@genome-spy/app 0.60.0 → 0.60.1
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.
- package/dist/index.es.js +113 -112
- package/dist/index.js +14 -14
- package/package.json +3 -3
package/dist/index.js
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t.header&&(e=t.header.map(Xu).join(t.delimiter)+`
|
|
6
6
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`+e),xy(t.delimiter).parse(e+"")}b0.responseType="text";function s_(e){return typeof Buffer=="function"&&kn(Buffer.isBuffer)?Buffer.isBuffer(e):!1}function y0(e,t){const n=t&&t.property?$u(t.property):Wu;return nn(e)&&!s_(e)?a_(n(e),t):n(JSON.parse(e))}y0.responseType="json";function a_(e,t){return!Zt(e)&&T8(e)&&(e=[...e]),t&&t.copy?JSON.parse(JSON.stringify(e)):e}const l_={interior:(e,t)=>e!==t,exterior:(e,t)=>e===t};function u2(e,t){let n,r,i,o;return e=y0(e,t),t&&t.feature?(n=H8,i=t.feature):t&&t.mesh?(n=j8,i=t.mesh,o=l_[t.filter]):xt("Missing TopoJSON feature or mesh parameter."),r=(r=e.objects[i])?n(e,r,o):xt("Invalid TopoJSON object: "+i),r&&r.features||[r]}u2.responseType="json";const w0={dsv:b0,csv:c2(","),tsv:c2(" "),json:y0,topojson:u2};function v0(e,t){return arguments.length>1?(w0[e]=t,this):_s(w0,e)?w0[e]:null}function x0(e,t,n,r){t=t||{};const i=v0(t.type||"json");return i||xt("Unknown data format type: "+t.type),e=i(e,t),t.parse&&c_(e,t.parse,n,r),_s(e,"columns")&&delete e.columns,e}function c_(e,t,n,r){if(!e.length)return;const i=jI();n=n||i.timeParse,r=r||i.utcParse;let o=e.columns||Object.keys(e[0]),s,a,l,c,u,f;t==="auto"&&(t=o_(e,o)),o=Object.keys(t);const h=o.map(d=>{const p=t[d];let m,b;if(p&&(p.startsWith("date:")||p.startsWith("utc:")))return m=p.split(/:(.+)?/,2),b=m[1],(b[0]==="'"&&b[b.length-1]==="'"||b[0]==='"'&&b[b.length-1]==='"')&&(b=b.slice(1,-1)),(m[0]==="utc"?r:n)(b);if(!a2[p])throw Error("Illegal format pattern: "+d+":"+p);return a2[p]});for(l=0,u=e.length,f=o.length;l<u;++l)for(s=e[l],c=0;c<f;++c)a=o[c],s[a]=h[c](s[a])}const u_=WI(typeof fetch<"u"&&fetch);/**
|
|
7
7
|
* @license
|
|
8
8
|
* Copyright 2019 Google LLC
|
|
@@ -1091,9 +1091,9 @@ bool setupPicking() {
|
|
|
1091
1091
|
}`)}}else if(tg(M)){if(!d.has(E)){d.set(E,"multi");const B=sA+mc(E);l.push(`// Selection texture
|
|
1092
1092
|
uniform highp usampler2D ${B};`);const I=this.getContext().glHelper,q=I.selectionTextures;this.selectionTextureOps.push(()=>{const J=k.getValue(E),ce=q.get(J);if(!ce)throw new Error(`Bug: no selection texture found for "${E}"!`);Ro(this.programInfo,{[B]:ce})});const Z=sA+E;l.push(`bool ${vc}${E}(bool empty) {
|
|
1093
1093
|
return binarySearchTexture(${Z}, ${D}) || (empty && isEmptyBinarySearchTexture(${Z}));
|
|
1094
|
-
}`),I.createSelectionTexture(M);const
|
|
1094
|
+
}`),I.createSelectionTexture(M);const te=k.createExpression(E);te.addListener(()=>{const J=te(null);I.createSelectionTexture(J),this.getContext().animator.requestRender()})}}else if(Ix(M)&&!d.has(E)){d.set(E,"interval");const B=[],I=[];for(const q of Object.keys(M.intervals)){if(!["x","y"].includes(q))continue;const Z=ph+mc(E)+`_${q}`,{attributeType:te}=oa(this.unitView.getScaleResolution(q).scale,q);f.push(" // Selection parameter"),f.push(` uniform highp ${te}[2] ${Z};`),N(this,hr).push(()=>{this.registerMarkUniformValue(Z,{expr:E},me=>me.intervals[q]??[1/0,-1/0])});const J=ia+q,ce=Z+"[0]",ae=Z+"[1]",we=Ux(q);if(this.encoding[we]){const me=ia+we,U=this.defaultHitTestMode;if(U=="endpoints")B.push(`((${ce} <= ${J} && ${J} <= ${ae}) || (${ce} <= ${me} && ${me} <= ${ae}))`);else if(U=="encloses")B.push(`(${ce} <= ${J} && ${me} <= ${ae})`);else if(U=="intersects")B.push(`(${ce} <= ${me} && ${J} <= ${ae})`);else throw new zi(`Unsupported hit test mode "${U}" for interval selection!`,this.unitView)}else B.push(`(${ce} <= ${J} && ${J} <= ${ae})`);I.push(`${ce} > ${ae}`)}l.push(`bool ${vc}${E}(bool empty) {
|
|
1095
1095
|
return ${B.join(" && ")} || (empty && (${I.join(" || ")}));
|
|
1096
|
-
}`)}}const p=(S,E,k,M)=>{const D=E.channelDef;if(Gn(D))if(gn(D.value)){const{uniformName:B,uniformGlsl:I,accessorGlsl:q,adjuster:Z}=WM(S,k);l.push(q),f.push(I),N(this,hr).push(()=>{this.registerMarkUniformValue(B,D.value,Z)})}else l.push($M(S,k,D.value).accessorGlsl);else if(bc(D)){const{uniformName:B,uniformGlsl:I,accessorGlsl:q}=YM(S,M,k);f.push(I),l.push(q);const{largeHp:Z,discrete:
|
|
1096
|
+
}`)}}const p=(S,E,k,M)=>{const D=E.channelDef;if(Gn(D))if(gn(D.value)){const{uniformName:B,uniformGlsl:I,accessorGlsl:q,adjuster:Z}=WM(S,k);l.push(q),f.push(I),N(this,hr).push(()=>{this.registerMarkUniformValue(B,D.value,Z)})}else l.push($M(S,k,D.value).accessorGlsl);else if(bc(D)){const{uniformName:B,uniformGlsl:I,accessorGlsl:q}=YM(S,M,k);f.push(I),l.push(q);const{largeHp:Z,discrete:te}=oa(M,S),J=te&&"domain"in M?ce=>M.domain().indexOf(ce):Z?Xx:ce=>+ce;N(this,hr).push(()=>{this.registerMarkUniformValue(B,D.datum,J)})}else if(Rr(D)){const B=u.get([D.field,!0]),{attributeGlsl:I,accessorGlsl:q}=qx(S,M,k,B!=null&&B.includes(S)?B:void 0);c.add(I),l.push(q)}else if(yc(D)){const{attributeGlsl:B,accessorGlsl:I}=qx(S,M,k);c.add(B),l.push(I)}else throw new zi(`Unsupported channel definition: ${JSON.stringify(D)}`,this.unitView)};for(const[S,E]of Object.entries(o)){if(!i.includes(S))continue;const{channelDef:k,accessors:M,scale:D}=E;for(let B=0;B<M.length;B++)p(S,M[B],B,D);if(D){const B=Tn(k)&&k.resolutionChannel||S,I=na(B)?this.unitView.getScaleResolution(B):null,{glsl:q,domainUniform:Z,domainUniformName:te,rangeUniform:J,rangeUniformName:ce}=QM(S,D,k);l.push(q),f.push(Z),f.push(J),J&&N(this,hr).push(()=>{const ae=this.createMarkUniformSetter(ce),we=()=>ae(Jx(D,S));I.addEventListener("range",we),we()}),Z&&N(this,hr).push(()=>{const ae=this.createMarkUniformSetter(te),we=()=>{const me=Qr(D.type)?[0,D.domain().length]:D.domain();ae(Zx(D.type)?tP(me):me)};I.addEventListener("domain",we),we()})}l.push(ZM(S,M))}const m=[...d.keys()].map(S=>`${vc}${S}(false)`);l.push(`bool isPointSelected() {
|
|
1097
1097
|
`+(this.encoders.uniqueId&&m.length>0?` return ${m.join(" || ")};`:" return false;")+`
|
|
1098
1098
|
}`);const b=`precision highp float;
|
|
1099
1099
|
precision highp int;`,g=S=>S.replace("#pragma markUniforms",f.join(`
|
|
@@ -2221,7 +2221,7 @@ chrM 16299`};function bO(e){if(!(e in vA))throw new Error(`Unknown assembly: ${e
|
|
|
2221
2221
|
<div class="title">
|
|
2222
2222
|
<strong>${a}</strong>
|
|
2223
2223
|
</div>
|
|
2224
|
-
`:"";return K`${l}${s}`}class la extends MA{constructor(t,n,r,i,o,s){super(t,n,r,i,o,s),this.spec=t}async initializeChildren(){}*[Symbol.iterator](){}replaceChild(t,n){throw new Error("Not implemented")}visit(t){let n;try{n=t(this)}catch(r){throw r.view=this,r}if(n===$o)return n;if(n!==BA){t.beforeChildren&&t.beforeChildren(this);for(const r of this){const i=r.visit(t);if(i===$o)return i}t.afterChildren&&t.afterChildren(this),t.postOrder&&t.postOrder(this)}}findDescendantByPath(t){for(const n of this)if(n.name===t[0]){if(t.length==1)return n;if(n instanceof la)return n.findDescendantByPath(t.slice(1))}}findChildByName(t){for(const n of this)if(n.name===t)return n}findDescendantByName(t){let n;return this.visit(r=>{if(r.name==t)return n=r,$o}),n}getDefaultResolution(t,n){return"shared"}}class Ui extends la{constructor(n,r,i,o,s,a){super(n,r,i,o,s,{layersChildren:!0,...a});be(this,fi,[]);this.spec=n,this.needsAxes={x:!0,y:!0}}async initializeChildren(){xe(this,fi,await Promise.all(this.spec.layer.map((n,r)=>this.context.createOrImportView(n,this,this,"grid"+r,i=>{if(!Eh(i)&&!Ah(i))throw new zi("LayerView accepts only unit or layer specs as children!",this)}))))}get children(){return N(this,fi).slice()}*[Symbol.iterator](){for(const n of N(this,fi))yield n}render(n,r,i={}){if(super.render(n,r,i),!!this.isConfiguredVisible()){n.pushView(this,r);for(const o of N(this,fi))o.render(n,r,i);n.popView(this)}}propagateInteractionEvent(n){this.handleInteractionEvent(void 0,n,!0);for(let r=N(this,fi).length-1;r>=0;r--)if(N(this,fi)[r].propagateInteractionEvent(n),n.stopped)return;this.handleInteractionEvent(void 0,n,!1)}}fi=new WeakMap;class c3{constructor(t,n){this.n=t,this.maxCols=n??1/0}get nRows(){return this.maxCols==1/0?1:Math.ceil(this.n/this.maxCols)}get nCols(){return Math.min(this.n,this.maxCols)}get rowIndices(){const t=[],n=this.nCols,r=this.nRows;for(let i=0;i<r;i++){const o=[];t.push(o);for(let s=0;s<n;s++){const a=i*n+s;a<this.n&&o.push(a)}}return t}get colIndices(){const t=[],n=this.nCols,r=this.nRows;for(let i=0;i<n;i++){const o=[];t.push(o);for(let s=0;s<r;s++){const a=s*n+i;a<this.n&&o.push(a)}}return t}getCellIndex(t,n){let r=0;if(this.maxCols==1/0)r=n==0?t:void 0;else{if(t>=this.maxCols)return;r=n*this.nCols+t}return r<this.n?r:void 0}getCellCoords(t){if(!(t<0||t>=this.n))return[t%this.nCols,Math.floor(t/this.nCols)]}}const kN="chromosome_ticks_and_labels",TN={x:"width",y:"height"};function Rg(e){return e=="x"?"y":"x"}const xh={x:["bottom","top"],y:["left","right"]},Bg=Object.fromEntries(Object.entries(xh).map(([e,t])=>t.map(n=>[n,e])).flat(1));function Hi(e){return Bg[e]}class Fg extends Ui{constructor(t,n,r,i,o,s){const a=n=="locus",l={...a?_N:u3,...IN(n,t),...t};super(a?DN(l,n):f3(l,n),r,i,o,`axis_${t.orient}`,{blockEncodingInheritance:!0,contributesToScaleDomain:!1,...s}),this.axisProps=l}getSize(){const t={px:this.getPerpendicularSize()},n={grow:1};return Bg[this.axisProps.orient]=="x"?new Kr(n,t):new Kr(t,n)}getPerpendicularSize(){return Mg(this.axisProps)}isPickingSupported(){return!1}}function Mg(e){const t=Hi(e.orient);let n=e.ticks&&e.tickSize||0;return e.labels&&(n+=e.labelPadding,t=="x"?n+=e.labelFontSize:n+=30),e.title&&(n+=e.titlePadding+e.titleFontSize),n=Math.min(e.maxExtent||1/0,Math.max(e.minExtent||0,n)),n}const u3={values:null,minExtent:20,maxExtent:1/0,offset:0,domain:!0,domainWidth:1,domainColor:"gray",domainDash:null,domainDashOffset:0,domainCap:"square",ticks:!0,tickSize:5,tickWidth:1,tickColor:"gray",tickDash:null,tickDashOffset:0,tickCap:"square",tickCount:null,tickMinStep:null,labels:!0,labelAlign:"center",labelBaseline:"middle",labelPadding:4,labelFontSize:10,labelLimit:180,labelColor:"black",format:null,titleColor:"black",titleFont:"sans-serif",titleFontSize:10,titlePadding:3};function IN(e,t){const n=t.orient,r=e=="nominal"||e=="ordinal";let i="center",o="middle",s=t.labelAngle??((n=="top"||n=="bottom")&&r?-90:0);switch(n){case"left":i="right";break;case"right":i="left";break;case"top":case"bottom":Math.abs(s)>30?(i=s>0==(n=="bottom")?"left":"right",o="middle"):o=n=="top"?"alphabetic":"top";break}return{labelAlign:i,labelAngle:s,labelBaseline:o}}function f3(e,t){const n={...e,extent:Mg(e)},r=Hi(n.orient),i=Rg(r),o=n.orient=="bottom"||n.orient=="right"?1:-1,s=n.orient=="bottom"||n.orient=="left"?1:0,a=()=>({name:"domain",data:{values:[{}]},mark:{type:"rule",clip:!1,strokeDash:n.domainDash,strokeCap:n.domainCap,color:n.domainColor,[i]:s,size:n.domainWidth}}),l=()=>({name:"labels",mark:{type:"text",clip:!1,align:n.labelAlign,angle:n.labelAngle,baseline:n.labelBaseline,[i+"Offset"]:(n.tickSize+n.labelPadding)*o,[i]:s,size:n.labelFontSize,color:n.labelColor,minBufferSize:1500},encoding:{[r]:{field:"value",type:t},text:{field:"label"}}}),c=()=>({name:"ticks",mark:{type:"rule",clip:!1,strokeDash:n.tickDash,strokeCap:n.tickCap,color:n.tickColor,size:n.tickWidth,minBufferSize:300},encoding:{[i]:{value:s},[i+"2"]:{value:s-n.tickSize/n.extent*(s?1:-1)}}}),u=()=>({name:"title",data:{values:[{}]},mark:{type:"text",clip:!1,align:"center",baseline:n.orient=="bottom"?"bottom":"top",angle:[0,90,0,-90][["top","right","bottom","left"].indexOf(n.orient)],text:n.title,color:n.titleColor,[r]:.5,[i]:1-s}}),f=()=>{const d={name:"ticks_and_labels",encoding:{[r]:{field:"value",type:t}},layer:[]};return n.ticks&&d.layer.push(c()),n.labels&&d.layer.push(l()),d},h={resolve:{scale:{[r]:"forced"}},[TN[Rg(r)]]:n.extent,data:{lazy:{type:"axisTicks",channel:r,axis:e}},layer:[]};return n.domain&&h.layer.push(a()),(n.ticks||n.labels)&&h.layer.push(f()),n.title&&h.layer.push(u()),h}const _N={...u3,chromTicks:!0,chromTickSize:18,chromTickWidth:1,chromTickColor:"#989898",chromTickDash:[4,2],chromTickDashOffset:1,chromLabels:!0,chromLabelFontSize:13,chromLabelFontWeight:"normal",chromLabelFontStyle:"normal",chromLabelColor:"black",chromLabelAlign:"left",chromLabelPadding:7};function DN(e,t){const n={...e,extent:Mg(e)},r=Hi(n.orient),i=Rg(r),o=n.orient=="bottom"||n.orient=="left"?1:0,s=()=>({name:"chromosome_ticks",mark:{type:"rule",strokeDash:e.chromTickDash,strokeDashOffset:e.chromTickDashOffset,[i]:o,[i+"2"]:o-n.chromTickSize/n.extent*(o?1:-1),color:e.chromTickColor,size:n.chromTickWidth}}),a=()=>{let u;switch(n.orient){case"top":u={y:0,angle:0,paddingX:4,dy:-n.chromLabelPadding,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"bottom":u={y:1,angle:0,paddingX:4,dy:n.chromLabelPadding+n.chromLabelFontSize*.73,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"left":u={x:1,angle:-90,paddingY:4,dy:-n.chromLabelPadding,viewportEdgeFadeWidthBottom:20,viewportEdgeFadeWidthTop:20,viewportEdgeFadeDistanceBottom:-20,viewportEdgeFadeDistanceTop:-10};break;case"right":u={x:0,angle:90,align:"right",paddingY:4,dy:-n.chromLabelPadding};break;default:u={}}return{name:"chromosome_labels",mark:{type:"text",size:n.chromLabelFontSize,font:n.chromLabelFont,fontWeight:n.chromLabelFontWeight,fontStyle:n.chromLabelFontStyle,color:n.chromLabelColor,align:e.chromLabelAlign,baseline:"alphabetic",clip:!1,...u},encoding:{[r+"2"]:{field:"continuousEnd",type:t},text:{field:"name"}}}};let l;switch(n.orient){case"bottom":case"top":l={};break;case"left":l={labelAngle:-90,labelAlign:"center",labelPadding:6};break;case"right":l={labelAngle:90,labelAlign:"center",labelPadding:6};break;default:l={}}const c=f3({...e,...l},t);if(e.chromTicks||e.chromLabels){const u={name:kN,data:{lazy:{type:"axisGenome",channel:Hi(n.orient)}},encoding:{[r]:{field:"continuousStart",type:t,band:0}},layer:[]};if(e.chromTicks&&u.layer.push(s()),e.chromLabels){u.layer.push(a());let f;c.layer.filter(h=>h.name=="ticks_and_labels").forEach(h=>h.layer.filter(d=>d.name=="labels").forEach(d=>{f=d.mark})),f&&(n.orient=="top"||n.orient=="bottom"?(f.viewportEdgeFadeWidthLeft=30,f.viewportEdgeFadeDistanceLeft=40):(f.viewportEdgeFadeWidthBottom=30,f.viewportEdgeFadeDistanceBottom=40))}c.layer.push(u)}return c}class RN{constructor(t){be(this,As);be(this,co,0);be(this,uo,0);xe(this,As,new Array(t))}push(t){N(this,As)[N(this,co)]=t,xe(this,co,(N(this,co)+1)%this.size),xe(this,uo,Math.min(N(this,uo)+1,this.size))}get(){const t=N(this,As);return N(this,uo)<this.size?t.slice(0,N(this,uo)):t.slice(N(this,co),this.size).concat(t.slice(0,N(this,co)))}get size(){return N(this,As).length}get length(){return N(this,uo)}}As=new WeakMap,co=new WeakMap,uo=new WeakMap;let Qo,h3=0;function d3(){return performance.now()-h3<50}function BN(e){return function(...t){h3=performance.now(),e(...t)}}function p3(e,t,n,r,i){if(n=BN(n),e.type=="wheel"){e.uiEvent.preventDefault();const o=e.uiEvent,s=o.deltaMode?120:1;if(!o.deltaX&&!o.deltaY)return;Qo==null||Qo.stop();let{x:a,y:l}=e.point;if(r){const c=r.mark.encoders;c.x&&!c.x2&&!c.x.constant&&(a=+c.x(r.datum)*t.width+t.x),c.y&&!c.y2&&!c.y.constant&&(l=(1-+c.y(r.datum))*t.height+t.y)}Math.abs(o.deltaX)<Math.abs(o.deltaY)?n({x:a,y:l,xDelta:0,yDelta:0,zDelta:o.deltaY*s/300}):n({x:a,y:l,xDelta:-o.deltaX*s,yDelta:0,zDelta:0})}else if(e.type=="mousedown"&&e.uiEvent.button===0){Qo&&Qo.stop();const o=new RN(30),s=e.uiEvent;s.preventDefault();let a=xn.fromMouseEvent(s);const l=f=>{const h=xn.fromMouseEvent(f);o.push({point:h,timestamp:performance.now()});const d=h.subtract(a);n({x:a.x,y:a.y,xDelta:d.x,yDelta:d.y,zDelta:0}),a=h},c=()=>{const h=performance.now(),d=o.get().filter(v=>h-v.timestamp<160);if(d.length<5||!i||FN(d))return;const p=d.at(-1),m=d[0],b=p.point.subtract(m.point).multiply(1/(p.timestamp-m.timestamp));let g=a.x,y=a.y;Qo=_g(i,v=>{n({x:v.x,y:v.y,xDelta:g-v.x,yDelta:y-v.y,zDelta:0}),g=v.x,y=v.y},150,.5,{x:g,y}),Qo({x:a.x-b.x*250,y:a.y-b.y*250})},u=()=>{document.removeEventListener("mousemove",l),document.removeEventListener("mouseup",u),c()};document.addEventListener("mouseup",u,!1),document.addEventListener("mousemove",l,!1)}}function FN(e){const t=e[Math.floor(e.length/2)],n=t.point.subtract(e[0].point).multiply(t.timestamp-e[0].timestamp),r=e.at(-1).point.subtract(t.point).multiply(e.at(-1).timestamp-t.timestamp),i=n.length;return r.length/i<.4}class MN extends Ui{constructor(t,n,r,i,o,s){const l={...n=="locus"?PN:g3,...t};super(zN(l,n),r,i,o,`axisGrid_${t.orient}`,{blockEncodingInheritance:!0,contributesToScaleDomain:!1,...s}),this.axisProps=l}getOrient(){return this.axisProps.orient}isPickingSupported(){return!1}}const g3={values:null,grid:!1,gridCap:"butt",gridColor:"lightgray",gridDash:null,gridOpacity:1,gridWidth:1,tickCount:null,tickMinStep:null},PN={...g3,chromGrid:!1,chromGridCap:"butt",chromGridColor:"gray",chromGridDash:[1,5],chromGridOpacity:1,chromGridWidth:1};function ON(e,t){const n=e,r=Hi(n.orient);return{name:"grid_lines",data:{lazy:{type:"axisTicks",channel:r,axis:e}},mark:{type:"rule",strokeDash:n.gridDash,strokeCap:n.gridCap,color:n.gridColor,size:n.gridWidth,opacity:n.gridOpacity,minBufferSize:300},encoding:{[r]:{field:"value",type:t}}}}function LN(e,t){const n=e,r=Hi(n.orient);return{name:"chromosome_lines",data:{lazy:{type:"axisGenome",channel:r}},mark:{type:"rule",strokeDash:n.chromGridDash,strokeCap:n.chromGridCap,color:n.chromGridColor,size:n.chromGridWidth,opacity:n.chromGridOpacity},encoding:{[r]:{field:"continuousStart",type:t,band:0}}}}function NN(e,t){const n=e,r=Hi(n.orient);return{name:"chromosome_fill",data:{lazy:{type:"axisGenome",channel:r}},mark:{type:"rect"},encoding:{[r]:{field:"continuousStart",type:t,band:0},[r+"2"]:{field:"continuousEnd",band:0},fill:{field:"odd",type:"nominal",scale:{domain:[!1,!0],range:[n.chromGridFillEven??"white",n.chromGridFillOdd??"white"]}},opacity:{field:"odd",type:"nominal",scale:{type:"ordinal",domain:[!1,!0],range:[n.chromGridFillEven?1:0,n.chromGridFillOdd?1:0]}}}}}function zN(e,t){const n={...e},r=[];return n.chromGrid&&(n.chromGridFillOdd||n.chromGridFillEven)&&r.push(NN(n,t)),n.chromGrid&&n.chromGridOpacity>0&&r.push(LN(n,t)),n.grid&&n.gridOpacity>0&&r.push(ON(n,t)),{name:"grid_layers",configurableVisibility:!1,resolve:{scale:{[Hi(e.orient)]:"forced",fill:"independent",opacity:"independent"}},layer:r}}const m3={anchor:"middle",frame:"group",offset:10,orient:"top",align:void 0,angle:0,baseline:"alphabetic",dx:0,dy:0,color:void 0,font:void 0,fontSize:12,fontStyle:"normal",fontWeight:"normal"},UN={orient:"left",anchor:"middle",align:"right",baseline:"middle",angle:0,fontSize:12},HN={orient:"top",anchor:"start",align:"left",baseline:"top",offset:-10,dx:10,fontSize:12},GN={start:0,middle:.5,end:1},jN={start:"left",middle:"center",end:"right"};function VN(e){if(!e)return;const t=lt(e)?{text:e}:e;if(!t.text||t.orient=="none")return;const n={"track-title":UN,overlay:HN}[t.style]??{},r={...m3,...n,...t};let i={},o={x:0,y:0};const s=GN[r.anchor??"middle"];switch(r.orient){case"top":o={x:s,y:1},i={baseline:"alphabetic",angle:0};break;case"right":o={x:1,y:1-s},i={baseline:"alphabetic",angle:90};break;case"bottom":o={x:s,y:0},i={baseline:"top",angle:0};break;case"left":o={x:0,y:s},i={baseline:"alphabetic",angle:-90};break}const a={...m3,...i,...n,...t},l={xOffset:0,yOffset:0};switch(r.orient){case"top":l.yOffset=-a.offset;break;case"right":l.xOffset=a.offset;break;case"bottom":l.yOffset=a.offset;break;case"left":l.xOffset=-a.offset;break}return{configurableVisibility:!1,data:{values:[{}]},mark:{type:"text",tooltip:null,clip:!1,...o,...l,text:a.text,align:a.align??jN[a.anchor],angle:a.angle,baseline:a.baseline,dx:a.dx,dy:a.dy,color:a.color,font:a.font,size:a.fontSize,fontStyle:a.fontStyle,fontWeight:a.fontWeight}}}class b3 extends St{constructor(n,r){const i={scrollbarSize:8,scrollbarPadding:2};super({data:{values:[{}]},mark:{type:"rect",fill:"#b0b0b0",fillOpacity:.6,stroke:"white",strokeWidth:1,strokeOpacity:1,cornerRadius:5,clip:!1},configurableVisibility:!1},n.layoutParent.context,n.layoutParent,n.view,"scrollbar-"+r,{blockEncodingInheritance:!0});be(this,sl);be(this,Mu,jn.ZERO);be(this,fo,0);be(this,Es,0);tn(this,"viewportOffset",0);this.config=i,xe(this,sl,r),this.interpolateViewportOffset=_g(this.context.animator,o=>{this.viewportOffset=o.x},50,.4,{x:this.viewportOffset}),this.addInteractionEventListener("mousedown",(o,s)=>{if(s.stopPropagation(),N(this,fo)<=0)return;const a=d=>r=="vertical"?d.clientY:d.clientX,l=s.uiEvent;l.preventDefault();const c=this.scrollOffset,u=a(l),f=d=>{const p=Xr(a(d)-u+c,0,N(this,fo));this.interpolateViewportOffset({x:p/N(this,fo)*N(this,Es)})},h=()=>{document.removeEventListener("mousemove",f),document.removeEventListener("mouseup",h)};document.addEventListener("mouseup",h,!1),document.addEventListener("mousemove",f,!1)})}get scrollOffset(){return this.viewportOffset/N(this,Es)*N(this,fo)}render(n,r,i){super.render(n,N(this,Mu),i)}updateScrollbar(n,r){const i=this.config.scrollbarPadding,o=this.config.scrollbarSize,s=N(this,sl)=="horizontal"?"width":"height",a=Math.min(1,n[s]/r[s]),l=n[s]-2*i,c=a*l;xe(this,fo,l-c),xe(this,Es,r[s]-n[s]),this.viewportOffset=Xr(this.viewportOffset,0,N(this,Es)),xe(this,Mu,N(this,sl)=="vertical"?new jn(()=>n.x+n.width-o-i,()=>n.y+i+this.scrollOffset,()=>o,()=>c):new jn(()=>n.x+i+this.scrollOffset,()=>n.y+n.height-o-i,()=>c,()=>o))}}sl=new WeakMap,Mu=new WeakMap,fo=new WeakMap,Es=new WeakMap;class qN extends Ui{constructor(t,n,r={}){const i=n(),o=Object.keys(i.intervals);if(["x","y"].every(c=>!o.includes(c)))throw new Error("SelectionRect requires at least one of the channels 'x' or 'y' to be present in the selection.");const s={name:"selectionRect",configurableVisibility:!1,resolve:{scale:{x:"forced",y:"forced"}},data:{values:y3(n())},encoding:{},layer:[]};o.includes("x")&&(s.encoding.x={field:"_x",type:null,title:null},s.encoding.x2={field:"_x2"}),o.includes("y")&&(s.encoding.y={field:"_y",type:null,title:null},s.encoding.y2={field:"_y2"}),s.layer.push({name:"selectionRectRect",mark:{type:"rect",clip:!0,fill:"#808080",fillOpacity:.05,stroke:"black",strokeWidth:1,strokeOpacity:.2,...r}});const a=c=>{const u=t.view.getScaleResolution(c);return`format(datum._${c}2 - datum._${c}, '.3s')`+(u.type==="locus"?" + 'b'":"")},l=r.measure=="inside"?9:r.measure=="outside"?-9:0;o.includes("x")&&l!=0&&s.layer.push({name:"selectionRectTextX",mark:{type:"text",align:"center",paddingX:5,dy:l,tooltip:null},encoding:{text:{expr:a("x")},y:o.includes("y")?{field:"_y2",type:null,title:null}:{value:1},y2:null}}),o.includes("y")&&l!=0&&s.layer.push({name:"selectionRectTextY",mark:{type:"text",align:"center",paddingY:5,dy:l,tooltip:null,angle:-90},encoding:{text:{expr:a("y")},x2:null}}),super(s,t.layoutParent.context,t.layoutParent,t.view,"selectionRect",{blockEncodingInheritance:!0,contributesToScaleDomain:!1}),n.addListener(()=>{const c=n();this.context.dataFlow.findDataSourceByKey(this).updateDynamicData(y3(c))})}}function y3(e){const t=e.intervals.x,n=e.intervals.y;return!t&&!n?[]:[{_x:t==null?void 0:t[0],_x2:t==null?void 0:t[1],_y:n==null?void 0:n[0],_y2:n==null?void 0:n[1]}]}class Pg{constructor(t,n,r){be(this,Nd);if(this.layoutParent=n,this.view=t,this.serial=r,this.background=void 0,this.backgroundStroke=void 0,this.axes={},this.gridLines={},this.scrollbars={},this.selectionRect=void 0,this.title=void 0,this.coords=jn.ZERO,t.needsAxes.x||t.needsAxes.y){const i=t.spec,o="view"in i?i==null?void 0:i.view:void 0,s=w3(o);s&&(this.background=new St(s,n.context,n,t,"background"+r,{blockEncodingInheritance:!0}));const a=v3(o);a&&(this.backgroundStroke=new St(a,n.context,n,t,"backgroundStroke"+r,{blockEncodingInheritance:!0}));const l=VN(t.spec.title);if(l){const c=new St(l,n.context,n,t,"title"+r,{blockEncodingInheritance:!0});this.title=c}}t.spec.viewportWidth!