]-------[D-Tyr_Et][Tyr_ab-dehydroMe][dV][Cys_SEt]N[D-Orn][D-aThr]-[Phe_4Me]\n[Phe_2F]--------[Tyr_ab-dehydroMe][dV][Aca]N[D-Orn][D-aThr]-[Phe_4Me]\n[D-Tic]-[Hcy]QTWQ[Phe_4NH2][D-Tyr_Et][Tyr_ab-dehydroMe][dV][Cys_SEt]----[Phe_4Me]",pos:{seq:new u(l.Hi.FASTA,"SEQ.MSA",l.YI.UN,17,!0,void 0)}},sepSameLength:{csv:"seq\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-C-G-NH2\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-C-G-NH2\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-C-G-NH2",pos:{seq:new u(l.Hi.SEPARATOR,"SEQ.MSA",l.YI.UN,5,!0,"-")}},sepMsaSameLength:{csv:"seq\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-Aca-G-NH2\nAca-A-Aca-A-A-A-meI-A-A-A-A-A-Aca-G-NH2\nAca-A-A-A-A-A-A-A-A-A-A-A-A-A-Aca-G-NH2",pos:{seq:new u(l.Hi.SEPARATOR,"SEQ",l.YI.UN,5,!0,"-")}},helmSameLength:{csv:"seq\nPEPTIDE1{Ac(1).A.A.A.A.A.A.A.A.A.A.A.A.A.C(1).G.NH2}$$$$\nPEPTIDE1{Ab(1).Y.V.K.H.P.F.W.R.W.Y.A.A.A.C(1).G.NH2}$$$$\nPEPTIDE1{Ad(1).S.W.Y.C.K.H.P.M.W.A.A.A.A.C(1)-G-NH2}$$$$",pos:{seq:new u(l.Hi.HELM,null,null,19,void 0,void 0)}},fastaNonDigitAlphabet:{csv:'flagC\n"NMe-pyridazineH"\n"Pyrrolo[2,3-c]pyridazineH"',neg:["flagC"]}};for(const[o,r]of Object.entries(i))(0,t.t6)(`csvData2-${o}`,async()=>{const t=(s=o,async()=>{const t=i[s].csv,n=e.DataFrame.fromCsv(t);return await a.data.detectSemanticTypes(n),n});var s;for(const e of r.neg??[])await h(t,e);for(const[e,i]of Object.entries(r.pos??{}))await d(t,e,n,i.units,i.aligned,i.alphabet,i.alphabetSize,i.alphabetIsMultichar,i.separator)});const o=new class{csvFastaDna1="seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC";fastaRna1="seq\nACGUCACGUC\nCAGUGUCAGUGU\nUUCAACUUCAAC";fastaPt1="seq\nFWPHEY\nYNRQWYV\nMKPSEYV";fastaUn="seq\n[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]DN\n[meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Aca]\n[Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Aca]";sepDna="seq\nA*C*G*T*C*A*C*G*T*C\nC*A*G*T*G*T*C*A*G*T*G*T\nT*T*C*A*A*C*T*T*C*A*A*C";sepRna="seq\nA*C*G*U*C*A*C*G*U*C\nC*A*G*U*G*U*C*A*G*U*G*U\nU*U*C*A*A*C*U*U*C*A*A*C";sepPt="seq\nF-W-P-H-E-Y-F-W-P-H-E-Y\nY-N-R-Q-W-Y-V-Y-N-R-Q-W-Y-V\nM-K-P-S-E-Y-V-M-K-P-S-E-Y-V";sepUn1="seq\nabc-dfgg-abc1-cfr3-rty-wert-cfr3-rty-wert\nrut12-her2-rty-wert-abc-abc1-dfgg-abc-abc1-dfgg\nrut12-rty-her2-abc-cfr3-wert-rut12-cfr3-wert-rut12";sepUn2="seq\nabc/dfgg/abc1/cfr3/rty/wert/abc/dfgg/abc1/cfr3/rty/wert\nrut12/her2/rty/wert//abc/abc1/dfgg/rut12/her2/rty/wert//abc/abc1/dfgg\nrut12/rty/her2/abc/cfr3//wert/rut12/rut12/rty/her2/abc/cfr3//wert/rut12";sepMsaDna1="seq\nA-C--G-T--C-T-A-C--G-T--C-T\nC-A-C--T--G-T-C-A-C--T--G-T\nA-C-C-G-T-A-C-T-A-C-C-G-T-A-C-T";sepMsaUnWEmpty="seq\nm1-M-m3-mon4-mon5-N-T-MON8-N9-m1-M-m3-mon4-mon5-N-T-MON8-N9\nm1-mon2-m3-mon4-mon5-Num--MON8-N9-m1-mon2-m3-mon4-mon5-Num--MON8-N9\n\nmon1-M-mon3-mon4-mon5---MON8-N9-mon1-M-mon3-mon4-mon5---MON8-N9";sepComplex="seq\nAca-F-K(AEEA-AEEA-R-Ac)-L-mF-V-Y-mNle-D-W-N-mF-Aca-G-NH2\nAca-F-K(AEEA-ARRA-W-Ac)-L-mF-V-Y-mNle-D-W-N-mF-Aca-G-NH2\nAca-F-K(AEEA-AEEA-Ac)-L-mF-V-Y-mNle-D-W-N-mF-Aca-G-NH2";fastaMsaDna1="seq\nAC-GT-CTAC-GT-CT\nCAC-T-GTCAC-T-GT\nACCGTACTACCGTACT";fastaMsaPt1="seq\nFWR-WYV-KHPFWR-WYV-KHP\nYNR-WYV-KHPYNR-WYV-KHP\nMWRSWY-CKHPMWRSWY-CKHP"},r={fastaPtCsv:"System:AppData/Bio/samples/FASTA_PT.csv",msaComplex:"System:AppData/Bio/samples/MSA.csv",fastaCsv:"System:AppData/Bio/samples/FASTA.csv",helmCsv:"System:AppData/Bio/samples/HELM.csv",peptidesComplex:"System:AppData/Bio/tests/peptides_complex_msa.csv",peptidesSimple:"System:AppData/Bio/tests/peptides_simple_msa.csv",testDemogCsv:"System:AppData/Bio/tests/testDemog.csv",testHelmCsv:"System:AppData/Bio/tests/testHelm.csv",testIdCsv:"System:AppData/Bio/tests/testId.csv",testSmilesCsv:"System:AppData/Bio/tests/testSmiles.csv",testSmiles2Csv:"System:AppData/Bio/tests/testSmiles2.csv",testSmilesShort:"System:AppData/Bio/tests/testSmilesShort.csv",testActivityCliffsCsv:"System:AppData/Bio/tests/testActivityCliffs.csv",testCerealCsv:"System:AppData/Bio/tests/testCereal.csv",testUnichemSources:"System:AppData/Bio/tests/testUnichemSources.csv",testDmvOffices:"System:AppData/Bio/tests/testDmvOffices.csv",testAlertCollection:"System:AppData/Bio/tests/testAlertCollection.csv",testSpgi100:"System:AppData/Bio/tests/testSpgi100.csv",testSpgi:"System:AppData/Bio/tests/SPGI-derived.csv",testUrl:"System:AppData/Bio/tests/testUrl.csv",fasta_negative_words:"System:AppData/Bio/tests/fasta_negative_words.csv"},s={};function m(e,t=p){return async()=>(e in s||(s[e]=(async()=>await t(r[e]))().catch(t=>{throw delete s[e],t})),s[e])}async function p(t){const n=await a.dapi.files.readAsText(t);return e.DataFrame.fromCsv(n)}const f=t=>async()=>{const n=o[t],i=e.DataFrame.fromCsv(n);return await a.data.detectSemanticTypes(i),i};(0,t.t6)("NegativeStartEnd",async()=>{await T(["START","END"])}),(0,t.t6)("NegativeStartEndIntermediate",async()=>{await T(["START","END","INTERMEDIATE"])}),(0,t.t6)("FastaDna1",async()=>{await d(f("csvFastaDna1"),"seq",n,l.Hi.FASTA,"SEQ",l.YI.DNA,4,!1)}),(0,t.t6)("FastaRna1",async()=>{await d(f("fastaRna1"),"seq",n,l.Hi.FASTA,"SEQ",l.YI.RNA,4,!1)}),(0,t.t6)("FastaPt1",async()=>{await d(f("fastaPt1"),"seq",n,l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)}),(0,t.t6)("FastaPtGaps",()=>C(["FW-PH-EYY","FYNRQWYV-","FKP-Q-SEYV"],n,l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)),(0,t.t6)("FastaPtGapsMsa",()=>C(["FW-PH-EYY","FYNRQWYV-","FKP-Q-SEY"],n,l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1)),(0,t.t6)("FastaUn",async()=>{await d(f("fastaUn"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.UN,12,!0)}),(0,t.t6)("FastaMsaDna1",async()=>{await d(f("fastaMsaDna1"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.DNA,4,!1)}),(0,t.t6)("FastaMsaPt1",async()=>{await d(f("fastaMsaPt1"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1)}),(0,t.t6)("SepDna",async()=>{await d(f("sepDna"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.DNA,4,!1,"*")}),(0,t.t6)("SepRna",async()=>{await d(f("sepRna"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.RNA,4,!1,"*")}),(0,t.t6)("SepPt",async()=>{await d(f("sepPt"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.PT,20,!1,"-")}),(0,t.t6)("SepUn1",async()=>{await d(f("sepUn1"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.UN,8,!0,"-")}),(0,t.t6)("SepUn2",async()=>{await d(f("sepUn2"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.UN,9,!0,"/")}),(0,t.t6)("SepMsaN1",async()=>{await d(f("sepMsaDna1"),"seq",n,l.Hi.SEPARATOR,"SEQ.MSA",l.YI.DNA,4,!1,"-")}),(0,t.t6)("SepMsaUnWEmpty",async()=>{await d(f("sepMsaUnWEmpty"),"seq",n,l.Hi.SEPARATOR,"SEQ.MSA",l.YI.UN,14,!0)}),(0,t.t6)("SepComplex",async()=>{await d(f("sepComplex"),"seq",n,l.Hi.SEPARATOR,"SEQ",l.YI.UN,17,!0)}),(0,t.t6)("samplesFastaCsv",async()=>{await A(m("fastaCsv"),{Sequence:new u(l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)},n)});for(const e of b)(0,t.t6)(e.name,async()=>{await g(e.seqs,n,e.negative)});(0,t.t6)("samplesPeptidesComplex",async()=>{await A(m("peptidesComplex"),{},n)}),(0,t.t6)("samplesMsaComplex",async()=>{await A(m("msaComplex"),{MSA:new u(l.Hi.SEPARATOR,"SEQ.MSA",l.YI.UN,161,!0,"/")},n)}),(0,t.t6)("samplesIdCsv",async()=>{await A(m("testIdCsv"),{},n)}),(0,t.t6)("samplesSarSmallCsv",async()=>{await A(m("testSmilesCsv"),{},n)}),(0,t.t6)("samplesHelmCsv",async()=>{await A(m("helmCsv"),{HELM:new u(l.Hi.HELM,null,null,160,!0)},n)}),(0,t.t6)("samplesTestHelmCsv",async()=>{await A(m("testHelmCsv"),{"HELM string":new u(l.Hi.HELM,null,null,9,!0)},n)}),(0,t.t6)("samplesTestDemogCsv",async()=>{await A(m("testDemogCsv"),{},n)}),(0,t.t6)("samplesTestSmiles2Csv",async()=>{await A(m("testSmiles2Csv"),{},n)}),(0,t.t6)("samplesTestSmilesShort",async()=>{await A(m("testSmilesShort"),{},n)}),(0,t.t6)("samplesTestActivityCliffsNegativeSmiles",async()=>{await A(m("testActivityCliffsCsv"),{},n)}),(0,t.t6)("samplesFastaPtCsv",async()=>{await A(m("fastaPtCsv"),{sequence:new u(l.Hi.FASTA,"SEQ",l.YI.PT,20,!1)},n)}),(0,t.t6)("samplesTestCerealCsv",async()=>{await A(m("testCerealCsv"),{},n)}),(0,t.t6)("samplesTestUnichemSources",async()=>{await A(m("testUnichemSources"),{},n)}),(0,t.t6)("samplesTestDmvOffices",async()=>{await A(m("testDmvOffices"),{},n)}),(0,t.t6)("samplesTestAlertCollection",async()=>{await A(m("testAlertCollection"),{},n)}),(0,t.t6)("samplesTestSpgi",async()=>{await A(m("testSpgi"),{},n)}),(0,t.t6)("samplesTestSpgi100",async()=>{await A(m("testSpgi100"),{},n)}),(0,t.t6)("samplesTestUrl",async()=>{await A(m("testUrl"),{},n)}),(0,t.t6)("samplesFastaNegativeWords",async()=>{await A(m("fasta_negative_words"),{},n)})}),(0,t.L1)("detectors.weak-and-likely",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i={fastaDnaWeak1:"id,colName\n1,TTTTTTTTTT\n2,TTTTTTTTTT\n3,TTTTTTTTTT\n4,TTTTTTTTTT",fastaDnaWeak1LikelyName:"id,seq\n1,TTTTTTT\n2,TTTTTTT\n3,TTTTTTT\n4,TTTTTTT",fastaRnaWeak1:"id,colName\n1,UUUUUUUUUU\n2,UUUUUUUUUU\n3,UUUUUUUUUU\n4,UUUUUUUUUU",fastaRnaWeak1LikelyName:"id,seq\n1,UUUUUUU\n2,UUUUUUU\n3,UUUUUUU\n4,UUUUUUU",fastaPtWeak1:"id,colName\n1,SLSLSPGKSLSLSPGK\n2,SLSLSPGKSLSLSPGK\n3,SLSLSPGKSLSLSPGK\n4,SLSLSPGKSLSLSPGK",fastaPtWeak1LikelyName:"id,seq\n1,SLSLSPGKSLSLSPGK\n2,SLSLSPGKSLSLSPGK\n3,SLSLSPGKSLSLSPGK\n4,SLSLSPGKSLSLSPGK",fastaUn1:"id,colName\n1,word\n2,other\n3,some\n4,another",fastaUn1LikelyName:"id,seq\n1,word\n2,other\n3,some\n4,another",fastaUn2LikelyName:'protein\nBoombastic\nMegafantastic\n"just-a-random-thought,oy!"',fastaUnMsa1LikelyName:"id,seq\n1,word\n2,male\n3,bare\n4,core"},o=t=>async()=>{const n=i[t],o=e.DataFrame.fromCsv(n);return await a.data.detectSemanticTypes(o),o};(0,t.t6)("fastaDnaWeak1",async()=>{await h(o("fastaDnaWeak1"),"colName")}),(0,t.t6)("fastaDnaWeak1LikelyName",async()=>{await d(o("fastaDnaWeak1LikelyName"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.DNA,4,!1)}),(0,t.t6)("fastaRnaWeak1",async()=>{await h(o("fastaRnaWeak1"),"colName")}),(0,t.t6)("fastaRnaWeak1LikelyName",async()=>{await d(o("fastaRnaWeak1LikelyName"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.RNA,4,!1)}),(0,t.t6)("fastaPtWeak1",async()=>{await h(o("fastaPtWeak1"),"colName")}),(0,t.t6)("fastaPtWeak1LikelyName",async()=>{await d(o("fastaPtWeak1LikelyName"),"seq",n,l.Hi.FASTA,"SEQ.MSA",l.YI.PT,20,!1)}),(0,t.t6)("fastaUn1",async()=>{await h(o("fastaUn1"),"colName")}),(0,t.t6)("fastaUn1LikelyName",async()=>{await h(o("fastaUn1LikelyName"),"seq")}),(0,t.t6)("fastaUn2LikelyName",async()=>{await h(o("fastaUn2LikelyName"),"protein")}),(0,t.t6)("fastaUnMsa1LikelyName",async()=>{await h(o("fastaUnMsa1LikelyName"),"seq")})}),(0,t.L1)("detectorsBenchmark",()=>{let n,i;async function o(o,s,a,c,u,h){return await async function(o){const d=await(async()=>{const t=function(t,n,i,o,r){let s;switch(t){case l.Hi.FASTA:s=e=>{let t="";for(let n=0;n<e.length;n++){const i=e[n];t+=1==i.length?i:`[${i}]`}return t};break;case l.Hi.SEPARATOR:s=(e,t)=>e.join(t);break;default:throw new Error(`Not supported notation '${t}'.`)}const a=(e,t)=>{const n=new Array(t);for(let i=0;i<t;i++)n[i]=e[Math.floor(Math.random()*e.length)];return s(n,r)},c=Array(o);for(let e=0;e<o;e++)c[e]=a(n,i);return e.Column.fromStrings("seq",c)}(s,[...(0,l.Qf)(a)],c,u,h),n=i.prepare({col:t});return r(n),n})(),m=Date.now(),p=r(d),g=Date.now();(function(e,i){const o=n.getSeqHandler(e);(0,t.E3)(e.semType===i.semType,!0),(0,t.E3)(o.notation===i.notation,!0),(0,t.E3)(o.alphabet===i.alphabet,!0),(0,t.E3)(o.separator===i.separator,!0)})(p,{semType:e.SEMTYPE.MACROMOLECULE,notation:s,alphabet:a,separator:h});const f=g-m;if(f>o){const e=`ET ${f} ms is more than max allowed ${o} ms.