=null&&(this.scrollbars.horizontal=new b3(this,"horizontal")),t.spec.viewportHeight!=null&&(this.scrollbars.vertical=new b3(this,"vertical")),he(this,Nd,Ok).call(this)}*getChildren(){this.background&&(yield this.background),this.backgroundStroke&&(yield this.backgroundStroke),this.title&&(yield this.title),yield*Object.values(this.axes),yield*Object.values(this.gridLines),yield this.view,yield*Object.values(this.scrollbars),this.selectionRect&&(yield this.selectionRect)}async createAxes(){const{view:t,axes:n,gridLines:r}=this,i=(a,l)=>{const c=a.getAxisProps();if(c===null)return;const u=c?{...c}:{};if(!u.orient){for(const f of xh[l])if(!n[f]){u.orient=f;break}if(!u.orient)throw new Error("No slots available for an axis! Perhaps a LayerView has more than two children?")}if(u.title??(u.title=a.getTitle()),!xh[l].includes(u.orient))throw new Error(`Invalid axis orientation "${u.orient}" on channel "${l}"!`);return u},o=async(a,l,c)=>{const u=i(a,l);if(u){if(n[u.orient])throw new Error(`An axis with the orient "${u.orient}" already exists!`);const f=new Fg(u,a.scaleResolution.type,this.layoutParent.context,this.layoutParent,c);n[u.orient]=f,await f.initializeChildren()}},s=async(a,l,c)=>{const u=i(a,l);if(u&&(u.grid||u.chromGrid)){const f=new MN(u,a.scaleResolution.type,this.layoutParent.context,this.layoutParent,c);r[u.orient]=f,await f.initializeChildren()}};for(const a of["x","y"])if(t.needsAxes[a]){const l=t.resolutions.axis[a];if(!l)continue;await o(l,a,t)}for(const a of["x","y"])if(t.needsAxes[a]&&t.getConfiguredOrDefaultResolution(a,"axis")!="excluded"){const l=t.getAxisResolution(a);if(!l)continue;await s(l,a,t)}if(t instanceof Ui){for(const a of t)for(const[l,c]of Object.entries(a.resolutions.axis)){const u=c.getAxisProps();u&&u.orient&&await o(c,l,a)}for(const a of t)for(const[l,c]of Object.entries(a.resolutions.axis)){const u=c.getAxisProps();u&&!u.orient&&await o(c,l,a)}}[...Object.values(n),...Object.values(r)].forEach(a=>a.visit(l=>{l instanceof St&&l.resolve("scale")}))}getOverhang(){const t=n=>{const r=this.axes[n];return r?Math.max(r.getPerpendicularSize()+(r.axisProps.offset??0),0):0};return new Vt(t("top"),t("right"),t("bottom"),t("left")).add(this.view.getOverhang())}getOverhangAndPadding(){return this.getOverhang().add(this.view.getPadding())}}Nd=new WeakSet,Ok=function(){const t=this.view,n=r=>{this.view.context.glHelper.canvas.style.cursor=r};for(const[r,i]of t.paramMediator.paramConfigs){if(!("select"in i))continue;const o=fh(i.select);if(!Dx(o))continue;const s=o.encodings,a=Object.fromEntries(s.map(v=>{const w=this.view.getScaleResolution(v),S=w==null?void 0:w.scale;if(!S||!Gt(S.type))throw new Error(`No continuous scale found for interval selection param "${r}" on channel "${v}"! Scale type is "${(S==null?void 0:S.type)??"none"}".`);return[v,w]}));if(this.selectionRect)throw new Error("Only one interval selection per container is currently allowed!");let l=!1,c=!1,u=!1,f=null;const h=(v,w)=>Object.fromEntries(s.map(S=>[S,[Math.min(v[S],w[S]),Math.max(v[S],w[S])]])),d=t.paramMediator.createExpression(r),p=t.paramMediator.getSetter(r);i.value&&p({type:"interval",intervals:i.value});const m=()=>{p(kx(s)),n(null)};this.selectionRect=new qN(this,d,o.mark),this.selectionRect.initializeChildren();const b=v=>{const w={x:0,y:0},S=t.coords.normalizePoint(v.x,v.y,!0);for(const E of s){const k=a[E].scale,M=k.invert(E=="x"?S.x:S.y);w[E]=M+(["index","locus"].includes(k.type)?.5:0)}return w},g=v=>{var M,D,B,I;const{intervals:w}=v,S=(q,Z,ne)=>{const J=(we,me)=>me==null?null:a[we].scale(me),ce=J("x",q)??ne,ae=J("y",Z)??ne;return t.coords.denormalizePoint(ce,ae,!0)},E=S((M=w.x)==null?void 0:M[0],(D=w.y)==null?void 0:D[0],0),k=S((B=w.x)==null?void 0:B[1],(I=w.y)==null?void 0:I[1],1);return jn.create(E.x,E.y,k.x-E.x,k.y-E.y)};t.addInteractionEventListener("mousedown",(v,w)=>{if(w.uiEvent.button!=0)return;if(f=l?g(d()):null,f)n("grabbing"),c=!0;else{const D=w.point;if(Rx(d())&&(c=!0),w.uiEvent.shiftKey)m(),u=!0;else if(Rx(d())){const B=(I,q)=>{t.removeInteractionEventListener("mouseup",B);const Z=q.point;D.subtract(Z).length<2&&m()};t.addInteractionEventListener("mouseup",B);return}}w.stopPropagation();const S=w.point,E=xn.fromMouseEvent(w.uiEvent).subtract(S),k=D=>{const B=xn.fromMouseEvent(D).subtract(E);let I;if(f){const q=B.subtract(S),Z=f.translate(q.x,q.y);I=h(b(new xn(Z.x,Z.y)),b(new xn(Z.x2,Z.y2)))}else I=h(b(S),b(B));for(const q of s){const Z=a[q],{zoomExtent:ne,scale:J}=Z,ce=I[q];if(["index","locus"].includes(J.type)&&(ce[0]=Math.ceil(ce[0]),ce[1]=Math.ceil(ce[1])),f){const ae=ce[1]-ce[0],we=ne[0],me=ne[1];ce[0]<we&&(ce[0]=we,ce[1]=we+ae),ce[1]>me&&(ce[1]=me,ce[0]=me-ae)}else ce[0]=Math.max(ne[0],ce[0]),ce[1]=Math.min(ne[1],ce[1]);ce[1]=Math.min(ne[1],ce[1])}p({type:"interval",intervals:I})},M=()=>{document.removeEventListener("mousemove",k),document.removeEventListener("mouseup",M),u=!1,f&&(n("move"),f=null)};document.addEventListener("mousemove",k),document.addEventListener("mouseup",M)}),t.addInteractionEventListener("click",(v,w)=>{w.uiEvent.button==0&&c&&(w.stopPropagation(),c=!1)},!0);const y=v=>wM(d(),b(v));t.addInteractionEventListener("dblclick",(v,w)=>{y(w.point)&&(m(),w.stopPropagation())},!0),t.addInteractionEventListener("mousemove",(v,w)=>{y(w.point)?u||(l=!0,f||n("move")):(l=!1,f||n(null))})}};function w3(e){if(e!=null&&e.fill||e!=null&&e.fillOpacity||e!=null&&e.shadowOpacity)return{configurableVisibility:!1,data:{values:[{}]},mark:{color:e.fill,opacity:e.fillOpacity??(e.fill?1:0),type:"rect",clip:!1,tooltip:null,minHeight:1,minOpacity:0,shadowBlur:e.shadowBlur,shadowColor:e.shadowColor,shadowOffsetX:e.shadowOffsetX,shadowOffsetY:e.shadowOffsetY,shadowOpacity:e.shadowOpacity}}}function v3(e){if(!(!e||!e.stroke||e.strokeWidth===0||e.strokeOpacity===0))return{configurableVisibility:!1,resolve:{scale:{x:"excluded",y:"excluded"},axis:{x:"excluded",y:"excluded"}},data:{values:[{x:0,y:0,x2:1,y2:0},{x:1,y:0,x2:1,y2:1},{x:1,y:1,x2:0,y2:1},{x:0,y:1,x2:0,y2:0}]},mark:{size:e.strokeWidth??1,color:e.stroke??"lightgray",strokeCap:"square",opacity:e.strokeOpacity??1,type:"rule",clip:!1,tooltip:null},encoding:{x:{field:"x",type:"quantitative",scale:null},y:{field:"y",type:"quantitative",scale:null},x2:{field:"x2"},y2:{field:"y2"}}}}class $N extends la{constructor(n,r,i,o,s,a,l){super(n,r,i,o,s,l);be(this,We);be(this,al,1/0);be(this,ll,10);be(this,Pn,[]);be(this,Ss,{});be(this,cl,0);this.spec=n,xe(this,ll,n.spacing??10),xe(this,al,a),xe(this,Pn,[]),this.wrappingFacet=!1}appendChild(n){n.layoutParent??(n.layoutParent=this),N(this,Pn).push(new Pg(n,this,N(this,cl))),Ek(this,cl)._++}setChildren(n){xe(this,Pn,[]);for(const r of n)this.appendChild(r)}replaceChild(n,r){const i=N(this,Pn).findIndex(o=>o.view==n);if(i>=0)N(this,Pn)[i]=new Pg(r,this,N(this,cl));else throw new Error("Not my child view!")}get children(){return N(this,Pn).map(n=>n.view)}get childCount(){return N(this,Pn).length}async createAxes(){const n=[];for(const r of ta){const i=this.resolutions.axis[r];if(i){const o=i.getAxisProps();if(o){const s={title:i.getTitle(),orient:xh[r][0],...o},a=new Fg(s,i.scaleResolution.type,this.context,this,this);n.push(a.initializeChildren()),N(this,Ss)[r]=a}}}return Promise.all([...n,...N(this,Pn).map(r=>r.createAxes())])}*[Symbol.iterator](){for(const n of N(this,Pn))yield*n.getChildren();for(const n of Object.values(N(this,Ss)))yield n}getOverhang(){return he(this,We,Nk).call(this).union(he(this,We,Gd).call(this))}getSize(){return this._cache("size",()=>new Kr(he(this,We,oy).call(this,"column"),he(this,We,oy).call(this,"row")).addPadding(he(this,We,Gd).call(this)))}render(n,r,i={}){if(super.render(n,r,i),!this.isConfiguredVisible())return;this.layoutParent||(r=r.shrink(this.getPadding())),r=r.shrink(he(this,We,Gd).call(this)),n.pushView(this,r);const o={devicePixelRatio:this.context.devicePixelRatio},s=Ic(he(this,We,iy).call(this,"column"),r.width,o),a=Ic(he(this,We,iy).call(this,"row"),r.height,o),l=new c3(N(this,We,Ts).length,N(this,al)??1/0),c=u=>Math.round(u*devicePixelRatio)/devicePixelRatio;for(const[u,f]of N(this,We,Ts).entries()){const{view:h,axes:d,gridLines:p,background:m,backgroundStroke:b,title:g,selectionRect:y}=f,[v,w]=l.getCellCoords(u),S=s[he(this,We,sy).call(this,"column",v)],E=a[he(this,We,sy).call(this,"row",w)],k=h.getViewportSize(),M=h.getSize(),D=h.getOverhang(),B=S.location-D.left,I=E.location-D.top,q=(Q,X)=>(Q[X].grow?(X=="width"?S:E).size:Q[X].px)+D[X],Z=q(k,"width"),ne=q(k,"height"),J=q(M,"width"),ce=q(M,"height"),ae=f.scrollbars.horizontal,we=f.scrollbars.vertical,me=ae?()=>c(ae.viewportOffset):()=>0,U=we?()=>c(we.viewportOffset):()=>0,Ae=new jn(()=>r.x+B,()=>r.y+I,()=>Z,()=>ne),Ce=h.isScrollable(),H=Ce?new jn(()=>r.x+B-me(),()=>r.y+I-U(),()=>J,()=>ce):Ae;f.coords=Ae;const ze=i.clipRect?Ae.intersect(i.clipRect):Ae;m==null||m.render(n,ze,{...i,clipRect:void 0});for(const Q of Object.values(p))Q.render(n,Ae,i);const qe=YN(h)||Ce;qe&&h.render(n,H,{...i,clipRect:ze}),b==null||b.render(n,ze,{...i,clipRect:void 0});for(const[Q,X]of Object.entries(d)){const re=Q=="left"||Q=="right"?"vertical":"horizontal",ie=f.scrollbars[re],ye=ie?Ae.modify(re=="vertical"?{y:()=>H.y,height:ce}:{x:()=>H.x,width:J}):Ae,L=Og(ye,Q,X);let R=i.clipRect;ie&&(R=L.intersect(R).intersect(ie?Ae.modify(re=="vertical"?{x:-1e5,width:2e5}:{y:-1e5,height:2e5}):void 0)),X.render(n,L,{...i,clipRect:R})}for(const Q of Object.values(N(this,Ss))){const re=Q.axisProps.orient;(re=="left"&&v==0||re=="right"&&v==l.nCols-1||re=="top"&&w==0||re=="bottom"&&w==l.nRows-1)&&Q.render(n,Og(Ae.shrink(f.view.getOverhang()),re,Q),i)}qe||h.render(n,H,i),y==null||y.render(n,H,i);for(const Q of Object.values(f.scrollbars))Q.updateScrollbar(Ae,H),Q.render(n,r,i);g==null||g.render(n,Ae,i)}n.popView(this)}propagateInteractionEvent(n){if(this.handleInteractionEvent(void 0,n,!0),n.stopped)return;const r=N(this,We,Ts).find(o=>o.coords.containsPoint(n.point.x,n.point.y));for(const o of Object.values((r==null?void 0:r.scrollbars)??{}))if(o.coords.containsPoint(n.point.x,n.point.y)&&(o.propagateInteractionEvent(n),n.stopped))return;const i=r==null?void 0:r.view;if(i){if(i.propagateInteractionEvent(n),n.stopped)return;(i instanceof St||i instanceof Ui)&&p3(n,r.coords,o=>he(this,We,zk).call(this,r.coords,r.view,o),this.context.getCurrentHover(),this.context.animator)}n.stopped||this.handleInteractionEvent(void 0,n,!1)}getDefaultResolution(n,r){return"independent"}}al=new WeakMap,ll=new WeakMap,Pn=new WeakMap,Ss=new WeakMap,cl=new WeakMap,We=new WeakSet,Ts=function(){return N(this,Pn).filter(n=>n.view.isConfiguredVisible())},Lk=function(){return new c3(N(this,We,Ts).length,N(this,al)??1/0)},Vu=function(n){const r=n=="column"?"width":"height",i=(o,s)=>o.map(a=>{const c=N(this,We,Ts)[a].getOverhangAndPadding();return n=="column"?s?c.right:c.left:s?c.bottom:c.top}).reduce((a,l)=>Math.max(a,l),0);return this._cache(`size/directionSizes/${n}`,()=>N(this,We,Lk)[n=="column"?"colIndices":"rowIndices"].map(o=>({axisBefore:i(o,0),axisAfter:i(o,1),view:OO(o.map(s=>N(this,We,Ts)[s].view.getViewportSize()[r]))})))},iy=function(n){const r=he(this,We,Vu).call(this,n),i=[];i.push(_c);for(const[o,s]of r.entries())o>0&&i.push({px:N(this,ll),grow:0}),(o==0||this.wrappingFacet)&&i.push(_c),i.push({px:s.axisBefore,grow:0}),i.push(s.view),i.push({px:s.axisAfter,grow:0}),(o==r.length-1||this.wrappingFacet)&&i.push(_c);return i},oy=function(n){let r=0,i=0;const o=n=="row"?this.spec.height:this.spec.width;if(o||o===0)return DA(o);const s=he(this,We,Vu).call(this,n);for(const[a,l]of s.entries())a>0&&(i+=N(this,ll)),(a==0||this.wrappingFacet)&&(i+=0),i+=l.axisBefore,i+=l.view.px??0,r+=l.view.grow??0,i+=l.axisAfter,(a==s.length-1||this.wrappingFacet)&&(i+=0);return{px:i,grow:r}},sy=function(n,r){return n=="row"&&this.wrappingFacet?1+6*r+2:2+4*r+1},Nk=function(){const n=he(this,We,Vu).call(this,"column"),r=he(this,We,Vu).call(this,"row");return!n.length||!r.length?Vt.zero():new Vt(r.at(0).axisBefore,n.at(-1).axisAfter,r.at(-1).axisAfter,n.at(0).axisBefore)},Gd=function(){const n=r=>{const i=Bg[r],o=N(this,Ss)[i];return(o==null?void 0:o.axisProps.orient)!==r?0:Math.max(o.getPerpendicularSize()+(o.axisProps.offset??0),0)};return new Vt(n("top"),n("right"),n("bottom"),n("left"))},zk=function(n,r,i){for(const[o,s]of Object.entries(WN(r))){if(s.size<=0)continue;const a=n.normalizePoint(i.x,i.y),l=n.normalizePoint(i.x+i.xDelta,i.y+i.yDelta),c={x:l.x-a.x,y:l.y-a.y};for(const u of s)u.zoom(2**i.zDelta,o=="y"?1-a[o]:a[o],o=="x"?c.x:-c.y)}this.context.animator.requestRender()};function WN(e){const t={x:new Set,y:new Set};return e.visit(n=>{for(const[r,i]of Object.entries(t)){const o=n.getScaleResolution(r);o&&o.isZoomable()&&i.add(o)}}),t}function YN(e){let t=!0;return e.visit(n=>{n instanceof St&&t&&(t=n.mark.properties.clip===!0)}),t}function Og(e,t,n){const r=n.axisProps,i=n.getPerpendicularSize();if(t=="bottom")return e.translate(0,e.height+r.offset).modify({height:i});if(t=="top")return e.translate(0,-i-r.offset).modify({height:i});if(t=="left")return e.translate(-i-r.offset,0).modify({width:i});if(t=="right")return e.translate(e.width+r.offset,0).modify({width:i})}class Zo extends $N{constructor(t,n,r,i,o){super(t,n,r,i,o,Lg(t)?t.columns:Sh(t)?1:1/0),this.spec=t}async initializeChildren(){const t=this.spec,n=Lg(t)?t.concat:Sh(t)?t.vconcat:t.hconcat;this.setChildren(await Promise.all(n.map((r,i)=>this.context.createOrImportView(r,this,this,"grid"+i)))),await this.createAxes()}getDefaultResolution(t,n){return n=="axis"?"independent":Sh(this.spec)&&t==="x"||E3(this.spec)&&t==="y"?"shared":"independent"}}const x3="viewRoot";class QN{constructor(t={}){be(this,ul,new Map);this.options={allowImport:!0,wrapRoot:!0,...t};const n=r=>(i,o,s,a,l)=>new r(i,o,s,a,i.name??l);this.addViewType(Eh,n(Ui)),this.addViewType(Ah,n(St)),this.addViewType(Sh,n(Zo)),this.addViewType(E3,n(Zo)),this.addViewType(Lg,n(Zo)),this.addViewType(S3,()=>{throw new Error("SampleView is not supported by the @genome-spy/core package. Use @genome-spy/app instead!")})}addViewType(t,n){N(this,ul).set(t,n)}createView(t,n,r,i,o){for(const[s,a]of N(this,ul))if(s(t))return a(t,n,r,i,o);throw new Error("Invalid spec, cannot figure out the view type from the properties: "+JSON.stringify([...Object.keys(t)]))}isViewSpec(t){const n=[...N(this,ul).keys()].filter(r=>r(t));if(n.length>1)throw new Error("Ambiguous spec. Cannot create a view!");return n.length==1}async createOrImportView(t,n,r,i,o,s){let a;if(KN(t)){let u;if("url"in t.import)if(this.options.allowImport)u=await iN(t,i.getBaseUrl(),n);else throw new zi("Importing views is not allowed!",r);else if("template"in t.import)u=A3(t.import.template,i);else throw new Error("Invalid import: "+JSON.stringify(t));s==null||s(u),ZN(u,t),a=u}else a=t;const l=u=>{var f;return(f=u==null?void 0:u.params)==null?void 0:f.some(h=>Fx(h)&&fh(h.select).type=="interval")};!i&&this.options.wrapRoot&&(Ah(a)||Eh(a)||l(a))&&o===x3&&(a={name:"implicitRoot",vconcat:[a]});const c=this.createView(a,n,r,i,o);return c instanceof la&&await c.initializeChildren(),c}}ul=new WeakMap;function A3(e,t){var r,i;const n=(i=(r=t.spec)==null?void 0:r.templates)==null?void 0:i[e];if(n)return structuredClone(n);if(t.dataParent)return A3(e,t.dataParent);throw new Error(`Cannot find template "${e}" in current view or its ancestors!`)}function ZN(e,t){t.name!=null&&(e.name=t.name);const n=Zt(t.params)?t.params:nn(t.params)?Object.entries(t.params).map(([r,i])=>({name:r,value:i})):[];if(n.length){e.params??(e.params=[]);for(const r of n){const i=e.params.findIndex(o=>o.name==r.name);i>=0&&(e.params[i]=r)}for(const r of n)e.params.some(i=>i.name==r.name)||e.params.push(r)}}function Ah(e){return"mark"in e&&(lt(e.mark)||nn(e.mark))}function Eh(e){return"layer"in e&&nn(e.layer)}function XN(e){return e&&(Ah(e)||Eh(e))&&"aggregateSamples"in e}function KN(e){return"import"in e}function Sh(e){return"vconcat"in e&&Zt(e.vconcat)}function E3(e){return"hconcat"in e&&Zt(e.hconcat)}function Lg(e){return"concat"in e&&Zt(e.concat)}function S3(e){return"samples"in e&&nn(e.samples)&&"spec"in e&&nn(e.spec)}function C3(e){const t=Math.floor(Math.random()*16777215).toString(16),n=[];for(const r of e.paramConfigs.values()){if(!rg(r))continue;const i=r.bind;if(!i||!("input"in i))continue;const o=r.name,s=e.getSetter(o),a=e.getValue(o),l=i.name??o,c=i.debounce?Yo(s,i.debounce,!1):s,u=`${t}-param-${o}`;if(i.input=="range")n.push(K`<label for=${u}>${l}</label>
|
|
2224
|
+
`:"";return K`${l}${s}`}class la extends MA{constructor(t,n,r,i,o,s){super(t,n,r,i,o,s),this.spec=t}async initializeChildren(){}*[Symbol.iterator](){}replaceChild(t,n){throw new Error("Not implemented")}visit(t){let n;try{n=t(this)}catch(r){throw r.view=this,r}if(n===$o)return n;if(n!==BA){t.beforeChildren&&t.beforeChildren(this);for(const r of this){const i=r.visit(t);if(i===$o)return i}t.afterChildren&&t.afterChildren(this),t.postOrder&&t.postOrder(this)}}findDescendantByPath(t){for(const n of this)if(n.name===t[0]){if(t.length==1)return n;if(n instanceof la)return n.findDescendantByPath(t.slice(1))}}findChildByName(t){for(const n of this)if(n.name===t)return n}findDescendantByName(t){let n;return this.visit(r=>{if(r.name==t)return n=r,$o}),n}getDefaultResolution(t,n){return"shared"}}class Ui extends la{constructor(n,r,i,o,s,a){super(n,r,i,o,s,{layersChildren:!0,...a});be(this,fi,[]);this.spec=n,this.needsAxes={x:!0,y:!0}}async initializeChildren(){xe(this,fi,await Promise.all(this.spec.layer.map((n,r)=>this.context.createOrImportView(n,this,this,"grid"+r,i=>{if(!Eh(i)&&!Ah(i))throw new zi("LayerView accepts only unit or layer specs as children!",this)}))))}get children(){return N(this,fi).slice()}*[Symbol.iterator](){for(const n of N(this,fi))yield n}render(n,r,i={}){if(super.render(n,r,i),!!this.isConfiguredVisible()){n.pushView(this,r);for(const o of N(this,fi))o.render(n,r,i);n.popView(this)}}propagateInteractionEvent(n){this.handleInteractionEvent(void 0,n,!0);for(let r=N(this,fi).length-1;r>=0;r--)if(N(this,fi)[r].propagateInteractionEvent(n),n.stopped)return;this.handleInteractionEvent(void 0,n,!1)}}fi=new WeakMap;class c3{constructor(t,n){this.n=t,this.maxCols=n??1/0}get nRows(){return this.maxCols==1/0?1:Math.ceil(this.n/this.maxCols)}get nCols(){return Math.min(this.n,this.maxCols)}get rowIndices(){const t=[],n=this.nCols,r=this.nRows;for(let i=0;i<r;i++){const o=[];t.push(o);for(let s=0;s<n;s++){const a=i*n+s;a<this.n&&o.push(a)}}return t}get colIndices(){const t=[],n=this.nCols,r=this.nRows;for(let i=0;i<n;i++){const o=[];t.push(o);for(let s=0;s<r;s++){const a=s*n+i;a<this.n&&o.push(a)}}return t}getCellIndex(t,n){let r=0;if(this.maxCols==1/0)r=n==0?t:void 0;else{if(t>=this.maxCols)return;r=n*this.nCols+t}return r<this.n?r:void 0}getCellCoords(t){if(!(t<0||t>=this.n))return[t%this.nCols,Math.floor(t/this.nCols)]}}const kN="chromosome_ticks_and_labels",TN={x:"width",y:"height"};function Rg(e){return e=="x"?"y":"x"}const xh={x:["bottom","top"],y:["left","right"]},Bg=Object.fromEntries(Object.entries(xh).map(([e,t])=>t.map(n=>[n,e])).flat(1));function Hi(e){return Bg[e]}class Fg extends Ui{constructor(t,n,r,i,o,s){const a=n=="locus",l={...a?_N:u3,...IN(n,t),...t};super(a?DN(l,n):f3(l,n),r,i,o,`axis_${t.orient}`,{blockEncodingInheritance:!0,contributesToScaleDomain:!1,...s}),this.axisProps=l}getSize(){const t={px:this.getPerpendicularSize()},n={grow:1};return Bg[this.axisProps.orient]=="x"?new Kr(n,t):new Kr(t,n)}getPerpendicularSize(){return Mg(this.axisProps)}isPickingSupported(){return!1}}function Mg(e){const t=Hi(e.orient);let n=e.ticks&&e.tickSize||0;return e.labels&&(n+=e.labelPadding,t=="x"?n+=e.labelFontSize:n+=30),e.title&&(n+=e.titlePadding+e.titleFontSize),n=Math.min(e.maxExtent||1/0,Math.max(e.minExtent||0,n)),n}const u3={values:null,minExtent:20,maxExtent:1/0,offset:0,domain:!0,domainWidth:1,domainColor:"gray",domainDash:null,domainDashOffset:0,domainCap:"square",ticks:!0,tickSize:5,tickWidth:1,tickColor:"gray",tickDash:null,tickDashOffset:0,tickCap:"square",tickCount:null,tickMinStep:null,labels:!0,labelAlign:"center",labelBaseline:"middle",labelPadding:4,labelFontSize:10,labelLimit:180,labelColor:"black",format:null,titleColor:"black",titleFont:"sans-serif",titleFontSize:10,titlePadding:3};function IN(e,t){const n=t.orient,r=e=="nominal"||e=="ordinal";let i="center",o="middle",s=t.labelAngle??((n=="top"||n=="bottom")&&r?-90:0);switch(n){case"left":i="right";break;case"right":i="left";break;case"top":case"bottom":Math.abs(s)>30?(i=s>0==(n=="bottom")?"left":"right",o="middle"):o=n=="top"?"alphabetic":"top";break}return{labelAlign:i,labelAngle:s,labelBaseline:o}}function f3(e,t){const n={...e,extent:Mg(e)},r=Hi(n.orient),i=Rg(r),o=n.orient=="bottom"||n.orient=="right"?1:-1,s=n.orient=="bottom"||n.orient=="left"?1:0,a=()=>({name:"domain",data:{values:[{}]},mark:{type:"rule",clip:!1,strokeDash:n.domainDash,strokeCap:n.domainCap,color:n.domainColor,[i]:s,size:n.domainWidth}}),l=()=>({name:"labels",mark:{type:"text",clip:!1,align:n.labelAlign,angle:n.labelAngle,baseline:n.labelBaseline,[i+"Offset"]:(n.tickSize+n.labelPadding)*o,[i]:s,size:n.labelFontSize,color:n.labelColor,minBufferSize:1500},encoding:{[r]:{field:"value",type:t},text:{field:"label"}}}),c=()=>({name:"ticks",mark:{type:"rule",clip:!1,strokeDash:n.tickDash,strokeCap:n.tickCap,color:n.tickColor,size:n.tickWidth,minBufferSize:300},encoding:{[i]:{value:s},[i+"2"]:{value:s-n.tickSize/n.extent*(s?1:-1)}}}),u=()=>({name:"title",data:{values:[{}]},mark:{type:"text",clip:!1,align:"center",baseline:n.orient=="bottom"?"bottom":"top",angle:[0,90,0,-90][["top","right","bottom","left"].indexOf(n.orient)],text:n.title,color:n.titleColor,[r]:.5,[i]:1-s}}),f=()=>{const d={name:"ticks_and_labels",encoding:{[r]:{field:"value",type:t}},layer:[]};return n.ticks&&d.layer.push(c()),n.labels&&d.layer.push(l()),d},h={resolve:{scale:{[r]:"forced"}},[TN[Rg(r)]]:n.extent,data:{lazy:{type:"axisTicks",channel:r,axis:e}},layer:[]};return n.domain&&h.layer.push(a()),(n.ticks||n.labels)&&h.layer.push(f()),n.title&&h.layer.push(u()),h}const _N={...u3,chromTicks:!0,chromTickSize:18,chromTickWidth:1,chromTickColor:"#989898",chromTickDash:[4,2],chromTickDashOffset:1,chromLabels:!0,chromLabelFontSize:13,chromLabelFontWeight:"normal",chromLabelFontStyle:"normal",chromLabelColor:"black",chromLabelAlign:"left",chromLabelPadding:7};function DN(e,t){const n={...e,extent:Mg(e)},r=Hi(n.orient),i=Rg(r),o=n.orient=="bottom"||n.orient=="left"?1:0,s=()=>({name:"chromosome_ticks",mark:{type:"rule",strokeDash:e.chromTickDash,strokeDashOffset:e.chromTickDashOffset,[i]:o,[i+"2"]:o-n.chromTickSize/n.extent*(o?1:-1),color:e.chromTickColor,size:n.chromTickWidth}}),a=()=>{let u;switch(n.orient){case"top":u={y:0,angle:0,paddingX:4,dy:-n.chromLabelPadding,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"bottom":u={y:1,angle:0,paddingX:4,dy:n.chromLabelPadding+n.chromLabelFontSize*.73,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"left":u={x:1,angle:-90,paddingY:4,dy:-n.chromLabelPadding,viewportEdgeFadeWidthBottom:20,viewportEdgeFadeWidthTop:20,viewportEdgeFadeDistanceBottom:-20,viewportEdgeFadeDistanceTop:-10};break;case"right":u={x:0,angle:90,align:"right",paddingY:4,dy:-n.chromLabelPadding};break;default:u={}}return{name:"chromosome_labels",mark:{type:"text",size:n.chromLabelFontSize,font:n.chromLabelFont,fontWeight:n.chromLabelFontWeight,fontStyle:n.chromLabelFontStyle,color:n.chromLabelColor,align:e.chromLabelAlign,baseline:"alphabetic",clip:!1,...u},encoding:{[r+"2"]:{field:"continuousEnd",type:t},text:{field:"name"}}}};let l;switch(n.orient){case"bottom":case"top":l={};break;case"left":l={labelAngle:-90,labelAlign:"center",labelPadding:6};break;case"right":l={labelAngle:90,labelAlign:"center",labelPadding:6};break;default:l={}}const c=f3({...e,...l},t);if(e.chromTicks||e.chromLabels){const u={name:kN,data:{lazy:{type:"axisGenome",channel:Hi(n.orient)}},encoding:{[r]:{field:"continuousStart",type:t,band:0}},layer:[]};if(e.chromTicks&&u.layer.push(s()),e.chromLabels){u.layer.push(a());let f;c.layer.filter(h=>h.name=="ticks_and_labels").forEach(h=>h.layer.filter(d=>d.name=="labels").forEach(d=>{f=d.mark})),f&&(n.orient=="top"||n.orient=="bottom"?(f.viewportEdgeFadeWidthLeft=30,f.viewportEdgeFadeDistanceLeft=40):(f.viewportEdgeFadeWidthBottom=30,f.viewportEdgeFadeDistanceBottom=40))}c.layer.push(u)}return c}class RN{constructor(t){be(this,As);be(this,co,0);be(this,uo,0);xe(this,As,new Array(t))}push(t){N(this,As)[N(this,co)]=t,xe(this,co,(N(this,co)+1)%this.size),xe(this,uo,Math.min(N(this,uo)+1,this.size))}get(){const t=N(this,As);return N(this,uo)<this.size?t.slice(0,N(this,uo)):t.slice(N(this,co),this.size).concat(t.slice(0,N(this,co)))}get size(){return N(this,As).length}get length(){return N(this,uo)}}As=new WeakMap,co=new WeakMap,uo=new WeakMap;let Qo,h3=0;function d3(){return performance.now()-h3<50}function BN(e){return function(...t){h3=performance.now(),e(...t)}}function p3(e,t,n,r,i){if(n=BN(n),e.type=="wheel"){e.uiEvent.preventDefault();const o=e.uiEvent,s=o.deltaMode?120:1;if(!o.deltaX&&!o.deltaY)return;Qo==null||Qo.stop();let{x:a,y:l}=e.point;if(r){const c=r.mark.encoders;c.x&&!c.x2&&!c.x.constant&&(a=+c.x(r.datum)*t.width+t.x),c.y&&!c.y2&&!c.y.constant&&(l=(1-+c.y(r.datum))*t.height+t.y)}Math.abs(o.deltaX)<Math.abs(o.deltaY)?n({x:a,y:l,xDelta:0,yDelta:0,zDelta:o.deltaY*s/300}):n({x:a,y:l,xDelta:-o.deltaX*s,yDelta:0,zDelta:0})}else if(e.type=="mousedown"&&e.uiEvent.button===0){Qo&&Qo.stop();const o=new RN(30),s=e.uiEvent;s.preventDefault();let a=xn.fromMouseEvent(s);const l=f=>{const h=xn.fromMouseEvent(f);o.push({point:h,timestamp:performance.now()});const d=h.subtract(a);n({x:a.x,y:a.y,xDelta:d.x,yDelta:d.y,zDelta:0}),a=h},c=()=>{const h=performance.now(),d=o.get().filter(v=>h-v.timestamp<160);if(d.length<5||!i||FN(d))return;const p=d.at(-1),m=d[0],b=p.point.subtract(m.point).multiply(1/(p.timestamp-m.timestamp));let g=a.x,y=a.y;Qo=_g(i,v=>{n({x:v.x,y:v.y,xDelta:g-v.x,yDelta:y-v.y,zDelta:0}),g=v.x,y=v.y},150,.5,{x:g,y}),Qo({x:a.x-b.x*250,y:a.y-b.y*250})},u=()=>{document.removeEventListener("mousemove",l),document.removeEventListener("mouseup",u),c()};document.addEventListener("mouseup",u,!1),document.addEventListener("mousemove",l,!1)}}function FN(e){const t=e[Math.floor(e.length/2)],n=t.point.subtract(e[0].point).multiply(t.timestamp-e[0].timestamp),r=e.at(-1).point.subtract(t.point).multiply(e.at(-1).timestamp-t.timestamp),i=n.length;return r.length/i<.4}class MN extends Ui{constructor(t,n,r,i,o,s){const l={...n=="locus"?PN:g3,...t};super(zN(l,n),r,i,o,`axisGrid_${t.orient}`,{blockEncodingInheritance:!0,contributesToScaleDomain:!1,...s}),this.axisProps=l}getOrient(){return this.axisProps.orient}isPickingSupported(){return!1}}const g3={values:null,grid:!1,gridCap:"butt",gridColor:"lightgray",gridDash:null,gridOpacity:1,gridWidth:1,tickCount:null,tickMinStep:null},PN={...g3,chromGrid:!1,chromGridCap:"butt",chromGridColor:"gray",chromGridDash:[1,5],chromGridOpacity:1,chromGridWidth:1};function ON(e,t){const n=e,r=Hi(n.orient);return{name:"grid_lines",data:{lazy:{type:"axisTicks",channel:r,axis:e}},mark:{type:"rule",strokeDash:n.gridDash,strokeCap:n.gridCap,color:n.gridColor,size:n.gridWidth,opacity:n.gridOpacity,minBufferSize:300},encoding:{[r]:{field:"value",type:t}}}}function LN(e,t){const n=e,r=Hi(n.orient);return{name:"chromosome_lines",data:{lazy:{type:"axisGenome",channel:r}},mark:{type:"rule",strokeDash:n.chromGridDash,strokeCap:n.chromGridCap,color:n.chromGridColor,size:n.chromGridWidth,opacity:n.chromGridOpacity},encoding:{[r]:{field:"continuousStart",type:t,band:0}}}}function NN(e,t){const n=e,r=Hi(n.orient);return{name:"chromosome_fill",data:{lazy:{type:"axisGenome",channel:r}},mark:{type:"rect"},encoding:{[r]:{field:"continuousStart",type:t,band:0},[r+"2"]:{field:"continuousEnd",band:0},fill:{field:"odd",type:"nominal",scale:{domain:[!1,!0],range:[n.chromGridFillEven??"white",n.chromGridFillOdd??"white"]}},opacity:{field:"odd",type:"nominal",scale:{type:"ordinal",domain:[!1,!0],range:[n.chromGridFillEven?1:0,n.chromGridFillOdd?1:0]}}}}}function zN(e,t){const n={...e},r=[];return n.chromGrid&&(n.chromGridFillOdd||n.chromGridFillEven)&&r.push(NN(n,t)),n.chromGrid&&n.chromGridOpacity>0&&r.push(LN(n,t)),n.grid&&n.gridOpacity>0&&r.push(ON(n,t)),{name:"grid_layers",configurableVisibility:!1,resolve:{scale:{[Hi(e.orient)]:"forced",fill:"independent",opacity:"independent"}},layer:r}}const m3={anchor:"middle",frame:"group",offset:10,orient:"top",align:void 0,angle:0,baseline:"alphabetic",dx:0,dy:0,color:void 0,font:void 0,fontSize:12,fontStyle:"normal",fontWeight:"normal"},UN={orient:"left",anchor:"middle",align:"right",baseline:"middle",angle:0,fontSize:12},HN={orient:"top",anchor:"start",align:"left",baseline:"top",offset:-10,dx:10,fontSize:12},GN={start:0,middle:.5,end:1},jN={start:"left",middle:"center",end:"right"};function VN(e){if(!e)return;const t=lt(e)?{text:e}:e;if(!t.text||t.orient=="none")return;const n={"track-title":UN,overlay:HN}[t.style]??{},r={...m3,...n,...t};let i={},o={x:0,y:0};const s=GN[r.anchor??"middle"];switch(r.orient){case"top":o={x:s,y:1},i={baseline:"alphabetic",angle:0};break;case"right":o={x:1,y:1-s},i={baseline:"alphabetic",angle:90};break;case"bottom":o={x:s,y:0},i={baseline:"top",angle:0};break;case"left":o={x:0,y:s},i={baseline:"alphabetic",angle:-90};break}const a={...m3,...i,...n,...t},l={xOffset:0,yOffset:0};switch(r.orient){case"top":l.yOffset=-a.offset;break;case"right":l.xOffset=a.offset;break;case"bottom":l.yOffset=a.offset;break;case"left":l.xOffset=-a.offset;break}return{configurableVisibility:!1,data:{values:[{}]},mark:{type:"text",tooltip:null,clip:!1,...o,...l,text:a.text,align:a.align??jN[a.anchor],angle:a.angle,baseline:a.baseline,dx:a.dx,dy:a.dy,color:a.color,font:a.font,size:a.fontSize,fontStyle:a.fontStyle,fontWeight:a.fontWeight}}}class b3 extends St{constructor(n,r){const i={scrollbarSize:8,scrollbarPadding:2};super({data:{values:[{}]},mark:{type:"rect",fill:"#b0b0b0",fillOpacity:.6,stroke:"white",strokeWidth:1,strokeOpacity:1,cornerRadius:5,clip:!1},configurableVisibility:!1},n.layoutParent.context,n.layoutParent,n.view,"scrollbar-"+r,{blockEncodingInheritance:!0});be(this,sl);be(this,Mu,jn.ZERO);be(this,fo,0);be(this,Es,0);tn(this,"viewportOffset",0);this.config=i,xe(this,sl,r),this.interpolateViewportOffset=_g(this.context.animator,o=>{this.viewportOffset=o.x},50,.4,{x:this.viewportOffset}),this.addInteractionEventListener("mousedown",(o,s)=>{if(s.stopPropagation(),N(this,fo)<=0)return;const a=d=>r=="vertical"?d.clientY:d.clientX,l=s.uiEvent;l.preventDefault();const c=this.scrollOffset,u=a(l),f=d=>{const p=Xr(a(d)-u+c,0,N(this,fo));this.interpolateViewportOffset({x:p/N(this,fo)*N(this,Es)})},h=()=>{document.removeEventListener("mousemove",f),document.removeEventListener("mouseup",h)};document.addEventListener("mouseup",h,!1),document.addEventListener("mousemove",f,!1)})}get scrollOffset(){return this.viewportOffset/N(this,Es)*N(this,fo)}render(n,r,i){super.render(n,N(this,Mu),i)}updateScrollbar(n,r){const i=this.config.scrollbarPadding,o=this.config.scrollbarSize,s=N(this,sl)=="horizontal"?"width":"height",a=Math.min(1,n[s]/r[s]),l=n[s]-2*i,c=a*l;xe(this,fo,l-c),xe(this,Es,r[s]-n[s]),this.viewportOffset=Xr(this.viewportOffset,0,N(this,Es)),xe(this,Mu,N(this,sl)=="vertical"?new jn(()=>n.x+n.width-o-i,()=>n.y+i+this.scrollOffset,()=>o,()=>c):new jn(()=>n.x+i+this.scrollOffset,()=>n.y+n.height-o-i,()=>c,()=>o))}}sl=new WeakMap,Mu=new WeakMap,fo=new WeakMap,Es=new WeakMap;class qN extends Ui{constructor(t,n,r={}){const i=n(),o=Object.keys(i.intervals);if(["x","y"].every(c=>!o.includes(c)))throw new Error("SelectionRect requires at least one of the channels 'x' or 'y' to be present in the selection.");const s={name:"selectionRect",configurableVisibility:!1,resolve:{scale:{x:"forced",y:"forced"}},data:{values:y3(n())},encoding:{},layer:[]};o.includes("x")&&(s.encoding.x={field:"_x",type:null,title:null},s.encoding.x2={field:"_x2"}),o.includes("y")&&(s.encoding.y={field:"_y",type:null,title:null},s.encoding.y2={field:"_y2"}),s.layer.push({name:"selectionRectRect",mark:{type:"rect",clip:!0,fill:"#808080",fillOpacity:.05,stroke:"black",strokeWidth:1,strokeOpacity:.2,...r}});const a=c=>{const u=t.view.getScaleResolution(c);return`format(datum._${c}2 - datum._${c}, '.3s')`+(u.type==="locus"?" + 'b'":"")},l=r.measure=="inside"?9:r.measure=="outside"?-9:0;o.includes("x")&&l!=0&&s.layer.push({name:"selectionRectTextX",mark:{type:"text",align:"center",paddingX:5,dy:l,tooltip:null},encoding:{text:{expr:a("x")},y:o.includes("y")?{field:"_y2",type:null,title:null}:{value:1},y2:null}}),o.includes("y")&&l!=0&&s.layer.push({name:"selectionRectTextY",mark:{type:"text",align:"center",paddingY:5,dy:l,tooltip:null,angle:-90},encoding:{text:{expr:a("y")},x2:null}}),super(s,t.layoutParent.context,t.layoutParent,t.view,"selectionRect",{blockEncodingInheritance:!0,contributesToScaleDomain:!1}),n.addListener(()=>{const c=n();this.context.dataFlow.findDataSourceByKey(this).updateDynamicData(y3(c))})}}function y3(e){const t=e.intervals.x,n=e.intervals.y;return!t&&!n?[]:[{_x:t==null?void 0:t[0],_x2:t==null?void 0:t[1],_y:n==null?void 0:n[0],_y2:n==null?void 0:n[1]}]}class Pg{constructor(t,n,r){be(this,Nd);if(this.layoutParent=n,this.view=t,this.serial=r,this.background=void 0,this.backgroundStroke=void 0,this.axes={},this.gridLines={},this.scrollbars={},this.selectionRect=void 0,this.title=void 0,this.coords=jn.ZERO,t.needsAxes.x||t.needsAxes.y){const i=t.spec,o="view"in i?i==null?void 0:i.view:void 0,s=w3(o);s&&(this.background=new St(s,n.context,n,t,"background"+r,{blockEncodingInheritance:!0}));const a=v3(o);a&&(this.backgroundStroke=new St(a,n.context,n,t,"backgroundStroke"+r,{blockEncodingInheritance:!0}));const l=VN(t.spec.title);if(l){const c=new St(l,n.context,n,t,"title"+r,{blockEncodingInheritance:!0});this.title=c}}t.spec.viewportWidth!=null&&(this.scrollbars.horizontal=new b3(this,"horizontal")),t.spec.viewportHeight!=null&&(this.scrollbars.vertical=new b3(this,"vertical")),he(this,Nd,Ok).call(this)}*getChildren(){this.background&&(yield this.background),this.backgroundStroke&&(yield this.backgroundStroke),this.title&&(yield this.title),yield*Object.values(this.axes),yield*Object.values(this.gridLines),yield this.view,yield*Object.values(this.scrollbars),this.selectionRect&&(yield this.selectionRect)}async createAxes(){const{view:t,axes:n,gridLines:r}=this,i=(a,l)=>{const c=a.getAxisProps();if(c===null)return;const u=c?{...c}:{};if(!u.orient){for(const f of xh[l])if(!n[f]){u.orient=f;break}if(!u.orient)throw new Error("No slots available for an axis! Perhaps a LayerView has more than two children?")}if(u.title??(u.title=a.getTitle()),!xh[l].includes(u.orient))throw new Error(`Invalid axis orientation "${u.orient}" on channel "${l}"!`);return u},o=async(a,l,c)=>{const u=i(a,l);if(u){if(n[u.orient])throw new Error(`An axis with the orient "${u.orient}" already exists!`);const f=new Fg(u,a.scaleResolution.type,this.layoutParent.context,this.layoutParent,c);n[u.orient]=f,await f.initializeChildren()}},s=async(a,l,c)=>{const u=i(a,l);if(u&&(u.grid||u.chromGrid)){const f=new MN(u,a.scaleResolution.type,this.layoutParent.context,this.layoutParent,c);r[u.orient]=f,await f.initializeChildren()}};for(const a of["x","y"])if(t.needsAxes[a]){const l=t.resolutions.axis[a];if(!l)continue;await o(l,a,t)}for(const a of["x","y"])if(t.needsAxes[a]&&t.getConfiguredOrDefaultResolution(a,"axis")!="excluded"){const l=t.getAxisResolution(a);if(!l)continue;await s(l,a,t)}if(t instanceof Ui){for(const a of t)for(const[l,c]of Object.entries(a.resolutions.axis)){const u=c.getAxisProps();u&&u.orient&&await o(c,l,a)}for(const a of t)for(const[l,c]of Object.entries(a.resolutions.axis)){const u=c.getAxisProps();u&&!u.orient&&await o(c,l,a)}}[...Object.values(n),...Object.values(r)].forEach(a=>a.visit(l=>{l instanceof St&&l.resolve("scale")}))}getOverhang(){const t=n=>{const r=this.axes[n];return r?Math.max(r.getPerpendicularSize()+(r.axisProps.offset??0),0):0};return new Vt(t("top"),t("right"),t("bottom"),t("left")).add(this.view.getOverhang())}getOverhangAndPadding(){return this.getOverhang().add(this.view.getPadding())}}Nd=new WeakSet,Ok=function(){const t=this.view,n=r=>{this.view.context.glHelper.canvas.style.cursor=r};for(const[r,i]of t.paramMediator.paramConfigs){if(!("select"in i))continue;const o=fh(i.select);if(!Dx(o))continue;const s=o.encodings,a=Object.fromEntries(s.map(v=>{const w=this.view.getScaleResolution(v),S=w==null?void 0:w.scale;if(!S||!Gt(S.type))throw new Error(`No continuous scale found for interval selection param "${r}" on channel "${v}"! Scale type is "${(S==null?void 0:S.type)??"none"}".`);return[v,w]}));if(this.selectionRect)throw new Error("Only one interval selection per container is currently allowed!");let l=!1,c=!1,u=!1,f=null;const h=(v,w)=>Object.fromEntries(s.map(S=>[S,[Math.min(v[S],w[S]),Math.max(v[S],w[S])]])),d=t.paramMediator.createExpression(r),p=t.paramMediator.getSetter(r);i.value&&p({type:"interval",intervals:i.value});const m=()=>{p(kx(s)),n(null)};this.selectionRect=new qN(this,d,o.mark),this.selectionRect.initializeChildren();const b=v=>{const w={x:0,y:0},S=t.coords.normalizePoint(v.x,v.y,!0);for(const E of s){const k=a[E].scale,M=k.invert(E=="x"?S.x:S.y);w[E]=M+(["index","locus"].includes(k.type)?.5:0)}return w},g=v=>{var M,D,B,I;const{intervals:w}=v,S=(q,Z,te)=>{const J=(we,me)=>me==null?null:a[we].scale(me),ce=J("x",q)??te,ae=J("y",Z)??te;return t.coords.denormalizePoint(ce,ae,!0)},E=S((M=w.x)==null?void 0:M[0],(D=w.y)==null?void 0:D[0],0),k=S((B=w.x)==null?void 0:B[1],(I=w.y)==null?void 0:I[1],1);return jn.create(E.x,E.y,k.x-E.x,k.y-E.y)};t.addInteractionEventListener("mousedown",(v,w)=>{if(w.uiEvent.button!=0)return;if(f=l?g(d()):null,f)n("grabbing"),c=!0;else{const D=w.point;if(Rx(d())&&(c=!0),w.uiEvent.shiftKey)m(),u=!0;else if(Rx(d())){const I=(q,Z)=>{t.removeInteractionEventListener("mouseup",I);const te=Z.point;D.subtract(te).length<2&&m()};t.addInteractionEventListener("mouseup",I);return}else return}w.stopPropagation();const S=w.point,E=xn.fromMouseEvent(w.uiEvent).subtract(S),k=D=>{const B=xn.fromMouseEvent(D).subtract(E);let I;if(f){const q=B.subtract(S),Z=f.translate(q.x,q.y);I=h(b(new xn(Z.x,Z.y)),b(new xn(Z.x2,Z.y2)))}else I=h(b(S),b(B));for(const q of s){const Z=a[q],{zoomExtent:te,scale:J}=Z,ce=I[q];if(["index","locus"].includes(J.type)&&(ce[0]=Math.ceil(ce[0]),ce[1]=Math.ceil(ce[1])),f){const ae=ce[1]-ce[0],we=te[0],me=te[1];ce[0]<we&&(ce[0]=we,ce[1]=we+ae),ce[1]>me&&(ce[1]=me,ce[0]=me-ae)}else ce[0]=Math.max(te[0],ce[0]),ce[1]=Math.min(te[1],ce[1]);ce[1]=Math.min(te[1],ce[1])}p({type:"interval",intervals:I})},M=()=>{document.removeEventListener("mousemove",k),document.removeEventListener("mouseup",M),u=!1,f&&(n("move"),f=null)};document.addEventListener("mousemove",k),document.addEventListener("mouseup",M)}),t.addInteractionEventListener("click",(v,w)=>{w.uiEvent.button==0&&c&&(w.stopPropagation(),c=!1)},!0);const y=v=>wM(d(),b(v));t.addInteractionEventListener("dblclick",(v,w)=>{y(w.point)&&(m(),w.stopPropagation())},!0),t.addInteractionEventListener("mousemove",(v,w)=>{y(w.point)?u||(l=!0,f||n("move")):(l=!1,f||n(null))})}};function w3(e){if(e!=null&&e.fill||e!=null&&e.fillOpacity||e!=null&&e.shadowOpacity)return{configurableVisibility:!1,data:{values:[{}]},mark:{color:e.fill,opacity:e.fillOpacity??(e.fill?1:0),type:"rect",clip:!1,tooltip:null,minHeight:1,minOpacity:0,shadowBlur:e.shadowBlur,shadowColor:e.shadowColor,shadowOffsetX:e.shadowOffsetX,shadowOffsetY:e.shadowOffsetY,shadowOpacity:e.shadowOpacity}}}function v3(e){if(!(!e||!e.stroke||e.strokeWidth===0||e.strokeOpacity===0))return{configurableVisibility:!1,resolve:{scale:{x:"excluded",y:"excluded"},axis:{x:"excluded",y:"excluded"}},data:{values:[{x:0,y:0,x2:1,y2:0},{x:1,y:0,x2:1,y2:1},{x:1,y:1,x2:0,y2:1},{x:0,y:1,x2:0,y2:0}]},mark:{size:e.strokeWidth??1,color:e.stroke??"lightgray",strokeCap:"square",opacity:e.strokeOpacity??1,type:"rule",clip:!1,tooltip:null},encoding:{x:{field:"x",type:"quantitative",scale:null},y:{field:"y",type:"quantitative",scale:null},x2:{field:"x2"},y2:{field:"y2"}}}}class $N extends 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Promise.all([...n,...N(this,Pn).map(r=>r.createAxes())])}*[Symbol.iterator](){for(const n of N(this,Pn))yield*n.getChildren();for(const n of Object.values(N(this,Ss)))yield n}getOverhang(){return he(this,We,Nk).call(this).union(he(this,We,Gd).call(this))}getSize(){return this._cache("size",()=>new Kr(he(this,We,oy).call(this,"column"),he(this,We,oy).call(this,"row")).addPadding(he(this,We,Gd).call(this)))}render(n,r,i={}){if(super.render(n,r,i),!this.isConfiguredVisible())return;this.layoutParent||(r=r.shrink(this.getPadding())),r=r.shrink(he(this,We,Gd).call(this)),n.pushView(this,r);const o={devicePixelRatio:this.context.devicePixelRatio},s=Ic(he(this,We,iy).call(this,"column"),r.width,o),a=Ic(he(this,We,iy).call(this,"row"),r.height,o),l=new c3(N(this,We,Ts).length,N(this,al)??1/0),c=u=>Math.round(u*devicePixelRatio)/devicePixelRatio;for(const[u,f]of 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this._cache(`size/directionSizes/${n}`,()=>N(this,We,Lk)[n=="column"?"colIndices":"rowIndices"].map(o=>({axisBefore:i(o,0),axisAfter:i(o,1),view:OO(o.map(s=>N(this,We,Ts)[s].view.getViewportSize()[r]))})))},iy=function(n){const r=he(this,We,Vu).call(this,n),i=[];i.push(_c);for(const[o,s]of r.entries())o>0&&i.push({px:N(this,ll),grow:0}),(o==0||this.wrappingFacet)&&i.push(_c),i.push({px:s.axisBefore,grow:0}),i.push(s.view),i.push({px:s.axisAfter,grow:0}),(o==r.length-1||this.wrappingFacet)&&i.push(_c);return i},oy=function(n){let r=0,i=0;const o=n=="row"?this.spec.height:this.spec.width;if(o||o===0)return DA(o);const s=he(this,We,Vu).call(this,n);for(const[a,l]of s.entries())a>0&&(i+=N(this,ll)),(a==0||this.wrappingFacet)&&(i+=0),i+=l.axisBefore,i+=l.view.px??0,r+=l.view.grow??0,i+=l.axisAfter,(a==s.length-1||this.wrappingFacet)&&(i+=0);return{px:i,grow:r}},sy=function(n,r){return n=="row"&&this.wrappingFacet?1+6*r+2:2+4*r+1},Nk=function(){const n=he(this,We,Vu).call(this,"column"),r=he(this,We,Vu).call(this,"row");return!n.length||!r.length?Vt.zero():new Vt(r.at(0).axisBefore,n.at(-1).axisAfter,r.at(-1).axisAfter,n.at(0).axisBefore)},Gd=function(){const n=r=>{const i=Bg[r],o=N(this,Ss)[i];return(o==null?void 0:o.axisProps.orient)!==r?0:Math.max(o.getPerpendicularSize()+(o.axisProps.offset??0),0)};return new Vt(n("top"),n("right"),n("bottom"),n("left"))},zk=function(n,r,i){for(const[o,s]of Object.entries(WN(r))){if(s.size<=0)continue;const a=n.normalizePoint(i.x,i.y),l=n.normalizePoint(i.x+i.xDelta,i.y+i.yDelta),c={x:l.x-a.x,y:l.y-a.y};for(const u of s)u.zoom(2**i.zDelta,o=="y"?1-a[o]:a[o],o=="x"?c.x:-c.y)}this.context.animator.requestRender()};function WN(e){const t={x:new Set,y:new Set};return e.visit(n=>{for(const[r,i]of Object.entries(t)){const o=n.getScaleResolution(r);o&&o.isZoomable()&&i.add(o)}}),t}function YN(e){let t=!0;return e.visit(n=>{n instanceof St&&t&&(t=n.mark.properties.clip===!0)}),t}function Og(e,t,n){const r=n.axisProps,i=n.getPerpendicularSize();if(t=="bottom")return e.translate(0,e.height+r.offset).modify({height:i});if(t=="top")return e.translate(0,-i-r.offset).modify({height:i});if(t=="left")return e.translate(-i-r.offset,0).modify({width:i});if(t=="right")return e.translate(e.width+r.offset,0).modify({width:i})}class Zo extends $N{constructor(t,n,r,i,o){super(t,n,r,i,o,Lg(t)?t.columns:Sh(t)?1:1/0),this.spec=t}async initializeChildren(){const t=this.spec,n=Lg(t)?t.concat:Sh(t)?t.vconcat:t.hconcat;this.setChildren(await Promise.all(n.map((r,i)=>this.context.createOrImportView(r,this,this,"grid"+i)))),await this.createAxes()}getDefaultResolution(t,n){return n=="axis"?"independent":Sh(this.spec)&&t==="x"||E3(this.spec)&&t==="y"?"shared":"independent"}}const x3="viewRoot";class QN{constructor(t={}){be(this,ul,new Map);this.options={allowImport:!0,wrapRoot:!0,...t};const n=r=>(i,o,s,a,l)=>new r(i,o,s,a,i.name??l);this.addViewType(Eh,n(Ui)),this.addViewType(Ah,n(St)),this.addViewType(Sh,n(Zo)),this.addViewType(E3,n(Zo)),this.addViewType(Lg,n(Zo)),this.addViewType(S3,()=>{throw new Error("SampleView is not supported by the @genome-spy/core package. Use @genome-spy/app instead!")})}addViewType(t,n){N(this,ul).set(t,n)}createView(t,n,r,i,o){for(const[s,a]of N(this,ul))if(s(t))return a(t,n,r,i,o);throw new Error("Invalid spec, cannot figure out the view type from the properties: "+JSON.stringify([...Object.keys(t)]))}isViewSpec(t){const n=[...N(this,ul).keys()].filter(r=>r(t));if(n.length>1)throw new Error("Ambiguous spec. Cannot create a view!");return n.length==1}async createOrImportView(t,n,r,i,o,s){let a;if(KN(t)){let u;if("url"in t.import)if(this.options.allowImport)u=await iN(t,i.getBaseUrl(),n);else throw new zi("Importing views is not allowed!",r);else if("template"in t.import)u=A3(t.import.template,i);else throw new Error("Invalid import: "+JSON.stringify(t));s==null||s(u),ZN(u,t),a=u}else a=t;const l=u=>{var f;return(f=u==null?void 0:u.params)==null?void 0:f.some(h=>Fx(h)&&fh(h.select).type=="interval")};!i&&this.options.wrapRoot&&(Ah(a)||Eh(a)||l(a))&&o===x3&&(a={name:"implicitRoot",vconcat:[a]});const c=this.createView(a,n,r,i,o);return c instanceof la&&await c.initializeChildren(),c}}ul=new WeakMap;function A3(e,t){var r,i;const n=(i=(r=t.spec)==null?void 0:r.templates)==null?void 0:i[e];if(n)return structuredClone(n);if(t.dataParent)return A3(e,t.dataParent);throw new Error(`Cannot find template "${e}" in current view or its ancestors!`)}function ZN(e,t){t.name!=null&&(e.name=t.name);const n=Zt(t.params)?t.params:nn(t.params)?Object.entries(t.params).map(([r,i])=>({name:r,value:i})):[];if(n.length){e.params??(e.params=[]);for(const r of n){const i=e.params.findIndex(o=>o.name==r.name);i>=0&&(e.params[i]=r)}for(const r of n)e.params.some(i=>i.name==r.name)||e.params.push(r)}}function Ah(e){return"mark"in e&&(lt(e.mark)||nn(e.mark))}function Eh(e){return"layer"in e&&nn(e.layer)}function XN(e){return e&&(Ah(e)||Eh(e))&&"aggregateSamples"in e}function KN(e){return"import"in e}function Sh(e){return"vconcat"in e&&Zt(e.vconcat)}function E3(e){return"hconcat"in e&&Zt(e.hconcat)}function Lg(e){return"concat"in e&&Zt(e.concat)}function S3(e){return"samples"in e&&nn(e.samples)&&"spec"in e&&nn(e.spec)}function C3(e){const t=Math.floor(Math.random()*16777215).toString(16),n=[];for(const r of e.paramConfigs.values()){if(!rg(r))continue;const i=r.bind;if(!i||!("input"in i))continue;const o=r.name,s=e.getSetter(o),a=e.getValue(o),l=i.name??o,c=i.debounce?Yo(s,i.debounce,!1):s,u=`${t}-param-${o}`;if(i.input=="range")n.push(K`<label for=${u}>${l}</label>