`;throw console.error(e),new Error(e)}return console.log(`ET ${f} ms is OK.`),f}(o)}function r(e){e.callSync();const t=e.getOutputParamValue(),n=e.inputs.col;return t&&(n.semType=t),n}(0,t.gM)(async()=>{n=await(0,c.Q)();const t=e.Func.find({package:"Bio",name:"detectMacromolecule"});i=t[0];const o=e.Column.fromStrings("seq",["ACGT","ACGT","ACGT"]);await i.prepare({col:o}).call()}),(0,t.t6)("fastaDnaShorts50Few50",async()=>{await o(20,l.Hi.FASTA,l.YI.DNA,50,50)}),(0,t.t6)("fastaDnaShorts50Many1E6",async()=>{await o(20,l.Hi.FASTA,l.YI.DNA,50,1e6)}),(0,t.t6)("fastaDnaLong1e6Few50",async()=>{await o(20,l.Hi.FASTA,l.YI.DNA,1e6,50)}),(0,t.t6)("separatorDnaShorts50Few50",async()=>{await o(20,l.Hi.SEPARATOR,l.YI.DNA,50,50,"/")}),(0,t.t6)("separatorDnaShorts50Many1E6",async()=>{await o(20,l.Hi.SEPARATOR,l.YI.DNA,50,1e6,"/")}),(0,t.t6)("separatorDnaLong1e6Few50",async()=>{await o(20,l.Hi.SEPARATOR,l.YI.DNA,1e6,50,"/")})});var E=n(608),S=n(1619);async function M(n,i){const o=e.DataFrame.fromCsv(n);await a.data.detectSemanticTypes(o);const r=e.DataFrame.fromCsv(i),s=o.getCol("seq");(0,t.E3)(s.semType,e.SEMTYPE.MACROMOLECULE);const l=r.getCol("seq"),c=await(0,E.eE)(o,s,!0);(0,t.J6)(c.toList(),l.toList())}(0,t.L1)("MSA",async()=>{let n;async function i(i,o,r,s,c,u){const h=e.DataFrame.fromCsv(i);await a.data.detectSemanticTypes(h);const d=e.DataFrame.fromCsv(o).getCol("seq"),m=h.getCol("seq");(0,t.E3)(m.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(m.meta.units,r),c&&(0,t.E3)(m.getTag(l.gp.alphabet),c);const p=await(0,S.D)({col:m,pepsea:{method:u}},n);(0,t.E3)(p.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(p.meta.units,s),(0,t.E3)(p.getTag(l.gp.aligned),"SEQ.MSA"),c&&(0,t.E3)(p.getTag(l.gp.alphabet),c),(0,t.J6)(p.toList(),d.toList())}(0,t.gM)(async()=>{n=await(0,c.Q)()}),(0,t.t6)("isCorrect",async()=>{await M("seq\nFWRWYVKHP\nYNRWYVKHP\nMWRSWYCKHP","seq\nFWR-WYVKHP\nYNR-WYVKHP\nMWRSWYCKHP")}),(0,t.t6)("isCorrectLong",async()=>{await M("seq\nFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHPFWRWYVKHP\nYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHPYNRWYVKHP\nMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHP","seq\nFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHPFWR-WYVKHP\nYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHPYNR-WYVKHP\nMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHPMWRSWYCKHP")}),(0,t.t6)("isCorrectHelm",async()=>{await i("seq\n PEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2}$$$$\n PEPTIDE1{meI.Aca.N.T.dE.Thr_PO3H2}$$$$\n PEPTIDE1{hHis.Aca.N.T.dE.Thr_PO3H2}$$$$","seq\n meI.hHis.Aca.N.T.dE.Thr_PO3H2\n .meI.Aca.N.T.dE.Thr_PO3H2\n .hHis.Aca.N.T.dE.Thr_PO3H2",l.Hi.HELM,l.Hi.SEPARATOR,void 0,"mafft")},{timeout:8e4,skipReason:"Fails in docker"}),(0,t.t6)("isCorrectHelmLong",async()=>{await i("seq\n PEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.dV.E.N.D-Orn.D-aThr.Phe_4Me.Thr_PO3H2}$$$$\n PEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Tyr_PO3H2.D-Chg.dV.Phe_ab-dehydro.N.D-Orn.D-aThr.Phe_4Me}$$$$\n PEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me}$$$$","seq\n meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.dV.E.N.D-Orn.D-aThr.Phe_4Me.Thr_PO3H2\n meI.hHis.Aca.Cys_SEt.T.dK..Tyr_PO3H2.D-Chg.dV.Phe_ab-dehydro.N.D-Orn.D-aThr.Phe_4Me.\n Lys_Boc.hHis.Aca.Cys_SEt.T.dK..Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me.",l.Hi.HELM,l.Hi.SEPARATOR,void 0,"mafft")},{timeout:8e4,skipReason:"Fails in docker"}),(0,t.t6)("isCorrectSeparator",async()=>{await i("seq\n F-W-P-H-E-Y\n Y-N-R-Q-W-Y-V\n M-K-P-S-E-Y-V","seq\n FWPHEY-\n YNRQWYV\n MKPSEYV",l.Hi.SEPARATOR,l.Hi.FASTA,l.YI.PT)}),(0,t.t6)("isCorrectSeparatorLong",async()=>{await i("seq\n M-I-E-V-F-L-F-G-I-V-L-G-L-I-P-I-T-L-A-G-L-F-V-T-A-Y-L-Q-Y-R-R-G-D-Q-L-D-L\n M-M-E-L-V-L-K-T-I-I-G-P-I-V-V-G-V-V-L-R-I-V-D-K-W-L-N-K-D-K\n M-D-R-T-D-E-V-S-N-H-T-H-D-K-P-T-L-T-W-F-E-E-I-F-E-E-Y-H-S-P-F-H-N","seq\n MIEV-FLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL\n MMEL-VLKTII-GPIVVGVVLRIVDKWLNKDK------\n MDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN-----",l.Hi.SEPARATOR,l.Hi.FASTA,l.YI.PT)})});var P=n(1991),_=n.n(P),I=n(7278),L=n(4971);function x(e){return(t=e)&&void 0!==t.onRendered&&void 0!==t.invalidate&&void 0!==t.awaitRendered?e:null;var t}var N=n(6642);async function R(t){const n=await async function(e){return await Le.files.readAsText(e)}(t),i=e.DataFrame.fromCsv(n);return i.name=t.replace(".csv",""),i}async function $(e,n=5e3){await(0,t.cb)(0),await(0,t.PE)(e.onAfterDrawContent,()=>{},()=>{e.invalidate()},n);const i=e.columns.length;for(let t=0;t<i;++t){const n=e.columns.byIndex(t);if(n){const t=e.cell(n.name,0),[i,o,r]=(0,N.BG)(t),s=x(r.rendererBack);s&&await s.awaitRendered()}}}var H=n(4139),O=n(4356);async function D(e,n){const i=(0,l.J9)(e);console.debug(`Bio: tests: splitters: src=${JSON.stringify(e)}, res=${JSON.stringify(i)} .`),(0,t.J6)(_().count(0).take(i.length).map(e=>i.getOriginal(e)).toArray(),n)}async function k(e,n){const i=(0,I.qp)(e);console.debug(`Bio: tests: splitters: src=${JSON.stringify(e)}, res=${JSON.stringify(i)} .`),(0,t.J6)(_().count(0).take(i.length).map(e=>i.getOriginal(e)).toArray(),n)}(0,t.L1)("splitters",async()=>{(0,t.gM)(async()=>{}),(0,t.Pl)(async()=>{});const e=["M[MeI]YKETLL[MeF]PKTDFPMRGGL[MeA]",["M","MeI","Y","K","E","T","L","L","MeF","P","K","T","D","F","P","M","R","G","G","L","MeA"]],n=["[meI][Pip][dK][Thr_PO3H2][L-hArg(Et,Et)][D-Tyr_Et][Tyr_ab-dehydroMe][dV]EN[D-Orn][D-aThr][Phe_4Me]",["meI","Pip","dK","Thr_PO3H2","L-hArg(Et,Et)","D-Tyr_Et","Tyr_ab-dehydroMe","dV","E","N","D-Orn","D-aThr","Phe_4Me"]],i=["PEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.Tyr_ab-dehydroMe.dV.E.N.D-Orn.D-aThr.Phe_4Me}$$$",["meI","hHis","Aca","N","T","dE","Thr_PO3H2","Aca","D-Tyr_Et","Tyr_ab-dehydroMe","dV","E","N","D-Orn","D-aThr","Phe_4Me"]],o=["PEPTIDE1{meI.hHis.Aca.N.T.dK.Thr_PO3H2.Aca.D-Tyr_Et.D-Dap.dV.E.N.pnG.Phe_4Me}$$$",["meI","hHis","Aca","N","T","dK","Thr_PO3H2","Aca","D-Tyr_Et","D-Dap","dV","E","N","pnG","Phe_4Me"]],r=["PEPTIDE1{[meI].[hHis].[Aca].N.T.[dK].[Thr_PO3H2].[Aca].[D-Tyr_Et].[D-Dap].[dV].E.N.[pnG].[Phe_4Me]}$$$",["meI","hHis","Aca","N","T","dK","Thr_PO3H2","Aca","D-Tyr_Et","D-Dap","dV","E","N","pnG","Phe_4Me"]],s=["RNA1{R(U)P.R(T)P.R(G)P.R(C)P.R(A)}$$$$",["R(U)P","R(T)P","R(G)P","R(C)P","R(A)"]],a=["RNA1{P.R(U)P.R(T)}$$$$",["P","R(U)P","R(T)"]],l=["RNA1{P.R(U).P.R(T)}$$$$",["P","R(U)","P","R(T)"]];(0,t.t6)("fastaMulti",async()=>{await D(e[0],e[1])}),(0,t.t6)("fastaFromHelm",async()=>{await D(n[0],n[1])}),(0,t.t6)("helm1",async()=>{await k(i[0],i[1])}),(0,t.t6)("helm2",async()=>{await k(o[0],o[1])}),(0,t.t6)("helm3-multichar",async()=>{await k(r[0],r[1])}),(0,t.t6)("testHelm1",async()=>{await k(s[0],s[1])}),(0,t.t6)("testHelm2",async()=>{await k(a[0],a[1])}),(0,t.t6)("testHelm3",async()=>{await k(l[0],l[1])})}),(0,t.L1)("splitters",()=>{let n,i,o;(0,t.gM)(async()=>{n=await(0,c.Q)(),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)}),(0,t.t6)("splitToMonomers",async()=>{const e=await a.dapi.files.readCsv("System:AppData/Bio/samples/MSA.csv"),n=e.getCol("MSA"),i=await a.functions.call("Bio:detectMacromolecule",{col:n});i&&(n.semType=i),n.setTag(l.gp.aligned,H.gN);const o=await a.functions.call("Bio:splitToMonomersTopMenu",{table:e,sequence:n});(0,t.E3)(o.columns.names().includes("17"),!0),await a.data.detectSemanticTypes(o);const r=a.shell.addTableView(o);await $(r.grid),(0,t.E3)(r.grid.dataFrame.id,e.id)}),(0,t.t6)("getHelmMonomers",async()=>{const t=e.DataFrame.fromCsv("HELM,Activity\nPEPTIDE1{hHis.N.T}$$$,5.30751\nPEPTIDE1{hHis.Aca.Cys_SEt}$$$,5.72388\n");await a.data.detectSemanticTypes(t);const n=["hHis","Aca","Cys_SEt","N","T"],i=t.getCol("HELM"),o=await a.functions.call("Bio:getHelmMonomers",{sequence:i}),r=n.filter(e=>!o.includes(e)),s=o.filter(e=>!n.includes(e));if(r.length>0||s.length){const e=[];throw r.length>0&&e.push(`Missed monomers ${JSON.stringify(r)}.`),s.length>0&&e.push(`Unexpected monomers ${JSON.stringify(s)}.`),new Error(e.join(" "))}})});var F=n(8604);(0,t.L1)("monomerLibraries",()=>{let e,n=null;(0,t.gM)(async()=>{e=await(0,L.pj)(),n=(0,O.u)()}),(0,t.Pl)(async()=>{await(0,O.E)(n)}),(0,t.t6)("default",async()=>{await(0,O.E)({exclude:[],explicit:[],duplicateMonomerPreferences:{}}),await e.loadMonomerLib(!0);const n=e.getMonomerLib();(0,t.E3)(n.getPolymerTypes().length>0,!0)}),(0,t.t6)("forTests",async()=>{await e.loadMonomerLibForTests(),function(e,n){const i=n,o=e.getSummaryObj();for(const e in i)i[e]||delete i[e];for(const e in o)o[e]||delete o[e];if(0==Object.keys(i).length&&0!=Object.keys(o).length)throw new Error("Expected empty monomer lib, actual is not.");if(0!=Object.keys(i).length&&0==Object.keys(o).length)throw new Error("Expected non-empty monomer lib, actual is empty.");try{(0,t.Xk)(o,i),(0,t.Xk)(i,o)}catch(e){throw new Error(`Expected monomer lib ${JSON.stringify(i)} does not match actual ${JSON.stringify(o)}.`)}}(e.getMonomerLib(),F.V)}),(0,t.t6)("empty",async()=>{const n=await(0,O.u)();let i=await e.getAvaliableLibraryNames();0===i.length&&(await e.refreshValidLibraryLists(),i=await e.getAvaliableLibraryNames()),n.exclude=i,n.explicit=[],await(0,O.E)(n),await e.loadMonomerLib(!0);const o=e.getMonomerLib().getPolymerTypes();(0,t.E3)(0===o.length,!0)}),(0,t.t6)("override",async()=>{const n={symbol:"over1",name:"Test override monomer 1",molfile:"",author:"Test Author",id:0,rgroups:[],smiles:"",polymerType:"PEPTIDE",monomerType:"Backbone",createDate:null},i=e.getMonomerLib(),o=i.getMonomer(n.polymerType,n.symbol);(0,t.E3)(null==o,!0,`Unexpectedly found monomer '${n.symbol}' `);const r=i.override({[n.polymerType]:{[n.symbol]:n}},"test").getMonomer(n.polymerType,n.symbol);r&&(r.lib=void 0),(0,t.Xk)(r,n)})});var G=n(7389),B=n(1757),V=n.n(B),U=n(1858),W=n(6873),q=n(5433);async function Y(n,i){const o=n(),r=e.DataFrame.fromColumns(o);await a.data.detectSemanticTypes(r);const s=Date.now(),l=(r.columns.byName("MSA"),a.shell.addTableView(r));await $(l.grid),(0,t.E3)(l.grid.dataFrame.id,r.id);const c=Date.now()-s;console.log(`Performance test: ${i}: ${c}ms`)}(0,t.L1)("renderers",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()}),(0,t.t6)("long sequence performance ",async()=>{await Y(()=>(0,W.dW)(1e4),"Long sequences")}),(0,t.t6)("many sequence performance",async()=>{await Y(W.fD,"Many sequences")}),(0,t.t6)("rendererMacromoleculeFasta",async()=>{await async function(){const n=await a.dapi.files.readAsText("System:AppData/Bio/samples/FASTA.csv"),i=e.DataFrame.fromCsv(n),o=i.getCol("Sequence"),r=await a.functions.call("Bio:detectMacromolecule",{col:o});r&&(o.semType=r);const s=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await $(s.grid),(0,t.E3)(s.grid.dataFrame.id,i.id);const l=o.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(l,"sequence")}()}),(0,t.t6)("rendererMacromoleculeSeparator",async()=>{await async function(){const n=await a.dapi.files.readAsText("System:AppData/Bio/samples/SEPARATOR_PT.csv"),i=e.DataFrame.fromCsv(n),o=i.getCol("sequence"),r=await a.functions.call("Bio:detectMacromolecule",{col:o});r&&(o.semType=r);const s=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await $(s.grid),(0,t.E3)(s.grid.dataFrame.id,i.id);const l=o.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(l,"sequence")}()}),(0,t.t6)("rendererMacromoleculeDifference",async()=>{await async function(){const n=e.Column.fromStrings("SequencesDiff",["meI/hHis/Aca/N/T/dK/Thr_PO3H2/Aca#D-Tyr_Et/Tyr_ab-dehydroMe/meN/E/N/dV"]);n.meta.units=l.Hi.SEPARATOR,n.setTag(l.gp.separator,"/"),n.setTag(l.gp.aligned,"SEQ"),n.setTag(l.gp.alphabet,"UN"),n.setTag(l.gp.alphabetIsMultichar,"true"),n.semType=H.uF.MACROMOLECULE_DIFFERENCE;const i=e.DataFrame.fromColumns([n]),o=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await $(o.grid),(0,t.E3)(o.grid.dataFrame.id,i.id);const r=n.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(r,H.uF.MACROMOLECULE_DIFFERENCE)}()}),(0,t.t6)("afterMsa",async()=>{await async function(){const i=await a.dapi.files.readAsText("System:AppData/Bio/samples/FASTA.fasta"),o=(await a.functions.call("Bio:importFasta",{fileContent:i}))[0],r=o.getCol("sequence"),s=await a.functions.call("Bio:detectMacromolecule",{col:r});s&&(r.semType=s);const c=a.shell.addTableView(o);await a.data.detectSemanticTypes(o),console.log("Bio: tests/renderers/afterMsa, table view"),await $(c.grid),(0,t.E3)(c.grid.dataFrame.id,o.id),console.log(`Bio: tests/renderers/afterMsa, src before test semType="${r.semType}", units="${r.meta.units}", cell.renderer="${r.getTag(e.TAGS.CELL_RENDERER)}"`),(0,t.E3)(r.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(r.meta.units,l.Hi.FASTA),(0,t.E3)(r.getTag(l.gp.aligned),"SEQ"),(0,t.E3)(r.getTag(l.gp.alphabet),l.YI.PT),(0,t.E3)(r.getTag(e.TAGS.CELL_RENDERER),"sequence");const u=await(0,S.D)({col:r},n);await $(c.grid),(0,t.E3)(c.grid.dataFrame.id,o.id),(0,t.E3)(u.semType,e.SEMTYPE.MACROMOLECULE),(0,t.E3)(u.meta.units,l.Hi.FASTA),(0,t.E3)(u.getTag(l.gp.aligned),"SEQ.MSA"),(0,t.E3)(u.getTag(l.gp.alphabet),l.YI.PT),(0,t.E3)(u.getTag(e.TAGS.CELL_RENDERER),"sequence"),n.getSeqHandler(u)}()}),(0,t.t6)("afterConvert",async()=>{await async function(){const i=await a.dapi.files.readAsText("System:AppData/Bio/samples/FASTA_PT.csv"),o=e.DataFrame.fromCsv(i),r=o.getCol("sequence"),s=await a.functions.call("Bio:detectMacromolecule",{col:r});s&&(r.semType=s);const c=a.shell.addTableView(o);await a.data.detectSemanticTypes(o);const u=await(0,q.r)(r,n,l.Hi.SEPARATOR,"/");await $(c.grid),(0,t.E3)(c.grid.dataFrame.id,o.id);const h=u.getTag(e.TAGS.CELL_RENDERER);(0,t.E3)(h,"sequence"),n.getSeqHandler(u)}()}),(0,t.t6)("afterConvertToHelm",async()=>{await async function(){const i=await a.dapi.files.readCsv("System:AppData/Bio/samples/FASTA_PT.csv"),o=a.shell.addTableView(i);await $(o.grid),await i.meta.detectSemanticTypes(),await a.data.detectSemanticTypes(i);const r=i.getCol("sequence"),s=n.getSeqHandler(r).convert(l.Hi.HELM);i.columns.add(s),await $(o.grid),(0,t.E3)(s.getTag(e.TAGS.CELL_RENDERER),"helm")}()}),(0,t.t6)("selectRendererBySemType",async()=>{await async function(){const n=e.Column.fromStrings("SequencesDiff",["meI/hHis/Aca/N/T/dK/Thr_PO3H2/Aca#D-Tyr_Et/Tyr_ab-dehydroMe/meN/E/N/dV"]);n.meta.units=l.Hi.SEPARATOR,n.setTag(l.gp.separator,"/"),n.setTag(l.gp.aligned,"SEQ"),n.setTag(l.gp.alphabet,"UN"),n.setTag(l.gp.alphabetIsMultichar,"true"),n.semType=H.uF.MACROMOLECULE_DIFFERENCE;const i=e.DataFrame.fromColumns([n]);a.shell.addTableView(i),await(0,t.cb)(100);const o=n.getTag(e.TAGS.CELL_RENDERER);if("MacromoleculeDifference"!==o)throw new Error(`Units 'separator', separator '/' and semType 'MacromoleculeDifference' have been manually set on column but after df was added as table, view renderer has set to '${o}' instead of correct 'MacromoleculeDifference'.`)}()}),(0,t.t6)("scatterPlotTooltip",async()=>{await async function(){const n=e.DataFrame.fromCsv(i);n.currentRowIdx=0;const o=a.shell.addTableView(n);await n.meta.detectSemanticTypes(),await a.data.detectSemanticTypes(n);const r=n.plot.scatter({x:"x",y:"y"});o.dockManager.dock(r,e.DOCK_TYPE.RIGHT,null),await Promise.all([(0,t.PE)(r.onAfterDrawScene,()=>{},()=>{r.invalidateCanvas()},1e3),$(o.grid,500)]);const s=r.root.getBoundingClientRect(),l=r.worldToScreen(1,0),c=new MouseEvent("mousemove",{cancelable:!0,bubbles:!0,view:window,button:0,clientX:s.left+l.x,clientY:s.top+l.y}),u=V()(r.root).find("canvas").get()[0];await(0,t.PE)(e.debounce((0,U.fromEvent)(u,"mousemove"),200),()=>{Le.logger.debug(`Test: event, currentRowIdx=${n.currentRowIdx}`),(0,t.E3)(V()(G.tooltip.root).find("div table.d4-row-tooltip-table tr td canvas").length,1),(0,t.E3)(r.hitTest(l.x,l.y),1)},()=>{u.dispatchEvent(c)},500),await $(o.grid,500)}()});const i="seq,x,y\nACGGTGTCGT,0,0\nCGGTATCCCT,1,0\nCTCGGCATGC,2,0\n"});var j=n(6882);(0,t.L1)("renderers: monomerPlacer",()=>{let n,i;(0,t.gM)(async()=>{n=await(0,L.pj)(),i=await(0,O.u)(),await n.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(i),await n.loadMonomerLib(!0)});const o={splitter:{csv:"id,seq\nid1,m1-M-m3-mon4-mon5-N-T-MON8-N9\nid2,m1-mon2-m3-mon4-mon5-Num-MON8-N9\nid3,mon1-M-mon3-mon4-mon5-MON8-N9\n",testList:[{src:{row:0,x:-1},tgt:{pos:null}},{src:{row:1,x:0},tgt:{pos:null}},{src:{row:1,x:5},tgt:{pos:0}},{src:{row:1,x:6},tgt:{pos:0}},{src:{row:1,x:26},tgt:{pos:1}},{src:{row:1,x:160},tgt:{pos:6}},{src:{row:1,x:190},tgt:{pos:7}},{src:{row:2,x:140},tgt:{pos:5}},{src:{row:2,x:145},tgt:{pos:5}}]},splitterMsa:{csv:"id,seq\nid1,m1-M-m3-mon4-mon5-N-T-MON8-N9\nid2,m1-mon2-m3-mon4-mon5-Num--MON8-N9\nid3,\nid4,mon1-M-mon3-mon4-mon5---MON8-N9\n",testList:[{src:{row:0,x:-1},tgt:{pos:null}},{src:{row:1,x:0},tgt:{pos:null}},{src:{row:1,x:1},tgt:{pos:null}},{src:{row:1,x:4},tgt:{pos:null}},{src:{row:1,x:5},tgt:{pos:0}},{src:{row:1,x:37},tgt:{pos:0}},{src:{row:1,x:38},tgt:{pos:1}},{src:{row:1,x:170},tgt:{pos:5}},{src:{row:1,x:200},tgt:{pos:5}},{src:{row:2,x:20},tgt:{pos:null}},{src:{row:3,x:170},tgt:{pos:5}},{src:{row:3,x:200},tgt:{pos:5}},{src:{row:3,x:297},tgt:{pos:null}}]},fastaMsa:{csv:"id,seq\nid1,QQYNIYPLT\nid2,QQWSSFPYT\nid3,\nid3,QHIRE--LT\n",testList:[{src:{row:1,x:-1},tgt:{pos:null}},{src:{row:1,x:0},tgt:{pos:null}},{src:{row:1,x:1},tgt:{pos:null}},{src:{row:1,x:19},tgt:{pos:0}},{src:{row:1,x:170},tgt:{pos:8}},{src:{row:1,x:171},tgt:{pos:8}},{src:{row:2,x:5},tgt:{pos:null}},{src:{row:3,x:170},tgt:{pos:8}},{src:{row:3,x:181},tgt:{pos:null}}]}};for(const[n,i]of Object.entries(o))(0,t.t6)(`getPosition-${n}`,async()=>{const t=e.DataFrame.fromCsv(i.csv);await a.data.detectSemanticTypes(t);const n=t.getCol("seq"),o=new j.Jy(null,n,Le.logger,3,()=>({font:"12px monospace",fontCharWidth:7,separatorWidth:12,monomerToShort:l.zS}));await o.init();const r=i.testList;for(let e=0;e<n.length;++e)o.getCellMonomerLengths(e,1e4);const s=[];for(const[e,t]of _().enumerate(r)){const t={pos:o.getPosition(e.src.row,e.src.x,1e4)};e.tgt.pos!=t.pos&&s.push(`Test src ${JSON.stringify(e.src)} expected tgt ${JSON.stringify(e.tgt)}, but get ${JSON.stringify({res:t})}`)}if(s.length>0)throw new Error("Test failed error(s):\n"+s.join(", \n"))});const r=[10,20,30,40,50,60],s={left:{x:3,tgt:null},c0left:{x:10,tgt:0},c0mid:{x:12,tgt:0},c0right:{x:19,tgt:0},c1left:{x:20,tgt:1},c2right:{x:39,tgt:2},c4left:{x:50,tgt:4},c4right:{x:59,tgt:4},max:{x:60,tgt:null},right:{x:65,tgt:null}};for(const[e,n]of Object.entries(s))(0,t.t6)("hitBounds-"+e,async()=>{const e=(0,j.Bb)(r,n.x);(0,t.E3)(e,n.tgt)});const c={mono1:{src:{csv:"seq\nm1/m2/m3/m4/m5/m6/m7/m8/m9\nn1/m2/n3/m4/n5/m6/n7/m8/n9\nm1/n2/m3/n4/m5/n6/m7/n8/m9\n"},tgt:{lengths:[5,31,57,83,109,135,161,187,213,239]}},monoWithGaps:{src:{csv:"seq\nm1/m2/m3/m4/m5/m6//m8/m9\nn1/m2/n3/m4/n5/m6//m8/n9\nm1/n2/m3/n4/m5/n6/m7/n8/m9\n"},tgt:{lengths:[5,31,57,83,109,135,161,187,213,239]}},monoWithGapColumn:{src:{csv:"seq\nm1/m2/m3/m4/m5/m6//m8/m9\nn1/m2/n3/m4/n5/m6//m8/n9\nm1/n2/m3/n4/m5///n8/m9\n"},tgt:{lengths:[5,31,57,83,109,135,161,180,206,232]}}};for(const[n,i]of Object.entries(c))(0,t.t6)(`getCellMonomerLengths-${n}`,async()=>{const n=e.DataFrame.fromCsv(i.src.csv);await a.data.detectSemanticTypes(n);const o=n.getCol("seq"),r=new j.Jy(null,o,Le.logger,3,()=>({fontCharWidth:7,font:"12px monospace",separatorWidth:12,monomerToShort:l.zS}));await r.init();const s=r.getCellMonomerLengths(0,1e3)[1];(0,t.J6)(s,i.tgt.lengths)})}),(0,t.L1)("converters",()=>{let n,i;(0,t.gM)(async()=>{n=await(0,c.Q)()}),function(e){e.fastaPt="fastaPt",e.separatorPt="separatorPt",e.helmPt="helmPt",e.fastaDna="fastaDna",e.separatorDna="separatorDna",e.helmDna="helmDna",e.fastaRna="fastaRna",e.separatorRna="separatorRna",e.helmRna="helmRna",e.fastaGaps="fastaGaps",e.separatorGaps="separatorGaps",e.helmGaps="helmGaps",e.fastaUn="fastaUn",e.separatorUn="separatorUn",e.helmUn="helmUn",e.helmLoneDeoxyribose="helmLoneDeoxyribose",e.helmLoneRibose="helmLoneRibose",e.helmLonePhosphorus="helmLonePhosphorus",e.fastaLoneDeoxyribose="fastaLoneDeoxyribose",e.fastaLoneRibose="fastaLoneRibose",e.fastaLonePhosphorus="fastaLonePhosphorus"}(i||(i={}));const o={[i.fastaPt]:"seq\nFWPHEYFWPHEY\nYNRQWYVYNRQWYV\nMKPSEYVMKPSEYV",[i.separatorPt]:"seq\nF-W-P-H-E-Y-F-W-P-H-E-Y\nY-N-R-Q-W-Y-V-Y-N-R-Q-W-Y-V\nM-K-P-S-E-Y-V-M-K-P-S-E-Y-V",[i.helmPt]:"seq\nPEPTIDE1{F.W.P.H.E.Y.F.W.P.H.E.Y}$$$$\nPEPTIDE1{Y.N.R.Q.W.Y.V.Y.N.R.Q.W.Y.V}$$$$\nPEPTIDE1{M.K.P.S.E.Y.V.M.K.P.S.E.Y.V}$$$$",[i.fastaDna]:"seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC",[i.separatorDna]:"seq\nA/C/G/T/C/A/C/G/T/C\nC/A/G/T/G/T/C/A/G/T/G/T\nT/T/C/A/A/C/T/T/C/A/A/C",[i.helmDna]:"seq\nRNA1{d(A)p.d(C)p.d(G)p.d(T)p.d(C)p.d(A)p.d(C)p.d(G)p.d(T)p.d(C)p}$$$$\nRNA1{d(C)p.d(A)p.d(G)p.d(T)p.d(G)p.d(T)p.d(C)p.d(A)p.d(G)p.d(T)p.d(G)p.d(T)p}$$$$\nRNA1{d(T)p.d(T)p.d(C)p.d(A)p.d(A)p.d(C)p.d(T)p.d(T)p.d(C)p.d(A)p.d(A)p.d(C)p}$$$$",[i.fastaRna]:"seq\nACGUCACGUC\nCAGUGUCAGUGU\nUUCAACUUCAAC",[i.separatorRna]:"seq\nA*C*G*U*C*A*C*G*U*C\nC*A*G*U*G*U*C*A*G*U*G*U\nU*U*C*A*A*C*U*U*C*A*A*C",[i.helmRna]:"seq\nRNA1{r(A)p.r(C)p.r(G)p.r(U)p.r(C)p.r(A)p.r(C)p.r(G)p.r(U)p.r(C)p}$$$$\nRNA1{r(C)p.r(A)p.r(G)p.r(U)p.r(G)p.r(U)p.r(C)p.r(A)p.r(G)p.r(U)p.r(G)p.r(U)p}$$$$\nRNA1{r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p.r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p}$$$$",[i.fastaGaps]:"seq\nFW-PH-EYYFW-PH-EYY\nFYNRQWYV-FYNRQWYV-\nFKP-Q-SEYVFKP-Q-SEYV",[i.separatorGaps]:"seq\nF/W//P/H//E/Y/Y/F/W//P/H//E/Y/Y\nF/Y/N/R/Q/W/Y/V//F/Y/N/R/Q/W/Y/V/\nF/K/P//Q//S/E/Y/V/F/K/P//Q//S/E/Y/V",[i.helmGaps]:"seq\nPEPTIDE1{F.W.*.P.H.*.E.Y.Y.F.W.*.P.H.*.E.Y.Y}$$$$\nPEPTIDE1{F.Y.N.R.Q.W.Y.V.*.F.Y.N.R.Q.W.Y.V.*}$$$$\nPEPTIDE1{F.K.P.*.Q.*.S.E.Y.V.F.K.P.*.Q.*.S.E.Y.V}$$$$",[i.fastaUn]:"seq\n[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D\n[meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2]\n[Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca]",[i.separatorUn]:"seq\nmeI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D-meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D\nmeI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2\nLys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca",[i.helmUn]:"seq\nPEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D.meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2}$$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca}$$$$",[i.helmLoneDeoxyribose]:"seq\nRNA1{d(A).d(C).d(G).d(T).d(C).d(A).d(C).d(G).d(T).d(C)}$$$$\nRNA1{d(C).d(A).d(G).d(T).d(G).d(T)p.d(C).d(A).d(G).d(T).d(G).d(T)p}$$$$\nRNA1{d(T).d(T).d(C).d(A).d(A).d(C)p.d(T).d(T).d(C).d(A).d(A).d(C)p}$$$$",[i.helmLoneRibose]:"seq\nRNA1{r(A).r(C).r(G).r(U).r(C).r(A).r(C).r(G).r(U).r(C)}$$$$\nRNA1{r(C).r(A).r(G).r(U).r(G).r(U)p.r(C).r(A).r(G).r(U).r(G).r(U)p}$$$$\nRNA1{r(U).r(U).r(C).r(A).r(A).r(C)p.r(U).r(U).r(C).r(A).r(A).r(C)p}$$$$",[i.helmLonePhosphorus]:"seq\nRNA1{p.p.r(A)p.r(C)p.r(G)p.r(U)p.r(C)p.r(A)p.r(C)p.r(G)p.r(U)p.r(C)p}$$$$\nRNA1{p.p.r(C)p.r(A)p.p.r(G)p.r(U)p.r(G)p.r(U)p.r(C)p.r(A)p.p.r(G)p.r(U)p.r(G)p.r(U)p}$$$$\nRNA1{p.r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p.r(U)p.r(U)p.r(C)p.r(A)p.r(A)p.r(C)p.p.p}$$$$"},r=new Set(Object.values(l.gp));async function s(t){const n=o[t],i=e.DataFrame.fromCsv(n);return await a.data.detectSemanticTypes(i),i}function u(e,i){if(e===l.Hi.SEPARATOR&&!i)throw new Error(`Argument 'separator' is mandatory for target notation '${e.toString()}'.