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${d()}`,u.content)}g(),(y=u.content.querySelector("select"))==null||y.focus()}function PG(e,t,n){const r=e.accessor;return t.map(i=>r(i,n))}function OG(e){return e.charAt(0).toUpperCase()+e.slice(1)}function Gm(e,t,n,r){const i=r.actions,o=t.attribute,s=r.sampleHierarchy,a=r.provenance.storeHelper.getDispatcher(),l=[];e&&l.push({label:e,type:"header"});const c=(h,d,p)=>{const m=r.provenance.getActionInfo(h);return{label:m.title,icon:m.icon,callback:d?void 0:p??(()=>a(h))}},u=(...h)=>l.push(...h.map(d=>c(d)));u(i.sortBy({attribute:o}));const f=(t==null?void 0:t.type)??"identifier";return f!="quantitative"?(f!="identifier"&&u(i.groupByNominal({attribute:o})),l.push({icon:Gi,label:"Create custom groups...",callback:()=>MG(t,r)}),f!="identifier"&&(u(i.retainFirstOfEach({attribute:o})),l.push(c(i.retainFirstNCategories({attribute:o,n:void 0}),!1,()=>FG(t,r)))),u(i.filterByNominal({attribute:o,values:[n]}),i.filterByNominal({attribute:o,remove:!0,values:[n]})),f!="identifier"&&l.push(c(i.retainMatched({attribute:o}),!s.groupMetadata.length))):(u(i.groupToQuartiles({attribute:o})),l.push({icon:Gi,label:"Group by thresholds...",callback:()=>DG(t,r)}),LG(n)?u(i.filterByQuantitative({attribute:o,operator:"gte",operand:+n}),i.filterByQuantitative({attribute:o,operator:"lte",operand:+n})):u(i.removeUndefined({attribute:o}))),l.push({icon:Xo,label:"Advanced filter...",callback:()=>dH(t,r)}),l}function LG(e){return e!=null&&e!==""&&!(typeof e=="number"&&isNaN(e))}const Vn={UNDO:"@@redux-undo/UNDO",REDO:"@@redux-undo/REDO",JUMP_TO_FUTURE:"@@redux-undo/JUMP_TO_FUTURE",JUMP_TO_PAST:"@@redux-undo/JUMP_TO_PAST",JUMP:"@@redux-undo/JUMP",CLEAR_HISTORY:"@@redux-undo/CLEAR_HISTORY"},as={undo(){return{type:Vn.UNDO}},redo(){return{type:Vn.REDO}},jumpToFuture(e){return{type:Vn.JUMP_TO_FUTURE,index:e}},jumpToPast(e){return{type:Vn.JUMP_TO_PAST,index:e}},jump(e){return{type:Vn.JUMP,index:e}},clearHistory(){return{type:Vn.CLEAR_HISTORY}}};function LS(e,t=[]){return Array.isArray(e)?e:typeof e=="string"?[e]:t}function NG(e){return typeof e.present<"u"&&typeof e.future<"u"&&typeof e.past<"u"&&Array.isArray(e.future)&&Array.isArray(e.past)}function ls(e,t,n,r=null){return{past:e,present:t,future:n,group:r,_latestUnfiltered:t,index:e.length,limit:e.length+n.length+1}}let $h,qn;const jm={prevState:"#9E9E9E",action:"#03A9F4",nextState:"#4CAF50"};function zG(){qn={header:[],prev:[],action:[],next:[],msgs:[]}}function UG(){const{header:e,prev:t,next:n,action:r,msgs:i}=qn;console.group?(console.groupCollapsed(...e),console.log(...t),console.log(...r),console.log(...n),console.log(...i),console.groupEnd()):(console.log(...e),console.log(...t),console.log(...r),console.log(...n),console.log(...i))}function Vm(e,t,n){return[`%c${e}`,`color: ${t}; font-weight: bold`,n]}function HG(e,t){zG(),$h&&(console.group?(qn.header=["%credux-undo","font-style: italic","action",e.type],qn.action=Vm("action",jm.action,e),qn.prev=Vm("prev history",jm.prevState,t)):(qn.header=["redux-undo action",e.type],qn.action=["action",e],qn.prev=["prev history",t]))}function ar(e){$h&&(console.group?qn.next=Vm("next history",jm.nextState,e):qn.next=["next history",e],UG())}function cn(...e){$h&&(qn.msgs=qn.msgs.concat([...e,`
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3262
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xj={convertOffsetParentRelativeRectToViewportRelativeRect:uj,getDocumentElement:ii,getClippingRect:mj,getOffsetParent:e4,getElementRects:wj,getClientRects:fj,getDimensions:bj,getScale:Aa,isElement:lr,isRTL:vj},Aj=oj,t4=rj,Ej=(e,t,n)=>{const r=new Map,i={platform:xj,...n},o={...i.platform,_c:r};return tj(e,t,{...i,platform:o})};let $n;const Ea=[],e1=Yo(e=>e(),150,!1),t1={type:"divider"};function Zc(e){if((e==null?void 0:e.type)=="contextmenu"){e.preventDefault();return}$n&&($n.remove(),$n=void 0,document.body.classList.remove(Io))}function n4(e){var t;if(!(e<1)){for(let n=e;n<Ea.length;n++)(t=Ea[n])==null||t.remove(),Ea[n]=void 0;for(const n of Ea[e-1].querySelectorAll("li.active"))n.classList.remove("active")}}const Sj=()=>K`<li class="menu-divider"></li>`,Cj=e=>K`
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<li class="menu-header">${e.label||"-"}</li>
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`,kj=(e,t)=>K`
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<li>
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@@ -3368,7 +3368,7 @@ svg:not(:root).svg-inline--fa, svg:not(:host).svg-inline--fa {
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/>
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${aV([123],()=>this._getSearchHelp())}
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</div>
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Unknown name: ${r}`)}await Promise.all(n)}catch(n){console.error(n),Jt(K`<p>Cannot restore the state:</p>
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<p>${n}</p>`),t.provenance.activateState(0)}}async function nu(e,t,n={}){await k1(e,t),(cs||e.notes||n.mode=="shared"&&(e.name||e.notes))&&await A$(e,t,n)}async function A$(e,t,n={}){cs??(cs=Yi("tour",t.appContainer)),await E$(e,t,n)}async function E$(e,t,n){const r=n.database,i=r?await r.getNames():[],o=i.indexOf(e.name),s=r?` ${o+1} of ${i.length}`:"",a=`${n.mode=="shared"?"Shared bookmark":"Bookmark"}${s}: ${e.name??"Unnamed"}`,l=e.notes?p$(e.notes,{baseUrl:t.genomeSpy.spec.baseUrl}):K`<span class="no-notes">No notes provided</span>`,c=async()=>{if(cs==null||cs.close(),cs=void 0,n.mode=="tour"){const m=n.afterTourBookmark;if(typeof m=="string"){const b=await n.database.get(m);if(!b)throw new Error(`No such bookmark: ${m}`);k1(b,t)}else m===null||x$(t)}},u=async m=>{const b=await r.get(i[m]);nu(b,t,n),t.appContainer.querySelector("canvas").focus()},f=async()=>{if(await T1(t.localBookmarkDatabase,e,"add"))try{await t.localBookmarkDatabase.put(e)}catch(m){console.warn(m),Jt(`Cannot import bookmark: ${m}`)}},h=K` <button class="btn" @click=${c}>
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@@ -3758,12 +3758,12 @@ ${JSON.stringify(h.stats.first,null,2)}</pre
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*
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* @author Feross Aboukhadijeh <https://feross.org>
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* @license MIT
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-
*/var sC;function iu(){return sC||(sC=1,function(e){const t=U$(),n=H$(),r=typeof Symbol=="function"&&typeof Symbol.for=="function"?Symbol.for("nodejs.util.inspect.custom"):null;e.Buffer=a,e.SlowBuffer=y,e.INSPECT_MAX_BYTES=50;const i=2147483647;e.kMaxLength=i,a.TYPED_ARRAY_SUPPORT=o(),!a.TYPED_ARRAY_SUPPORT&&typeof console<"u"&&typeof console.error=="function"&&console.error("This browser lacks typed array (Uint8Array) support which is required by `buffer` v5.x. 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oe=x.max_chain_length,P=x.strstart,W,j,de=x.prev_length,ve=x.nice_match,Ee=x.strstart>x.w_size-me?x.strstart-(x.w_size-me):0,Ue=x.window,Tt=x.w_mask,V=x.prev,Pe=x.strstart+we,ct=Ue[P+de-1],rt=Ue[P+de];x.prev_length>=x.good_match&&(oe>>=2),ve>x.lookahead&&(ve=x.lookahead);do if(W=te,!(Ue[W+de]!==rt||Ue[W+de-1]!==ct||Ue[W]!==Ue[P]||Ue[++W]!==Ue[P+1])){P+=2,W++;do;while(Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&P<Pe);if(j=we-(Pe-P),P=Pe-we,j>de){if(x.match_start=te,de=j,j>=ve)break;ct=Ue[P+de-1],rt=Ue[P+de]}}while((te=V[te&Tt])>Ee&&--oe!==0);return de<=x.lookahead?de:x.lookahead}function nt(x){var te=x.w_size,oe,P,W,j,de;do{if(j=x.window_size-x.lookahead-x.strstart,x.strstart>=te+(te-me)){e.arraySet(x.window,x.window,te,te,0),x.match_start-=te,x.strstart-=te,x.block_start-=te,P=x.hash_size,oe=P;do W=x.head[--oe],x.head[oe]=W>=te?W-te:0;while(--P);P=te,oe=P;do 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x.insert=0,te===l?(Ie(x,!0),x.strm.avail_out===0?ye:L):(x.strstart>x.block_start&&(Ie(x,!1),x.strm.avail_out===0),re)}function Wt(x,te){for(var oe,P;;){if(x.lookahead<me){if(nt(x),x.lookahead<me&&te===o)return re;if(x.lookahead===0)break}if(oe=0,x.lookahead>=ae&&(x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+ae-1])&x.hash_mask,oe=x.prev[x.strstart&x.w_mask]=x.head[x.ins_h],x.head[x.ins_h]=x.strstart),oe!==0&&x.strstart-oe<=x.w_size-me&&(x.match_length=Bt(x,oe)),x.match_length>=ae)if(P=t._tr_tally(x,x.strstart-x.match_start,x.match_length-ae),x.lookahead-=x.match_length,x.match_length<=x.max_lazy_match&&x.lookahead>=ae){x.match_length--;do x.strstart++,x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+ae-1])&x.hash_mask,oe=x.prev[x.strstart&x.w_mask]=x.head[x.ins_h],x.head[x.ins_h]=x.strstart;while(--x.match_length!==0);x.strstart++}else x.strstart+=x.match_length,x.match_length=0,x.ins_h=x.window[x.strstart],x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+1])&x.hash_mask;else 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x.insert=0,te===l?(Ie(x,!0),x.strm.avail_out===0?ye:L):x.last_lit&&(Ie(x,!1),x.strm.avail_out===0)?re:ie}function A(x,te,oe,P,W){this.good_length=x,this.max_lazy=te,this.nice_length=oe,this.max_chain=P,this.func=W}var C;C=[new A(0,0,0,0,Nt),new A(4,4,8,4,Wt),new A(4,5,16,8,Wt),new A(4,6,32,32,Wt),new A(4,4,16,16,st),new A(8,16,32,32,st),new A(8,16,128,128,st),new A(8,32,128,256,st),new A(32,128,258,1024,st),new A(32,258,258,4096,st)];function z(x){x.window_size=2*x.w_size,Re(x.head),x.max_lazy_match=C[x.level].max_lazy,x.good_match=C[x.level].good_length,x.nice_match=C[x.level].nice_length,x.max_chain_length=C[x.level].max_chain,x.strstart=0,x.block_start=0,x.lookahead=0,x.insert=0,x.match_length=x.prev_length=ae-1,x.match_available=0,x.ins_h=0}function 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e.Buf16(2*q+1),Re(this.depth),this.l_buf=0,this.lit_bufsize=0,this.last_lit=0,this.d_buf=0,this.opt_len=0,this.static_len=0,this.matches=0,this.insert=0,this.bi_buf=0,this.bi_valid=0}function G(x){var te;return!x||!x.state?se(x,h):(x.total_in=x.total_out=0,x.data_type=S,te=x.state,te.pending=0,te.pending_out=0,te.wrap<0&&(te.wrap=-te.wrap),te.status=te.wrap?Ae:Q,x.adler=te.wrap===2?0:1,te.last_flush=o,t._tr_init(te),u)}function Y(x){var te=G(x);return te===u&&z(x.state),te}function ge(x,te){return!x||!x.state||x.state.wrap!==2?h:(x.state.gzhead=te,u)}function $(x,te,oe,P,W,j){if(!x)return h;var de=1;if(te===m&&(te=6),P<0?(de=0,P=-P):P>15&&(de=2,P-=16),W<1||W>k||oe!==E||P<8||P>15||te<0||te>9||j<0||j>v)return se(x,h);P===8&&(P=9);var ve=new T;return x.state=ve,ve.strm=x,ve.wrap=de,ve.gzhead=null,ve.w_bits=P,ve.w_size=1<<ve.w_bits,ve.w_mask=ve.w_size-1,ve.hash_bits=W+7,ve.hash_size=1<<ve.hash_bits,ve.hash_mask=ve.hash_size-1,ve.hash_shift=~~((ve.hash_bits+ae-1)/ae),ve.window=new 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se(x,x.avail_out===0?p:h);if(P.strm=x,oe=P.last_flush,P.last_flush=te,P.status===Ae)if(P.wrap===2)x.adler=0,Me(P,31),Me(P,139),Me(P,8),P.gzhead?(Me(P,(P.gzhead.text?1:0)+(P.gzhead.hcrc?2:0)+(P.gzhead.extra?4:0)+(P.gzhead.name?8:0)+(P.gzhead.comment?16:0)),Me(P,P.gzhead.time&255),Me(P,P.gzhead.time>>8&255),Me(P,P.gzhead.time>>16&255),Me(P,P.gzhead.time>>24&255),Me(P,P.level===9?2:P.strategy>=g||P.level<2?4:0),Me(P,P.gzhead.os&255),P.gzhead.extra&&P.gzhead.extra.length&&(Me(P,P.gzhead.extra.length&255),Me(P,P.gzhead.extra.length>>8&255)),P.gzhead.hcrc&&(x.adler=r(x.adler,P.pending_buf,P.pending,0)),P.gzindex=0,P.status=Ce):(Me(P,0),Me(P,0),Me(P,0),Me(P,0),Me(P,0),Me(P,P.level===9?2:P.strategy>=g||P.level<2?4:0),Me(P,R),P.status=Q);else{var de=E+(P.w_bits-8<<4)<<8,ve=-1;P.strategy>=g||P.level<2?ve=0:P.level<6?ve=1:P.level===6?ve=2:ve=3,de|=ve<<6,P.strstart!==0&&(de|=U),de+=31-de%31,P.status=Q,wt(P,de),P.strstart!==0&&(wt(P,x.adler>>>16),wt(P,x.adler&65535)),x.adler=1}if(P.status===Ce)if(P.gzhead.extra){for(W=P.pending;P.gzindex<(P.gzhead.extra.length&65535)&&!(P.pending===P.pending_buf_size&&(P.gzhead.hcrc&&P.pending>W&&(x.adler=r(x.adler,P.pending_buf,P.pending-W,W)),Te(x),W=P.pending,P.pending===P.pending_buf_size));)Me(P,P.gzhead.extra[P.gzindex]&255),P.gzindex++;P.gzhead.hcrc&&P.pending>W&&(x.adler=r(x.adler,P.pending_buf,P.pending-W,W)),P.gzindex===P.gzhead.extra.length&&(P.gzindex=0,P.status=H)}else 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d.result}function u(f,h){return h=h||{},h.raw=!0,c(f,h)}return ka.Inflate=l,ka.inflate=c,ka.inflateRaw=u,ka.ungzip=c,ka}var z1,DC;function tW(){if(DC)return z1;DC=1;var e=ro().assign,t=Q$(),n=eW(),r=TC(),i={};return e(i,t,n,r),z1=i,z1}var ud=tW();async function io(e){try{let t,n=0,r=0;const i=[];let o=0,s;do{const l=e.subarray(n);if(s=new ud.Inflate,{strm:t}=s,s.push(l,ud.Z_SYNC_FLUSH),s.err)throw new Error(s.msg);n+=t.next_in,i[r]=s.result,o+=i[r].length,r+=1}while(t.avail_in);const a=new Uint8Array(o);for(let l=0,c=0;l<i.length;l++)a.set(i[l],c),c+=i[l].length;return ot.Buffer.from(a)}catch(t){throw/incorrect header check/.exec(`${t}`)?new Error("problem decompressing block: incorrect gzip header check"):t}}async function RC(e,t){try{let n;const{minv:r,maxv:i}=t;let o=r.blockPosition,s=r.dataPosition;const a=[],l=[],c=[];let u=0,f=0;do{const p=e.subarray(o-r.blockPosition),m=new ud.Inflate;if({strm:n}=m,m.push(p,ud.Z_SYNC_FLUSH),m.err)throw new Error(m.msg);const b=m.result;a.push(b);let g=b.length;l.push(o),c.push(s),a.length===1&&r.dataPosition&&(a[0]=a[0].subarray(r.dataPosition),g=a[0].length);const y=o;if(o+=n.next_in,s+=g,y>=i.blockPosition){a[f]=a[f].subarray(0,i.blockPosition===r.blockPosition?i.dataPosition-r.dataPosition+1:i.dataPosition+1),l.push(o),c.push(s),u+=a[f].length;break}u+=a[f].length,f++}while(n.avail_in);const h=new Uint8Array(u);for(let p=0,m=0;p<a.length;p++)h.set(a[p],m),m+=a[p].length;return{buffer:ot.Buffer.from(h),cpositions:l,dpositions:c}}catch(n){throw/incorrect header check/.exec(`${n}`)?new Error("problem decompressing block: incorrect gzip header check"):n}}var U1,BC;function nW(){if(BC)return U1;BC=1,U1=t;var e=null;try{e=new WebAssembly.Instance(new WebAssembly.Module(new Uint8Array([0,97,115,109,1,0,0,0,1,13,2,96,0,1,127,96,4,127,127,127,127,1,127,3,7,6,0,1,1,1,1,1,6,6,1,127,1,65,0,11,7,50,6,3,109,117,108,0,1,5,100,105,118,95,115,0,2,5,100,105,118,95,117,0,3,5,114,101,109,95,115,0,4,5,114,101,109,95,117,0,5,8,103,101,116,95,104,105,103,104,0,0,10,191,1,6,4,0,35,0,11,36,1,1,126,32,0,173,32,1,173,66,32,134,132,32,2,173,32,3,173,66,32,134,132,126,34,4,66,32,135,167,36,0,32,4,167,11,36,1,1,126,32,0,173,32,1,173,66,32,134,132,32,2,173,32,3,173,66,32,134,132,127,34,4,66,32,135,167,36,0,32,4,167,11,36,1,1,126,32,0,173,32,1,173,66,32,134,132,32,2,173,32,3,173,66,32,134,132,128,34,4,66,32,135,167,36,0,32,4,167,11,36,1,1,126,32,0,173,32,1,173,66,32,134,132,32,2,173,32,3,173,66,32,134,132,129,34,4,66,32,135,167,36,0,32,4,167,11,36,1,1,126,32,0,173,32,1,173,66,32,134,132,32,2,173,32,3,173,66,32,134,132,130,34,4,66,32,135,167,36,0,32,4,167,11])),{}).exports}catch{}function t(B,I,q){this.low=B|0,this.high=I|0,this.unsigned=!!q}t.prototype.__isLong__,Object.defineProperty(t.prototype,"__isLong__",{value:!0});function n(B){return(B&&B.__isLong__)===!0}t.isLong=n;var r={},i={};function o(B,I){var q,Z,ne;return I?(B>>>=0,(ne=0<=B&&B<256)&&(Z=i[B],Z)?Z:(q=a(B,(B|0)<0?-1:0,!0),ne&&(i[B]=q),q)):(B|=0,(ne=-128<=B&&B<128)&&(Z=r[B],Z)?Z:(q=a(B,B<0?-1:0,!1),ne&&(r[B]=q),q))}t.fromInt=o;function s(B,I){if(isNaN(B))return I?y:g;if(I){if(B<0)return y;if(B>=p)return k}else{if(B<=-9223372036854776e3)return M;if(B+1>=m)return E}return B<0?s(-B,I).neg():a(B%d|0,B/d|0,I)}t.fromNumber=s;function a(B,I,q){return new t(B,I,q)}t.fromBits=a;var l=Math.pow;function c(B,I,q){if(B.length===0)throw Error("empty string");if(B==="NaN"||B==="Infinity"||B==="+Infinity"||B==="-Infinity")return g;if(typeof I=="number"?(q=I,I=!1):I=!!I,q=q||10,q<2||36<q)throw RangeError("radix");var Z;if((Z=B.indexOf("-"))>0)throw Error("interior hyphen");if(Z===0)return c(B.substring(1),I,q).neg();for(var ne=s(l(q,8)),J=g,ce=0;ce<B.length;ce+=8){var ae=Math.min(8,B.length-ce),we=parseInt(B.substring(ce,ce+ae),q);if(ae<8){var me=s(l(q,ae));J=J.mul(me).add(s(we))}else J=J.mul(ne),J=J.add(s(we))}return J.unsigned=I,J}t.fromString=c;function u(B,I){return typeof B=="number"?s(B,I):typeof B=="string"?c(B,I):a(B.low,B.high,typeof I=="boolean"?I:B.unsigned)}t.fromValue=u;var f=65536,h=1<<24,d=f*f,p=d*d,m=p/2,b=o(h),g=o(0);t.ZERO=g;var y=o(0,!0);t.UZERO=y;var v=o(1);t.ONE=v;var w=o(1,!0);t.UONE=w;var S=o(-1);t.NEG_ONE=S;var E=a(-1,2147483647,!1);t.MAX_VALUE=E;var k=a(-1,-1,!0);t.MAX_UNSIGNED_VALUE=k;var M=a(0,-2147483648,!1);t.MIN_VALUE=M;var D=t.prototype;return D.toInt=function(){return this.unsigned?this.low>>>0:this.low},D.toNumber=function(){return this.unsigned?(this.high>>>0)*d+(this.low>>>0):this.high*d+(this.low>>>0)},D.toString=function(I){if(I=I||10,I<2||36<I)throw RangeError("radix");if(this.isZero())return"0";if(this.isNegative())if(this.eq(M)){var q=s(I),Z=this.div(q),ne=Z.mul(q).sub(this);return Z.toString(I)+ne.toInt().toString(I)}else return"-"+this.neg().toString(I);for(var J=s(l(I,6),this.unsigned),ce=this,ae="";;){var we=ce.div(J),me=ce.sub(we.mul(J)).toInt()>>>0,U=me.toString(I);if(ce=we,ce.isZero())return U+ae;for(;U.length<6;)U="0"+U;ae=""+U+ae}},D.getHighBits=function(){return this.high},D.getHighBitsUnsigned=function(){return this.high>>>0},D.getLowBits=function(){return this.low},D.getLowBitsUnsigned=function(){return this.low>>>0},D.getNumBitsAbs=function(){if(this.isNegative())return this.eq(M)?64:this.neg().getNumBitsAbs();for(var I=this.high!=0?this.high:this.low,q=31;q>0&&!(I&1<<q);q--);return this.high!=0?q+33:q+1},D.isZero=function(){return this.high===0&&this.low===0},D.eqz=D.isZero,D.isNegative=function(){return!this.unsigned&&this.high<0},D.isPositive=function(){return this.unsigned||this.high>=0},D.isOdd=function(){return(this.low&1)===1},D.isEven=function(){return(this.low&1)===0},D.equals=function(I){return n(I)||(I=u(I)),this.unsigned!==I.unsigned&&this.high>>>31===1&&I.high>>>31===1?!1:this.high===I.high&&this.low===I.low},D.eq=D.equals,D.notEquals=function(I){return!this.eq(I)},D.neq=D.notEquals,D.ne=D.notEquals,D.lessThan=function(I){return this.comp(I)<0},D.lt=D.lessThan,D.lessThanOrEqual=function(I){return this.comp(I)<=0},D.lte=D.lessThanOrEqual,D.le=D.lessThanOrEqual,D.greaterThan=function(I){return this.comp(I)>0},D.gt=D.greaterThan,D.greaterThanOrEqual=function(I){return this.comp(I)>=0},D.gte=D.greaterThanOrEqual,D.ge=D.greaterThanOrEqual,D.compare=function(I){if(n(I)||(I=u(I)),this.eq(I))return 0;var q=this.isNegative(),Z=I.isNegative();return q&&!Z?-1:!q&&Z?1:this.unsigned?I.high>>>0>this.high>>>0||I.high===this.high&&I.low>>>0>this.low>>>0?-1:1:this.sub(I).isNegative()?-1:1},D.comp=D.compare,D.negate=function(){return!this.unsigned&&this.eq(M)?M:this.not().add(v)},D.neg=D.negate,D.add=function(I){n(I)||(I=u(I));var q=this.high>>>16,Z=this.high&65535,ne=this.low>>>16,J=this.low&65535,ce=I.high>>>16,ae=I.high&65535,we=I.low>>>16,me=I.low&65535,U=0,Ae=0,Ce=0,H=0;return H+=J+me,Ce+=H>>>16,H&=65535,Ce+=ne+we,Ae+=Ce>>>16,Ce&=65535,Ae+=Z+ae,U+=Ae>>>16,Ae&=65535,U+=q+ce,U&=65535,a(Ce<<16|H,U<<16|Ae,this.unsigned)},D.subtract=function(I){return n(I)||(I=u(I)),this.add(I.neg())},D.sub=D.subtract,D.multiply=function(I){if(this.isZero())return g;if(n(I)||(I=u(I)),e){var q=e.mul(this.low,this.high,I.low,I.high);return a(q,e.get_high(),this.unsigned)}if(I.isZero())return g;if(this.eq(M))return I.isOdd()?M:g;if(I.eq(M))return this.isOdd()?M:g;if(this.isNegative())return I.isNegative()?this.neg().mul(I.neg()):this.neg().mul(I).neg();if(I.isNegative())return this.mul(I.neg()).neg();if(this.lt(b)&&I.lt(b))return s(this.toNumber()*I.toNumber(),this.unsigned);var Z=this.high>>>16,ne=this.high&65535,J=this.low>>>16,ce=this.low&65535,ae=I.high>>>16,we=I.high&65535,me=I.low>>>16,U=I.low&65535,Ae=0,Ce=0,H=0,ze=0;return ze+=ce*U,H+=ze>>>16,ze&=65535,H+=J*U,Ce+=H>>>16,H&=65535,H+=ce*me,Ce+=H>>>16,H&=65535,Ce+=ne*U,Ae+=Ce>>>16,Ce&=65535,Ce+=J*me,Ae+=Ce>>>16,Ce&=65535,Ce+=ce*we,Ae+=Ce>>>16,Ce&=65535,Ae+=Z*U+ne*me+J*we+ce*ae,Ae&=65535,a(H<<16|ze,Ae<<16|Ce,this.unsigned)},D.mul=D.multiply,D.divide=function(I){if(n(I)||(I=u(I)),I.isZero())throw Error("division by zero");if(e){if(!this.unsigned&&this.high===-2147483648&&I.low===-1&&I.high===-1)return this;var q=(this.unsigned?e.div_u:e.div_s)(this.low,this.high,I.low,I.high);return a(q,e.get_high(),this.unsigned)}if(this.isZero())return this.unsigned?y:g;var Z,ne,J;if(this.unsigned){if(I.unsigned||(I=I.toUnsigned()),I.gt(this))return y;if(I.gt(this.shru(1)))return w;J=y}else{if(this.eq(M)){if(I.eq(v)||I.eq(S))return M;if(I.eq(M))return v;var ce=this.shr(1);return Z=ce.div(I).shl(1),Z.eq(g)?I.isNegative()?v:S:(ne=this.sub(I.mul(Z)),J=Z.add(ne.div(I)),J)}else if(I.eq(M))return this.unsigned?y:g;if(this.isNegative())return I.isNegative()?this.neg().div(I.neg()):this.neg().div(I).neg();if(I.isNegative())return this.div(I.neg()).neg();J=g}for(ne=this;ne.gte(I);){Z=Math.max(1,Math.floor(ne.toNumber()/I.toNumber()));for(var ae=Math.ceil(Math.log(Z)/Math.LN2),we=ae<=48?1:l(2,ae-48),me=s(Z),U=me.mul(I);U.isNegative()||U.gt(ne);)Z-=we,me=s(Z,this.unsigned),U=me.mul(I);me.isZero()&&(me=v),J=J.add(me),ne=ne.sub(U)}return J},D.div=D.divide,D.modulo=function(I){if(n(I)||(I=u(I)),e){var q=(this.unsigned?e.rem_u:e.rem_s)(this.low,this.high,I.low,I.high);return a(q,e.get_high(),this.unsigned)}return this.sub(this.div(I).mul(I))},D.mod=D.modulo,D.rem=D.modulo,D.not=function(){return a(~this.low,~this.high,this.unsigned)},D.and=function(I){return n(I)||(I=u(I)),a(this.low&I.low,this.high&I.high,this.unsigned)},D.or=function(I){return n(I)||(I=u(I)),a(this.low|I.low,this.high|I.high,this.unsigned)},D.xor=function(I){return n(I)||(I=u(I)),a(this.low^I.low,this.high^I.high,this.unsigned)},D.shiftLeft=function(I){return n(I)&&(I=I.toInt()),(I&=63)===0?this:I<32?a(this.low<<I,this.high<<I|this.low>>>32-I,this.unsigned):a(0,this.low<<I-32,this.unsigned)},D.shl=D.shiftLeft,D.shiftRight=function(I){return n(I)&&(I=I.toInt()),(I&=63)===0?this:I<32?a(this.low>>>I|this.high<<32-I,this.high>>I,this.unsigned):a(this.high>>I-32,this.high>=0?0:-1,this.unsigned)},D.shr=D.shiftRight,D.shiftRightUnsigned=function(I){if(n(I)&&(I=I.toInt()),I&=63,I===0)return this;var q=this.high;if(I<32){var Z=this.low;return a(Z>>>I|q<<32-I,q>>>I,this.unsigned)}else return I===32?a(q,0,this.unsigned):a(q>>>I-32,0,this.unsigned)},D.shru=D.shiftRightUnsigned,D.shr_u=D.shiftRightUnsigned,D.toSigned=function(){return this.unsigned?a(this.low,this.high,!1):this},D.toUnsigned=function(){return this.unsigned?this:a(this.low,this.high,!0)},D.toBytes=function(I){return I?this.toBytesLE():this.toBytesBE()},D.toBytesLE=function(){var I=this.high,q=this.low;return[q&255,q>>>8&255,q>>>16&255,q>>>24,I&255,I>>>8&255,I>>>16&255,I>>>24]},D.toBytesBE=function(){var I=this.high,q=this.low;return[I>>>24,I>>>16&255,I>>>8&255,I&255,q>>>24,q>>>16&255,q>>>8&255,q&255]},t.fromBytes=function(I,q,Z){return Z?t.fromBytesLE(I,q):t.fromBytesBE(I,q)},t.fromBytesLE=function(I,q){return new t(I[0]|I[1]<<8|I[2]<<16|I[3]<<24,I[4]|I[5]<<8|I[6]<<16|I[7]<<24,q)},t.fromBytesBE=function(I,q){return new t(I[4]<<24|I[5]<<16|I[6]<<8|I[7],I[0]<<24|I[1]<<16|I[2]<<8|I[3],q)},U1}var rW=nW();const fd=ld(rW),hd=1;class iW{constructor({filehandle:t,path:n}){if(t)this.filehandle=t;else if(n)this.filehandle=new qt(n);else throw new TypeError("either filehandle or path must be defined")}_readLongWithOverflow(t,n=0,r=!0){const i=fd.fromBytesLE(t.slice(n,n+8),r);if(i.greaterThan(Number.MAX_SAFE_INTEGER)||i.lessThan(Number.MIN_SAFE_INTEGER))throw new TypeError("integer overflow");return i.toNumber()}_getIndex(){return this.index||(this.index=this._readIndex()),this.index}async _readIndex(){let t=ot.Buffer.allocUnsafe(8);await this.filehandle.read(t,0,8,0);const n=this._readLongWithOverflow(t,0,!0);if(!n)return[[0,0]];const r=new Array(n+1);r[0]=[0,0];const i=8*2*n;if(i>Number.MAX_SAFE_INTEGER)throw new TypeError("integer overflow");t=ot.Buffer.allocUnsafe(i),await this.filehandle.read(t,0,i,8);for(let o=0;o<n;o+=1){const s=this._readLongWithOverflow(t,o*16),a=this._readLongWithOverflow(t,o*16+8);r[o+1]=[s,a]}return r}async getLastBlock(){const t=await this._getIndex();if(t.length)return t[t.length-1]}async getRelevantBlocksForRead(t,n){const r=n+t;if(t===0)return[];const i=await this._getIndex(),o=[],s=(h,d)=>{const p=h[hd],m=d?d[hd]:1/0;return p<=n&&m>n?0:p<n?-1:1};let a=0,l=i.length-1,c=Math.floor(i.length/2),u=s(i[c],i[c+1]);for(;u!==0;)u>0?l=c-1:u<0&&(a=c+1),c=Math.ceil((l-a)/2)+a,u=s(i[c],i[c+1]);o.push(i[c]);let f=c+1;for(;f<i.length&&(o.push(i[f]),!(i[f][hd]>=r));f+=1);return o[o.length-1][hd]<r&&o.push([]),o}}class FC{constructor({filehandle:t,path:n,gziFilehandle:r,gziPath:i}){if(t)this.filehandle=t;else if(n)this.filehandle=new qt(n);else throw new TypeError("either filehandle or path must be defined");if(!r&&!i&&!n)throw new TypeError("either gziFilehandle or gziPath must be defined");this.gzi=new iW({filehandle:r,path:!r&&!i&&n?i:`${n}.gzi`})}async stat(){const t=await this.filehandle.stat();return Object.assign(t,{size:await this.getUncompressedFileSize(),blocks:void 0,blksize:void 0})}async getUncompressedFileSize(){const[,t]=await this.gzi.getLastBlock(),{size:n}=await this.filehandle.stat(),r=ot.Buffer.allocUnsafe(4),{bytesRead:i}=await this.filehandle.read(r,0,4,n-28-4);if(i!==4)throw new Error("read error");const o=r.readUInt32LE(0);return t+o}async _readAndUncompressBlock(t,[n],[r]){let i=r;i||(i=(await this.filehandle.stat()).size);const o=i-n;return await this.filehandle.read(t,0,o,n),await io(t.slice(0,o))}async read(t,n,r,i){const o=await this.gzi.getRelevantBlocksForRead(r,i),s=ot.Buffer.allocUnsafe(32768*2);let a=n,l=0;for(let c=0;c<o.length-1;c+=1){const u=await this._readAndUncompressBlock(s,o[c],o[c+1]),[,f]=o[c],h=f>=i?0:i-f,d=Math.min(i+r,f+u.length)-f;h>=0&&h<u.length&&(u.copy(t,a,h,d),a+=d-h,l+=d-h)}return{bytesRead:l,buffer:t}}}function MC(e,t){return e.offset+e.lineBytes*Math.floor(t/e.lineLength)+t%e.lineLength}async function oW(e,t){const n=await e.readFile(t);if(!(n!=null&&n.length))throw new Error("No data read from FASTA index (FAI) file");let r=0,i;const o=n.toString("utf8").split(/\r?\n/).filter(s=>/\S/.test(s)).map(s=>s.split(" ")).filter(s=>s[0]!=="").map(s=>((!i||i.name!==s[0])&&(i={name:s[0],id:r},r+=1),{id:i.id,name:s[0],length:+s[1],start:0,end:+s[1],offset:+s[2],lineLength:+s[3],lineBytes:+s[4]}));return{name:Object.fromEntries(o.map(s=>[s.name,s])),id:Object.fromEntries(o.map(s=>[s.id,s]))}}class PC{constructor({fasta:t,fai:n,path:r,faiPath:i}){if(t)this.fasta=t;else if(r)this.fasta=new qt(r);else throw new Error("Need to pass filehandle for fasta or path to localfile");if(n)this.fai=n;else if(i)this.fai=new qt(i);else if(r)this.fai=new qt(`${r}.fai`);else throw new Error("Need to pass filehandle for or path to localfile")}async _getIndexes(t){return this.indexes||(this.indexes=oW(this.fai,t)),this.indexes}async getSequenceNames(t){return Object.keys((await this._getIndexes(t)).name)}async getSequenceSizes(t){const n={},r=await this._getIndexes(t);for(const i of Object.values(r.id))n[i.name]=i.length;return n}async getSequenceSize(t,n){var r;return(r=(await this._getIndexes(n)).name[t])===null||r===void 0?void 0:r.length}async hasReferenceSequence(t,n){return!!(await this._getIndexes(n)).name[t]}async getResiduesById(t,n,r,i){const o=(await this._getIndexes(i)).id[t];if(o)return this._fetchFromIndexEntry(o,n,r,i)}async getResiduesByName(t,n,r,i){const o=(await this._getIndexes(i)).name[t];if(o)return this._fetchFromIndexEntry(o,n,r,i)}async getSequence(t,n,r,i){return this.getResiduesByName(t,n,r,i)}async _fetchFromIndexEntry(t,n=0,r,i){let o=r;if(n<0)throw new TypeError("regionStart cannot be less than 0");if((o===void 0||o>t.length)&&(o=t.length),n>=o)return"";const s=MC(t,n),a=MC(t,o)-s,l=ot.Buffer.allocUnsafe(a);return await this.fasta.read(l,0,a,s,i),l.toString("utf8").replace(/\s+/g,"")}}class sW extends PC{constructor({fasta:t,path:n,fai:r,faiPath:i,gzi:o,gziPath:s}){super({fasta:t,path:n,fai:r,faiPath:i}),t&&o?this.fasta=new FC({filehandle:t,gziFilehandle:o}):n&&s&&(this.fasta=new FC({path:n,gziPath:s}))}}function OC(e){return e.split(">").filter(t=>/\S/.test(t)).map(t=>{const[n,...r]=t.split(`