`);return function(o){const r=n.getSeqHandler(o).convert(e,i);return(0,t.E3)(r.meta.units,e),r}}async function h(e,i,o){const a=(await s(e)).getCol("seq"),c=i(a),u=(await s(o)).getCol("seq");(0,t.J6)(c.toList(),u.toList());const h=n.getSeqHandler(a),d=n.getSeqHandler(c);for(const[e,n]of Object.entries(u.tags)){if(!r.has(e)||h.notation===l.Hi.HELM&&[l.gp.alphabet,l.gp.alphabetIsMultichar].includes(e)||d.notation===l.Hi.HELM&&[l.gp.alphabet,l.gp.alphabetIsMultichar].includes(e))continue;const i=c.getTag(e);(0,t.E3)(i,n,`Tag '${e}' expected value '${n}' is not equal to actual '${i}'.`)}}(0,t.t6)("testFastaPtToSeparator",async()=>{await h(i.fastaPt,u(l.Hi.SEPARATOR,"-"),i.separatorPt)}),(0,t.t6)("testFastaDnaToSeparator",async()=>{await h(i.fastaDna,u(l.Hi.SEPARATOR,"/"),i.separatorDna)}),(0,t.t6)("testFastaRnaToSeparator",async()=>{await h(i.fastaRna,u(l.Hi.SEPARATOR,"*"),i.separatorRna)}),(0,t.t6)("testFastaGapsToSeparator",async()=>{await h(i.fastaGaps,u(l.Hi.SEPARATOR,"/"),i.separatorGaps)}),(0,t.t6)("testFastaUnToSeparator",async()=>{await h(i.fastaUn,u(l.Hi.SEPARATOR,"-"),i.separatorUn)}),(0,t.t6)("testFastaPtToHelm",async()=>{await h(i.fastaPt,u(l.Hi.HELM),i.helmPt)}),(0,t.t6)("testFastaDnaToHelm",async()=>{await h(i.fastaDna,u(l.Hi.HELM),i.helmDna)}),(0,t.t6)("testFastaRnaToHelm",async()=>{await h(i.fastaRna,u(l.Hi.HELM),i.helmRna)}),(0,t.t6)("testFastaGapsToHelm",async()=>{await h(i.fastaGaps,u(l.Hi.HELM),i.helmGaps)}),(0,t.t6)("testSeparatorPtToFasta",async()=>{await h(i.separatorPt,u(l.Hi.FASTA),i.fastaPt)}),(0,t.t6)("testSeparatorDnaToFasta",async()=>{await h(i.separatorDna,u(l.Hi.FASTA),i.fastaDna)}),(0,t.t6)("testSeparatorRnaToFasta",async()=>{await h(i.separatorRna,u(l.Hi.FASTA),i.fastaRna)}),(0,t.t6)("testSeparatorGapsToFasta",async()=>{await h(i.separatorGaps,u(l.Hi.FASTA),i.fastaGaps)}),(0,t.t6)("testSeparatorUnToFasta",async()=>{await h(i.separatorUn,u(l.Hi.FASTA),i.fastaUn)}),(0,t.t6)("testSeparatorPtToHelm",async()=>{await h(i.separatorPt,u(l.Hi.HELM),i.helmPt)}),(0,t.t6)("testSeparatorDnaToHelm",async()=>{await h(i.separatorDna,u(l.Hi.HELM),i.helmDna)}),(0,t.t6)("testSeparatorRnaToHelm",async()=>{await h(i.separatorRna,u(l.Hi.HELM),i.helmRna)}),(0,t.t6)("testSeparatorGapsToHelm",async()=>{await h(i.separatorGaps,u(l.Hi.HELM),i.helmGaps)}),(0,t.t6)("testHelmDnaToFasta",async()=>{await h(i.helmDna,u(l.Hi.FASTA),i.fastaDna)}),(0,t.t6)("testHelmRnaToFasta",async()=>{await h(i.helmRna,u(l.Hi.FASTA),i.fastaRna)}),(0,t.t6)("testHelmPtToFasta",async()=>{await h(i.helmPt,u(l.Hi.FASTA),i.fastaPt)}),(0,t.t6)("testHelmUnToFasta",async()=>{await h(i.helmUn,u(l.Hi.FASTA),i.fastaUn)}),(0,t.t6)("testHelmDnaToSeparator",async()=>{await h(i.helmDna,u(l.Hi.SEPARATOR,"/"),i.separatorDna)}),(0,t.t6)("testHelmRnaToSeparator",async()=>{await h(i.helmRna,u(l.Hi.SEPARATOR,"*"),i.separatorRna)}),(0,t.t6)("testHelmPtToSeparator",async()=>{await h(i.helmPt,u(l.Hi.SEPARATOR,"-"),i.separatorPt)}),(0,t.t6)("testHelmUnToSeparator",async()=>{await h(i.helmUn,u(l.Hi.SEPARATOR,"-"),i.separatorUn)}),(0,t.t6)("testHelmLoneRibose",async()=>{await h(i.helmLoneRibose,u(l.Hi.FASTA),i.fastaRna)}),(0,t.t6)("testHelmLoneDeoxyribose",async()=>{await h(i.helmLoneDeoxyribose,u(l.Hi.SEPARATOR,"/"),i.separatorDna)}),(0,t.t6)("testHelmLonePhosphorus",async()=>{await h(i.helmLonePhosphorus,u(l.Hi.FASTA),i.fastaRna)});for(const e of w)(0,t.t6)(`testBilnToHelm_${e.name}`,async()=>{await f(e.biln,e.helm,n)});for(const e of v)(0,t.t6)(`testHelmToBiln_${e.name}`,async()=>{await y(e.helm,e.biln,n)})});var K=n(3516);(0,t.L1)("fastaFileHandler",()=>{const n=["description:1","description:2","description:3","description:4"],i=(e.Column.fromStrings("description",n),["MDYKETLLMPKTDFPMRGGLPNKEPQIQEKW","MIEVFLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL","MMELVLKTIIGPIVVGVVLRIVDKWLNKDK","MDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN"]);function o(e){const o=new K.m(e),r=o.descriptionsArray,s=o.sequencesArray;(0,t.J6)([r,s],[n,i])}(0,t.t6)("testNormalFormatting",async()=>{o(">description:1\nMDYKETLLMPKTDFPMRGGLPNKEPQIQEKW\n\n>description:2\nMIEVFLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDL\n\n>description:3\nMMELVLKTIIGPIVVGVVLRIVDKWLNKDK\n\n>description:4\nMDRTDEVSNHTHDKPTLTWFEEIFEEYHSPFHN\n")}),(0,t.t6)("testExtraSpaces",async()=>{o(">description:1\n MDYKETLLMPKTDFPMRGGLPNKEPQIQEKW\n\n>description:2\nMI EVF LFGIVLGLI PITLAGLFVTAY LQYRRGDQLDL\n\n>description:3\nM MELVLKTI IGPI VVGVVLR IVDKWLNKDK\n\n>description:4\nMDR TDEVSNHTHDKP TLTWFEEIFEEYHSPFHN\n ")}),(0,t.t6)("testExtraNewlines",async()=>{o(">description:1\n\nMDYKETLLMPKTDFPMRGGLPNKEPQIQEKW\n\n>description:2\nMIEVF\nLFGIVLGLI\nPITLAGLFVTA\nYLQYRRGDQLDL\n\n>description:3\nM\nME\n\nLVLKTIIG\n\nPIVVGVVLRI\nVDKWLNKDK\n\n\n>description:4\n\nMDRT\n\nDEVSNHTHDKP\n\nTLTWFEEIFEE\n\n\n\nYHSPFHN\n")})});var z=n(3890);(0,t.L1)("fastaExport",()=>{let n,i;(0,t.gM)(async()=>{n=await(0,c.Q)()}),function(e){e.single="single",e.multi="multi"}(i||(i={}));const o={[i.single]:{src:"MDYKETLLMPKTDFPMRGGLP",tgt:["MDYKETLLMP","KTDFPMRGGL","P"]},[i.multi]:{src:"M[MeI]YKETLL[MeF]PKTDFPMRGGL[MeA]",tgt:["M[MeI]YKETLL[MeF]P","KTDFPMRGGL","[MeA]"]}};let r;!function(e){e.test1="test1",e.test2="test2"}(r||(r={}));const s={[r.test1]:{srcCsv:"id,seq\n1,MDYKETLLMP\n2,KTDFPMRGGL\n3,P",idCols:["id"],seqCol:"seq",lineWidth:10,tgtFasta:">1\nMDYKETLLMP\n>2\nKTDFPMRGGL\n>3\nP\n"},[r.test2]:{srcCsv:"id,id2,seq\n1,seqA,M[MeI]YKETLL[MeF]P\n2,seqB,KTDFPMRGGL\n3,seqC,[MeA]\n",idCols:["id2","id"],seqCol:"seq",lineWidth:5,tgtFasta:">seqA|1\nM[MeI]YKE\nTLL[MeF]P\n>seqB|2\nKTDFP\nMRGGL\n>seqC|3\n[MeA]\n"}};function a(i,r=10){const s=o[i].src,a=e.Column.fromStrings("src",[s]);a.semType=e.SEMTYPE.MACROMOLECULE,a.meta.units=l.Hi.FASTA;const c=n.getSeqHandler(a).getSplitted(0),u=(0,z.aS)(c,r),h=o[i].tgt;(0,t.J6)(u,h)}async function u(i){const o=e.DataFrame.fromCsv(i.srcCsv),r=o.getCol(i.seqCol);r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=l.Hi.FASTA;const s=i.idCols.map(e=>o.getCol(e)),a=n.getSeqHandler(r),c=(0,z.wz)(s,a,i.lineWidth);(0,t.E3)(c,i.tgtFasta)}(0,t.t6)("wrapSequenceSingle",async()=>{a(i.single,10)}),(0,t.t6)("wrapSequenceMulti",async()=>{a(i.multi,10)}),(0,t.t6)("saveAsFastaTest1",async()=>{u(s[r.test1])}),(0,t.t6)("saveAsFastaTest2",async()=>{u(s[r.test2])})});var Z=n(4152),X=n(439);const J=X._S;(0,t.L1)("bio",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i="seq\nACGTCT\nCAGTGT\nTTCAAC";(0,t.t6)("testGetStatsHelm1",async()=>{const n=e.DataFrame.fromCsv("seq\nPEPTIDE1{meI}$$$$").getCol("seq");n.semType=e.SEMTYPE.MACROMOLECULE,n.meta.units=l.Hi.HELM;const i=(0,I.vZ)(n,1,l.qp);(0,t.Xk)(i.freq,{meI:1}),(0,t.E3)(i.sameLength,!0)}),(0,t.t6)("testGetStatsN1",async()=>{await function(n){const i=e.DataFrame.fromCsv(n).col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const o=(0,I.vZ)(i,5,l.J9);(0,t.Xk)(o.freq,{A:4,C:5,G:3,T:6}),(0,t.E3)(o.sameLength,!0)}(i)}),(0,t.t6)("testGetAlphabetSimilarity",async()=>{await async function(){const e={A:2041,C:3015,G:3015,T:2048,[J]:1e3},n=new Set(Object.keys(s.Q.Names)),i=(0,l.nq)(e,n);(0,t.E3)(i>.6,!0)}()}),(0,t.t6)("testPickupPaletteN1",async()=>{await async function(i){const o=e.DataFrame.fromCsv(i).col("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA;const r=(0,l.SM)(o,n);(0,t.E3)(r instanceof s.A,!0)}(i)}),(0,t.t6)("testPickupPaletteN1e",async()=>{await async function(){const i=e.DataFrame.fromCsv("seq\nACGTAT\nCAGTTG\nTTCG2C").col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const o=(0,l.SM)(i,n);(0,t.E3)(o instanceof s.A,!0)}()}),(0,t.t6)("testPickupPaletteAA1",async()=>{await async function(){const i=e.DataFrame.fromCsv("seq\nFWPHEYV\nYNRQWYV\nMKPSEYV").col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const r=(0,l.SM)(i,n);(0,t.E3)(r instanceof o.X,!0)}()}),(0,t.t6)("testPickupPaletteX",async()=>{await async function(){const i=e.DataFrame.fromCsv("seq\nXZJ{}2\n5Z4733\n3Z6></\n675687").col("seq");i.semType=e.SEMTYPE.MACROMOLECULE,i.meta.units=l.Hi.FASTA;const o=(0,l.SM)(i,n);(0,t.E3)(o instanceof Z.$u,!0)}()})}),(0,t.L1)("WebLogo.monomerToShort",()=>{(0,t.t6)("longMonomerSingle",async()=>{(0,t.E3)((0,l.zS)("S",5),"S")}),(0,t.t6)("longMonomerShort",async()=>{(0,t.E3)((0,l.zS)("Short",5),"Short")}),(0,t.t6)("longMonomerLong56",async()=>{(0,t.E3)((0,l.zS)("Long56",6),"Long56")}),(0,t.t6)("longMonomerComplexFirstPartShort",async()=>{(0,t.E3)((0,l.zS)("Long-long",5),"Long…")}),(0,t.t6)("longMonomerComplexFirstPartLong56",async()=>{(0,t.E3)((0,l.zS)("Long56-long",6),"Long5…")}),(0,t.t6)("monomerToShort",async()=>{const e=[["AbC","AbC"],["AbCd","Ab…"],["ABc","ABc"],["ABcd","AB…"],["A_b","A_b"],["A_bc","A…"],["Ab_c","Ab…"],["A1_b","A1…"],["Abc_d","Ab…"],["Abcd_e","Ab…"],["A-b","A-b"],["A-bc","A…"],["Ab-c","Ab…"],["A1-b","A1…"],["Abc-d","Ab…"],["Abcd-e","Ab…"],["A","A"],["Ab","Ab"],["Abc","Abc"],["Ab…","Ab…"],["Abcd","Ab…"],["Abcde","Ab…"]],n=e.map(e=>e[0]),i=e.map(e=>e[1]),o=n.map(e=>(0,l.zS)(e,3));(0,t.J6)(o,i)})});var Q=n(250);const ee=X._S;function te(e,n){(0,t.E3)(e.name,n.name),(0,t.J6)(e.getMonomers(),n.getMonomers());for(const i of e.getMonomers())(0,t.E3)(e.getFreq(i).rowCount,n.getFreq(i).rowCount)}(0,t.L1)("WebLogo.positions",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i="seq\nATC-G-TTGC--\nATC-G-TTGC--\n-TC-G-TTGC--\n-TC-GCTTGC--\n-TC-GCTTGC--";(0,t.t6)("allPositions",async()=>{const n=e.DataFrame.fromCsv(i),o=a.shell.addTableView(n),r=n.getCol("seq");r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=l.Hi.FASTA,r.setTag(l.gp.alphabet,l.YI.DNA),r.setTag(l.gp.aligned,"SEQ.MSA");const s=await n.plot.fromType("WebLogo");await(0,t.PE)(s.onLayoutCalculated,()=>{},()=>{o.dockManager.dock(s.root,e.DOCK_TYPE.DOWN)},500,"Layout calculate timeout");const c=s.positions,u=[new Q.Ue(0,"1",{A:new Q.Tc(2),[ee]:new Q.Tc(3)}),new Q.Ue(1,"2",{T:new Q.Tc(5)}),new Q.Ue(2,"3",{C:new Q.Tc(5)}),new Q.Ue(3,"4",{[ee]:new Q.Tc(5)}),new Q.Ue(4,"5",{G:new Q.Tc(5)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(3),C:new Q.Tc(2)}),new Q.Ue(6,"7",{T:new Q.Tc(5)}),new Q.Ue(7,"8",{T:new Q.Tc(5)}),new Q.Ue(8,"9",{G:new Q.Tc(5)}),new Q.Ue(9,"10",{C:new Q.Tc(5)}),new Q.Ue(10,"11",{[ee]:new Q.Tc(5)}),new Q.Ue(11,"12",{[ee]:new Q.Tc(5)})];(0,t.E3)(c.length,u.length);for(let e=0;e<c.length;e++){(0,t.E3)(c[e].name,u[e].name);for(const n of c[e].getMonomers())(0,t.E3)(c[e].getFreq(n).rowCount,u[e].getFreq(n).rowCount)}await s.awaitRendered()}),(0,t.t6)("positions with shrinkEmptyTail option true (filtered)",async()=>{const n=e.DataFrame.fromCsv("seq\n-TC-G-TTGC--\n-TC-GCTTGC--\n-T--C-GT-\n-T--C-GT-\n-T--C-GT-\n-T--CCGT-"),i=a.shell.addTableView(n),o=n.getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,l.YI.DNA),o.setTag(l.gp.aligned,"SEQ"),n.filter.init(e=>e>2),n.filter.fireChanged();const r=await n.plot.fromType("WebLogo",{shrinkEmptyTail:!0});await(0,t.PE)(r.onLayoutCalculated,()=>{},()=>{i.dockManager.dock(r.root,e.DOCK_TYPE.DOWN)},500);const s=r.positions,c=[new Q.Ue(0,"1",{[ee]:new Q.Tc(3)}),new Q.Ue(1,"2",{T:new Q.Tc(3)}),new Q.Ue(2,"3",{[ee]:new Q.Tc(3)}),new Q.Ue(3,"4",{[ee]:new Q.Tc(3)}),new Q.Ue(4,"5",{C:new Q.Tc(3)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(2),C:new Q.Tc(1)}),new Q.Ue(6,"7",{G:new Q.Tc(3)}),new Q.Ue(7,"8",{T:new Q.Tc(3)}),new Q.Ue(8,"9",{[ee]:new Q.Tc(3)})];(0,t.E3)(s.length,c.length);for(let e=0;e<s.length;e++){(0,t.E3)(s[e].name,c[e].name);for(const n of s[e].getMonomers())(0,t.E3)(s[e].getFreq(n).rowCount,c[e].getFreq(n).rowCount)}await r.awaitRendered()}),(0,t.t6)("positions with skipEmptyPositions option",async()=>{const n=e.DataFrame.fromCsv(i),o=a.shell.addTableView(n),r=n.getCol("seq");r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=l.Hi.FASTA,r.setTag(l.gp.alphabet,l.YI.DNA),r.setTag(l.gp.aligned,"SEQ.MSA");const s=await n.plot.fromType("WebLogo",{skipEmptyPositions:!0});await(0,t.PE)(s.onLayoutCalculated,()=>{},()=>{o.dockManager.dock(s.root,e.DOCK_TYPE.DOWN)},500);const c=s.positions,u=[new Q.Ue(0,"1",{A:new Q.Tc(2),[ee]:new Q.Tc(3)}),new Q.Ue(1,"2",{T:new Q.Tc(5)}),new Q.Ue(2,"3",{C:new Q.Tc(5)}),new Q.Ue(4,"5",{G:new Q.Tc(5)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(3),C:new Q.Tc(2)}),new Q.Ue(6,"7",{T:new Q.Tc(5)}),new Q.Ue(7,"8",{T:new Q.Tc(5)}),new Q.Ue(8,"9",{G:new Q.Tc(5)}),new Q.Ue(9,"10",{C:new Q.Tc(5)})];(0,t.E3)(c.length,u.length);for(let e=0;e<c.length;e++)te(c[e],u[e]);await s.awaitRendered()}),(0,t.t6)("count sequences for monomer at position",async()=>{const o=function(t,n,i){const o=e.DataFrame.fromCsv(t),r=o.getCol("seq");return r.semType=e.SEMTYPE.MACROMOLECULE,r.meta.units=n,r.setTag(l.gp.alphabet,i),r.setTag(l.gp.aligned,"SEQ.MSA"),o}(i,l.Hi.FASTA,l.YI.DNA),r=o.getCol("seq"),s=a.shell.addTableView(o),c=await o.plot.fromType("WebLogo",{startPositionName:"3",endPositionName:"7",skipEmptyPositions:!0});await(0,t.PE)(c.onLayoutCalculated,()=>{},()=>{s.dockManager.dock(c.root,e.DOCK_TYPE.DOWN)},500);const u=c.positions,h=[new Q.Ue(2,"3",{C:new Q.Tc(5)}),new Q.Ue(4,"5",{G:new Q.Tc(5)}),new Q.Ue(5,"6",{[ee]:new Q.Tc(3),C:new Q.Tc(2)}),new Q.Ue(6,"7",{T:new Q.Tc(5)})];(0,t.E3)(u.length,h.length);for(let e=0;e<u.length;e++)te(u[e],h[e]);const d=u[1],m=n.getSeqHandler(r),p=(0,Q.eN)(o,m,o.filter,"G",d);(0,t.E3)(p,5),await c.awaitRendered()}),(0,t.t6)("empty",async()=>{const n=e.DataFrame.fromColumns([(()=>{const t=e.Column.fromStrings("seq",[]);return t.semType=e.SEMTYPE.MACROMOLECULE,t.meta.units=l.Hi.FASTA,t.setTag(l.gp.alphabet,l.YI.DNA),t})()]),i=a.shell.addTableView(n),o=await n.plot.fromType("WebLogo");await(0,t.PE)(o.onLayoutCalculated,()=>{},()=>{i.dockManager.dock(o.root,e.DOCK_TYPE.DOWN)},500),o.positions,await o.awaitRendered()})}),(0,t.L1)("WebLogo.project",()=>{(0,t.t6)("fasta",async()=>{const n="Tests.Bio.WebLogo-project.fasta",i=await Le.files.readCsv("tests/filter_FASTA.csv"),o=i.name,r=i.getCol("fasta");await a.data.detectSemanticTypes(i);const s=a.shell.addTableView(i),l=await i.plot.fromType("WebLogo",{sequenceColumnName:r.name});s.dockManager.dock(l),await l.awaitRendered(),await $(s.grid),await async function(t,n,i,o){const r=e.Project.create(),s=i.saveLayout();r.name=t,r.addChild(n),r.addChild(s),await a.dapi.layouts.save(i.saveLayout()),await a.dapi.tables.uploadDataFrame(o),await a.dapi.tables.save(n),await a.dapi.projects.save(r)}(n,i.getTableInfo(),s,i),a.shell.closeAll(),await(0,t.cb)(500),await a.dapi.projects.open(n);const c=a.shell.getTableView(o),u=_()(c.viewers).toArray();(0,t.E3)(u.length,2),(0,t.E3)(u.filter(e=>"Grid"===e.type).length,1);const h=u.find(e=>"WebLogo"===e.type);(0,t.E3)(!!h,!0),await $(s.grid),await h.awaitRendered()},{skipReason:"depends on 1.18"})}),(0,t.L1)("WebLogo.layout",()=>{(0,t.t6)("fasta",async()=>{const e=await Le.files.readCsv("tests/filter_FASTA.csv"),n=e.getCol("fasta");await a.data.detectSemanticTypes(e);const i=a.shell.addTableView(e),o=await e.plot.fromType("WebLogo",{sequenceColumnName:n.name});i.dockManager.dock(o),await(0,t.cb)(2*Q.VN.render),await o.awaitRendered(),await $(i.grid);const r=i.saveLayout();r.toJson(),i.loadLayout(r),await(0,t.cb)(2*Q.VN.render),await o.awaitRendered(),await $(i.grid);const s=_()(i.viewers).toArray();(0,t.E3)(s.length,2),(0,t.E3)(s.filter(e=>"Grid"===e.type).length,1),(0,t.E3)(s.filter(e=>"WebLogo"===e.type).length,1)})});var ne=n(966);function ie(e,t){let n=null;for(const i of e.viewers)i.type===t&&(n=i);return n}(0,t.L1)("checkInputColumn",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i="seq\nseq1,\nseq2,\nseq3,\nseq4";(0,t.t6)("testMsaPos",async()=>{const o=e.DataFrame.fromCsv(i).getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,l.YI.DNA),o.setTag(l.gp.aligned,"SEQ");const[r,s]=(0,ne.l)(o,"Test",n,[l.Hi.FASTA],[l.YI.DNA,l.YI.RNA,l.YI.PT]);(0,t.E3)(r,!0)}),(0,t.t6)("testMsaNegHelm",async()=>{const o=e.DataFrame.fromCsv(i).getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.HELM,o.setTag(l.gp.alphabetIsMultichar,"true");const[r,s]=(0,ne.l)(o,"Test",n,[l.Hi.FASTA],[l.YI.DNA,l.YI.RNA,l.YI.PT]);(0,t.E3)(r,!1)}),(0,t.t6)("testMsaNegUN",async()=>{const o=e.DataFrame.fromCsv(i).getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,"UN"),o.setTag(l.gp.alphabetSize,"11"),o.setTag(l.gp.alphabetIsMultichar,"true"),o.setTag(l.gp.aligned,"SEQ");const[r,s]=(0,ne.l)(o,"Test",n,[l.Hi.FASTA],[l.YI.DNA,l.YI.RNA,l.YI.PT]);(0,t.E3)(r,!1)}),(0,t.t6)("testGetActionFunctionMeta",async()=>{e.Func.find({package:"Bio",name:"multipleSequenceAlignmentDialog"})[0].inputs.find(e=>"sequence"==e.name)})}),(0,t.L1)("similarity/diversity",async()=>{(0,t.t6)("similaritySearchViewer",async()=>{await async function(){const n=await Le.files.readAsText("tests/sample_MSA_data.csv"),i=e.DataFrame.fromCsv(n);await a.data.detectSemanticTypes(i);const o=a.shell.addTableView(i),r=o.dataFrame.getCol("MSA");(0,t.E3)(r.semType,e.SEMTYPE.MACROMOLECULE);const s=await o.dataFrame.plot.fromType("Sequence Similarity Search");let l=!1;if(s.computeCompleted.subscribe(e=>{e&&(l=!0)}),o.dockManager.dock(s,e.DOCK_TYPE.RIGHT,null,"Similarity"),await s.renderPromise,await(0,t.bk)(()=>void 0!==ie(o,"Sequence Similarity Search"),"Sequence Similarity Search viewer has not been created",100),!s.initialized)throw new Error("The viewer is not initialized.");if(!s.targetColumn)throw new Error("The viewer has not molecule column (onTableAttached).");if(!s.beforeRender())throw new Error("The viewer is not able to render.");if(!s.computeRequested)throw new Error("The viewer has not compute requested even.");if(!l)throw new Error("The viewer has not compute completed.");const c=s;await(0,t.bk)(()=>0!==c.root.getElementsByClassName("d4-grid").length,"Sequence Similarity Search viewer grid has not been created",100);(0,t.E3)(c.fingerprint,"Morgan"),(0,t.E3)(c.distanceMetric,"Hamming"),(0,t.E3)(c.scores.get(0),e.FLOAT_NULL),(0,t.E3)(c.idxs.get(0),0),(0,t.E3)(c.molCol.get(0),"D-Tyr_Et/Tyr_ab-dehydroMe/dV/E/N/D-Orn/D-aThr//Phe_4Me"),(0,t.E3)(c.scores.get(1).toFixed(2),"0.10"),(0,t.E3)(c.idxs.get(1),7),(0,t.E3)(c.molCol.get(1),"/D-Tyr_Et/meQ/dV/E/N/dV///Phe_4Me"),o.dataFrame.currentRowIdx=1,await(0,t.bk)(()=>1===c.targetMoleculeIdx,"Target molecule has not been changed",5e3),await(0,t.bk)(()=>"meI/hHis/Aca/Cys_SEt/T/dK/Thr_PO3H2/Aca/Tyr_PO3H2/D-Chg/dV/Phe_ab-dehydro/N/D-Orn/D-aThr//Phe_4Me"===c.molCol.get(0),"Incorrect first similar molecule",5e3)}()}),(0,t.t6)("diversitySearchViewer",async()=>{await async function(){const n=await Le.files.readAsText("tests/sample_MSA_data.csv"),i=e.DataFrame.fromCsv(n),o=a.shell.addTableView(i);await a.data.detectSemanticTypes(i);const r=o.dataFrame.getCol("MSA");(0,t.E3)(r.semType,e.SEMTYPE.MACROMOLECULE);const s=await o.dataFrame.plot.fromType("Sequence Diversity Search");let l=!1;if(s.computeCompleted.subscribe(e=>{e&&(l=!0)}),o.dockManager.dock(s,e.DOCK_TYPE.DOWN,null,"Diversity"),await s.renderPromise,await(0,t.bk)(()=>void 0!==ie(o,"Sequence Diversity Search"),"Sequence Diversity Search viewer has not been created",100),!s.initialized)throw new Error("The viewer is not initialized.");if(!s.targetColumn)throw new Error("The viewer has not molecule column (onTableAttached).");if(!s.beforeRender())throw new Error("The viewer is not able to render.");if(!s.computeRequested)throw new Error("The viewer has not compute requested even.");if(!l)throw new Error("The viewer has not compute completed.");const c=s;await(0,t.bk)(()=>0!==c.root.getElementsByClassName("d4-grid").length,"Sequence Diversity Search viewer grid has not been created",100),(0,t.E3)(c.fingerprint,"Morgan"),(0,t.E3)(c.distanceMetric,"Hamming"),(0,t.E3)(c.initialized,!0),(0,t.E3)(c.renderMolIds.length>0,!0)}()})});var oe=n(1687),re=n(4574);(0,t.L1)("bio-substructure-filters",async()=>{let n,i,o;async function r(e,t){if(!t.columns.names().includes(e))throw new Error(`The column '${e}' not found. Available in data frame are ${JSON.stringify(t.columns.names())}`);const i=new oe._i(n,Le.logger);return i.attach(t),i.applyState({columnName:e}),i.column=t.col(e),i.columnName=e,i}(0,t.gM)(async()=>{n=await(0,c.Q)(),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)}),(0,t.t6)("fasta",async()=>{const e=await R("tests/filter_FASTA.csv");await a.data.detectSemanticTypes(e);const i=new oe._i(n,Le.logger);i.attach(e),await i.awaitRendered();try{(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(i.bioFilter.type,"FastaBioFilter");const n=i.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new re.n("MD",void 0,Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,3),(0,t.E3)(i.dataFrame?.filter.toBinaryString(),"10010000100000")}finally{i.detach()}await i.awaitRendered()}),(0,t.t6)("separator",async()=>{const e=await R("tests/filter_MSA.csv"),i=new oe._i(n,Le.logger);await a.data.detectSemanticTypes(e),i.attach(e),await i.awaitRendered();try{(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(i.bioFilter.type,"SeparatorBioFilter");const n=i.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new oe.AR("meI",void 0,Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,7),(0,t.E3)(i.dataFrame.filter.get(2),!1),await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new oe.AR("/meI",void 0,Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,0),await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{n.props=new oe.AR("meI-hHis","-",Le.logger)},5e3,"testEvent onRowsFiltered"),(0,t.E3)(i.dataFrame.filter.trueCount,7),(0,t.E3)(i.dataFrame.filter.get(2),!1)}finally{i.detach()}await i.awaitRendered()}),(0,t.t6)("helm-dialog",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e="Bio tests: substructureFilters/helm-dialog",i=await R("tests/filter_HELM.csv"),o=a.shell.addTableView(i);await a.data.detectSemanticTypes(i),await i.meta.detectSemanticTypes(),Le.logger.debug(`${e}, filter attaching.`);const r=new oe._i(n,Le.logger);r.attach(i);const s=G.dialog("Test filters").add(r.root).show();await r.awaitRendered();try{const n=r.bioFilter;(0,t.E3)(null!==r.bioFilter,!0,"bioFilter is not created"),Le.logger.debug(`${e}, filter 1 change awaiting...`),await(0,t.PE)(i.onRowsFiltered,()=>{},()=>{n.props=new re.n("PEPTIDE1{A.C}$$$$V2.0",void 0,Le.logger)},2e4),Le.logger.debug(`${e}, filter 1 changed.