|
|
3762
|
-
`),[i,...o]=n.split(" "),s=r.join("").replace(/\s/g,"");return{id:i,description:o.join(" "),sequence:s}})}class aW{constructor({fasta:t,path:n}){if(t)this.fasta=t;else if(n)this.fasta=new qt(n);else throw new Error("Need to pass fasta or path");this.data=this.fasta.readFile().then(r=>{const i=r.toString("utf8");return OC(i)})}async fetch(t,n,r){const o=(await this.data).find(a=>a.id===t),s=r-n;if(!o)throw new Error(`no sequence with id ${t} exists`);return o.sequence.slice(n,s)}async getSequenceNames(){return(await this.data).map(n=>n.id)}}const lW=Object.freeze(Object.defineProperty({__proto__:null,BgzipIndexedFasta:sW,FetchableSmallFasta:aW,IndexedFasta:PC,parseSmallFasta:OC},Symbol.toStringTag,{value:"Module"})),LC=BigInt(32);function cW(e,t,n){const r=+!!n,i=+!n;return BigInt(e.getInt32(t,n)*i+e.getInt32(t+4,n)*r)<<LC|BigInt(e.getUint32(t,n)*r+e.getUint32(t+4,n)*i)}function uW(e,t,n){const r=e.getUint32(t,n),i=e.getUint32(t+4,n),o=+!!n,s=+!n;return 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Array(g+1);for(Y=0,ge=0;ge<f-1;ge++)for(ae[ge]=Y,T=0;T<1<<M[ge];T++)ce[Y++]=ge;for(ce[Y-1]=ge,$=0,ge=0;ge<16;ge++)for(we[ge]=$,T=0;T<1<<D[ge];T++)J[$++]=ge;for($>>=7;ge<p;ge++)for(we[ge]=$<<7,T=0;T<1<<D[ge]-7;T++)J[256+$++]=ge;for(G=0;G<=g;G++)ee[G]=0;for(T=0;T<=143;)Z[T*2+1]=8,T++,ee[8]++;for(;T<=255;)Z[T*2+1]=9,T++,ee[9]++;for(;T<=279;)Z[T*2+1]=7,T++,ee[7]++;for(;T<=287;)Z[T*2+1]=8,T++,ee[8]++;for(L(Z,d+1,ee),T=0;T<p;T++)te[T*2+1]=5,te[T*2]=re(T,5);U=new me(Z,M,h+1,d,g),Ae=new me(te,D,0,p,g),Ce=new me(new Array(0),B,0,m,v)}function se(T){var G;for(G=0;G<d;G++)T.dyn_ltree[G*2]=0;for(G=0;G<p;G++)T.dyn_dtree[G*2]=0;for(G=0;G<m;G++)T.bl_tree[G*2]=0;T.dyn_ltree[w*2]=1,T.opt_len=T.static_len=0,T.last_lit=T.matches=0}function pe(T){T.bi_valid>8?qe(T,T.bi_buf):T.bi_valid>0&&(T.pending_buf[T.pending++]=T.bi_buf),T.bi_buf=0,T.bi_valid=0}function Re(T,G,Y,ge){pe(T),qe(T,Y),qe(T,~Y),e.arraySet(T.pending_buf,T.window,G,Y,T.pending),T.pending+=Y}function Te(T,G,Y,ge){var $=G*2,ee=Y*2;return T[$]<T[ee]||T[$]===T[ee]&&ge[G]<=ge[Y]}function Ie(T,G,Y){for(var ge=T.heap[Y],$=Y<<1;$<=T.heap_len&&($<T.heap_len&&Te(G,T.heap[$+1],T.heap[$],T.depth)&&$++,!Te(G,ge,T.heap[$],T.depth));)T.heap[Y]=T.heap[$],Y=$,$<<=1;T.heap[Y]=ge}function Me(T,G,Y){var ge,$,ee=0,_,ue;if(T.last_lit!==0)do ge=T.pending_buf[T.d_buf+ee*2]<<8|T.pending_buf[T.d_buf+ee*2+1],$=T.pending_buf[T.l_buf+ee],ee++,ge===0?X(T,$,G):(_=ce[$],X(T,_+h+1,G),ue=M[_],ue!==0&&($-=ae[_],Q(T,$,ue)),ge--,_=ze(ge),X(T,_,Y),ue=D[_],ue!==0&&(ge-=we[_],Q(T,ge,ue)));while(ee<T.last_lit);X(T,w,G)}function wt(T,G){var Y=G.dyn_tree,ge=G.stat_desc.static_tree,$=G.stat_desc.has_stree,ee=G.stat_desc.elems,_,ue,Be=-1,x;for(T.heap_len=0,T.heap_max=b,_=0;_<ee;_++)Y[_*2]!==0?(T.heap[++T.heap_len]=Be=_,T.depth[_]=0):Y[_*2+1]=0;for(;T.heap_len<2;)x=T.heap[++T.heap_len]=Be<2?++Be:0,Y[x*2]=1,T.depth[x]=0,T.opt_len--,$&&(T.static_len-=ge[x*2+1]);for(G.max_code=Be,_=T.heap_len>>1;_>=1;_--)Ie(T,Y,_);x=ee;do _=T.heap[1],T.heap[1]=T.heap[T.heap_len--],Ie(T,Y,1),ue=T.heap[1],T.heap[--T.heap_max]=_,T.heap[--T.heap_max]=ue,Y[x*2]=Y[_*2]+Y[ue*2],T.depth[x]=(T.depth[_]>=T.depth[ue]?T.depth[_]:T.depth[ue])+1,Y[_*2+1]=Y[ue*2+1]=x,T.heap[1]=x++,Ie(T,Y,1);while(T.heap_len>=2);T.heap[--T.heap_max]=T.heap[1],ye(T,G),L(Y,Be,T.bl_count)}function hn(T,G,Y){var ge,$=-1,ee,_=G[0*2+1],ue=0,Be=7,x=4;for(_===0&&(Be=138,x=3),G[(Y+1)*2+1]=65535,ge=0;ge<=Y;ge++)ee=_,_=G[(ge+1)*2+1],!(++ue<Be&&ee===_)&&(ue<x?T.bl_tree[ee*2]+=ue:ee!==0?(ee!==$&&T.bl_tree[ee*2]++,T.bl_tree[S*2]++):ue<=10?T.bl_tree[E*2]++:T.bl_tree[k*2]++,ue=0,$=ee,_===0?(Be=138,x=3):ee===_?(Be=6,x=3):(Be=7,x=4))}function Bt(T,G,Y){var ge,$=-1,ee,_=G[0*2+1],ue=0,Be=7,x=4;for(_===0&&(Be=138,x=3),ge=0;ge<=Y;ge++)if(ee=_,_=G[(ge+1)*2+1],!(++ue<Be&&ee===_)){if(ue<x)do X(T,ee,T.bl_tree);while(--ue!==0);else 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A(T){Q(T,a<<1,3),X(T,w,Z),ie(T)}function C(T,G,Y,ge){var $,ee,_=0;T.level>0?(T.strm.data_type===i&&(T.strm.data_type=Wt(T)),wt(T,T.l_desc),wt(T,T.d_desc),_=nt(T),$=T.opt_len+3+7>>>3,ee=T.static_len+3+7>>>3,ee<=$&&($=ee)):$=ee=Y+5,Y+4<=$&&G!==-1?F(T,G,Y,ge):T.strategy===t||ee===$?(Q(T,(a<<1)+(ge?1:0),3),Me(T,Z,te)):(Q(T,(l<<1)+(ge?1:0),3),Nt(T,T.l_desc.max_code+1,T.d_desc.max_code+1,_+1),Me(T,T.dyn_ltree,T.dyn_dtree)),se(T),ge&&pe(T)}function z(T,G,Y){return T.pending_buf[T.d_buf+T.last_lit*2]=G>>>8&255,T.pending_buf[T.d_buf+T.last_lit*2+1]=G&255,T.pending_buf[T.l_buf+T.last_lit]=Y&255,T.last_lit++,G===0?T.dyn_ltree[Y*2]++:(T.matches++,G--,T.dyn_ltree[(ce[Y]+h+1)*2]++,T.dyn_dtree[ze(G)*2]++),T.last_lit===T.lit_bufsize-1}return us._tr_init=Yt,us._tr_stored_block=F,us._tr_flush_block=C,us._tr_tally=z,us._tr_align=A,us}var D1,hC;function dC(){if(hC)return D1;hC=1;function e(t,n,r,i){for(var o=t&65535|0,s=t>>>16&65535|0,a=0;r!==0;){a=r>2e3?2e3:r,r-=a;do 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ne=x.length;--ne>=0;)x[ne]=0}function Te(x){var ne=x.state,oe=ne.pending;oe>x.avail_out&&(oe=x.avail_out),oe!==0&&(e.arraySet(x.output,ne.pending_buf,ne.pending_out,oe,x.next_out),x.next_out+=oe,ne.pending_out+=oe,x.total_out+=oe,x.avail_out-=oe,ne.pending-=oe,ne.pending===0&&(ne.pending_out=0))}function Ie(x,ne){t._tr_flush_block(x,x.block_start>=0?x.block_start:-1,x.strstart-x.block_start,ne),x.block_start=x.strstart,Te(x.strm)}function Me(x,ne){x.pending_buf[x.pending++]=ne}function wt(x,ne){x.pending_buf[x.pending++]=ne>>>8&255,x.pending_buf[x.pending++]=ne&255}function hn(x,ne,oe,P){var W=x.avail_in;return W>P&&(W=P),W===0?0:(x.avail_in-=W,e.arraySet(ne,x.input,x.next_in,W,oe),x.state.wrap===1?x.adler=n(x.adler,ne,W,oe):x.state.wrap===2&&(x.adler=r(x.adler,ne,W,oe)),x.next_in+=W,x.total_in+=W,W)}function Bt(x,ne){var oe=x.max_chain_length,P=x.strstart,W,j,de=x.prev_length,ve=x.nice_match,Ee=x.strstart>x.w_size-me?x.strstart-(x.w_size-me):0,Ue=x.window,Tt=x.w_mask,V=x.prev,Pe=x.strstart+we,ct=Ue[P+de-1],rt=Ue[P+de];x.prev_length>=x.good_match&&(oe>>=2),ve>x.lookahead&&(ve=x.lookahead);do if(W=ne,!(Ue[W+de]!==rt||Ue[W+de-1]!==ct||Ue[W]!==Ue[P]||Ue[++W]!==Ue[P+1])){P+=2,W++;do;while(Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&Ue[++P]===Ue[++W]&&P<Pe);if(j=we-(Pe-P),P=Pe-we,j>de){if(x.match_start=ne,de=j,j>=ve)break;ct=Ue[P+de-1],rt=Ue[P+de]}}while((ne=V[ne&Tt])>Ee&&--oe!==0);return de<=x.lookahead?de:x.lookahead}function nt(x){var ne=x.w_size,oe,P,W,j,de;do{if(j=x.window_size-x.lookahead-x.strstart,x.strstart>=ne+(ne-me)){e.arraySet(x.window,x.window,ne,ne,0),x.match_start-=ne,x.strstart-=ne,x.block_start-=ne,P=x.hash_size,oe=P;do W=x.head[--oe],x.head[oe]=W>=ne?W-ne:0;while(--P);P=ne,oe=P;do W=x.prev[--oe],x.prev[oe]=W>=ne?W-ne:0;while(--P);j+=ne}if(x.strm.avail_in===0)break;if(P=hn(x.strm,x.window,x.strstart+x.lookahead,j),x.lookahead+=P,x.lookahead+x.insert>=ae)for(de=x.strstart-x.insert,x.ins_h=x.window[de],x.ins_h=(x.ins_h<<x.hash_shift^x.window[de+1])&x.hash_mask;x.insert&&(x.ins_h=(x.ins_h<<x.hash_shift^x.window[de+ae-1])&x.hash_mask,x.prev[de&x.w_mask]=x.head[x.ins_h],x.head[x.ins_h]=de,de++,x.insert--,!(x.lookahead+x.insert<ae)););}while(x.lookahead<me&&x.strm.avail_in!==0)}function Nt(x,ne){var oe=65535;for(oe>x.pending_buf_size-5&&(oe=x.pending_buf_size-5);;){if(x.lookahead<=1){if(nt(x),x.lookahead===0&&ne===o)return re;if(x.lookahead===0)break}x.strstart+=x.lookahead,x.lookahead=0;var P=x.block_start+oe;if((x.strstart===0||x.strstart>=P)&&(x.lookahead=x.strstart-P,x.strstart=P,Ie(x,!1),x.strm.avail_out===0)||x.strstart-x.block_start>=x.w_size-me&&(Ie(x,!1),x.strm.avail_out===0))return re}return x.insert=0,ne===l?(Ie(x,!0),x.strm.avail_out===0?ye:L):(x.strstart>x.block_start&&(Ie(x,!1),x.strm.avail_out===0),re)}function Wt(x,ne){for(var oe,P;;){if(x.lookahead<me){if(nt(x),x.lookahead<me&&ne===o)return re;if(x.lookahead===0)break}if(oe=0,x.lookahead>=ae&&(x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+ae-1])&x.hash_mask,oe=x.prev[x.strstart&x.w_mask]=x.head[x.ins_h],x.head[x.ins_h]=x.strstart),oe!==0&&x.strstart-oe<=x.w_size-me&&(x.match_length=Bt(x,oe)),x.match_length>=ae)if(P=t._tr_tally(x,x.strstart-x.match_start,x.match_length-ae),x.lookahead-=x.match_length,x.match_length<=x.max_lazy_match&&x.lookahead>=ae){x.match_length--;do x.strstart++,x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+ae-1])&x.hash_mask,oe=x.prev[x.strstart&x.w_mask]=x.head[x.ins_h],x.head[x.ins_h]=x.strstart;while(--x.match_length!==0);x.strstart++}else x.strstart+=x.match_length,x.match_length=0,x.ins_h=x.window[x.strstart],x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+1])&x.hash_mask;else P=t._tr_tally(x,0,x.window[x.strstart]),x.lookahead--,x.strstart++;if(P&&(Ie(x,!1),x.strm.avail_out===0))return re}return x.insert=x.strstart<ae-1?x.strstart:ae-1,ne===l?(Ie(x,!0),x.strm.avail_out===0?ye:L):x.last_lit&&(Ie(x,!1),x.strm.avail_out===0)?re:ie}function st(x,ne){for(var oe,P,W;;){if(x.lookahead<me){if(nt(x),x.lookahead<me&&ne===o)return re;if(x.lookahead===0)break}if(oe=0,x.lookahead>=ae&&(x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+ae-1])&x.hash_mask,oe=x.prev[x.strstart&x.w_mask]=x.head[x.ins_h],x.head[x.ins_h]=x.strstart),x.prev_length=x.match_length,x.prev_match=x.match_start,x.match_length=ae-1,oe!==0&&x.prev_length<x.max_lazy_match&&x.strstart-oe<=x.w_size-me&&(x.match_length=Bt(x,oe),x.match_length<=5&&(x.strategy===b||x.match_length===ae&&x.strstart-x.match_start>4096)&&(x.match_length=ae-1)),x.prev_length>=ae&&x.match_length<=x.prev_length){W=x.strstart+x.lookahead-ae,P=t._tr_tally(x,x.strstart-1-x.prev_match,x.prev_length-ae),x.lookahead-=x.prev_length-1,x.prev_length-=2;do++x.strstart<=W&&(x.ins_h=(x.ins_h<<x.hash_shift^x.window[x.strstart+ae-1])&x.hash_mask,oe=x.prev[x.strstart&x.w_mask]=x.head[x.ins_h],x.head[x.ins_h]=x.strstart);while(--x.prev_length!==0);if(x.match_available=0,x.match_length=ae-1,x.strstart++,P&&(Ie(x,!1),x.strm.avail_out===0))return re}else if(x.match_available){if(P=t._tr_tally(x,0,x.window[x.strstart-1]),P&&Ie(x,!1),x.strstart++,x.lookahead--,x.strm.avail_out===0)return re}else x.match_available=1,x.strstart++,x.lookahead--}return x.match_available&&(P=t._tr_tally(x,0,x.window[x.strstart-1]),x.match_available=0),x.insert=x.strstart<ae-1?x.strstart:ae-1,ne===l?(Ie(x,!0),x.strm.avail_out===0?ye:L):x.last_lit&&(Ie(x,!1),x.strm.avail_out===0)?re:ie}function Yt(x,ne){for(var oe,P,W,j,de=x.window;;){if(x.lookahead<=we){if(nt(x),x.lookahead<=we&&ne===o)return 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T(){this.strm=null,this.status=0,this.pending_buf=null,this.pending_buf_size=0,this.pending_out=0,this.pending=0,this.wrap=0,this.gzhead=null,this.gzindex=0,this.method=E,this.last_flush=-1,this.w_size=0,this.w_bits=0,this.w_mask=0,this.window=null,this.window_size=0,this.prev=null,this.head=null,this.ins_h=0,this.hash_size=0,this.hash_bits=0,this.hash_mask=0,this.hash_shift=0,this.block_start=0,this.match_length=0,this.prev_match=0,this.match_available=0,this.strstart=0,this.match_start=0,this.lookahead=0,this.prev_length=0,this.max_chain_length=0,this.max_lazy_match=0,this.level=0,this.strategy=0,this.good_match=0,this.nice_match=0,this.dyn_ltree=new e.Buf16(J*2),this.dyn_dtree=new e.Buf16((2*Z+1)*2),this.bl_tree=new e.Buf16((2*te+1)*2),Re(this.dyn_ltree),Re(this.dyn_dtree),Re(this.bl_tree),this.l_desc=null,this.d_desc=null,this.bl_desc=null,this.bl_count=new e.Buf16(ce+1),this.heap=new e.Buf16(2*q+1),Re(this.heap),this.heap_len=0,this.heap_max=0,this.depth=new e.Buf16(2*q+1),Re(this.depth),this.l_buf=0,this.lit_bufsize=0,this.last_lit=0,this.d_buf=0,this.opt_len=0,this.static_len=0,this.matches=0,this.insert=0,this.bi_buf=0,this.bi_valid=0}function G(x){var ne;return!x||!x.state?se(x,h):(x.total_in=x.total_out=0,x.data_type=S,ne=x.state,ne.pending=0,ne.pending_out=0,ne.wrap<0&&(ne.wrap=-ne.wrap),ne.status=ne.wrap?Ae:Q,x.adler=ne.wrap===2?0:1,ne.last_flush=o,t._tr_init(ne),u)}function Y(x){var ne=G(x);return ne===u&&z(x.state),ne}function ge(x,ne){return!x||!x.state||x.state.wrap!==2?h:(x.state.gzhead=ne,u)}function $(x,ne,oe,P,W,j){if(!x)return h;var de=1;if(ne===m&&(ne=6),P<0?(de=0,P=-P):P>15&&(de=2,P-=16),W<1||W>k||oe!==E||P<8||P>15||ne<0||ne>9||j<0||j>v)return se(x,h);P===8&&(P=9);var ve=new T;return x.state=ve,ve.strm=x,ve.wrap=de,ve.gzhead=null,ve.w_bits=P,ve.w_size=1<<ve.w_bits,ve.w_mask=ve.w_size-1,ve.hash_bits=W+7,ve.hash_size=1<<ve.hash_bits,ve.hash_mask=ve.hash_size-1,ve.hash_shift=~~((ve.hash_bits+ae-1)/ae),ve.window=new 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de=E+(P.w_bits-8<<4)<<8,ve=-1;P.strategy>=g||P.level<2?ve=0:P.level<6?ve=1:P.level===6?ve=2:ve=3,de|=ve<<6,P.strstart!==0&&(de|=U),de+=31-de%31,P.status=Q,wt(P,de),P.strstart!==0&&(wt(P,x.adler>>>16),wt(P,x.adler&65535)),x.adler=1}if(P.status===Ce)if(P.gzhead.extra){for(W=P.pending;P.gzindex<(P.gzhead.extra.length&65535)&&!(P.pending===P.pending_buf_size&&(P.gzhead.hcrc&&P.pending>W&&(x.adler=r(x.adler,P.pending_buf,P.pending-W,W)),Te(x),W=P.pending,P.pending===P.pending_buf_size));)Me(P,P.gzhead.extra[P.gzindex]&255),P.gzindex++;P.gzhead.hcrc&&P.pending>W&&(x.adler=r(x.adler,P.pending_buf,P.pending-W,W)),P.gzindex===P.gzhead.extra.length&&(P.gzindex=0,P.status=H)}else 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P.status=qe;if(P.status===qe&&(P.gzhead.hcrc?(P.pending+2>P.pending_buf_size&&Te(x),P.pending+2<=P.pending_buf_size&&(Me(P,x.adler&255),Me(P,x.adler>>8&255),x.adler=0,P.status=Q)):P.status=Q),P.pending!==0){if(Te(x),x.avail_out===0)return P.last_flush=-1,u}else if(x.avail_in===0&&pe(ne)<=pe(oe)&&ne!==l)return se(x,p);if(P.status===X&&x.avail_in!==0)return se(x,p);if(x.avail_in!==0||P.lookahead!==0||ne!==o&&P.status!==X){var Ee=P.strategy===g?F(P,ne):P.strategy===y?Yt(P,ne):C[P.level].func(P,ne);if((Ee===ye||Ee===L)&&(P.status=X),Ee===re||Ee===ye)return x.avail_out===0&&(P.last_flush=-1),u;if(Ee===ie&&(ne===s?t._tr_align(P):ne!==c&&(t._tr_stored_block(P,0,0,!1),ne===a&&(Re(P.head),P.lookahead===0&&(P.strstart=0,P.block_start=0,P.insert=0))),Te(x),x.avail_out===0))return P.last_flush=-1,u}return ne!==l?u:P.wrap<=0?f:(P.wrap===2?(Me(P,x.adler&255),Me(P,x.adler>>8&255),Me(P,x.adler>>16&255),Me(P,x.adler>>24&255),Me(P,x.total_in&255),Me(P,x.total_in>>8&255),Me(P,x.total_in>>16&255),Me(P,x.total_in>>24&255)):(wt(P,x.adler>>>16),wt(P,x.adler&65535)),Te(x),P.wrap>0&&(P.wrap=-P.wrap),P.pending!==0?u:f)}function ue(x){var ne;return!x||!x.state?h:(ne=x.state.status,ne!==Ae&&ne!==Ce&&ne!==H&&ne!==ze&&ne!==qe&&ne!==Q&&ne!==X?se(x,h):(x.state=null,ne===Q?se(x,d):u))}function Be(x,ne){var oe=ne.length,P,W,j,de,ve,Ee,Ue,Tt;if(!x||!x.state||(P=x.state,de=P.wrap,de===2||de===1&&P.status!==Ae||P.lookahead))return h;for(de===1&&(x.adler=n(x.adler,ne,oe,0)),P.wrap=0,oe>=P.w_size&&(de===0&&(Re(P.head),P.strstart=0,P.block_start=0,P.insert=0),Tt=new e.Buf8(P.w_size),e.arraySet(Tt,ne,oe-P.w_size,P.w_size,0),ne=Tt,oe=P.w_size),ve=x.avail_in,Ee=x.next_in,Ue=x.input,x.avail_in=oe,x.next_in=0,x.input=ne,nt(P);P.lookahead>=ae;){W=P.strstart,j=P.lookahead-(ae-1);do 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a,l,c,u,f,h=s.length,d=0;for(u=0;u<h;u++)l=s.charCodeAt(u),(l&64512)===55296&&u+1<h&&(c=s.charCodeAt(u+1),(c&64512)===56320&&(l=65536+(l-55296<<10)+(c-56320),u++)),d+=l<128?1:l<2048?2:l<65536?3:4;for(a=new e.Buf8(d),f=0,u=0;f<d;u++)l=s.charCodeAt(u),(l&64512)===55296&&u+1<h&&(c=s.charCodeAt(u+1),(c&64512)===56320&&(l=65536+(l-55296<<10)+(c-56320),u++)),l<128?a[f++]=l:l<2048?(a[f++]=192|l>>>6,a[f++]=128|l&63):l<65536?(a[f++]=224|l>>>12,a[f++]=128|l>>>6&63,a[f++]=128|l&63):(a[f++]=240|l>>>18,a[f++]=128|l>>>12&63,a[f++]=128|l>>>6&63,a[f++]=128|l&63);return a};function o(s,a){if(a<65534&&(s.subarray&&n||!s.subarray&&t))return String.fromCharCode.apply(null,e.shrinkBuf(s,a));for(var l="",c=0;c<a;c++)l+=String.fromCharCode(s[c]);return l}return fs.buf2binstring=function(s){return o(s,s.length)},fs.binstring2buf=function(s){for(var a=new e.Buf8(s.length),l=0,c=a.length;l<c;l++)a[l]=s.charCodeAt(l);return a},fs.buf2string=function(s,a){var l,c,u,f,h=a||s.length,d=new 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p(y);this.options=t.assign({level:f,method:d,chunkSize:16384,windowBits:15,memLevel:8,strategy:h,to:""},y||{});var v=this.options;v.raw&&v.windowBits>0?v.windowBits=-v.windowBits:v.gzip&&v.windowBits>0&&v.windowBits<16&&(v.windowBits+=16),this.err=0,this.msg="",this.ended=!1,this.chunks=[],this.strm=new i,this.strm.avail_out=0;var w=e.deflateInit2(this.strm,v.level,v.method,v.windowBits,v.memLevel,v.strategy);if(w!==l)throw new Error(r[w]);if(v.header&&e.deflateSetHeader(this.strm,v.header),v.dictionary){var S;if(typeof v.dictionary=="string"?S=n.string2buf(v.dictionary):o.call(v.dictionary)==="[object ArrayBuffer]"?S=new Uint8Array(v.dictionary):S=v.dictionary,w=e.deflateSetDictionary(this.strm,S),w!==l)throw new Error(r[w]);this._dict_set=!0}}p.prototype.push=function(y,v){var w=this.strm,S=this.options.chunkSize,E,k;if(this.ended)return!1;k=v===~~v?v:v===!0?a:s,typeof y=="string"?w.input=n.string2buf(y):o.call(y)==="[object ArrayBuffer]"?w.input=new 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i=await this._getIndex(),o=[],s=(h,d)=>{const p=h[hd],m=d?d[hd]:1/0;return p<=n&&m>n?0:p<n?-1:1};let a=0,l=i.length-1,c=Math.floor(i.length/2),u=s(i[c],i[c+1]);for(;u!==0;)u>0?l=c-1:u<0&&(a=c+1),c=Math.ceil((l-a)/2)+a,u=s(i[c],i[c+1]);o.push(i[c]);let f=c+1;for(;f<i.length&&(o.push(i[f]),!(i[f][hd]>=r));f+=1);return o[o.length-1][hd]<r&&o.push([]),o}}class FC{constructor({filehandle:t,path:n,gziFilehandle:r,gziPath:i}){if(t)this.filehandle=t;else if(n)this.filehandle=new qt(n);else throw new TypeError("either filehandle or path must be defined");if(!r&&!i&&!n)throw new TypeError("either gziFilehandle or gziPath must be defined");this.gzi=new iW({filehandle:r,path:!r&&!i&&n?i:`${n}.gzi`})}async stat(){const t=await this.filehandle.stat();return Object.assign(t,{size:await this.getUncompressedFileSize(),blocks:void 0,blksize:void 0})}async getUncompressedFileSize(){const[,t]=await this.gzi.getLastBlock(),{size:n}=await this.filehandle.stat(),r=ot.Buffer.allocUnsafe(4),{bytesRead:i}=await this.filehandle.read(r,0,4,n-28-4);if(i!==4)throw new Error("read error");const o=r.readUInt32LE(0);return t+o}async _readAndUncompressBlock(t,[n],[r]){let i=r;i||(i=(await this.filehandle.stat()).size);const o=i-n;return await this.filehandle.read(t,0,o,n),await io(t.slice(0,o))}async read(t,n,r,i){const o=await this.gzi.getRelevantBlocksForRead(r,i),s=ot.Buffer.allocUnsafe(32768*2);let a=n,l=0;for(let c=0;c<o.length-1;c+=1){const u=await this._readAndUncompressBlock(s,o[c],o[c+1]),[,f]=o[c],h=f>=i?0:i-f,d=Math.min(i+r,f+u.length)-f;h>=0&&h<u.length&&(u.copy(t,a,h,d),a+=d-h,l+=d-h)}return{bytesRead:l,buffer:t}}}function MC(e,t){return e.offset+e.lineBytes*Math.floor(t/e.lineLength)+t%e.lineLength}async function oW(e,t){const n=await e.readFile(t);if(!(n!=null&&n.length))throw new Error("No data read from FASTA index (FAI) file");let r=0,i;const o=n.toString("utf8").split(/\r?\n/).filter(s=>/\S/.test(s)).map(s=>s.split(" ")).filter(s=>s[0]!=="").map(s=>((!i||i.name!==s[0])&&(i={name:s[0],id:r},r+=1),{id:i.id,name:s[0],length:+s[1],start:0,end:+s[1],offset:+s[2],lineLength:+s[3],lineBytes:+s[4]}));return{name:Object.fromEntries(o.map(s=>[s.name,s])),id:Object.fromEntries(o.map(s=>[s.id,s]))}}class PC{constructor({fasta:t,fai:n,path:r,faiPath:i}){if(t)this.fasta=t;else if(r)this.fasta=new qt(r);else throw new Error("Need to pass filehandle for fasta or path to localfile");if(n)this.fai=n;else if(i)this.fai=new qt(i);else if(r)this.fai=new qt(`${r}.fai`);else throw new Error("Need to pass filehandle for or path to localfile")}async _getIndexes(t){return this.indexes||(this.indexes=oW(this.fai,t)),this.indexes}async getSequenceNames(t){return Object.keys((await this._getIndexes(t)).name)}async getSequenceSizes(t){const n={},r=await this._getIndexes(t);for(const i of Object.values(r.id))n[i.name]=i.length;return n}async getSequenceSize(t,n){var r;return(r=(await this._getIndexes(n)).name[t])===null||r===void 0?void 0:r.length}async hasReferenceSequence(t,n){return!!(await this._getIndexes(n)).name[t]}async getResiduesById(t,n,r,i){const o=(await this._getIndexes(i)).id[t];if(o)return this._fetchFromIndexEntry(o,n,r,i)}async getResiduesByName(t,n,r,i){const o=(await this._getIndexes(i)).name[t];if(o)return this._fetchFromIndexEntry(o,n,r,i)}async getSequence(t,n,r,i){return this.getResiduesByName(t,n,r,i)}async _fetchFromIndexEntry(t,n=0,r,i){let o=r;if(n<0)throw new TypeError("regionStart cannot be less than 0");if((o===void 0||o>t.length)&&(o=t.length),n>=o)return"";const s=MC(t,n),a=MC(t,o)-s,l=ot.Buffer.allocUnsafe(a);return await this.fasta.read(l,0,a,s,i),l.toString("utf8").replace(/\s+/g,"")}}class sW extends PC{constructor({fasta:t,path:n,fai:r,faiPath:i,gzi:o,gziPath:s}){super({fasta:t,path:n,fai:r,faiPath:i}),t&&o?this.fasta=new FC({filehandle:t,gziFilehandle:o}):n&&s&&(this.fasta=new FC({path:n,gziPath:s}))}}function OC(e){return e.split(">").filter(t=>/\S/.test(t)).map(t=>{const[n,...r]=t.split(`