`),(0,t.E3)(r.dataFrame.filter.trueCount,1),(0,t.E3)(r.dataFrame.filter.toBinaryString(),"0001"),Le.logger.debug(`${e}, filter 2 change awaiting...`),await(0,t.PE)(i.onRowsFiltered,()=>{},()=>{n.props=new re.n("PEPTIDE1{C}$$$$V2.0",void 0,Le.logger)},2e4),setTimeout(()=>o.grid.invalidate(),500),await $(o.grid),await(0,t.cb)(1e3),Le.logger.debug(`${e}, filter 2 changed.`),(0,t.E3)(r.dataFrame.filter.trueCount,2),(0,t.E3)(r.dataFrame.filter.toBinaryString(),"1001")}finally{s.close()}await r.awaitRendered(),await(0,t.cb)(3e3)}},{}),(0,t.t6)("helm-view",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e=await R("tests/filter_HELM.csv");e.getCol("HELM string"),await a.data.detectSemanticTypes(e);const t=a.shell.addTableView(e);t.getFiltersGroup(),await $(t.grid)}}),(0,t.t6)("sync-fasta",async()=>{const e=await Le.files.readCsv("tests/filter_FASTA.csv");await a.data.detectSemanticTypes(e);const n=await r("fasta",e),i=await r("fasta",e);await Promise.all([n.awaitRendered(),i.awaitRendered()]);try{(0,t.E3)(!!n.bioFilter,!0),(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(n.bioFilter.type,"FastaBioFilter"),(0,t.E3)(i.bioFilter.type,"FastaBioFilter");const o=n.bioFilter,r=i.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{o.props=new re.n("MD",void 0,Le.logger)},1e4,"await onRowsFiltered"),(0,t.E3)(e.filter.trueCount,3),await n.awaitRendered(),(0,t.E3)(r.props.substructure,"MD")}finally{n.detach(),i.detach()}await Promise.all([n.awaitRendered(),i.awaitRendered()])}),(0,t.t6)("sync-msa",async()=>{const e=await Le.files.readCsv("tests/filter_MSA.csv");await a.data.detectSemanticTypes(e);const n="hHis-Aca",i=await r("MSA",e),o=await r("MSA",e);await Promise.all([i.awaitRendered(),o.awaitRendered()]);try{(0,t.E3)(!!i.bioFilter,!0),(0,t.E3)(!!o.bioFilter,!0),(0,t.E3)(i.bioFilter.type,"SeparatorBioFilter"),(0,t.E3)(o.bioFilter.type,"SeparatorBioFilter");const r=i.bioFilter,s=o.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{r.props=new oe.AR(n,"-",Le.logger)},1e4,"await onRowsFiltered"),(0,t.E3)(e.filter.trueCount,8),(0,t.E3)(s.props.substructure,n),(0,t.E3)(s.props.separator,"-")}finally{i.detach(),o.detach()}await Promise.all([i.awaitRendered(),o.awaitRendered()])}),(0,t.t6)("sync-helm",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e=await Le.files.readCsv("tests/filter_HELM.csv");await a.data.detectSemanticTypes(e);const n=a.shell.addTableView(e),i="PEPTIDE1{A.C}$$$$V2.0",o=1,s=await r("HELM string",e),l=await r("HELM string",e),c=G.dialog("Test filters").add(s.root).add(l.root).show();await Promise.all([s.awaitRendered(),l.awaitRendered()]);try{(0,t.E3)(!!s.bioFilter,!0),(0,t.E3)(!!l.bioFilter,!0),(0,t.E3)(s.bioFilter.type,"HelmBioFilter"),(0,t.E3)(l.bioFilter.type,"HelmBioFilter");const r=s.bioFilter,a=l.bioFilter;await(0,t.PE)(e.onRowsFiltered,()=>{},()=>{r.props=new re.n(i,void 0,Le.logger)},6e4,"await onRowsFiltered"),await $(n.grid),Le.logger.debug("Bio tests: substructureFilters/sync-helm, before changed event"),await(0,t.cb)(2*s.debounceTime),Le.logger.debug("Bio tests: substructureFilters/sync-helm, after changed event"),(0,t.E3)(e.filter.trueCount,o),await s.awaitRendered(),(0,t.E3)(a.props.substructure,i)}finally{s.detach(),l.detach(),c.close()}await Promise.all([s.awaitRendered(),l.awaitRendered()]),await $(n.grid),await(0,t.cb)(3e3)}}),(0,t.t6)("two-columns-fasta",async()=>{const n=e.DataFrame.fromCsv("id,seq1,seq2,trueSeq1,trueSeq2\n0,CGGCTACGGC,ATTGCATTCG,0,1,\n1,CGGCTGCCGC,ATAGCATTCG,1,1,\n2,CGGCTGCGCC,AATGCATACG,1,0,\n3,CGGCTGCATT,TTTGCATTCG,1,1,\n4,CGGCTGCATT,AAAGCATACG,1,0,\n");await a.data.detectSemanticTypes(n);const i=a.shell.addTableView(n),o="seq1",r="CGGCTG",s=n.getCol("trueSeq1").toList(),l="seq2",c="GCATT",u=n.getCol("trueSeq2").toList(),h=[{type:"Bio:bioSubstructureFilter",columnName:o},{type:"Bio:bioSubstructureFilter",columnName:l}],d=await n.plot.fromType(e.VIEWER.FILTERS,{filters:h});i.dockManager.dock(d,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid);const m=d.filters[0],p=d.filters[1];(0,t.E3)(m.column.name,o),(0,t.E3)(p.column.name,l);const g=m.bioFilter,f=p.bioFilter;await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n(r,void 0,Le.logger)},1e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n("",void 0,Le.logger)},1e3,"testEvent onRowsFiltered on seq1"),(0,t.E3)(n.filter.trueCount,s.filter(e=>1===e).length),(0,t.E3)(n.filter.toBinaryString(),s.map(e=>e.toString()).join("")),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n("",void 0,Le.logger)},1e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n(c,void 0,Le.logger)},1e3,"testEvent onRowsFiltered on seq2"),(0,t.E3)(n.filter.trueCount,u.filter(e=>1===e).length),(0,t.E3)(n.filter.toBinaryString(),u.map(e=>e.toString()).join("")),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n("",void 0,Le.logger)},1e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n("",void 0,Le.logger)},1e3,"testEvent onRowsFiltered on neither"),(0,t.E3)(n.filter.trueCount,n.rowCount),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{g.props=new re.n(r,void 0,Le.logger)},5e3),await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{f.props=new re.n(c,void 0,Le.logger)},5e3,"testEvent onRowsFiltered on both");const y=_().count(0).take(n.rowCount).map(e=>s[e]*u[e]).toArray();(0,t.E3)(n.filter.trueCount,y.filter(e=>1===e).length),(0,t.E3)(n.filter.toBinaryString(),y.map(e=>e.toString()).join("")),await Promise.all([m.awaitRendered(),p.awaitRendered(),$(i.grid)])},{skipReason:"Inconsistent behavior of test"}),(0,t.t6)("reset-fasta",async()=>{const n=await R("tests/filter_FASTA.csv"),i=a.shell.addTableView(n);await a.data.detectSemanticTypes(n),await n.meta.detectSemanticTypes();const o="MD",r=await n.plot.fromType(e.VIEWER.FILTERS,{filters:[{type:"Bio:bioSubstructureFilter",columnName:"fasta"}]});i.dockManager.dock(r,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid);const s=r.filters[0].bioFilter;await(0,t.PE)(n.onRowsFiltered,()=>{},()=>{s.props=new re.n(o,void 0,Le.logger)},1e3,"testEvent onRowsFiltered"),(0,t.E3)(n.filter.trueCount,3),(0,t.E3)(s.props.substructure,o),(0,t.E3)(s.substructureInput.value,o),V()(r.root).find('i[name="icon-arrow-rotate-left"]')[0].click(),await(0,t.cb)(100),await $(i.grid),(0,t.E3)(s.props.substructure,""),(0,t.E3)(s.substructureInput.value,"")}),(0,t.t6)("reopen",async()=>{const n=await Le.files.readCsv("tests/filter_FASTA.csv"),i=a.shell.addTableView(n);await a.data.detectSemanticTypes(n),await n.meta.detectSemanticTypes();const o=[{type:"Bio:bioSubstructureFilter",columnName:"fasta"}],r=await n.plot.fromType(e.VIEWER.FILTERS,{filters:o});i.dockManager.dock(r,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid),r.close(),await $(i.grid);const s=await n.plot.fromType(e.VIEWER.FILTERS,{filters:o});i.dockManager.dock(s,e.DOCK_TYPE.LEFT),await(0,t.cb)(100),await $(i.grid)},{})});var se=n(8152);class ae{errorList=[];warningList=[];infoList=[];debugList=[];error(e,t,n){this.errorList.push({message:e,params:t,stackTrace:n})}warning(e,t){this.warningList.push({message:e,params:t})}info(e,t){this.infoList.push({message:e,params:t})}debug(e,t){this.debugList.push({message:e,params:t})}}var le=n(9192);(0,t.L1)("PepSeA",()=>{(0,t.t6)("Basic alignment",async()=>{const n=e.DataFrame.fromCsv('HELM,MSA\n"PEPTIDE1{F.L.R.G.W.[MeF].Y.S.N.N.C}$$$$","F.L.R.G.W.MeF.Y..S.N.N.C"\n"PEPTIDE1{F.L.R.G.Y.[MeF].Y.W.N.C}$$$$","F.L.R.G.Y.MeF.Y.W...N.C"\n"PEPTIDE1{F.G.Y.[MeF].Y.W.S.D.N.C}$$$$","F...G.Y.MeF.Y.W.S.D.N.C"\n"PEPTIDE1{F.L.R.G.Y.[MeF].Y.W.S.N.D.C}$$$$","F.L.R.G.Y.MeF.Y.W.S.N.D.C"\n"PEPTIDE1{F.V.R.G.Y.[MeF].Y.W.S.N.C}$$$$","F.V.R.G.Y.MeF.Y.W.S..N.C"\n'),i=await(0,se.GD)(n,n.getCol("HELM"),"msa(HELM)"),o=n.getCol("MSA");for(let e=0;e<i.length;++e)(0,t.E3)(i.get(e)==o.get(e),!0)},{timeout:6e4,skipReason:"Fails in docker"}),(0,t.t6)("stderr",async()=>{const n=new ae,i=e.DataFrame.fromCsv('HELM,MSA\n"PEPTIDE1{F.L.Mis.G.W.[MeF].Y.S.N.N.C}$$$$","F.L.Mis.G.W.MeF.Y..S.N.N.C"\n"PEPTIDE1{F.L.Mis.G.Y.[MeF].Y.W.N.C}$$$$","F.L.Mis.G.Y.MeF.Y...W.N.C"\n"PEPTIDE1{F.G.Y.[MeF].Y.W.S.D.N.C}$$$$","F...G.Y.MeF.Y.W.S.D.N.C"\n'),o=await(0,se.GD)(i,i.getCol("HELM"),"msa(HELM)",void 0,void 0,void 0,void 0,n),r=i.getCol("MSA");(0,t.J6)(o.toList(),r.toList()),(0,t.E3)(n.warningList[0].message,"Mis not found in Monomer Map\nMeF not found in Monomer Map\n")},{timeout:6e4,skipReason:"Fails in docker"}),(0,t.t6)("error",async()=>{const n=new ae;try{const t=e.DataFrame.fromCsv('HELM\n"PEPTIDE1{[NH2].*.A.Q.T.T.Y.K.N.Y.R.R.N.L.L.*.[COOH]}$$$$"\n"PEPTIDE1{[NH2].M.A.N.T.T.Y.K.N.Y.R.N.N.L.L.*.[COOH]}$$$$"\n"PEPTIDE1{[NH2].*.A.N.T.T.Y.K.C.Y.R.R.N.L.L.*.[COOH]}$$$$"\n"PEPTIDE1{[NH2].*.A.N.T.T.Y.K.F.Y.R.R.N.L.L.*.[COOH]}$$$$"\n');await(0,se.GD)(t,t.getCol("HELM"),"msa(HELM)",void 0,void 0,void 0,void 0,n)}catch(e){const[t,i]=(0,le.AP)(e);n.error(t,void 0,i)}(0,t.E3)(n.errorList[0].message,"PepSeA error: The pair (*,M) couldn't be found in the substitution matrix")},{skipReason:"Fails in docker"})});const ce="seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC",ue="seq\nAC-GT-CTAC-GT-CT\nCAC-T-GTCAC-T-GT\nACCGTACTACCGTACT",he="seq\nabc-dfgg-abc1-cfr3-rty-wert-abc-dfgg-abc1-cfr3-rty-wert\nrut12-her2-rty-wert-abc-abc1-dfgg-rut12-her2-rty-wert-abc-abc1-dfgg\nrut12-rty-her2-abc-cfr3-wert-rut12-rut12-rty-her2-abc-cfr3-wert-rut12";var de;(0,t.L1)("SeqHandler",()=>{let n;async function i(t){const i=e.DataFrame.fromCsv(t);await a.data.detectSemanticTypes(i);const o=n.getSeqHandler(i.getCol("seq"));return[i,o]}(0,t.gM)(async()=>{n=await(0,c.Q)()}),(0,t.t6)("Seq-Fasta",async()=>{const[e,n]=await i(ce);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!1)}),(0,t.t6)("Seq-Fasta-MSA",async()=>{const[e,n]=await i(ue);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!0)}),(0,t.t6)("Seq-Fasta-units",async()=>{const[e,n]=await i(ce);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!1)}),(0,t.t6)("Seq-Fasta-MSA-units",async()=>{const[e,n]=await i(ue);(0,t.E3)(n.notation,l.Hi.FASTA),(0,t.E3)(n.isMsa(),!0)}),(0,t.t6)("Seq-Helm",async()=>{const[e,n]=await i("seq\nPEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.Tyr_ab-dehydroMe.dV.E.N.D-Orn.D-aThr.Phe_4Me}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.D-Chg.dV.Phe_ab-dehydro.N.D-Orn.D-aThr.Phe_4Me}$$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.D-Chg.dV.Thr_PO3H2.N.D-Orn.D-aThr.Phe_4Me}$$$$");(0,t.E3)(n.notation,l.Hi.HELM),(0,t.E3)(n.isHelm(),!0)}),(0,t.t6)("Seq-UN",async()=>{const[e,n]=await i(he);(0,t.E3)(n.notation,l.Hi.SEPARATOR),(0,t.E3)(n.separator,"-"),(0,t.E3)(n.alphabet,l.YI.UN)}),(0,t.t6)("Seq-UN-auto",async()=>{const[e,n]=await i(he);(0,t.E3)(n.notation,l.Hi.SEPARATOR),(0,t.E3)(n.separator,"-"),(0,t.E3)(n.alphabet,l.YI.UN)}),(0,t.t6)("column-version",async()=>{const i=e.DataFrame.fromCsv(ce);await a.data.detectSemanticTypes(i);const o=i.getCol("seq"),r=n.getSeqHandler(o),s=o.version,l=n.getSeqHandler(o),c=o.version;(0,t.E3)(s,c,"Unexpected column version changed"),(0,t.E3)(r,l,"Unexpected SeqHandler object changed"),i.rows.addNew(["TACCCCTTCAAC"]);const u=n.getSeqHandler(o),h=o.version;(0,t.E3)(c<h,!0,"Stalled column version on add row"),(0,t.E3)(l!==u,!0,"Stalled SeqHandler object on add row"),o.set(1,"CAGTGTCCCCGT");const d=n.getSeqHandler(o),m=o.version;(0,t.E3)(h<m,!0,"Stalled column version on change data"),(0,t.E3)(u!==d,!0,"Stalled SeqHandler object on change data"),o.setTag("testTag","testValue");const p=n.getSeqHandler(o),g=o.version;(0,t.E3)(m<g,!0,"Stalled column version on set tag"),(0,t.E3)(d!==p,!0,"Stalled SeqHandler object on set tag")})}),function(e){e.fasta="fasta",e.fastaMsa="fastaMsa",e.separator="separator",e.separatorMsa="separatorMsa",e.helm="helm"}(de||(de={})),(0,t.L1)("SeqHandler: splitted",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()}),X.b9[l.Hi.FASTA],X.b9[l.Hi.HELM];const i=X.b9[l.Hi.SEPARATOR],o={[de.fasta]:{src:{csv:"seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC"},tgt:{notation:l.Hi.FASTA,splitted:[["A","C","G","T","C","A","C","G","T","C"],["C","A","G","T","G","T","C","A","G","T","G","T"],["T","T","C","A","A","C","T","T","C","A","A","C"]]}},[de.fastaMsa]:{src:{csv:"seq\nAC-GT-CTAC-GT-CT\nCAC-T-GTCAC-T-GT\nACCGTACTACCGTACT"},tgt:{notation:l.Hi.FASTA,splitted:[["A","C","-","G","T","-","C","T","A","C","-","G","T","-","C","T"],["C","A","C","-","T","-","G","T","C","A","C","-","T","-","G","T"],["A","C","C","G","T","A","C","T","A","C","C","G","T","A","C","T"]]}},[de.separator]:{src:{csv:"seq\nabc-dfgg-abc1-cfr3-rty-wert-abc-dfgg-abc1-cfr3-rty-wert\nrut12-her2-rty-wert-abc-abc1-dfgg-rut12-her2-rty-wert-abc\nrut12-rty-her2-abc-cfr3-wert-rut12-rut12-rty-her2-abc-cfr3"},tgt:{notation:l.Hi.SEPARATOR,separator:"-",splitted:[["abc","dfgg","abc1","cfr3","rty","wert","abc","dfgg","abc1","cfr3","rty","wert"],["rut12","her2","rty","wert","abc","abc1","dfgg","rut12","her2","rty","wert","abc"],["rut12","rty","her2","abc","cfr3","wert","rut12","rut12","rty","her2","abc","cfr3"]]}},[de.separatorMsa]:{src:{csv:'seq\nrut0-dfgg-abc1-cfr3-rty-wert-abc-dfgg-abc1-cfr3-rty-wert\nrut1-her2-rty--abc1-dfgg-rut12-her2-rty--abc1-dfgg\nrut2-rty-her2---wert-rut12-rty-her2---wert\n"rut3-rty-her2-""-""-""-""-wert-rut12-rty-her2-""-""-""-""-wert"\n"""-""-rut4-her2-wert-rut12-rty-her2-wert"\n"rut5-rty-her2-wert-rut12-rty-her2-wert-""-"""'},tgt:{notation:l.Hi.SEPARATOR,separator:"-",splitted:[["rut0","dfgg","abc1","cfr3","rty","wert","abc","dfgg","abc1","cfr3","rty","wert"],["rut1","her2","rty",i,"abc1","dfgg","rut12","her2","rty",i,"abc1","dfgg"],["rut2","rty","her2",i,i,"wert","rut12","rty","her2",i,i,"wert"],["rut3","rty","her2",i,i,"wert","rut12","rty","her2",i,i,"wert"],[i,"rut4","her2","wert","rut12","rty","her2","wert"],["rut5","rty","her2","wert","rut12","rty","her2","wert",i]]}},[de.helm]:{src:{csv:"seq\nPEPTIDE1{meI.hHis.Aca.N.T.dE.Thr_PO3H2.Aca.D-Tyr_Et.Thr_PO3H2.Aca.D-Tyr_Et}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.dK.Thr_PO3H2.Aca}$$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.dK.Thr_PO3H2.Aca}$$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.T.dK.Thr_PO3H2}$$$$,\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.T.dK}|PEPTIDE2{Thr_PO3H2}$$$$"},tgt:{notation:l.Hi.HELM,splitted:[["meI","hHis","Aca","N","T","dE","Thr_PO3H2","Aca","D-Tyr_Et","Thr_PO3H2","Aca","D-Tyr_Et"],["meI","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","Aca","dK","Thr_PO3H2","Aca"],["Lys_Boc","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","Aca","dK","Thr_PO3H2","Aca"],["meI","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","T","dK","Thr_PO3H2"],["meI","hHis","Aca","Cys_SEt","T","dK","Thr_PO3H2","T","dK","Thr_PO3H2"]]}}};for(const[i,r]of Object.entries(o))(0,t.t6)(`${i}`,async()=>{const i=e.DataFrame.fromCsv(r.src.csv).getCol("seq"),o=await a.functions.call("Bio:detectMacromolecule",{col:i});o&&(i.semType=o),(0,t.E3)(i.semType,e.SEMTYPE.MACROMOLECULE);const s=n.getSeqHandler(i);(0,t.E3)(s.notation,r.tgt.notation),(0,t.E3)(s.separator===r.tgt.separator,!0);const l=_().count(0).take(s.length).map(e=>{const t=s.getSplitted(e);return _().count(0).take(t.length).map(e=>t.getOriginal(e)).toArray()}).toArray();(0,t.J6)(l,r.tgt.splitted)})}),(0,t.L1)("SeqHandler: getRegion",()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i={fastaDna:{srcCsv:"seq\nATTCGT\nACTGCTC\nATTCCGTA",startIdx:2,endIdx:4,tgtCsv:"seq\nTCG\nTGC\nTCC",units:l.Hi.FASTA,alphabet:l.YI.DNA,positionNames:{tag:"a, b, c, d, e, f, g, h",start:"c",end:"e"}},separatorPt:{srcCsv:"seq\nM-D-Y-K-E-T-L\nM-I-E-V-F-L-F-G-I\nM-M-",startIdx:5,endIdx:null,tgtCsv:"seq\nT-L--\nL-F-G-I\n---",units:l.Hi.SEPARATOR,alphabet:l.YI.PT,positionNames:{tag:"1, 1A, 1B, 2, 3, 4, 4A, 4A, 4C",start:"4",end:null}},helm:{srcCsv:"seq\nPEPTIDE1{[meI].[hHis].[Aca].N.T.[dE].[Thr_PO3H2].[Aca].[D-Tyr_Et].[Tyr_ab-dehydroMe].[dV].E.N.[D-Orn]}$$$$\nPEPTIDE1{[meI].[hHis].[Aca].[Cys_SEt].T.[dK].[Thr_PO3H2].[Aca].[Tyr_PO3H2].[D-Chg].[dV].[Phe_ab-dehydro]}$$$$\nPEPTIDE1{[Lys_Boc].[hHis].[Aca].[Cys_SEt].T}$$$$",startIdx:3,endIdx:6,tgtCsv:"seq\nPEPTIDE1{N.T.[dE].[Thr_PO3H2]}$$$$\nPEPTIDE1{[Cys_SEt].T.[dK].[Thr_PO3H2]}$$$$\nPEPTIDE1{[Cys_SEt].T.*.*}$$$$",units:l.Hi.HELM,alphabet:l.YI.UN,positionNames:{tag:null,start:"4",end:"7"}}};for(const[o,r]of Object.entries(i))(0,t.t6)(`${o}-idx`,async()=>{const i=e.DataFrame.fromCsv(r.srcCsv).getCol("seq"),o=await a.functions.call("Bio:detectMacromolecule",{col:i});o&&(i.semType=o);const s=n.getSeqHandler(i).getRegion(r.startIdx,r.endIdx,"regSeq"),c=e.DataFrame.fromCsv(r.tgtCsv).getCol("seq");(0,t.E3)(i.meta.units,r.units),(0,t.E3)(s.meta.units,r.units),(0,t.E3)(i.getTag(l.gp.alphabet),r.alphabet),(0,t.E3)(s.getTag(l.gp.alphabet),r.alphabet),(0,t.J6)(s.toList(),c.toList())}),r.positionNames&&(0,t.t6)(`${o}-positionNames`,async()=>{const n=e.DataFrame.fromCsv(r.srcCsv).getCol("seq");r.positionNames.tag&&n.setTag(l.gp.positionNames,r.positionNames.tag);const i=await a.functions.call("Bio:detectMacromolecule",{col:n});i&&(n.semType=i);const o=await a.functions.call("Bio:getRegion",{sequence:n,start:r.positionNames.start,end:r.positionNames.end}),s=e.DataFrame.fromCsv(r.tgtCsv).getCol("seq");(0,t.E3)(n.meta.units,r.units),(0,t.E3)(o.meta.units,r.units),(0,t.E3)(n.getTag(l.gp.alphabet),r.alphabet),(0,t.E3)(o.getTag(l.gp.alphabet),r.alphabet),(0,t.J6)(o.toList(),s.toList())})}),(0,t.L1)("SeqHandler: getHelm",()=>{let n,i,o;(0,t.gM)(async()=>{n=await(0,c.Q)(),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)});const r={fasta:{src:{seq:"MDYKETMDYKET",notation:l.Hi.FASTA},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T.M.D.Y.K.E.T}$$$$"}},separator:{src:{seq:"M-D-Y-K-E-T-M-D-Y-K-E-T",notation:l.Hi.SEPARATOR,separator:"-"},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T.M.D.Y.K.E.T}$$$$"}},helm:{src:{seq:"PEPTIDE1{M.D.Y.K.E.T}$$$$",notation:l.Hi.HELM},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T}$$$$"}},"helm-cyclic":{src:{seq:"PEPTIDE1{M.D.Y.K.E.T}$PEPTIDE1,PEPTIDE1,6:R2-1:R1$$$V2.0",notation:l.Hi.HELM},tgt:{helm:"PEPTIDE1{M.D.Y.K.E.T}$PEPTIDE1,PEPTIDE1,6:R2-1:R1$$$V2.0"}}};for(const[e,n]of Object.entries(r))(0,t.t6)(e,async()=>{await s(n.src.seq,n.src.notation,n.src.separator,n.tgt.helm)});async function s(i,o,r,s){const l=e.Column.fromStrings("seq",[i]),c=e.DataFrame.fromColumns([l]);await a.data.detectSemanticTypes(c);const u=n.getSeqHandler(l),h=(await u.getValue(0)).helm;(0,t.E3)(h,s)}});var me=n(2582);(0,t.L1)("helm",()=>{const e={"single-linear":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz].T.[meI]}$$$$"},tgt:{simplePolymers:[6],connections:[],bondedRGroups:[1,2,2,2,2,1]}},"single-cyclized-C-2-2":{src:{helm:"PEPTIDE1{R.F.C.Y.G.H.[GGaz].C.T.[meI]}$PEPTIDE1,PEPTIDE1,3:R3-8:R3$$$"},tgt:{simplePolymers:[10],connections:[[["PEPTIDE1",3,"R3"],["PEPTIDE1",8,"R3"]]],bondedRGroups:[1,2,3,2,2,2,2,3,2,1]}},"single-cyclized-C-1-1":{src:{helm:"PEPTIDE1{F.C.Y.G.H.[GGaz].C.[meI]}$PEPTIDE1,PEPTIDE1,2:R3-7:R3$$$"},tgt:{simplePolymers:[8],connections:[[["PEPTIDE1",2,"R3"],["PEPTIDE1",7,"R3"]]],bondedRGroups:[1,3,2,2,2,1,3,1]}},"single-cyclized-C-0-0":{src:{helm:"PEPTIDE1{C.Y.G.H.[GGaz].C}$PEPTIDE1,PEPTIDE1,1:R3-6:R3$$$"},tgt:{simplePolymers:[6],connections:[[["PEPTIDE1",1,"R3"],["PEPTIDE1",6,"R3"]]],bondedRGroups:[2,2,2,2,2,2]}},"two-separated-5-1":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz].T}|PEPTIDE2{[meI]}$$$$"},tgt:{simplePolymers:[5,1],connections:[],bondedRGroups:[1,2,2,2,1,0]}},"two-separated-1-5":{src:{helm:"PEPTIDE1{[meI]}|PEPTIDE2{R.F.Y.[GGaz].T}$$$$"},tgt:{simplePolymers:[1,5],connections:[],bondedRGroups:[0,1,2,2,2,1]}},"two-separated-4-2":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz]}|PEPTIDE2{T.[meI]}$$$$"},tgt:{simplePolymers:[4,2],connections:[],bondedRGroups:[1,2,2,1,1,1]}},"two-connected-1":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz].T}|PEPTIDE2{[meI]}$PEPTIDE1,PEPTIDE2,5:R2-1:R1$$$"},tgt:{simplePolymers:[5,1],connections:[[["PEPTIDE1",5,"R2"],["PEPTIDE2",1,"R1"]]],bondedRGroups:[1,2,2,2,2,1]}},"two-connected-2":{src:{helm:"PEPTIDE1{R.F.Y.[GGaz]}|PEPTIDE2{T.[meI]}$PEPTIDE1,PEPTIDE2,4:R2-1:R1$$$"},tgt:{simplePolymers:[4,2],connections:[[["PEPTIDE1",4,"R2"],["PEPTIDE2",1,"R1"]]],bondedRGroups:[1,2,2,2,2,1]}},"two-cyclized-1-9":{src:{helm:"PEPTIDE1{[meI]}|PEPTIDE2{R.F.[GGaz].T.G.H.F.Y.P}$PEPTIDE2,PEPTIDE2,3:R3-9:R2|PEPTIDE2,PEPTIDE1,3:R4-1:R1$$$V2.0"},tgt:{simplePolymers:[1,9],connections:[[["PEPTIDE2",3,"R3"],["PEPTIDE2",9,"R2"]],[["PEPTIDE2",3,"R4"],["PEPTIDE1",1,"R1"]]],bondedRGroups:[1,1,2,4,2,2,2,2,2,1]}}};for(const[n,{src:i,tgt:o}]of Object.entries(e))(0,t.t6)(n,async()=>{const e=new me.f(i.helm),n=e.simplePolymers.map(e=>e.monomers.length),r=n.reduce((e,t)=>e+t,0);(0,t.J6)(n,o.simplePolymers);const s=e.connectionList.getConnectionData().map(e=>[[e[0].polymerId,e[0].bond.monomerIdx+1,`R${e[0].bond.rGroupId}`],[e[1].polymerId,e[1].bond.monomerIdx+1,`R${e[1].bond.rGroupId}`]]);(0,t.J6)(s,o.connections);const a=_().count(0).take(e.bondedRGroupsMap.length).map(t=>e.bondedRGroupsMap[t].length).toArray();(0,t.E3)(r,a.length)})});var pe=n(6077),ge=n(6717);const fe=new e.FileSource("System:AppData/Bio"),ye={"peptides-fasta":{inPath:"tests/to-atomic-level-peptides-fasta-input.csv",outPath:"tests/to-atomic-level-peptides-fasta-output.csv"},"dna-fasta":{inPath:"tests/to-atomic-level-dna-fasta-input.csv",outPath:"tests/to-atomic-level-dna-fasta-output.csv"},"msa-separator":{inPath:"tests/to-atomic-level-msa-separator-input.csv",outPath:"tests/to-atomic-level-msa-separator-output.csv"},"msa-fasta":{inPath:"tests/to-atomic-level-msa-fasta-input.csv",outPath:"tests/to-atomic-level-msa-fasta-output.csv"}},be="molfile(sequence)";function we(e){return e.replaceAll("\r\n","\n").replace(/\n$/,"").split("\n").map(e=>e.trimEnd()).join("\n")}(0,t.L1)("toAtomicLevel",async()=>{const n={},i={};let o,r,s,u,h,d;async function m(e,n){const i=e.getCol("sequence");await a.functions.call("Bio:toAtomicLevel",{table:e,seqCol:i,nonlinear:!1});const o=e.getCol(be),r=n.getCol(be),s=_()(o.values()).map(e=>we(e)).toArray(),l=_()(r.values()).map(e=>we(e)).toArray();(0,t.J6)(s,l)}(0,t.gM)(async()=>{h=await(0,ge.j)(),s=await(0,c.Q)(),o=await(0,L.pj)(),r=await(0,O.u)(),await o.loadMonomerLibForTests(),u=o.getMonomerLib();for(const[t,o]of Object.entries(ye))o.inPath,n[t]=e.DataFrame.fromCsv((await fe.readAsText(o.inPath)).replace(/\n$/,"")),n[t].name=o.inPath.split("/").pop(),await a.data.detectSemanticTypes(n[t]),i[t]=e.DataFrame.fromCsv((await fe.readAsText(o.outPath)).replace(/\n$/,""))}),(0,t.Pl)(async()=>{await(0,O.E)(r),await o.loadMonomerLib(!0)});for(const[e,o]of Object.entries(ye))(0,t.t6)(`${e}`,async()=>{await m(n[e],i[e])});!function(e){e.fastaDna="fastaDna",e.fastaRna="fastaRna",e.fastaPt="fastaPt",e.fastaUn="fastaUn",e.separatorDna="separatorDna",e.separatorRna="separatorRna",e.separatorPt="separatorPt",e.separatorUn="separatorUn",e.helm="helm"}(d||(d={}));const p={[d.fastaDna]:"seq\nACGTCACGTC\nCAGTGTCAGTGT\nTTCAACTTCAAC",[d.fastaRna]:"seq\nACGUCACGUC\nCAGUGUCAGUGU\nUUCAACUUCAAC",[d.fastaPt]:"seq\nFWPHEYFWPHEY\nYNRQWYVYNRQWYV\nMKPSEYVMKPSEYV",[d.fastaUn]:"seq\n[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D[meI][hHis][Aca]NT[dE][Thr_PO3H2][Aca]D\n[meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][meI][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2]\n[Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2][Lys_Boc][hHis][Aca][Cys_SEt]T[dK][Thr_PO3H2][Aca][Tyr_PO3H2]",[d.separatorDna]:"seq\nA/C/G/T/C/A/C/G/T/C\nC/A/G/T/G/T/C/A/G/T/G/T\nT/T/C/A/A/C/T/T/C/A/A/C",[d.separatorRna]:"seq\nA*C*G*U*C*A*C*G*U*C\nC*A*G*U*G*U*C*A*G*U*G*U\nU*U*C*A*A*C*U*U*C*A*A*C",[d.separatorPt]:"seq\nF-W-P-H-E-Y-F-W-P-H-E-Y\nY-N-R-Q-W-Y-V-Y-N-R-Q-W-Y-V\nM-K-P-S-E-Y-V-M-K-P-S-E-Y-V",[d.separatorUn]:"seq\nmeI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D-meI-hHis-Aca-N-T-dE-Thr_PO3H2-Aca-D\nmeI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-meI-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2\nLys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2-Lys_Boc-hHis-Aca-Cys_SEt-T-dK-Thr_PO3H2-Aca-Tyr_PO3H2",[d.helm]:"seq\nPEPTIDE1{meI.D-gGlu.Aca.N.T.dE.Thr_PO3H2.Aca.D.Thr_PO3H2.Aca.D}$$$\nPEPTIDE1{meI.