|
|
3762
|
+
`),[i,...o]=n.split(" "),s=r.join("").replace(/\s/g,"");return{id:i,description:o.join(" "),sequence:s}})}class aW{constructor({fasta:t,path:n}){if(t)this.fasta=t;else if(n)this.fasta=new qt(n);else throw new Error("Need to pass fasta or path");this.data=this.fasta.readFile().then(r=>{const i=r.toString("utf8");return OC(i)})}async fetch(t,n,r){const o=(await this.data).find(a=>a.id===t),s=r-n;if(!o)throw new Error(`no sequence with id ${t} exists`);return o.sequence.slice(n,s)}async getSequenceNames(){return(await this.data).map(n=>n.id)}}const lW=Object.freeze(Object.defineProperty({__proto__:null,BgzipIndexedFasta:sW,FetchableSmallFasta:aW,IndexedFasta:PC,parseSmallFasta:OC},Symbol.toStringTag,{value:"Module"})),LC=BigInt(32);function cW(e,t,n){const r=+!!n,i=+!n;return BigInt(e.getInt32(t,n)*i+e.getInt32(t+4,n)*r)<<LC|BigInt(e.getUint32(t,n)*r+e.getUint32(t+4,n)*i)}function uW(e,t,n){const r=e.getUint32(t,n),i=e.getUint32(t+4,n),o=+!!n,s=+!n;return 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BW(o,i)},MW=(e,t)=>{t=t||e.length,t>e.length&&(t=e.length);let n=t-1;for(;n>=0&&(e[n]&192)===128;)n--;return n<0||n===0?t:n+su[e[n]]>t?n:t},V1={string2buf:RW,buf2string:FW,utf8border:MW};function PW(){this.input=null,this.next_in=0,this.avail_in=0,this.total_in=0,this.output=null,this.next_out=0,this.avail_out=0,this.total_out=0,this.msg="",this.state=null,this.data_type=2,this.adler=0}var OW=PW;const pd=16209,LW=16191;var NW=function(t,n){let r,i,o,s,a,l,c,u,f,h,d,p,m,b,g,y,v,w,S,E,k,M,D,B;const I=t.state;r=t.next_in,D=t.input,i=r+(t.avail_in-5),o=t.next_out,B=t.output,s=o-(n-t.avail_out),a=o+(t.avail_out-257),l=I.dmax,c=I.wsize,u=I.whave,f=I.wnext,h=I.window,d=I.hold,p=I.bits,m=I.lencode,b=I.distcode,g=(1<<I.lenbits)-1,y=(1<<I.distbits)-1;e:do{p<15&&(d+=D[r++]<<p,p+=8,d+=D[r++]<<p,p+=8),v=m[d&g];t:for(;;){if(w=v>>>24,d>>>=w,p-=w,w=v>>>16&255,w===0)B[o++]=v&65535;else if(w&16){S=v&65535,w&=15,w&&(p<w&&(d+=D[r++]<<p,p+=8),S+=d&(1<<w)-1,d>>>=w,p-=w),p<15&&(d+=D[r++]<<p,p+=8,d+=D[r++]<<p,p+=8),v=b[d&y];n:for(;;){if(w=v>>>24,d>>>=w,p-=w,w=v>>>16&255,w&16){if(E=v&65535,w&=15,p<w&&(d+=D[r++]<<p,p+=8,p<w&&(d+=D[r++]<<p,p+=8)),E+=d&(1<<w)-1,E>l){t.msg="invalid distance too far back",I.mode=pd;break e}if(d>>>=w,p-=w,w=o-s,E>w){if(w=E-w,w>u&&I.sane){t.msg="invalid distance too far back",I.mode=pd;break e}if(k=0,M=h,f===0){if(k+=c-w,w<S){S-=w;do B[o++]=h[k++];while(--w);k=o-E,M=B}}else if(f<w){if(k+=c+f-w,w-=f,w<S){S-=w;do B[o++]=h[k++];while(--w);if(k=0,f<S){w=f,S-=w;do B[o++]=h[k++];while(--w);k=o-E,M=B}}}else if(k+=f-w,w<S){S-=w;do B[o++]=h[k++];while(--w);k=o-E,M=B}for(;S>2;)B[o++]=M[k++],B[o++]=M[k++],B[o++]=M[k++],S-=3;S&&(B[o++]=M[k++],S>1&&(B[o++]=M[k++]))}else{k=o-E;do B[o++]=B[k++],B[o++]=B[k++],B[o++]=B[k++],S-=3;while(S>2);S&&(B[o++]=B[k++],S>1&&(B[o++]=B[k++]))}}else if(w&64){t.msg="invalid distance code",I.mode=pd;break 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1;S=y&E,i[S]=d<<24|p<<16|k-o|0}}return y!==0&&(i[k+y]=c-m<<24|64<<16|0),a.bits=d,0};const jW=0,YC=1,QC=2,{Z_FINISH:ZC,Z_BLOCK:VW,Z_TREES:gd,Z_OK:ds,Z_STREAM_END:qW,Z_NEED_DICT:$W,Z_STREAM_ERROR:Yn,Z_DATA_ERROR:XC,Z_MEM_ERROR:KC,Z_BUF_ERROR:WW,Z_DEFLATED:JC}=HC,md=16180,e6=16181,t6=16182,n6=16183,r6=16184,i6=16185,o6=16186,s6=16187,a6=16188,l6=16189,bd=16190,si=16191,$1=16192,c6=16193,W1=16194,u6=16195,f6=16196,h6=16197,d6=16198,yd=16199,wd=16200,p6=16201,g6=16202,m6=16203,b6=16204,y6=16205,Y1=16206,w6=16207,v6=16208,yt=16209,x6=16210,A6=16211,YW=852,QW=592,ZW=15,E6=e=>(e>>>24&255)+(e>>>8&65280)+((e&65280)<<8)+((e&255)<<24);function XW(){this.strm=null,this.mode=0,this.last=!1,this.wrap=0,this.havedict=!1,this.flags=0,this.dmax=0,this.check=0,this.total=0,this.head=null,this.wbits=0,this.wsize=0,this.whave=0,this.wnext=0,this.window=null,this.hold=0,this.bits=0,this.length=0,this.offset=0,this.extra=0,this.lencode=null,this.distcode=null,this.lenbits=0,this.distbits=0,this.ncode=0,this.nlen=0,this.ndist=0,this.have=0,this.next=null,this.lens=new Uint16Array(320),this.work=new Uint16Array(288),this.lendyn=null,this.distdyn=null,this.sane=0,this.back=0,this.was=0}const ps=e=>{if(!e)return 1;const t=e.state;return!t||t.strm!==e||t.mode<md||t.mode>A6?1:0},S6=e=>{if(ps(e))return Yn;const t=e.state;return e.total_in=e.total_out=t.total=0,e.msg="",t.wrap&&(e.adler=t.wrap&1),t.mode=md,t.last=0,t.havedict=0,t.flags=-1,t.dmax=32768,t.head=null,t.hold=0,t.bits=0,t.lencode=t.lendyn=new Int32Array(YW),t.distcode=t.distdyn=new Int32Array(QW),t.sane=1,t.back=-1,ds},C6=e=>{if(ps(e))return Yn;const t=e.state;return t.wsize=0,t.whave=0,t.wnext=0,S6(e)},k6=(e,t)=>{let n;if(ps(e))return Yn;const r=e.state;return t<0?(n=0,t=-t):(n=(t>>4)+5,t<48&&(t&=15)),t&&(t<8||t>15)?Yn:(r.window!==null&&r.wbits!==t&&(r.window=null),r.wrap=n,r.wbits=t,C6(e))},T6=(e,t)=>{if(!e)return Yn;const n=new XW;e.state=n,n.strm=e,n.window=null,n.mode=md;const r=k6(e,t);return r!==ds&&(e.state=null),r},KW=e=>T6(e,ZW);let I6=!0,Q1,Z1;const JW=e=>{if(I6){Q1=new Int32Array(512),Z1=new Int32Array(32);let t=0;for(;t<144;)e.lens[t++]=8;for(;t<256;)e.lens[t++]=9;for(;t<280;)e.lens[t++]=7;for(;t<288;)e.lens[t++]=8;for(au(YC,e.lens,0,288,Q1,0,e.work,{bits:9}),t=0;t<32;)e.lens[t++]=5;au(QC,e.lens,0,32,Z1,0,e.work,{bits:5}),I6=!1}e.lencode=Q1,e.lenbits=9,e.distcode=Z1,e.distbits=5},_6=(e,t,n,r)=>{let i;const o=e.state;return o.window===null&&(o.wsize=1<<o.wbits,o.wnext=0,o.whave=0,o.window=new Uint8Array(o.wsize)),r>=o.wsize?(o.window.set(t.subarray(n-o.wsize,n),0),o.wnext=0,o.whave=o.wsize):(i=o.wsize-o.wnext,i>r&&(i=r),o.window.set(t.subarray(n-r,n-r+i),o.wnext),r-=i,r?(o.window.set(t.subarray(n-r,n),0),o.wnext=r,o.whave=o.wsize):(o.wnext+=i,o.wnext===o.wsize&&(o.wnext=0),o.whave<o.wsize&&(o.whave+=i))),0},eY=(e,t)=>{let n,r,i,o,s,a,l,c,u,f,h,d,p,m,b=0,g,y,v,w,S,E,k,M;const D=new Uint8Array(4);let B,I;const q=new Uint8Array([16,17,18,0,8,7,9,6,10,5,11,4,12,3,13,2,14,1,15]);if(ps(e)||!e.output||!e.input&&e.avail_in!==0)return Yn;n=e.state,n.mode===si&&(n.mode=$1),s=e.next_out,i=e.output,l=e.avail_out,o=e.next_in,r=e.input,a=e.avail_in,c=n.hold,u=n.bits,f=a,h=l,M=ds;e:for(;;)switch(n.mode){case md:if(n.wrap===0){n.mode=$1;break}for(;u<16;){if(a===0)break e;a--,c+=r[o++]<<u,u+=8}if(n.wrap&2&&c===35615){n.wbits===0&&(n.wbits=15),n.check=0,D[0]=c&255,D[1]=c>>>8&255,n.check=Nr(n.check,D,2,0),c=0,u=0,n.mode=e6;break}if(n.head&&(n.head.done=!1),!(n.wrap&1)||(((c&255)<<8)+(c>>8))%31){e.msg="incorrect header check",n.mode=yt;break}if((c&15)!==JC){e.msg="unknown compression method",n.mode=yt;break}if(c>>>=4,u-=4,k=(c&15)+8,n.wbits===0&&(n.wbits=k),k>15||k>n.wbits){e.msg="invalid window size",n.mode=yt;break}n.dmax=1<<n.wbits,n.flags=0,e.adler=n.check=1,n.mode=c&512?l6:si,c=0,u=0;break;case e6:for(;u<16;){if(a===0)break e;a--,c+=r[o++]<<u,u+=8}if(n.flags=c,(n.flags&255)!==JC){e.msg="unknown compression method",n.mode=yt;break}if(n.flags&57344){e.msg="unknown header flags set",n.mode=yt;break}n.head&&(n.head.text=c>>8&1),n.flags&512&&n.wrap&4&&(D[0]=c&255,D[1]=c>>>8&255,n.check=Nr(n.check,D,2,0)),c=0,u=0,n.mode=t6;case t6:for(;u<32;){if(a===0)break e;a--,c+=r[o++]<<u,u+=8}n.head&&(n.head.time=c),n.flags&512&&n.wrap&4&&(D[0]=c&255,D[1]=c>>>8&255,D[2]=c>>>16&255,D[3]=c>>>24&255,n.check=Nr(n.check,D,4,0)),c=0,u=0,n.mode=n6;case n6:for(;u<16;){if(a===0)break e;a--,c+=r[o++]<<u,u+=8}n.head&&(n.head.xflags=c&255,n.head.os=c>>8),n.flags&512&&n.wrap&4&&(D[0]=c&255,D[1]=c>>>8&255,n.check=Nr(n.check,D,2,0)),c=0,u=0,n.mode=r6;case r6:if(n.flags&1024){for(;u<16;){if(a===0)break e;a--,c+=r[o++]<<u,u+=8}n.length=c,n.head&&(n.head.extra_len=c),n.flags&512&&n.wrap&4&&(D[0]=c&255,D[1]=c>>>8&255,n.check=Nr(n.check,D,2,0)),c=0,u=0}else n.head&&(n.head.extra=null);n.mode=i6;case i6:if(n.flags&1024&&(d=n.length,d>a&&(d=a),d&&(n.head&&(k=n.head.extra_len-n.length,n.head.extra||(n.head.extra=new Uint8Array(n.head.extra_len)),n.head.extra.set(r.subarray(o,o+d),k)),n.flags&512&&n.wrap&4&&(n.check=Nr(n.check,r,d,o)),a-=d,o+=d,n.length-=d),n.length))break e;n.length=0,n.mode=o6;case o6:if(n.flags&2048){if(a===0)break e;d=0;do 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`,"\r"],!0,!1),P=function(O){return O.join("").replace(/^"/,"").replace(/"$/,"")},W=On("integer"),j=/^[0-9]/,de=Et([["0","9"]],!1,!1),ve=function(){return parseInt(At(),10)},Ee=On("whitespace"),Ue=/^[ \t\n\r]/,Tt=Et([" "," ",`
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-
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|
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3766
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+
`,"\r"],!1,!1),V=0,Pe=0,ct=[{line:1,column:1}],rt=0,Qt=[],Fe=0,pi;if("startRule"in i){if(!(i.startRule in s))throw new Error(`Can't start parsing from rule "`+i.startRule+'".');a=s[i.startRule]}function At(){return r.substring(Pe,V)}function Ve(O,le){return{type:"literal",text:O,ignoreCase:le}}function Et(O,le,Se){return{type:"class",parts:O,inverted:le,ignoreCase:Se}}function mr(){return{type:"end"}}function On(O){return{type:"other",description:O}}function Hu(O){var le=ct[O],Se;if(le)return le;for(Se=O-1;!ct[Se];)Se--;for(le=ct[Se],le={line:le.line,column:le.column};Se<O;)r.charCodeAt(Se)===10?(le.line++,le.column=1):le.column++,Se++;return ct[O]=le,le}function mk(O,le){var Se=Hu(O),ke=Hu(le);return{start:{offset:O,line:Se.line,column:Se.column},end:{offset:le,line:ke.line,column:ke.column}}}function Ge(O){V<rt||(V>rt&&(rt=V,Qt=[]),Qt.push(O))}function vZ(O,le,Se){return new t(t.buildMessage(O,le),O,le,Se)}function bk(){var O,le,Se,ke,Oe,ft,vt,Jn,mo,gi,bo,mi,yo,bi;return 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O=br(),O===o&&(O=V,le=br(),le!==o?(Se=vk(),Se!==o?(le=[le,Se],O=le):(V=O,O=o)):(V=O,O=o),O===o&&(O=V,le=br(),le!==o?(r.substr(V,4)===v?(Se=v,V+=4):(Se=o,Fe===0&&Ge(w)),Se!==o?(le=[le,Se],O=le):(V=O,O=o)):(V=O,O=o),O===o&&(O=V,le=br(),le!==o?(Se=vk(),Se!==o?(r.substr(V,4)===v?(ke=v,V+=4):(ke=o,Fe===0&&Ge(w)),ke!==o?(le=[le,Se,ke],O=le):(V=O,O=o)):(V=O,O=o)):(V=O,O=o)))),O}function vk(){var O;return r.substr(V,7)===S?(O=S,V+=7):(O=o,Fe===0&&Ge(E)),O===o&&(r.substr(V,5)===k?(O=k,V+=5):(O=o,Fe===0&&Ge(M)),O===o&&(r.substr(V,6)===D?(O=D,V+=6):(O=o,Fe===0&&Ge(B)))),O}function Ud(){var O;return O=xk(),O===o&&(O=Ye()),O}function xZ(){var O,le,Se,ke,Oe,ft,vt;if(O=V,le=zb(),le!==o)if(Se=Ye(),Se!==o){for(ke=[],Oe=V,ft=Ye(),ft!==o?(vt=zb(),vt!==o?(Pe=Oe,ft=I(le,vt),Oe=ft):(V=Oe,Oe=o)):(V=Oe,Oe=o);Oe!==o;)ke.push(Oe),Oe=V,ft=Ye(),ft!==o?(vt=zb(),vt!==o?(Pe=Oe,ft=I(le,vt),Oe=ft):(V=Oe,Oe=o)):(V=Oe,Oe=o);ke!==o?(Oe=Ye(),Oe!==o?(Pe=O,le=q(le,ke),O=le):(V=O,O=o)):(V=O,O=o)}else V=O,O=o;else 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SZ(){var O,le,Se,ke,Oe,ft,vt;if(O=V,le=br(),le!==o){for(Se=[],ke=V,r.charCodeAt(V)===44?(Oe=ze,V++):(Oe=o,Fe===0&&Ge(qe)),Oe!==o?(ft=Ye(),ft!==o?(vt=br(),vt!==o?(Pe=ke,Oe=I(le,vt),ke=Oe):(V=ke,ke=o)):(V=ke,ke=o)):(V=ke,ke=o);ke!==o;)Se.push(ke),ke=V,r.charCodeAt(V)===44?(Oe=ze,V++):(Oe=o,Fe===0&&Ge(qe)),Oe!==o?(ft=Ye(),ft!==o?(vt=br(),vt!==o?(Pe=ke,Oe=I(le,vt),ke=Oe):(V=ke,ke=o)):(V=ke,ke=o)):(V=ke,ke=o);Se!==o?(Pe=O,le=Q(le,Se),O=le):(V=O,O=o)}else V=O,O=o;return O}function Ub(){var O,le,Se,ke;return r.substr(V,3)===X?(O=X,V+=3):(O=o,Fe===0&&Ge(re)),O===o&&(r.substr(V,4)===ie?(O=ie,V+=4):(O=o,Fe===0&&Ge(ye)),O===o&&(r.substr(V,5)===L?(O=L,V+=5):(O=o,Fe===0&&Ge(R)),O===o&&(r.substr(V,6)===se?(O=se,V+=6):(O=o,Fe===0&&Ge(pe)),O===o&&(r.substr(V,4)===Re?(O=Re,V+=4):(O=o,Fe===0&&Ge(Te)),O===o&&(r.substr(V,5)===Ie?(O=Ie,V+=5):(O=o,Fe===0&&Ge(Me)),O===o&&(r.substr(V,5)===wt?(O=wt,V+=5):(O=o,Fe===0&&Ge(hn)),O===o&&(r.substr(V,4)===Bt?(O=Bt,V+=4):(O=o,Fe===0&&Ge(nt)),O===o&&(r.substr(V,6)===Nt?(O=Nt,V+=6):(O=o,Fe===0&&Ge(Wt)),O===o&&(r.substr(V,7)===st?(O=st,V+=7):(O=o,Fe===0&&Ge(Yt)),O===o&&(r.substr(V,4)===F?(O=F,V+=4):(O=o,Fe===0&&Ge(A)),O===o&&(r.substr(V,6)===C?(O=C,V+=6):(O=o,Fe===0&&Ge(z)),O===o&&(r.substr(V,6)===T?(O=T,V+=6):(O=o,Fe===0&&Ge(G)),O===o&&(r.substr(V,3)===Y?(O=Y,V+=3):(O=o,Fe===0&&Ge(ge)),O===o&&(O=V,le=yk(),le!==o?(Se=Ye(),Se!==o?(ke=wk(),ke!==o?(Pe=O,le=$(le,ke),O=le):(V=O,O=o)):(V=O,O=o)):(V=O,O=o))))))))))))))),O}function CZ(){var O;return O=kZ(),O===o&&(O=br()),O}function br(){var O,le,Se,ke,Oe;if(O=V,le=V,ee.test(r.charAt(V))?(Se=r.charAt(V),V++):(Se=o,Fe===0&&Ge(_)),Se!==o){for(ke=[],ue.test(r.charAt(V))?(Oe=r.charAt(V),V++):(Oe=o,Fe===0&&Ge(Be));Oe!==o;)ke.push(Oe),ue.test(r.charAt(V))?(Oe=r.charAt(V),V++):(Oe=o,Fe===0&&Ge(Be));ke!==o?(Se=[Se,ke],le=Se):(V=le,le=o)}else V=le,le=o;return le!==o&&(Pe=O,le=x()),O=le,O}function xk(){var O,le,Se;for(O=V,le=[],ne.test(r.charAt(V))?(Se=r.charAt(V),V++):(Se=o,Fe===0&&Ge(oe));Se!==o;)le.push(Se),ne.test(r.charAt(V))?(Se=r.charAt(V),V++):(Se=o,Fe===0&&Ge(oe));return le!==o&&(Pe=O,le=P(le)),O=le,O}function kZ(){var O,le,Se,ke;if(Fe++,O=V,le=Ye(),le!==o){if(Se=[],j.test(r.charAt(V))?(ke=r.charAt(V),V++):(ke=o,Fe===0&&Ge(de)),ke!==o)for(;ke!==o;)Se.push(ke),j.test(r.charAt(V))?(ke=r.charAt(V),V++):(ke=o,Fe===0&&Ge(de));else Se=o;Se!==o?(Pe=O,le=ve(),O=le):(V=O,O=o)}else V=O,O=o;return Fe--,O===o&&(le=o,Fe===0&&Ge(W)),O}function Ye(){var O,le;for(Fe++,O=[],Ue.test(r.charAt(V))?(le=r.charAt(V),V++):(le=o,Fe===0&&Ge(Tt));le!==o;)O.push(le),Ue.test(r.charAt(V))?(le=r.charAt(V),V++):(le=o,Fe===0&&Ge(Tt));return Fe--,O===o&&(le=o,Fe===0&&Ge(Ee)),O}if(pi=a(),pi!==o&&V===r.length)return pi;throw pi!==o&&V<r.length&&Ge(mr()),vZ(Qt,rt<r.length?r.charAt(rt):null,rt<r.length?mk(rt,rt+1):mk(rt,rt))}return ub={SyntaxError:t,parse:n},ub}var u5=bQ();const yQ=ld(u5),fb=Object.fromEntries(Object.entries(Object.freeze(Object.defineProperty({__proto__:null,bigChain:`table bigChain
|
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3767
3767
|
"bigChain pairwise alignment"
|
|
3768
3768
|
(
|
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3769
3769
|
string chrom; "Reference sequence chromosome or scaffold"
|
|
@@ -3922,9 +3922,9 @@ ${JSON.stringify(h.stats.first,null,2)}</pre
|
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|
3922
3922
|
float score; "Floating point score."
|
|
3923
3923
|
char[1] leftStatus; "Gap/break annotation for preceding block"
|
|
3924
3924
|
char[1] rightStatus; "Gap/break annotation for following block"
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|
3925
|
-
)`},Symbol.toStringTag,{value:"Module"}))).map(([e,t])=>[e,u5.parse(t.trim())]));function hb(e){const t=new Set(["uint","int","float","long"]);return{...e,fields:e.fields.map(n=>({...n,isArray:n.size&&n.type!=="char",arrayIsNumeric:n.size&&t.has(n.type),isNumeric:!n.size&&t.has(n.type)})).filter(n=>!!n.name)}}const wQ={".":0,"-":-1,"+":1};function vQ(e){var t;return e.length>=12&&!Number.isNaN(parseInt(e[9],10))&&((t=e[10])===null||t===void 0?void 0:t.split(",").filter(n=>!!n).length)===parseInt(e[9],10)}class xQ{constructor(t={}){if(t.autoSql)this.autoSql=hb(yQ.parse(t.autoSql));else if(t.type){if(!fb[t.type])throw new Error("Type not found");this.autoSql=hb(fb[t.type])}else this.autoSql=hb(fb.defaultBedSchema),this.attemptDefaultBed=!0}parseLine(t,n={}){const{autoSql:r}=this,{uniqueId:i}=n,o=Array.isArray(t)?t:t.split(" ");let s={};if(!this.attemptDefaultBed||this.attemptDefaultBed&&vQ(o))for(let a=0;a<r.fields.length;a++){const l=r.fields[a];let c=o[a];const{isNumeric:u,isArray:f,arrayIsNumeric:h,name:d}=l;if(c==null)break;if(c!=="."){if(u){const p=Number(c);c=Number.isNaN(p)?c:p}else f&&(c=c.split(","),c[c.length-1]===""&&c.pop(),h&&(c=c.map(Number)));s[d]=c}}else{const a=["chrom","chromStart","chromEnd","name"];s=Object.fromEntries(o.map((l,c)=>[a[c]||"field"+c,l])),s.chromStart=+s.chromStart,s.chromEnd=+s.chromEnd,Number.isNaN(Number.parseFloat(s.field4))||(s.score=+s.field4,delete s.field4),(s.field5==="+"||s.field5==="-")&&(s.strand=s.field5,delete s.field5)}return i&&(s.uniqueId=i),s.strand=wQ[s.strand]||0,s.chrom=decodeURIComponent(s.chrom),s}}const AQ=Object.freeze(Object.defineProperty({__proto__:null,default:xQ},Symbol.toStringTag,{value:"Module"}));let f5=class{constructor(t,n){this.blockPosition=t,this.dataPosition=n}toString(){return`${this.blockPosition}:${this.dataPosition}`}compareTo(t){return this.blockPosition-t.blockPosition||this.dataPosition-t.dataPosition}static min(...t){let n,r=0;for(;!n;r+=1)n=t[r];for(;r<t.length;r+=1)n.compareTo(t[r])>0&&(n=t[r]);return n}};function Fa(e,t=0,n=!1){if(n)throw new Error("big-endian virtual file offsets not implemented");return new f5(e[t+7]*1099511627776+e[t+6]*4294967296+e[t+5]*16777216+e[t+4]*65536+e[t+3]*256+e[t+2],e[t+1]<<8|e[t])}let db=class{constructor(t,n,r,i){this.minv=t,this.maxv=n,this.bin=r,this._fetchedSize=i}toUniqueString(){return`${this.minv.toString()}..${this.maxv.toString()} (bin ${this.bin}, fetchedSize ${this.fetchedSize()})`}toString(){return this.toUniqueString()}compareTo(t){return this.minv.compareTo(t.minv)||this.maxv.compareTo(t.maxv)||this.bin-t.bin}fetchedSize(){return this._fetchedSize!==void 0?this._fetchedSize:this.maxv.blockPosition+65536-this.minv.blockPosition}};function EQ(e){return new Promise(t=>setTimeout(t,e))}function SQ(e){if(e&&e.aborted)if(typeof DOMException>"u"){const t=new Error("aborted");throw t.code="ERR_ABORTED",t}else throw new DOMException("aborted","AbortError")}function CQ(e,t){return t.minv.blockPosition-e.maxv.blockPosition<65e3&&t.maxv.blockPosition-e.minv.blockPosition<5e6}function kQ(e={}){return"aborted"in e?{signal:e}:e}function h5(e,t){const n=[];let r;if(e.length===0)return e;e.sort((i,o)=>{const s=i.minv.blockPosition-o.minv.blockPosition;return s===0?i.minv.dataPosition-o.minv.dataPosition:s});for(const i of e)(!t||i.maxv.compareTo(t)>0)&&(r===void 0?(n.push(i),r=i):CQ(r,i)?i.maxv.compareTo(r.maxv)>0&&(r.maxv=i.maxv):(n.push(i),r=i));return n}function d5(e,t){return{lineCount:fd.fromBytesLE(Array.prototype.slice.call(e,t,t+8),!0).toNumber()}}function Sd(e,t){return e?e.compareTo(t)>0?t:e:t}function TQ(e,t=n=>n){let n=0,r=0;const i=[],o={};for(let s=0;s<e.length;s+=1)if(!e[s]){if(r<s){let a=e.toString("utf8",r,s);a=t(a),i[n]=a,o[a]=n}r=s+1,n+=1}return{refNameToId:o,refIdToName:i}}let p5=class{constructor({filehandle:t,renameRefSeq:n=r=>r}){this.filehandle=t,this.renameRefSeq=n}};const IQ=21578050;function _Q(e,t){return e-e%t}function DQ(e,t){return e-e%t+t}function RQ(e,t){return t-=1,[[0,0],[1+(e>>26),1+(t>>26)],[9+(e>>23),9+(t>>23)],[73+(e>>20),73+(t>>20)],[585+(e>>17),585+(t>>17)],[4681+(e>>14),4681+(t>>14)]]}class Ma extends p5{async lineCount(t,n){var r,i;return((i=(r=(await this.parse(n)).indices[t])===null||r===void 0?void 0:r.stats)===null||i===void 0?void 0:i.lineCount)||0}async _parse(t){const n=await this.filehandle.readFile(t);if(n.readUInt32LE(0)!==IQ)throw new Error("Not a BAI file");const r=n.readInt32LE(4),o=((1<<(5+1)*3)-1)/7;let s=8,a;const l=new Array(r);for(let c=0;c<r;c++){const u=n.readInt32LE(s);let f;s+=4;const h={};for(let m=0;m<u;m+=1){const b=n.readUInt32LE(s);if(s+=4,b===o+1)s+=4,f=d5(n,s+16),s+=32;else{if(b>o+1)throw new Error("bai index contains too many bins, please use CSI");{const g=n.readInt32LE(s);s+=4;const y=new Array(g);for(let v=0;v<g;v++){const w=Fa(n,s);s+=8;const S=Fa(n,s);s+=8,a=Sd(a,w),y[v]=new db(w,S,b)}h[b]=y}}}const d=n.readInt32LE(s);s+=4;const p=new Array(d);for(let m=0;m<d;m++){const b=Fa(n,s);s+=8,a=Sd(a,b),p[m]=b}l[c]={binIndex:h,linearIndex:p,stats:f}}return{bai:!0,firstDataLine:a,maxBlockSize:65536,indices:l,refCount:r}}async indexCov(t,n,r,i={}){const s=n!==void 0,l=(await this.parse(i)).indices[t];if(!l)return[];const{linearIndex:c=[],stats:u}=l;if(c.length===0)return[];const f=r===void 0?(c.length-1)*16384:DQ(r,16384),h=n===void 0?0:_Q(n,16384),d=s?new Array((f-h)/16384):new Array(c.length-1),p=c[c.length-1].blockPosition;if(f>(c.length-1)*16384)throw new Error("query outside of range of linear index");let m=c[h/16384].blockPosition;for(let b=h/16384,g=0;b<f/16384;b++,g++)d[g]={score:c[b+1].blockPosition-m,start:b*16384,end:b*16384+16384},m=c[b+1].blockPosition;return d.map(b=>({...b,score:b.score*((u==null?void 0:u.lineCount)||0)/p}))}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const o=await this.parse(i);if(!o)return[];const s=o.indices[t];if(!s)return[];const a=RQ(n,r),l=[];for(const[d,p]of a)for(let m=d;m<=p;m++)if(s.binIndex[m]){const b=s.binIndex[m];for(const g of b)l.push(new db(g.minv,g.maxv,m))}const c=s.linearIndex.length;let u;const f=Math.min(n>>14,c-1),h=Math.min(r>>14,c-1);for(let d=f;d<=h;++d){const p=s.linearIndex[d];p&&(!u||p.compareTo(u)<0)&&(u=p)}return h5(l,u)}async parse(t={}){return this.setupP||(this.setupP=this._parse(t).catch(n=>{throw this.setupP=void 0,n})),this.setupP}async hasRefSeq(t,n={}){var r;return!!(!