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.Thr_PO3H2.Aca.Tyr_PO3H2}$$$\nPEPTIDE1{Lys_Boc.hHis.Aca.Cys_SEt.T.dK.Thr_PO3H2.Aca.Tyr_PO3H2.Thr_PO3H2.Aca.Tyr_PO3H2}$$$"};async function g(t){const n=p[t],i=e.DataFrame.fromCsv(n.replace(/\n$/,""));return await a.data.detectSemanticTypes(i),i}async function f(e,t="seq",n){const i=e.getCol(t),o=await(0,pe.C4)(e,i,u,s,h);return o.warnings.length>0&&Le.logger.warning(`_toAtomicLevel() warnings ${o.warnings.join("\n")}`),o.molCol}(0,t.t6)("fastaDna",async()=>{await f(await g(d.fastaDna),"seq")}),(0,t.t6)("fastaRna",async()=>{await f(await g(d.fastaRna),"seq")}),(0,t.t6)("fastaPt",async()=>{await f(await g(d.fastaPt),"seq")}),(0,t.t6)("fastaUn",async()=>{await f(await g(d.fastaUn),"seq")}),(0,t.t6)("separatorDna",async()=>{await f(await g(d.separatorDna),"seq")}),(0,t.t6)("separatorDna",async()=>{await f(await g(d.separatorRna),"seq")}),(0,t.t6)("separatorPt",async()=>{await f(await g(d.separatorPt),"seq")}),(0,t.t6)("separatorUn",async()=>{await f(await g(d.separatorUn),"seq")}),(0,t.t6)("helm",async()=>{await f(await g(d.helm),"seq")}),(0,t.t6)("ptFasta2",async()=>{const n=await Le.files.readAsText("tests/to-atomic-level-pt-fasta-2.mol"),i=e.DataFrame.fromCsv("seq\nAR"),o=i.getCol("seq");o.semType=e.SEMTYPE.MACROMOLECULE,o.meta.units=l.Hi.FASTA,o.setTag(l.gp.alphabet,l.YI.PT),s.getSeqHandler(o);const r=await f(i,"seq");(0,t.E3)(we(r.get(0)),we(n))})});var ve=n(8754);(0,t.L1)("toAtomicLevel-ui",()=>{let n,i,o,r,s;(0,t.gM)(async()=>{o=await(0,c.Q)(),s=await(0,ge.j)(),n=await(0,L.pj)(),i=await(0,O.u)(),await n.loadMonomerLibForTests(),r=n.getMonomerLib()}),(0,t.Pl)(async()=>{await(0,O.E)(i),await n.loadMonomerLib(!0)});const u={fasta:{src:{seq:"MDYKETLLMPK",units:l.Hi.FASTA},tgt:{atomCount:94,bondCount:95}},"fasta-with-gap":{src:{seq:"MD-YKETLLMPK",units:l.Hi.FASTA},tgt:{atomCount:94,bondCount:95}},helm:{src:{seq:"PEPTIDE1{meI.hHis.Aca.N.T.dK.Thr_PO3H2}$$$$",units:l.Hi.HELM},tgt:{atomCount:68,bondCount:68}},"helm-with-gap":{src:{seq:"PEPTIDE1{meI.hHis.*.Aca.N.T.dK.Thr_PO3H2}$$$$",units:l.Hi.HELM},tgt:{atomCount:68,bondCount:68}}},h=async t=>{const n=t.src.seq,i=e.DataFrame.fromColumns([e.Column.fromList(e.COLUMN_TYPE.STRING,"seq",[n])]);return await a.data.detectSemanticTypes(i),i.getCol("seq")};for(const[e,n]of Object.entries(u))(0,t.t6)(`${e}-linear`,async()=>{const e=await h(n);await d(e,!1,n.tgt)});if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length)for(const[e,n]of Object.entries(u))(0,t.t6)(`${e}-nonlinear`,async()=>{const e=await h(n);await d(e,!0,n.tgt)});async function d(n,i,a){const l=await(0,ve.V)(n.dataFrame,n,i,!1,r,o,s);(0,t.E3)(l.molCol.semType,e.SEMTYPE.MOLECULE);const c=l.molCol.get(0),u=s.get_mol(c);(0,t.E3)(null!=u,!0,"No molecule generated");try{const e=u.get_num_atoms(),n=u.get_num_bonds();(0,t.E3)(e,a.atomCount),(0,t.E3)(n,a.bondCount)}finally{u.delete()}}});var Te=n(6863);async function Ce(t,n){const i=e.DataFrame.fromCsv(t),o=i.col("seq"),r=await a.functions.call("Bio:detectMacromolecule",{col:o});return r&&(o.semType=r),await a.data.detectSemanticTypes(i),n.getSeqHandler(o)}function Ae(e,n,i,o){const r=i(e,n);(0,t.E3)(Number(r.toFixed(3)),Number(o.toFixed(3)))}(0,t.L1)("Distance",async()=>{let n;(0,t.gM)(async()=>{n=await(0,c.Q)()});const i=[[1,0,0,0],[0,1,0,0],[0,0,1,0],[0,0,0,1]],o={F:0,W:1,R:2,Y:3},r="FWRWY",s="FWRWW",a="FWY",l="FWRWY",u="FWY",h="FWRRRRY";(0,t.t6)("protein-distance-function",async()=>{const e=(await Ce("seq\nFWRWYVKHPFWRWYVKHP\nYNRWYVKHPYNRWYVKHP\nMWRSWYCKHPMWRSWYCKHP",n)).getDistanceFunctionName();(0,t.E3)(e,Te.Z.LEVENSHTEIN)}),(0,t.t6)("DNA-distance-function",async()=>{const e=(await Ce("seq\nATAACGATAACG\nATCGAATCGA\nATCGAATCGA",n)).getDistanceFunctionName();(0,t.E3)(e,Te.Z.LEVENSHTEIN)}),(0,t.t6)("MSA-distance-function",async()=>{const e=(await Ce("seq\nATAACATAAC\nATCGAATCGA\nATCGAATCGA",n)).getDistanceFunctionName();(0,t.E3)(e,Te.Z.HAMMING)}),(0,t.t6)("levenstein-sub",async()=>{const e=Te.V[Te.Z.LEVENSHTEIN]();Ae(r,s,e,.2)}),(0,t.t6)("levenstein-del",async()=>{const e=Te.V[Te.Z.LEVENSHTEIN]();Ae(a,l,e,.4)}),(0,t.t6)("hamming",async()=>{const e=Te.V[Te.Z.HAMMING]();Ae(a,l,e,.6)}),(0,t.t6)("needleman-blosum62",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({gapOpen:8,gapExtend:2});Ae(r,s,e,-6)}),(0,t.t6)("needleman-blosum62-del",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({gapOpen:8,gapExtend:2});Ae(a,l,e,-3.667)}),(0,t.t6)("needleman-custom-sub",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:1});Ae(r,s,e,.2)}),(0,t.t6)("needleman-custom-del",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:1});Ae(a,l,e,.667)}),(0,t.t6)("needleman-custom-zero-extend",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:0});Ae(u,h,e,.333)}),(0,t.t6)("needleman-custom-half-extend",async()=>{const e=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:2,gapExtend:1});Ae(u,h,e,1.667)}),(0,t.t6)("needleman-custom-same-extend",async()=>{const t=Te.V[Te.Z.NEEDLEMANN_WUNSCH]({scoringMatrix:i,alphabetIndexes:o,gapOpen:1,gapExtend:1});e.Test.isInBenchmark?Ae(Array(1e3).fill(u).join(""),Array(1e3).fill(h).join(""),t,1.333):Ae(u,h,t,1.333)},{benchmark:!0})});var Ee=n(684);async function Se(n,i,o,r,s,l,c,u){await a.data.detectSemanticTypes(n),await a.functions.call("Bio:activityCliffs",{table:n,molecules:n.getCol(o),activities:n.getCol(r),similarity:s,methodName:i,similarityMetric:c,preprocessingFunction:u,options:{[`${Ee.vb}`]:!0},demo:!1});const h=Array.from(a.shell.tv.viewers)[1];(0,t.E3)(h?.type===e.VIEWER.SCATTER_PLOT,!0),await(0,t.bk)(()=>{const e=Array.from(h.root.getElementsByClassName("scatter_plot_link"));return!e.length||e[0].innerText.toLowerCase()===`${l} cliffs`},"incorrect cliffs link",3e3)}var Me=n(2780),Pe=n(9039),_e=n(9124);async function Ie(n,i,o){const r=n.getCol(o);n.name="seqSpaceDf";const s=await a.functions.call("Bio:detectMacromolecule",{col:r});s&&(r.semType=s);const l=e.Func.find({package:"Bio",name:"macromoleculePreprocessingFunction"})[0];if(!l)throw new Error("Preprocessing function not found");await a.functions.call("Bio:sequenceSpaceTopMenu",{table:n,molecules:n.col(o),methodName:i,similarityMetric:Te.Z.LEVENSHTEIN,plotEmbeddings:!0,preprocessingFunction:l,options:{[Ee.vb]:!0}});const c=a.shell.tableView(n.name),u=Array.from(c?.viewers??[])[1];(0,t.E3)(null!=u)}(0,t.L1)("activityCliffs",async()=>{let n,i,o;const r=e.Func.find({name:"macromoleculePreprocessingFunction",package:"Bio"})[0],s=e.Func.find({name:"helmPreprocessingFunction",package:"Bio"})[0];(0,t.gM)(async()=>{e.Func.find({package:"Helm",name:"getHelmHelper"}).length&&(n=await(0,_e.b2)()),i=await(0,L.pj)(),o=await(0,O.u)(),await i.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(o),await i.loadMonomerLib(!0)}),(0,t.t6)("activityCliffsOpens",async()=>{const t=e.Test.isInBenchmark?{fileName:"tests/peptides_with_random_motif_1600.csv",tgt:{cliffCount:64}}:{fileName:"tests/100_3_clustests.csv",tgt:{cliffCount:3}},n=await R(t.fileName);a.shell.addTableView(n),await Se(n,Pe.c.UMAP,"sequence","Activity",90,t.tgt.cliffCount,Te.Z.LEVENSHTEIN,r)},{benchmark:!0,skipReason:"Fails"}),(0,t.t6)("activityCliffsWithEmptyRows",async()=>{const e=await R("tests/100_3_clustests_empty_vals.csv");a.shell.addTableView(e),await Se(e,Pe.c.UMAP,"sequence","Activity",90,3,Te.Z.LEVENSHTEIN,r)}),(0,t.t6)("Helm",async()=>{if(e.Func.find({package:"Helm",name:"getHelmHelper"}).length){const e=await Le.files.readCsv("samples/HELM_50.csv");a.shell.addTableView(e),await Se(e,Pe.c.UMAP,"HELM","Activity",65,20,Me.aT.Tanimoto,s)}})}),(0,t.L1)("sequenceSpace",async()=>{let n,i,o,r;(0,t.t6)("sequenceSpaceOpens",async()=>{const t=e.Test.isInBenchmark?{fileName:"tests/peptides_with_random_motif_1600.csv"}:{fileName:"tests/100_3_clustests.csv"};n=await R(t.fileName),i=a.shell.addTableView(n),await Ie(n,Pe.c.UMAP,"sequence")},{benchmark:!0}),(0,t.t6)("sequenceSpaceWithEmptyRows",async()=>{o=await R("tests/100_3_clustests_empty_vals.csv"),r=a.shell.addTableView(o),await Ie(o,Pe.c.UMAP,"sequence")})}),(0,t.L1)("Scoring",()=>{const n="sequence",i="expected_similarity",o="expected_identity",r=e.DataFrame.fromCsv(`${n},${i},${o}\nPEPTIDE1{Aca.Orn.gGlu.Pqa.D-His_1Bn.dH.hHis.4Abz.D-Tic.D-Dap.Y.Iva.meS.F.P.F.D-1Nal}$$$$,1.0,1.0\nPEPTIDE1{Iva.Gly_allyl.gGlu.Pqa.D-Dip.dH.hHis.4Abz.D-aHyp.D-Dap.Y.Iva.I.Tyr_26diMe.P.Asu.meC}$$$$,0.691,0.53\nPEPTIDE1{[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal].[1Nal]}$$$$V2.0,0.37,0.0`),s=r.getCol(n);s.meta.units=l.Hi.HELM,s.semType=e.SEMTYPE.MACROMOLECULE;const c=s.get(0);let u,h;(0,t.gM)(async()=>{u=await(0,L.pj)(),h=await(0,O.u)(),await u.loadMonomerLibForTests()}),(0,t.Pl)(async()=>{await(0,O.E)(h),await u.loadMonomerLib(!0)}),(0,t.t6)("Identity",async()=>{const e=await a.functions.call("Bio:sequenceIdentityScoring",{table:r,macromolecule:s,reference:c});for(let n=0;n<e.length;n++){const i=e.get(n),s=r.get(o,n);(0,t.Wj)(i,s,.01,`Wrong identity score for sequence at position ${n}`)}}),(0,t.t6)("Identity-shortReference",async()=>{const e=await a.functions.call("Bio:sequenceIdentityScoring",{table:r,macromolecule:s,reference:"PEPTIDE1{Iva.Gly_allyl.gGlu.Pqa.D-Dip.dH.hHis.4Abz.D-aHyp.D-Dap.Y.Iva}$$$$"});(0,t.E3)(_().count(0).take(e.length).map(t=>e.get(t)).every(e=>null!=e&&!isNaN(e)),!0)}),(0,t.t6)("Identity-longReference",async()=>{const e=await a.functions.call("Bio:sequenceIdentityScoring",{table:r,macromolecule:s,reference:"PEPTIDE1{Iva.Gly_allyl.gGlu.Pqa.D-Dip.dH.hHis.4Abz.D-aHyp.D-Dap.Y.Iva.I.Tyr_26diMe.P.Asu.meC.I.Tyr_26diMe.P.Asu.meC}$$$$"});(0,t.E3)(_().count(0).take(e.length).map(t=>e.get(t)).every(e=>null!=e&&!isNaN(e)),!0)}),(0,t.t6)("Similarity",async()=>{const e=await a.functions.call("Bio:sequenceSimilarityScoring",{table:r,macromolecule:s,reference:c});for(let n=0;n<e.length;n++){const o=e.get(n),s=r.get(i,n);(0,t.Wj)(o,s,.01,`Wrong similarity score for sequence at position ${n}`)}})});const Le=new e.Package;async function xe(n,i,o,r){const s=await(0,t.N$)({category:n,test:i,testContext:o,stressTest:r});return e.DataFrame.fromObjects(s)}async function Ne(){await(0,t.Xb)(Le,Le.getModule("package-test.js"))}})(),bio_test=i})();
8
8
  //# sourceMappingURL=package-test.js.map