((r=(await this.parse(n)).indices[t])===null||r===void 0)&&r.binIndex)}}let pb=[0,1996959894,3993919788,2567524794,124634137,1886057615,3915621685,2657392035,249268274,2044508324,3772115230,2547177864,162941995,2125561021,3887607047,2428444049,498536548,1789927666,4089016648,2227061214,450548861,1843258603,4107580753,2211677639,325883990,1684777152,4251122042,2321926636,335633487,1661365465,4195302755,2366115317,997073096,1281953886,3579855332,2724688242,1006888145,1258607687,3524101629,2768942443,901097722,1119000684,3686517206,2898065728,853044451,1172266101,3705015759,2882616665,651767980,1373503546,3369554304,3218104598,565507253,1454621731,3485111705,3099436303,671266974,1594198024,3322730930,2970347812,795835527,1483230225,3244367275,3060149565,1994146192,31158534,2563907772,4023717930,1907459465,112637215,2680153253,3904427059,2013776290,251722036,2517215374,3775830040,2137656763,141376813,2439277719,3865271297,1802195444,476864866,2238001368,4066508878,1812370925,453092731,2181625025,4111451223,1706088902,314042704,2344532202,4240017532,1658658271,366619977,2362670323,4224994405,1303535960,984961486,2747007092,3569037538,1256170817,1037604311,2765210733,3554079995,1131014506,879679996,2909243462,3663771856,1141124467,855842277,2852801631,3708648649,1342533948,654459306,3188396048,3373015174,1466479909,544179635,3110523913,3462522015,1591671054,702138776,2966460450,3352799412,1504918807,783551873,3082640443,3233442989,3988292384,2596254646,62317068,1957810842,3939845945,2647816111,81470997,1943803523,3814918930,2489596804,225274430,2053790376,3826175755,2466906013,167816743,2097651377,4027552580,2265490386,503444072,1762050814,4150417245,2154129355,426522225,1852507879,4275313526,2312317920,282753626,1742555852,4189708143,2394877945,397917763,1622183637,3604390888,2714866558,953729732,1340076626,3518719985,2797360999,1068828381,1219638859,3624741850,2936675148,906185462,1090812512,3747672003,2825379669,829329135,1181335161,3412177804,3160834842,628085408,1382605366,3423369109,3138078467,570562233,1426400815,3317316542,2998733608,733239954,1555261956,3268935591,3050360625,752459403,1541320221,2607071920,3965973030,1969922972,40735498,2617837225,3943577151,1913087877,83908371,2512341634,3803740692,2075208622,213261112,2463272603,3855990285,2094854071,198958881,2262029012,4057260610,1759359992,534414190,2176718541,4139329115,1873836001,414664567,2282248934,4279200368,1711684554,285281116,2405801727,4167216745,1634467795,376229701,2685067896,3608007406,1308918612,956543938,2808555105,3495958263,1231636301,1047427035,2932959818,3654703836,1088359270,936918e3,2847714899,3736837829,1202900863,817233897,3183342108,3401237130,1404277552,615818150,3134207493,3453421203,1423857449,601450431,3009837614,3294710456,1567103746,711928724,3020668471,3272380065,1510334235,755167117];typeof Int32Array<"u"&&(pb=new Int32Array(pb));const BQ=(e,t)=>{let n=t===0?0:~~t^-1;for(let r=0;r<e.length;r++)n=pb[(n^e[r])&255]^n>>>8;return n^-1},g5=(e,t)=>ot.Buffer.from(e,t);function FQ(e,t){const n=(r,i)=>t(g5(r),i)>>>0;return n.signed=(r,i)=>t(g5(r),i),n.unsigned=n,n.model=e,n}const MQ=FQ("crc-32",BQ),PQ=21582659,OQ=38359875;function LQ(e,t){return e*2**t}function m5(e,t){return Math.floor(e/2**t)}let Cd=class extends p5{constructor(){super(...arguments),this.maxBinNumber=0,this.depth=0,this.minShift=0}async lineCount(t,n){var r,i;return((i=(r=(await this.parse(n)).indices[t])===null||r===void 0?void 0:r.stats)===null||i===void 0?void 0:i.lineCount)||0}async indexCov(){return[]}parseAuxData(t,n){const r=t.readInt32LE(n),i=r&65536?"zero-based-half-open":"1-based-closed",o={0:"generic",1:"SAM",2:"VCF"}[r&15];if(!o)throw new Error(`invalid Tabix preset format flags ${r}`);const s={ref:t.readInt32LE(n+4),start:t.readInt32LE(n+8),end:t.readInt32LE(n+12)},a=t.readInt32LE(n+16),l=a?String.fromCharCode(a):"",c=t.readInt32LE(n+20),u=t.readInt32LE(n+24);return{columnNumbers:s,coordinateType:i,metaValue:a,metaChar:l,skipLines:c,format:o,formatFlags:r,...TQ(t.subarray(n+28,n+28+u),this.renameRefSeq)}}async _parse(t){const n=await this.filehandle.readFile(t),r=await io(n);let i;if(r.readUInt32LE(0)===PQ)i=1;else if(r.readUInt32LE(0)===OQ)i=2;else throw new Error("Not a CSI file");this.minShift=r.readInt32LE(4),this.depth=r.readInt32LE(8),this.maxBinNumber=((1<<(this.depth+1)*3)-1)/7;const o=r.readInt32LE(12),s=o>=30?this.parseAuxData(r,16):void 0,a=r.readInt32LE(16+o);let l=16+o+4,c;const u=new Array(a);for(let f=0;f<a;f++){const h=r.readInt32LE(l);l+=4;const d={};let p;for(let m=0;m<h;m++){const b=r.readUInt32LE(l);if(l+=4,b>this.maxBinNumber)p=d5(r,l+28),l+=44;else{c=Sd(c,Fa(r,l)),l+=8;const g=r.readInt32LE(l);l+=4;const y=new Array(g);for(let v=0;v<g;v+=1){const w=Fa(r,l);l+=8;const S=Fa(r,l);l+=8,c=Sd(c,w),y[v]=new db(w,S,b)}d[b]=y}}u[f]={binIndex:d,stats:p}}return{csiVersion:i,firstDataLine:c,indices:u,refCount:a,csi:!0,maxBlockSize:65536,...s}}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const s=(await this.parse(i)).indices[t];if(!s)return[];const a=this.reg2bins(n,r);if(a.length===0)return[];const l=[];for(const[c,u]of a)for(let f=c;f<=u;f++)if(s.binIndex[f]){const h=s.binIndex[f];for(const d of h)l.push(d)}return h5(l,new f5(0,0))}reg2bins(t,n){t-=1,t<1&&(t=1),n>2**50&&(n=2**34),n-=1;let r=0,i=0,o=this.minShift+this.depth*3;const s=[];for(;r<=this.depth;o-=3,i+=LQ(1,r*3),r+=1){const a=i+m5(t,o),l=i+m5(n,o);if(l-a+s.length>this.maxBinNumber)throw new Error(`query ${t}-${n} is too large for current binning scheme (shift ${this.minShift}, depth ${this.depth}), try a smaller query or a coarser index binning scheme`);s.push([a,l])}return s}async parse(t={}){return this.setupP||(this.setupP=this._parse(t).catch(n=>{throw this.setupP=void 0,n})),this.setupP}async hasRefSeq(t,n={}){var r;return!!(!((r=(await this.parse(n)).indices[t])===null||r===void 0)&&r.binIndex)}};const Zn={BAM_FPAIRED:1,BAM_FPROPER_PAIR:2,BAM_FUNMAP:4,BAM_FMUNMAP:8,BAM_FREVERSE:16,BAM_FMREVERSE:32,BAM_FREAD1:64,BAM_FREAD2:128,BAM_FSECONDARY:256,BAM_FQCFAIL:512,BAM_FDUP:1024,BAM_FSUPPLEMENTARY:2048},b5="=ACMGRSVTWYHKDBN".split(""),fu="MIDNSHP=X???????".split("");class Pa{constructor(t){this.bytes=t.bytes,this.fileOffset=t.fileOffset}get byteArray(){return this.bytes.byteArray}get flags(){return(this.byteArray.readInt32LE(this.bytes.start+16)&4294901760)>>16}get ref_id(){return this.byteArray.readInt32LE(this.bytes.start+4)}get start(){return this.byteArray.readInt32LE(this.bytes.start+8)}get end(){return this.start+this.length_on_ref}get id(){return this.fileOffset}get mq(){const t=(this.bin_mq_nl&65280)>>8;return t===255?void 0:t}get score(){return this.mq}get qual(){if(this.isSegmentUnmapped())return;const t=this.b0+this.read_name_length+this.num_cigar_ops*4+this.num_seq_bytes;return this.byteArray.subarray(t,t+this.seq_length)}get strand(){return this.isReverseComplemented()?-1:1}get b0(){return this.bytes.start+36}get name(){return this.byteArray.toString("ascii",this.b0,this.b0+this.read_name_length-1)}get tags(){const{byteArray:t}=this.bytes;let n=this.b0+this.read_name_length+this.num_cigar_ops*4+this.num_seq_bytes+this.seq_length;const r=this.bytes.end,i={};for(;n<r;){const o=String.fromCharCode(t[n],t[n+1]),s=String.fromCharCode(t[n+2]);if(n+=3,s==="A")i[o]=String.fromCharCode(t[n]),n+=1;else if(s==="i")i[o]=t.readInt32LE(n),n+=4;else if(s==="I")i[o]=t.readUInt32LE(n),n+=4;else if(s==="c")i[o]=t.readInt8(n),n+=1;else if(s==="C")i[o]=t.readUInt8(n),n+=1;else if(s==="s")i[o]=t.readInt16LE(n),n+=2;else if(s==="S")i[o]=t.readUInt16LE(n),n+=2;else if(s==="f")i[o]=t.readFloatLE(n),n+=4;else if(s==="Z"||s==="H"){const a=[];for(;n<=r;){const l=t[n++];if(l!==0)a.push(String.fromCharCode(l));else break}i[o]=a.join("")}else if(s==="B"){const a=t[n++],l=String.fromCharCode(a),c=t.readInt32LE(n);if(n+=4,l==="i")if(o==="CG"){const u=[];for(let f=0;f<c;f++){const h=t.readInt32LE(n),d=h>>4,p=fu[h&15];u.push(d+p),n+=4}i[o]=u.join("")}else{const u=[];for(let f=0;f<c;f++)u.push(t.readInt32LE(n)),n+=4;i[o]=u}else if(l==="I")if(o==="CG"){const u=[];for(let f=0;f<c;f++){const h=t.readUInt32LE(n),d=h>>4,p=fu[h&15];u.push(d+p),n+=4}i[o]=u.join("")}else{const u=[];for(let f=0;f<c;f++)u.push(t.readUInt32LE(n)),n+=4;i[o]=u}else if(l==="s"){const u=[];for(let f=0;f<c;f++)u.push(t.readInt16LE(n)),n+=2;i[o]=u}else if(l==="S"){const u=[];for(let f=0;f<c;f++)u.push(t.readUInt16LE(n)),n+=2;i[o]=u}else if(l==="c"){const u=[];for(let f=0;f<c;f++)u.push(t.readInt8(n)),n+=1;i[o]=u}else if(l==="C"){const u=[];for(let f=0;f<c;f++)u.push(t.readUInt8(n)),n+=1;i[o]=u}else if(l==="f"){const u=[];for(let f=0;f<c;f++)u.push(t.readFloatLE(n)),n+=4;i[o]=u}}else{console.error("Unknown BAM tag type",s);break}}return i}isPaired(){return!!(this.flags&Zn.BAM_FPAIRED)}isProperlyPaired(){return!!(this.flags&Zn.BAM_FPROPER_PAIR)}isSegmentUnmapped(){return!!(this.flags&Zn.BAM_FUNMAP)}isMateUnmapped(){return!!(this.flags&Zn.BAM_FMUNMAP)}isReverseComplemented(){return!!(this.flags&Zn.BAM_FREVERSE)}isMateReverseComplemented(){return!!(this.flags&Zn.BAM_FMREVERSE)}isRead1(){return!!(this.flags&Zn.BAM_FREAD1)}isRead2(){return!!(this.flags&Zn.BAM_FREAD2)}isSecondary(){return!!(this.flags&Zn.BAM_FSECONDARY)}isFailedQc(){return!!(this.flags&Zn.BAM_FQCFAIL)}isDuplicate(){return!!(this.flags&Zn.BAM_FDUP)}isSupplementary(){return!!(this.flags&Zn.BAM_FSUPPLEMENTARY)}get cigarAndLength(){if(this.isSegmentUnmapped())return{length_on_ref:0,CIGAR:""};const t=this.num_cigar_ops;let n=this.b0+this.read_name_length;const r=[];let i=this.byteArray.readInt32LE(n),o=i>>4,s=fu[i&15];if(s==="S"&&o===this.seq_length)return n+=4,i=this.byteArray.readInt32LE(n),o=i>>4,s=fu[i&15],s!=="N"&&console.warn("CG tag with no N tag"),{CIGAR:this.tags.CG,length_on_ref:o};{let a=0;for(let l=0;l<t;++l)i=this.byteArray.readInt32LE(n),o=i>>4,s=fu[i&15],r.push(o+s),s!=="H"&&s!=="S"&&s!=="I"&&(a+=o),n+=4;return{CIGAR:r.join(""),length_on_ref:a}}}get length_on_ref(){return this.cigarAndLength.length_on_ref}get CIGAR(){return this.cigarAndLength.CIGAR}get num_cigar_ops(){return this.flag_nc&65535}get read_name_length(){return this.bin_mq_nl&255}get num_seq_bytes(){return this.seq_length+1>>1}get seq(){const{byteArray:t}=this.bytes,n=this.b0+this.read_name_length+this.num_cigar_ops*4,r=this.num_seq_bytes,i=this.seq_length,o=[];let s=0;for(let a=0;a<r;++a){const l=t[n+a];o.push(b5[(l&240)>>4]),s++,s<i&&(o.push(b5[l&15]),s++)}return o.join("")}get pair_orientation(){if(!this.isSegmentUnmapped()&&!this.isMateUnmapped()&&this.ref_id===this.next_refid){const t=this.isReverseComplemented()?"R":"F",n=this.isMateReverseComplemented()?"R":"F";let r=" ",i=" ";this.isRead1()?(r="1",i="2"):this.isRead2()&&(r="2",i="1");const o=[];return this.template_length>0?(o[0]=t,o[1]=r,o[2]=n,o[3]=i):(o[2]=t,o[3]=r,o[0]=n,o[1]=i),o.join("")}}get bin_mq_nl(){return this.byteArray.readInt32LE(this.bytes.start+12)}get flag_nc(){return this.byteArray.readInt32LE(this.bytes.start+16)}get seq_length(){return this.byteArray.readInt32LE(this.bytes.start+20)}get next_refid(){return this.byteArray.readInt32LE(this.bytes.start+24)}get next_pos(){return this.byteArray.readInt32LE(this.bytes.start+28)}get template_length(){return this.byteArray.readInt32LE(this.bytes.start+32)}toJSON(){const t={};for(const n of Object.keys(this))n.startsWith("_")||n==="bytes"||(t[n]=this[n]);return t}}function kd(e,t){const n=Object.getOwnPropertyDescriptor(e.prototype,t);if(!n)throw new Error("OH NO, NO PROPERTY DESCRIPTOR");const r=n.get;if(!r)throw new Error("OH NO, NOT A GETTER");Object.defineProperty(e.prototype,t,{get(){const i=r.call(this);return Object.defineProperty(this,t,{value:i}),i}})}kd(Pa,"tags"),kd(Pa,"cigarAndLength"),kd(Pa,"seq"),kd(Pa,"qual");function y5(e){const t=e.split(/\r?\n/),n=[];for(const r of t){const[i,...o]=r.split(/\t/);i&&n.push({tag:i.slice(1),data:o.map(s=>{const a=s.indexOf(":"),l=s.slice(0,a),c=s.slice(a+1);return{tag:l,value:c}})})}return n}const w5=21840194,v5=65536;async function NQ(e){let t=[];for await(const n of e)t=t.concat(n);return t}class zQ{read(){throw new Error("never called")}stat(){throw new Error("never called")}readFile(){throw new Error("never called")}close(){throw new Error("never called")}}class x5{constructor({bamFilehandle:t,bamPath:n,bamUrl:r,baiPath:i,baiFilehandle:o,baiUrl:s,csiPath:a,csiFilehandle:l,csiUrl:c,htsget:u,yieldThreadTime:f=100,renameRefSeqs:h=d=>d}){if(this.htsget=!1,this.featureCache=new hs({cache:new dd({maxSize:50}),fill:async(d,p)=>{const{chunk:m,opts:b}=d,{data:g,cpositions:y,dpositions:v}=await this._readChunk({chunk:m,opts:{...b,signal:p}});return this.readBamFeatures(g,y,v,m)}}),this.renameRefSeq=h,t)this.bam=t;else if(n)this.bam=new qt(n);else if(r)this.bam=new ur(r);else if(u)this.htsget=!0,this.bam=new zQ;else throw new Error("unable to initialize bam");if(l)this.index=new Cd({filehandle:l});else if(a)this.index=new Cd({filehandle:new qt(a)});else if(c)this.index=new Cd({filehandle:new ur(c)});else if(o)this.index=new Ma({filehandle:o});else if(i)this.index=new Ma({filehandle:new qt(i)});else if(s)this.index=new Ma({filehandle:new ur(s)});else if(n)this.index=new Ma({filehandle:new qt(`${n}.bai`)});else if(r)this.index=new Ma({filehandle:new ur(`${r}.bai`)});else if(u)this.htsget=!0;else throw new Error("unable to infer index format");this.yieldThreadTime=f}async getHeaderPre(t){const n=kQ(t);if(!this.index)return;const r=await this.index.parse(n),i=r.firstDataLine?r.firstDataLine.blockPosition+65535:void 0;let o;if(i){const u=i+v5,f=await this.bam.read(ot.Buffer.alloc(u),0,u,0,n);if(!f.bytesRead)throw new Error("Error reading header");o=f.buffer.subarray(0,Math.min(f.bytesRead,i))}else o=await this.bam.readFile(n);const s=await io(o);if(s.readInt32LE(0)!==w5)throw new Error("Not a BAM file");const a=s.readInt32LE(4);this.header=s.toString("utf8",8,8+a);const{chrToIndex:l,indexToChr:c}=await this._readRefSeqs(a+8,65535,n);return this.chrToIndex=l,this.indexToChr=c,y5(this.header)}getHeader(t){return this.headerP||(this.headerP=this.getHeaderPre(t).catch(n=>{throw this.headerP=void 0,n})),this.headerP}async getHeaderText(t={}){return await this.getHeader(t),this.header}async _readRefSeqs(t,n,r){if(t>n)return this._readRefSeqs(t,n*2,r);const i=n+v5,{bytesRead:o,buffer:s}=await this.bam.read(ot.Buffer.alloc(i),0,n,0,r);if(!o)throw new Error("Error reading refseqs from header");const a=await io(s.subarray(0,Math.min(o,n))),l=a.readInt32LE(t);let c=t+4;const u={},f=[];for(let h=0;h<l;h+=1){const d=a.readInt32LE(c),p=this.renameRefSeq(a.toString("utf8",c+4,c+4+d-1)),m=a.readInt32LE(c+d+4);if(u[p]=h,f.push({refName:p,length:m}),c=c+8+d,c>a.length)return console.warn(`BAM header is very big. Re-fetching ${n} bytes.`),this._readRefSeqs(t,n*2,r)}return{chrToIndex:u,indexToChr:f}}async getRecordsForRange(t,n,r,i){return NQ(this.streamRecordsForRange(t,n,r,i))}async*streamRecordsForRange(t,n,r,i){var o;await this.getHeader(i);const s=(o=this.chrToIndex)===null||o===void 0?void 0:o[t];if(s===void 0||!this.index)yield[];else{const a=await this.index.blocksForRange(s,n-1,r,i);yield*this._fetchChunkFeatures(a,s,n,r,i)}}async*_fetchChunkFeatures(t,n,r,i,o={}){const{viewAsPairs:s}=o,a=[];let l=!1;for(const c of t){const u=await this.featureCache.get(c.toString(),{chunk:c,opts:o},o.signal),f=[];for(const h of u)if(h.ref_id===n)if(h.start>=i){l=!0;break}else h.end>=r&&f.push(h);if(a.push(f),yield f,l)break}SQ(o.signal),s&&(yield this.fetchPairs(n,a,o))}async fetchPairs(t,n,r){const{pairAcrossChr:i,maxInsertSize:o=2e5}=r,s={},a={};n.map(h=>{const d={};for(const p of h){const m=p.name,b=p.id;d[m]||(d[m]=0),d[m]++,a[b]=1}for(const[p,m]of Object.entries(d))m===1&&(s[p]=!0)});const l=[];n.map(h=>{for(const d of h){const p=d.name,m=d.start,b=d.next_pos,g=d.next_refid;this.index&&s[p]&&(i||g===t&&Math.abs(m-b)<o)&&l.push(this.index.blocksForRange(g,b,b+1,r))}});const c=new Map,u=await Promise.all(l);for(const h of u.flat())c.has(h.toString())||c.set(h.toString(),h);return(await Promise.all([...c.values()].map(async h=>{const{data:d,cpositions:p,dpositions:m,chunk:b}=await this._readChunk({chunk:h,opts:r}),g=[];for(const y of await this.readBamFeatures(d,p,m,b))s[y.name]&&!a[y.id]&&g.push(y);return g}))).flat()}async _readRegion(t,n,r={}){const{bytesRead:i,buffer:o}=await this.bam.read(ot.Buffer.alloc(n),0,n,t,r);return o.subarray(0,Math.min(i,n))}async _readChunk({chunk:t,opts:n}){const r=await this._readRegion(t.minv.blockPosition,t.fetchedSize(),n),{buffer:i,cpositions:o,dpositions:s}=await RC(r,t);return{data:i,cpositions:o,dpositions:s,chunk:t}}async readBamFeatures(t,n,r,i){let o=0;const s=[];let a=0,l=+Date.now();for(;o+4<t.length;){const c=t.readInt32LE(o),u=o+4+c-1;if(r){for(;o+i.minv.dataPosition>=r[a++];);a--}if(u<t.length){const f=new Pa({bytes:{byteArray:t,start:o,end:u},fileOffset:n.length>0?n[a]*256+(o-r[a])+i.minv.dataPosition+1:MQ.signed(t.slice(o,u))});s.push(f),this.yieldThreadTime&&+Date.now()-l>this.yieldThreadTime&&(await EQ(1),l=+Date.now())}o=u+1}return s}async hasRefSeq(t){var n,r;const i=(n=this.chrToIndex)===null||n===void 0?void 0:n[t];return i===void 0?!1:(r=this.index)===null||r===void 0?void 0:r.hasRefSeq(i)}async lineCount(t){var n;const r=(n=this.chrToIndex)===null||n===void 0?void 0:n[t];return r===void 0||!this.index?0:this.index.lineCount(r)}async indexCov(t,n,r){var i;if(!this.index)return[];await this.index.parse();const o=(i=this.chrToIndex)===null||i===void 0?void 0:i[t];return o===void 0?[]:this.index.indexCov(o,n,r)}async blocksForRange(t,n,r,i){var o;if(!this.index)return[];await this.index.parse();const s=(o=this.chrToIndex)===null||o===void 0?void 0:o[t];return s===void 0?[]:this.index.blocksForRange(s,n,r,i)}}async function A5(e,t){const n=await Promise.all(e.map(async r=>{const{url:i,headers:o}=r;if(i.startsWith("data:"))return ot.Buffer.from(i.split(",")[1],"base64");{const{referer:s,...a}=o,l=await fetch(i,{...t,headers:{...t==null?void 0:t.headers,...a}});if(!l.ok)throw new Error(`HTTP ${l.status} fetching ${i}: ${await l.text()}`);return ot.Buffer.from(await l.arrayBuffer())}}));return ot.Buffer.concat(await Promise.all(n.map(r=>io(r))))}class UQ extends x5{constructor(t){super({htsget:!0}),this.baseUrl=t.baseUrl,this.trackId=t.trackId}async*streamRecordsForRange(t,n,r,i){var o;const a=`${`${this.baseUrl}/${this.trackId}`}?referenceName=${t}&start=${n}&end=${r}&format=BAM`,l=(o=this.chrToIndex)===null||o===void 0?void 0:o[t];if(l===void 0)yield[];else{const c=await fetch(a,{...i});if(!c.ok)throw new Error(`HTTP ${c.status} fetching ${a}: ${await c.text()}`);const u=await c.json(),f=await A5(u.htsget.urls.slice(1),i);yield*this._fetchChunkFeatures([{buffer:f,_fetchedSize:void 0,bin:0,compareTo(){return 0},toUniqueString(){return`${t}_${n}_${r}`},fetchedSize(){return 0},minv:{dataPosition:0,blockPosition:0,compareTo:()=>0},maxv:{dataPosition:Number.MAX_SAFE_INTEGER,blockPosition:0,compareTo:()=>0},toString(){return`${t}_${n}_${r}`}}],l,n,r,i)}}async _readChunk({chunk:t}){if(!t.buffer)throw new Error("expected chunk.buffer in htsget");return{data:t.buffer,cpositions:[],dpositions:[],chunk:t}}async getHeader(t={}){const n=`${this.baseUrl}/${this.trackId}?referenceName=na&class=header`,r=await fetch(n,t);if(!r.ok)throw new Error(`HTTP ${r.status} fetching ${n}: ${await r.text()}`);const i=await r.json(),o=await A5(i.htsget.urls,t);if(o.readInt32LE(0)!==w5)throw new Error("Not a BAM file");const s=o.readInt32LE(4),a=o.toString("utf8",8,8+s),l=y5(a),c=[],u={},f=l.filter(h=>h.tag==="SQ");for(const[h,d]of f.entries()){let p="",m=0;for(const b of d.data)b.tag==="SN"?p=b.value:b.tag==="LN"&&(m=+b.value);u[p]=h,c[h]={refName:p,length:m}}return this.chrToIndex=u,this.indexToChr=c,l}}const HQ=Object.freeze(Object.defineProperty({__proto__:null,BAI:Ma,BamFile:x5,BamRecord:Pa,CSI:Cd,HtsgetFile:UQ},Symbol.toStringTag,{value:"Module"}));function E5(e){if(e.greaterThan(Number.MAX_SAFE_INTEGER)||e.lessThan(Number.MIN_SAFE_INTEGER))throw new Error("integer overflow");return e.toNumber()}class GQ extends Error{}function hu(e){if(e&&e.aborted){if(typeof DOMException<"u")throw new DOMException("aborted","AbortError");{const t=new GQ("aborted");throw t.code="ERR_ABORTED",t}}}function jQ(e,t){return t.minv.blockPosition-e.maxv.blockPosition<65e3&&t.maxv.blockPosition-e.minv.blockPosition<5e6}function S5(e,t){const n=[];let r=null;return e.length===0?e:(e.sort(function(i,o){const s=i.minv.blockPosition-o.minv.blockPosition;return s!==0?s:i.minv.dataPosition-o.minv.dataPosition}),e.forEach(i=>{(!t||i.maxv.compareTo(t)>0)&&(r===null?(n.push(i),r=i):jQ(r,i)?i.maxv.compareTo(r.maxv)>0&&(r.maxv=i.maxv):(n.push(i),r=i))}),n)}class gb{constructor(t,n){this.blockPosition=t,this.dataPosition=n}toString(){return`${this.blockPosition}:${this.dataPosition}`}compareTo(t){return this.blockPosition-t.blockPosition||this.dataPosition-t.dataPosition}}function Oa(e,t=0,n=!1){if(n)throw new Error("big-endian virtual file offsets not implemented");return new gb(e[t+7]*1099511627776+e[t+6]*4294967296+e[t+5]*16777216+e[t+4]*65536+e[t+3]*256+e[t+2],e[t+1]<<8|e[t])}class Td{constructor(t,n,r,i=void 0){this.minv=t,this.maxv=n,this.bin=r,this._fetchedSize=i}toUniqueString(){return`${this.minv}..${this.maxv} (bin ${this.bin}, fetchedSize ${this.fetchedSize()})`}toString(){return this.toUniqueString()}compareTo(t){return this.minv.compareTo(t.minv)||this.maxv.compareTo(t.maxv)||this.bin-t.bin}fetchedSize(){return this._fetchedSize!==void 0?this._fetchedSize:this.maxv.blockPosition+65536-this.minv.blockPosition}}class C5{constructor({filehandle:t,renameRefSeqs:n=r=>r}){this.filehandle=t,this.renameRefSeq=n}async getMetadata(t={}){const{indices:n,...r}=await this.parse(t);return r}_findFirstData(t,n){return t?t.compareTo(n)>0?n:t:n}async parse(t={}){return this.parseP||(this.parseP=this._parse(t).catch(n=>{throw this.parseP=void 0,n})),this.parseP}async hasRefSeq(t,n={}){var r;return!!(!((r=(await this.parse(n)).indices[t])===null||r===void 0)&&r.binIndex)}}const VQ=21578324,k5=14;function qQ(e,t){return e+=1,t-=1,[[0,0],[1+(e>>26),1+(t>>26)],[9+(e>>23),9+(t>>23)],[73+(e>>20),73+(t>>20)],[585+(e>>17),585+(t>>17)],[4681+(e>>14),4681+(t>>14)]]}class La extends C5{async lineCount(t,n={}){const r=await this.parse(n),i=r.refNameToId[t];if(i===void 0||!r.indices[i])return-1;const{stats:s}=r.indices[i];return s?s.lineCount:-1}async _parse(t={}){const n=await this.filehandle.readFile(t),r=await io(n);if(hu(t.signal),r.readUInt32LE(0)!==VQ)throw new Error("Not a TBI file");const i=r.readInt32LE(4),o=r.readInt32LE(8),s=o&65536?"zero-based-half-open":"1-based-closed",l={0:"generic",1:"SAM",2:"VCF"}[o&15];if(!l)throw new Error(`invalid Tabix preset format flags ${o}`);const c={ref:r.readInt32LE(12),start:r.readInt32LE(16),end:r.readInt32LE(20)},u=r.readInt32LE(24),f=5,h=((1<<(f+1)*3)-1)/7,d=2**(14+f*3),p=u?String.fromCharCode(u):null,m=r.readInt32LE(28),b=r.readInt32LE(32),{refNameToId:g,refIdToName:y}=this._parseNameBytes(r.slice(36,36+b));let v=36+b,w;return{indices:new Array(i).fill(0).map(()=>{const E=r.readInt32LE(v);v+=4;const k={};let M;for(let I=0;I<E;I+=1){const q=r.readUInt32LE(v);if(v+=4,q>h+1)throw new Error("tabix index contains too many bins, please use a CSI index");if(q===h+1){const Z=r.readInt32LE(v);v+=4,Z===2&&(M=this.parsePseudoBin(r,v)),v+=16*Z}else{const Z=r.readInt32LE(v);v+=4;const ne=new Array(Z);for(let J=0;J<Z;J+=1){const ce=Oa(r,v),ae=Oa(r,v+8);v+=16,w=this._findFirstData(w,ce),ne[J]=new Td(ce,ae,q)}k[q]=ne}}const D=r.readInt32LE(v);v+=4;const B=new Array(D);for(let I=0;I<D;I+=1)B[I]=Oa(r,v),v+=8,w=this._findFirstData(w,B[I]);return{binIndex:k,linearIndex:B,stats:M}}),metaChar:p,maxBinNumber:h,maxRefLength:d,skipLines:m,firstDataLine:w,columnNumbers:c,coordinateType:s,format:l,refIdToName:y,refNameToId:g,maxBlockSize:65536}}parsePseudoBin(t,n){return{lineCount:E5(fd.fromBytesLE(t.slice(n+16,n+24),!0))}}_parseNameBytes(t){let n=0,r=0;const i=[],o={};for(let s=0;s<t.length;s+=1)if(!t[s]){if(r<s){let a=t.toString("utf8",r,s);a=this.renameRefSeq(a),i[n]=a,o[a]=n}r=s+1,n+=1}return{refNameToId:o,refIdToName:i}}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const o=await this.parse(i),s=o.refNameToId[t];if(s===void 0)return[];const a=o.indices[s];if(!a)return[];(a.linearIndex.length?a.linearIndex[n>>k5>=a.linearIndex.length?a.linearIndex.length-1:n>>k5]:new gb(0,0))||console.warn("querying outside of possible tabix range");const c=qQ(n,r),u=[];for(const[m,b]of c)for(let g=m;g<=b;g++)if(a.binIndex[g])for(const y of a.binIndex[g])u.push(new Td(y.minv,y.maxv,g));const f=a.linearIndex.length;let h=null;const d=Math.min(n>>14,f-1),p=Math.min(r>>14,f-1);for(let m=d;m<=p;++m){const b=a.linearIndex[m];b&&(!h||b.compareTo(h)<0)&&(h=b)}return S5(u,h)}}const $Q=21582659,WQ=38359875;function YQ(e,t){return e*2**t}function T5(e,t){return Math.floor(e/2**t)}class Id extends C5{constructor(t){super(t),this.maxBinNumber=0,this.depth=0,this.minShift=0}async lineCount(t,n={}){const r=await this.parse(n),i=r.refNameToId[t];if(i===void 0||!r.indices[i])return-1;const{stats:s}=r.indices[i];return s?s.lineCount:-1}indexCov(){throw new Error("CSI indexes do not support indexcov")}parseAuxData(t,n){const r=t.readInt32LE(n),i=r&65536?"zero-based-half-open":"1-based-closed",o={0:"generic",1:"SAM",2:"VCF"}[r&15];if(!o)throw new Error(`invalid Tabix preset format flags ${r}`);const s={ref:t.readInt32LE(n+4),start:t.readInt32LE(n+8),end:t.readInt32LE(n+12)},a=t.readInt32LE(n+16),l=a?String.fromCharCode(a):null,c=t.readInt32LE(n+20),u=t.readInt32LE(n+24),{refIdToName:f,refNameToId:h}=this._parseNameBytes(t.slice(n+28,n+28+u));return{refIdToName:f,refNameToId:h,skipLines:c,metaChar:l,columnNumbers:s,format:o,coordinateType:i}}_parseNameBytes(t){let n=0,r=0;const i=[],o={};for(let s=0;s<t.length;s+=1)if(!t[s]){if(r<s){let a=t.toString("utf8",r,s);a=this.renameRefSeq(a),i[n]=a,o[a]=n}r=s+1,n+=1}return{refNameToId:o,refIdToName:i}}async _parse(t={}){const n=await io(await this.filehandle.readFile(t));let r;if(n.readUInt32LE(0)===$Q)r=1;else if(n.readUInt32LE(0)===WQ)r=2;else throw new Error("Not a CSI file");this.minShift=n.readInt32LE(4),this.depth=n.readInt32LE(8),this.maxBinNumber=((1<<(this.depth+1)*3)-1)/7;const i=2**(this.minShift+this.depth*3),o=n.readInt32LE(12),s=o&&o>=30?this.parseAuxData(n,16):{refIdToName:[],refNameToId:{},metaChar:null,columnNumbers:{ref:0,start:1,end:2},coordinateType:"zero-based-half-open",format:"generic"},a=n.readInt32LE(16+o);let l,c=16+o+4;const u=new Array(a).fill(0).map(()=>{const f=n.readInt32LE(c);c+=4;const h={};let d;for(let p=0;p<f;p+=1){const m=n.readUInt32LE(c);if(m>this.maxBinNumber)d=this.parsePseudoBin(n,c+4),c+=48;else{const b=Oa(n,c+4);l=this._findFirstData(l,b);const g=n.readInt32LE(c+12);c+=16;const y=new Array(g);for(let v=0;v<g;v+=1){const w=Oa(n,c),S=Oa(n,c+8);c+=16,y[v]=new Td(w,S,m)}h[m]=y}}return{binIndex:h,stats:d}});return{...s,csi:!0,refCount:a,maxBlockSize:65536,firstDataLine:l,csiVersion:r,indices:u,depth:this.depth,maxBinNumber:this.maxBinNumber,maxRefLength:i}}parsePseudoBin(t,n){return{lineCount:E5(fd.fromBytesLE(t.slice(n+28,n+36),!0))}}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const o=await this.parse(i),s=o.refNameToId[t];if(s===void 0)return[];const a=o.indices[s];if(!a)return[];const l=this.reg2bins(n,r),c=[];for(const[u,f]of l)for(let h=u;h<=f;h++)if(a.binIndex[h])for(const d of a.binIndex[h])c.push(new Td(d.minv,d.maxv,h));return S5(c,new gb(0,0))}reg2bins(t,n){t-=1,t<1&&(t=1),n>2**50&&(n=2**34),n-=1;let r=0,i=0,o=this.minShift+this.depth*3;const s=[];for(;r<=this.depth;o-=3,i+=YQ(1,r*3),r+=1){const a=i+T5(t,o),l=i+T5(n,o);if(l-a+s.length>this.maxBinNumber)throw new Error(`query ${t}-${n} is too large for current binning scheme (shift ${this.minShift}, depth ${this.depth}), try a smaller query or a coarser index binning scheme`);s.push([a,l])}return s}}function QQ(e){return/^[\u0000-\u007F]*$/.test(e)}const Na=typeof TextDecoder<"u"?new TextDecoder("utf8"):void 0;class ZQ{constructor({path:t,filehandle:n,url:r,tbiPath:i,tbiUrl:o,tbiFilehandle:s,csiPath:a,csiUrl:l,csiFilehandle:c,renameRefSeqs:u=h=>h,chunkCacheSize:f=5*2**20}){if(n)this.filehandle=n;else if(t)this.filehandle=new qt(t);else if(r)this.filehandle=new ur(r);else throw new TypeError("must provide either filehandle or path");if(s)this.index=new La({filehandle:s,renameRefSeqs:u});else if(c)this.index=new Id({filehandle:c,renameRefSeqs:u});else if(i)this.index=new La({filehandle:new qt(i),renameRefSeqs:u});else if(a)this.index=new Id({filehandle:new qt(a),renameRefSeqs:u});else if(t)this.index=new La({filehandle:new qt(`${t}.tbi`),renameRefSeqs:u});else if(l)this.index=new Id({filehandle:new ur(l)});else if(o)this.index=new La({filehandle:new ur(o)});else if(r)this.index=new La({filehandle:new ur(`${r}.tbi`)});else throw new TypeError("must provide one of tbiFilehandle, tbiPath, csiFilehandle, csiPath, tbiUrl, csiUrl");this.renameRefSeq=u,this.chunkCache=new hs({cache:new dd({maxSize:Math.floor(f/65536)}),fill:(h,d)=>this.readChunk(h,{signal:d})})}async getLines(t,n,r,i){var o,s;let a,l={},c;typeof i=="function"?c=i:(l=i,c=i.lineCallback,a=i.signal);const u=await this.index.getMetadata(l);hu(a);const f=n??0,h=r??u.maxRefLength;if(!(f<=h))throw new TypeError("invalid start and end coordinates. start must be less than or equal to end");if(f===h)return;const d=await this.index.blocksForRange(t,f,h,l);hu(a);for(const p of d){const{buffer:m,cpositions:b,dpositions:g}=await this.chunkCache.get(p.toString(),p,a);hu(a);let y=0,v=0;const w=(o=Na==null?void 0:Na.decode(m))!==null&&o!==void 0?o:m.toString(),S=m.length<5e8&&QQ(w);for(;y<w.length;){let E,k;if(S){if(k=w.indexOf(`
|
|
3925
|
+
)`},Symbol.toStringTag,{value:"Module"}))).map(([e,t])=>[e,u5.parse(t.trim())]));function hb(e){const t=new Set(["uint","int","float","long"]);return{...e,fields:e.fields.map(n=>({...n,isArray:n.size&&n.type!=="char",arrayIsNumeric:n.size&&t.has(n.type),isNumeric:!n.size&&t.has(n.type)})).filter(n=>!!n.name)}}const wQ={".":0,"-":-1,"+":1};function vQ(e){var t;return e.length>=12&&!Number.isNaN(parseInt(e[9],10))&&((t=e[10])===null||t===void 0?void 0:t.split(",").filter(n=>!!n).length)===parseInt(e[9],10)}class xQ{constructor(t={}){if(t.autoSql)this.autoSql=hb(yQ.parse(t.autoSql));else if(t.type){if(!fb[t.type])throw new Error("Type not found");this.autoSql=hb(fb[t.type])}else this.autoSql=hb(fb.defaultBedSchema),this.attemptDefaultBed=!0}parseLine(t,n={}){const{autoSql:r}=this,{uniqueId:i}=n,o=Array.isArray(t)?t:t.split(" ");let s={};if(!this.attemptDefaultBed||this.attemptDefaultBed&&vQ(o))for(let a=0;a<r.fields.length;a++){const l=r.fields[a];let c=o[a];const{isNumeric:u,isArray:f,arrayIsNumeric:h,name:d}=l;if(c==null)break;if(c!=="."){if(u){const p=Number(c);c=Number.isNaN(p)?c:p}else f&&(c=c.split(","),c[c.length-1]===""&&c.pop(),h&&(c=c.map(Number)));s[d]=c}}else{const a=["chrom","chromStart","chromEnd","name"];s=Object.fromEntries(o.map((l,c)=>[a[c]||"field"+c,l])),s.chromStart=+s.chromStart,s.chromEnd=+s.chromEnd,Number.isNaN(Number.parseFloat(s.field4))||(s.score=+s.field4,delete s.field4),(s.field5==="+"||s.field5==="-")&&(s.strand=s.field5,delete s.field5)}return i&&(s.uniqueId=i),s.strand=wQ[s.strand]||0,s.chrom=decodeURIComponent(s.chrom),s}}const AQ=Object.freeze(Object.defineProperty({__proto__:null,default:xQ},Symbol.toStringTag,{value:"Module"}));let f5=class{constructor(t,n){this.blockPosition=t,this.dataPosition=n}toString(){return`${this.blockPosition}:${this.dataPosition}`}compareTo(t){return this.blockPosition-t.blockPosition||this.dataPosition-t.dataPosition}static min(...t){let n,r=0;for(;!n;r+=1)n=t[r];for(;r<t.length;r+=1)n.compareTo(t[r])>0&&(n=t[r]);return n}};function Fa(e,t=0,n=!1){if(n)throw new Error("big-endian virtual file offsets not implemented");return new f5(e[t+7]*1099511627776+e[t+6]*4294967296+e[t+5]*16777216+e[t+4]*65536+e[t+3]*256+e[t+2],e[t+1]<<8|e[t])}let db=class{constructor(t,n,r,i){this.minv=t,this.maxv=n,this.bin=r,this._fetchedSize=i}toUniqueString(){return`${this.minv.toString()}..${this.maxv.toString()} (bin ${this.bin}, fetchedSize ${this.fetchedSize()})`}toString(){return this.toUniqueString()}compareTo(t){return this.minv.compareTo(t.minv)||this.maxv.compareTo(t.maxv)||this.bin-t.bin}fetchedSize(){return this._fetchedSize!==void 0?this._fetchedSize:this.maxv.blockPosition+65536-this.minv.blockPosition}};function EQ(e){return new Promise(t=>setTimeout(t,e))}function SQ(e){if(e&&e.aborted)if(typeof DOMException>"u"){const t=new Error("aborted");throw t.code="ERR_ABORTED",t}else throw new DOMException("aborted","AbortError")}function CQ(e,t){return t.minv.blockPosition-e.maxv.blockPosition<65e3&&t.maxv.blockPosition-e.minv.blockPosition<5e6}function kQ(e={}){return"aborted"in e?{signal:e}:e}function h5(e,t){const n=[];let r;if(e.length===0)return e;e.sort((i,o)=>{const s=i.minv.blockPosition-o.minv.blockPosition;return s===0?i.minv.dataPosition-o.minv.dataPosition:s});for(const i of e)(!t||i.maxv.compareTo(t)>0)&&(r===void 0?(n.push(i),r=i):CQ(r,i)?i.maxv.compareTo(r.maxv)>0&&(r.maxv=i.maxv):(n.push(i),r=i));return n}function d5(e,t){return{lineCount:fd.fromBytesLE(Array.prototype.slice.call(e,t,t+8),!0).toNumber()}}function Sd(e,t){return e?e.compareTo(t)>0?t:e:t}function TQ(e,t=n=>n){let n=0,r=0;const i=[],o={};for(let s=0;s<e.length;s+=1)if(!e[s]){if(r<s){let a=e.toString("utf8",r,s);a=t(a),i[n]=a,o[a]=n}r=s+1,n+=1}return{refNameToId:o,refIdToName:i}}let p5=class{constructor({filehandle:t,renameRefSeq:n=r=>r}){this.filehandle=t,this.renameRefSeq=n}};const IQ=21578050;function _Q(e,t){return e-e%t}function DQ(e,t){return e-e%t+t}function RQ(e,t){return t-=1,[[0,0],[1+(e>>26),1+(t>>26)],[9+(e>>23),9+(t>>23)],[73+(e>>20),73+(t>>20)],[585+(e>>17),585+(t>>17)],[4681+(e>>14),4681+(t>>14)]]}class Ma extends p5{async lineCount(t,n){var r,i;return((i=(r=(await this.parse(n)).indices[t])===null||r===void 0?void 0:r.stats)===null||i===void 0?void 0:i.lineCount)||0}async _parse(t){const n=await this.filehandle.readFile(t);if(n.readUInt32LE(0)!==IQ)throw new Error("Not a BAI file");const r=n.readInt32LE(4),o=((1<<(5+1)*3)-1)/7;let s=8,a;const l=new Array(r);for(let c=0;c<r;c++){const u=n.readInt32LE(s);let f;s+=4;const h={};for(let m=0;m<u;m+=1){const b=n.readUInt32LE(s);if(s+=4,b===o+1)s+=4,f=d5(n,s+16),s+=32;else{if(b>o+1)throw new Error("bai index contains too many bins, please use CSI");{const g=n.readInt32LE(s);s+=4;const y=new Array(g);for(let v=0;v<g;v++){const w=Fa(n,s);s+=8;const S=Fa(n,s);s+=8,a=Sd(a,w),y[v]=new db(w,S,b)}h[b]=y}}}const d=n.readInt32LE(s);s+=4;const p=new Array(d);for(let m=0;m<d;m++){const b=Fa(n,s);s+=8,a=Sd(a,b),p[m]=b}l[c]={binIndex:h,linearIndex:p,stats:f}}return{bai:!0,firstDataLine:a,maxBlockSize:65536,indices:l,refCount:r}}async indexCov(t,n,r,i={}){const s=n!==void 0,l=(await this.parse(i)).indices[t];if(!l)return[];const{linearIndex:c=[],stats:u}=l;if(c.length===0)return[];const f=r===void 0?(c.length-1)*16384:DQ(r,16384),h=n===void 0?0:_Q(n,16384),d=s?new Array((f-h)/16384):new Array(c.length-1),p=c[c.length-1].blockPosition;if(f>(c.length-1)*16384)throw new Error("query outside of range of linear index");let m=c[h/16384].blockPosition;for(let b=h/16384,g=0;b<f/16384;b++,g++)d[g]={score:c[b+1].blockPosition-m,start:b*16384,end:b*16384+16384},m=c[b+1].blockPosition;return d.map(b=>({...b,score:b.score*((u==null?void 0:u.lineCount)||0)/p}))}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const o=await this.parse(i);if(!o)return[];const s=o.indices[t];if(!s)return[];const a=RQ(n,r),l=[];for(const[d,p]of a)for(let m=d;m<=p;m++)if(s.binIndex[m]){const b=s.binIndex[m];for(const g of b)l.push(new db(g.minv,g.maxv,m))}const c=s.linearIndex.length;let u;const f=Math.min(n>>14,c-1),h=Math.min(r>>14,c-1);for(let d=f;d<=h;++d){const p=s.linearIndex[d];p&&(!u||p.compareTo(u)<0)&&(u=p)}return h5(l,u)}async parse(t={}){return this.setupP||(this.setupP=this._parse(t).catch(n=>{throw this.setupP=void 0,n})),this.setupP}async hasRefSeq(t,n={}){var r;return!!(!((r=(await this.parse(n)).indices[t])===null||r===void 0)&&r.binIndex)}}let pb=[0,1996959894,3993919788,2567524794,124634137,1886057615,3915621685,2657392035,249268274,2044508324,3772115230,2547177864,162941995,2125561021,3887607047,2428444049,498536548,1789927666,4089016648,2227061214,450548861,1843258603,4107580753,2211677639,325883990,1684777152,4251122042,2321926636,335633487,1661365465,4195302755,2366115317,997073096,1281953886,3579855332,2724688242,1006888145,1258607687,3524101629,2768942443,901097722,1119000684,3686517206,2898065728,853044451,1172266101,3705015759,2882616665,651767980,1373503546,3369554304,3218104598,565507253,1454621731,3485111705,3099436303,671266974,1594198024,3322730930,2970347812,795835527,1483230225,3244367275,3060149565,1994146192,31158534,2563907772,4023717930,1907459465,112637215,2680153253,3904427059,2013776290,251722036,2517215374,3775830040,2137656763,141376813,2439277719,3865271297,1802195444,476864866,2238001368,4066508878,1812370925,453092731,2181625025,4111451223,1706088902,314042704,2344532202,4240017532,1658658271,366619977,2362670323,4224994405,1303535960,984961486,2747007092,3569037538,1256170817,1037604311,2765210733,3554079995,1131014506,879679996,2909243462,3663771856,1141124467,855842277,2852801631,3708648649,1342533948,654459306,3188396048,3373015174,1466479909,544179635,3110523913,3462522015,1591671054,702138776,2966460450,3352799412,1504918807,783551873,3082640443,3233442989,3988292384,2596254646,62317068,1957810842,3939845945,2647816111,81470997,1943803523,3814918930,2489596804,225274430,2053790376,3826175755,2466906013,167816743,2097651377,4027552580,2265490386,503444072,1762050814,4150417245,2154129355,426522225,1852507879,4275313526,2312317920,282753626,1742555852,4189708143,2394877945,397917763,1622183637,3604390888,2714866558,953729732,1340076626,3518719985,2797360999,1068828381,1219638859,3624741850,2936675148,906185462,1090812512,3747672003,2825379669,829329135,1181335161,3412177804,3160834842,628085408,1382605366,3423369109,3138078467,570562233,1426400815,3317316542,2998733608,733239954,1555261956,3268935591,3050360625,752459403,1541320221,2607071920,3965973030,1969922972,40735498,2617837225,3943577151,1913087877,83908371,2512341634,3803740692,2075208622,213261112,2463272603,3855990285,2094854071,198958881,2262029012,4057260610,1759359992,534414190,2176718541,4139329115,1873836001,414664567,2282248934,4279200368,1711684554,285281116,2405801727,4167216745,1634467795,376229701,2685067896,3608007406,1308918612,956543938,2808555105,3495958263,1231636301,1047427035,2932959818,3654703836,1088359270,936918e3,2847714899,3736837829,1202900863,817233897,3183342108,3401237130,1404277552,615818150,3134207493,3453421203,1423857449,601450431,3009837614,3294710456,1567103746,711928724,3020668471,3272380065,1510334235,755167117];typeof Int32Array<"u"&&(pb=new Int32Array(pb));const BQ=(e,t)=>{let n=t===0?0:~~t^-1;for(let r=0;r<e.length;r++)n=pb[(n^e[r])&255]^n>>>8;return n^-1},g5=(e,t)=>ot.Buffer.from(e,t);function FQ(e,t){const n=(r,i)=>t(g5(r),i)>>>0;return n.signed=(r,i)=>t(g5(r),i),n.unsigned=n,n.model=e,n}const MQ=FQ("crc-32",BQ),PQ=21582659,OQ=38359875;function LQ(e,t){return e*2**t}function m5(e,t){return Math.floor(e/2**t)}let Cd=class extends p5{constructor(){super(...arguments),this.maxBinNumber=0,this.depth=0,this.minShift=0}async lineCount(t,n){var r,i;return((i=(r=(await this.parse(n)).indices[t])===null||r===void 0?void 0:r.stats)===null||i===void 0?void 0:i.lineCount)||0}async indexCov(){return[]}parseAuxData(t,n){const r=t.readInt32LE(n),i=r&65536?"zero-based-half-open":"1-based-closed",o={0:"generic",1:"SAM",2:"VCF"}[r&15];if(!o)throw new Error(`invalid Tabix preset format flags ${r}`);const s={ref:t.readInt32LE(n+4),start:t.readInt32LE(n+8),end:t.readInt32LE(n+12)},a=t.readInt32LE(n+16),l=a?String.fromCharCode(a):"",c=t.readInt32LE(n+20),u=t.readInt32LE(n+24);return{columnNumbers:s,coordinateType:i,metaValue:a,metaChar:l,skipLines:c,format:o,formatFlags:r,...TQ(t.subarray(n+28,n+28+u),this.renameRefSeq)}}async _parse(t){const n=await this.filehandle.readFile(t),r=await io(n);let i;if(r.readUInt32LE(0)===PQ)i=1;else if(r.readUInt32LE(0)===OQ)i=2;else throw new Error("Not a CSI file");this.minShift=r.readInt32LE(4),this.depth=r.readInt32LE(8),this.maxBinNumber=((1<<(this.depth+1)*3)-1)/7;const o=r.readInt32LE(12),s=o>=30?this.parseAuxData(r,16):void 0,a=r.readInt32LE(16+o);let l=16+o+4,c;const u=new Array(a);for(let f=0;f<a;f++){const h=r.readInt32LE(l);l+=4;const d={};let p;for(let m=0;m<h;m++){const b=r.readUInt32LE(l);if(l+=4,b>this.maxBinNumber)p=d5(r,l+28),l+=44;else{c=Sd(c,Fa(r,l)),l+=8;const g=r.readInt32LE(l);l+=4;const y=new Array(g);for(let v=0;v<g;v+=1){const w=Fa(r,l);l+=8;const S=Fa(r,l);l+=8,c=Sd(c,w),y[v]=new db(w,S,b)}d[b]=y}}u[f]={binIndex:d,stats:p}}return{csiVersion:i,firstDataLine:c,indices:u,refCount:a,csi:!0,maxBlockSize:65536,...s}}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const s=(await this.parse(i)).indices[t];if(!s)return[];const a=this.reg2bins(n,r);if(a.length===0)return[];const l=[];for(const[c,u]of a)for(let f=c;f<=u;f++)if(s.binIndex[f]){const h=s.binIndex[f];for(const d of h)l.push(d)}return h5(l,new f5(0,0))}reg2bins(t,n){t-=1,t<1&&(t=1),n>2**50&&(n=2**34),n-=1;let r=0,i=0,o=this.minShift+this.depth*3;const s=[];for(;r<=this.depth;o-=3,i+=LQ(1,r*3),r+=1){const a=i+m5(t,o),l=i+m5(n,o);if(l-a+s.length>this.maxBinNumber)throw new Error(`query ${t}-${n} is too large for current binning scheme (shift ${this.minShift}, depth ${this.depth}), try a smaller query or a coarser index binning scheme`);s.push([a,l])}return s}async parse(t={}){return this.setupP||(this.setupP=this._parse(t).catch(n=>{throw this.setupP=void 0,n})),this.setupP}async hasRefSeq(t,n={}){var r;return!!(!((r=(await this.parse(n)).indices[t])===null||r===void 0)&&r.binIndex)}};const Zn={BAM_FPAIRED:1,BAM_FPROPER_PAIR:2,BAM_FUNMAP:4,BAM_FMUNMAP:8,BAM_FREVERSE:16,BAM_FMREVERSE:32,BAM_FREAD1:64,BAM_FREAD2:128,BAM_FSECONDARY:256,BAM_FQCFAIL:512,BAM_FDUP:1024,BAM_FSUPPLEMENTARY:2048},b5="=ACMGRSVTWYHKDBN".split(""),fu="MIDNSHP=X???????".split("");class Pa{constructor(t){this.bytes=t.bytes,this.fileOffset=t.fileOffset}get byteArray(){return this.bytes.byteArray}get flags(){return(this.byteArray.readInt32LE(this.bytes.start+16)&4294901760)>>16}get ref_id(){return this.byteArray.readInt32LE(this.bytes.start+4)}get start(){return this.byteArray.readInt32LE(this.bytes.start+8)}get end(){return this.start+this.length_on_ref}get id(){return this.fileOffset}get mq(){const t=(this.bin_mq_nl&65280)>>8;return t===255?void 0:t}get score(){return this.mq}get qual(){if(this.isSegmentUnmapped())return;const t=this.b0+this.read_name_length+this.num_cigar_ops*4+this.num_seq_bytes;return this.byteArray.subarray(t,t+this.seq_length)}get strand(){return this.isReverseComplemented()?-1:1}get b0(){return this.bytes.start+36}get name(){return this.byteArray.toString("ascii",this.b0,this.b0+this.read_name_length-1)}get tags(){const{byteArray:t}=this.bytes;let n=this.b0+this.read_name_length+this.num_cigar_ops*4+this.num_seq_bytes+this.seq_length;const r=this.bytes.end,i={};for(;n<r;){const o=String.fromCharCode(t[n],t[n+1]),s=String.fromCharCode(t[n+2]);if(n+=3,s==="A")i[o]=String.fromCharCode(t[n]),n+=1;else if(s==="i")i[o]=t.readInt32LE(n),n+=4;else if(s==="I")i[o]=t.readUInt32LE(n),n+=4;else if(s==="c")i[o]=t.readInt8(n),n+=1;else if(s==="C")i[o]=t.readUInt8(n),n+=1;else if(s==="s")i[o]=t.readInt16LE(n),n+=2;else if(s==="S")i[o]=t.readUInt16LE(n),n+=2;else if(s==="f")i[o]=t.readFloatLE(n),n+=4;else if(s==="Z"||s==="H"){const a=[];for(;n<=r;){const l=t[n++];if(l!==0)a.push(String.fromCharCode(l));else break}i[o]=a.join("")}else if(s==="B"){const a=t[n++],l=String.fromCharCode(a),c=t.readInt32LE(n);if(n+=4,l==="i")if(o==="CG"){const u=[];for(let f=0;f<c;f++){const h=t.readInt32LE(n),d=h>>4,p=fu[h&15];u.push(d+p),n+=4}i[o]=u.join("")}else{const u=[];for(let f=0;f<c;f++)u.push(t.readInt32LE(n)),n+=4;i[o]=u}else if(l==="I")if(o==="CG"){const u=[];for(let f=0;f<c;f++){const h=t.readUInt32LE(n),d=h>>4,p=fu[h&15];u.push(d+p),n+=4}i[o]=u.join("")}else{const u=[];for(let f=0;f<c;f++)u.push(t.readUInt32LE(n)),n+=4;i[o]=u}else if(l==="s"){const u=[];for(let f=0;f<c;f++)u.push(t.readInt16LE(n)),n+=2;i[o]=u}else if(l==="S"){const u=[];for(let f=0;f<c;f++)u.push(t.readUInt16LE(n)),n+=2;i[o]=u}else if(l==="c"){const u=[];for(let f=0;f<c;f++)u.push(t.readInt8(n)),n+=1;i[o]=u}else if(l==="C"){const u=[];for(let f=0;f<c;f++)u.push(t.readUInt8(n)),n+=1;i[o]=u}else if(l==="f"){const u=[];for(let f=0;f<c;f++)u.push(t.readFloatLE(n)),n+=4;i[o]=u}}else{console.error("Unknown BAM tag type",s);break}}return i}isPaired(){return!!(this.flags&Zn.BAM_FPAIRED)}isProperlyPaired(){return!!(this.flags&Zn.BAM_FPROPER_PAIR)}isSegmentUnmapped(){return!!(this.flags&Zn.BAM_FUNMAP)}isMateUnmapped(){return!!(this.flags&Zn.BAM_FMUNMAP)}isReverseComplemented(){return!!(this.flags&Zn.BAM_FREVERSE)}isMateReverseComplemented(){return!!(this.flags&Zn.BAM_FMREVERSE)}isRead1(){return!!(this.flags&Zn.BAM_FREAD1)}isRead2(){return!!(this.flags&Zn.BAM_FREAD2)}isSecondary(){return!!(this.flags&Zn.BAM_FSECONDARY)}isFailedQc(){return!!(this.flags&Zn.BAM_FQCFAIL)}isDuplicate(){return!!(this.flags&Zn.BAM_FDUP)}isSupplementary(){return!!(this.flags&Zn.BAM_FSUPPLEMENTARY)}get cigarAndLength(){if(this.isSegmentUnmapped())return{length_on_ref:0,CIGAR:""};const t=this.num_cigar_ops;let n=this.b0+this.read_name_length;const r=[];let i=this.byteArray.readInt32LE(n),o=i>>4,s=fu[i&15];if(s==="S"&&o===this.seq_length)return n+=4,i=this.byteArray.readInt32LE(n),o=i>>4,s=fu[i&15],s!=="N"&&console.warn("CG tag with no N tag"),{CIGAR:this.tags.CG,length_on_ref:o};{let a=0;for(let l=0;l<t;++l)i=this.byteArray.readInt32LE(n),o=i>>4,s=fu[i&15],r.push(o+s),s!=="H"&&s!=="S"&&s!=="I"&&(a+=o),n+=4;return{CIGAR:r.join(""),length_on_ref:a}}}get length_on_ref(){return this.cigarAndLength.length_on_ref}get CIGAR(){return this.cigarAndLength.CIGAR}get num_cigar_ops(){return this.flag_nc&65535}get read_name_length(){return this.bin_mq_nl&255}get num_seq_bytes(){return this.seq_length+1>>1}get seq(){const{byteArray:t}=this.bytes,n=this.b0+this.read_name_length+this.num_cigar_ops*4,r=this.num_seq_bytes,i=this.seq_length,o=[];let s=0;for(let a=0;a<r;++a){const l=t[n+a];o.push(b5[(l&240)>>4]),s++,s<i&&(o.push(b5[l&15]),s++)}return o.join("")}get pair_orientation(){if(!this.isSegmentUnmapped()&&!this.isMateUnmapped()&&this.ref_id===this.next_refid){const t=this.isReverseComplemented()?"R":"F",n=this.isMateReverseComplemented()?"R":"F";let r=" ",i=" ";this.isRead1()?(r="1",i="2"):this.isRead2()&&(r="2",i="1");const o=[];return this.template_length>0?(o[0]=t,o[1]=r,o[2]=n,o[3]=i):(o[2]=t,o[3]=r,o[0]=n,o[1]=i),o.join("")}}get bin_mq_nl(){return this.byteArray.readInt32LE(this.bytes.start+12)}get flag_nc(){return this.byteArray.readInt32LE(this.bytes.start+16)}get seq_length(){return this.byteArray.readInt32LE(this.bytes.start+20)}get next_refid(){return this.byteArray.readInt32LE(this.bytes.start+24)}get next_pos(){return this.byteArray.readInt32LE(this.bytes.start+28)}get template_length(){return this.byteArray.readInt32LE(this.bytes.start+32)}toJSON(){const t={};for(const n of Object.keys(this))n.startsWith("_")||n==="bytes"||(t[n]=this[n]);return t}}function kd(e,t){const n=Object.getOwnPropertyDescriptor(e.prototype,t);if(!n)throw new Error("OH NO, NO PROPERTY DESCRIPTOR");const r=n.get;if(!r)throw new Error("OH NO, NOT A GETTER");Object.defineProperty(e.prototype,t,{get(){const i=r.call(this);return Object.defineProperty(this,t,{value:i}),i}})}kd(Pa,"tags"),kd(Pa,"cigarAndLength"),kd(Pa,"seq"),kd(Pa,"qual");function y5(e){const t=e.split(/\r?\n/),n=[];for(const r of t){const[i,...o]=r.split(/\t/);i&&n.push({tag:i.slice(1),data:o.map(s=>{const a=s.indexOf(":"),l=s.slice(0,a),c=s.slice(a+1);return{tag:l,value:c}})})}return n}const w5=21840194,v5=65536;async function NQ(e){let t=[];for await(const n of e)t=t.concat(n);return t}class zQ{read(){throw new Error("never called")}stat(){throw new Error("never called")}readFile(){throw new Error("never called")}close(){throw new Error("never called")}}class x5{constructor({bamFilehandle:t,bamPath:n,bamUrl:r,baiPath:i,baiFilehandle:o,baiUrl:s,csiPath:a,csiFilehandle:l,csiUrl:c,htsget:u,yieldThreadTime:f=100,renameRefSeqs:h=d=>d}){if(this.htsget=!1,this.featureCache=new hs({cache:new dd({maxSize:50}),fill:async(d,p)=>{const{chunk:m,opts:b}=d,{data:g,cpositions:y,dpositions:v}=await this._readChunk({chunk:m,opts:{...b,signal:p}});return this.readBamFeatures(g,y,v,m)}}),this.renameRefSeq=h,t)this.bam=t;else if(n)this.bam=new qt(n);else if(r)this.bam=new ur(r);else if(u)this.htsget=!0,this.bam=new zQ;else throw new Error("unable to initialize bam");if(l)this.index=new Cd({filehandle:l});else if(a)this.index=new Cd({filehandle:new qt(a)});else if(c)this.index=new Cd({filehandle:new ur(c)});else if(o)this.index=new Ma({filehandle:o});else if(i)this.index=new Ma({filehandle:new qt(i)});else if(s)this.index=new Ma({filehandle:new ur(s)});else if(n)this.index=new Ma({filehandle:new qt(`${n}.bai`)});else if(r)this.index=new Ma({filehandle:new ur(`${r}.bai`)});else if(u)this.htsget=!0;else throw new Error("unable to infer index format");this.yieldThreadTime=f}async getHeaderPre(t){const n=kQ(t);if(!this.index)return;const r=await this.index.parse(n),i=r.firstDataLine?r.firstDataLine.blockPosition+65535:void 0;let o;if(i){const u=i+v5,f=await this.bam.read(ot.Buffer.alloc(u),0,u,0,n);if(!f.bytesRead)throw new Error("Error reading header");o=f.buffer.subarray(0,Math.min(f.bytesRead,i))}else o=await this.bam.readFile(n);const s=await io(o);if(s.readInt32LE(0)!==w5)throw new Error("Not a BAM file");const a=s.readInt32LE(4);this.header=s.toString("utf8",8,8+a);const{chrToIndex:l,indexToChr:c}=await this._readRefSeqs(a+8,65535,n);return this.chrToIndex=l,this.indexToChr=c,y5(this.header)}getHeader(t){return this.headerP||(this.headerP=this.getHeaderPre(t).catch(n=>{throw this.headerP=void 0,n})),this.headerP}async getHeaderText(t={}){return await this.getHeader(t),this.header}async _readRefSeqs(t,n,r){if(t>n)return this._readRefSeqs(t,n*2,r);const i=n+v5,{bytesRead:o,buffer:s}=await this.bam.read(ot.Buffer.alloc(i),0,n,0,r);if(!o)throw new Error("Error reading refseqs from header");const a=await io(s.subarray(0,Math.min(o,n))),l=a.readInt32LE(t);let c=t+4;const u={},f=[];for(let h=0;h<l;h+=1){const d=a.readInt32LE(c),p=this.renameRefSeq(a.toString("utf8",c+4,c+4+d-1)),m=a.readInt32LE(c+d+4);if(u[p]=h,f.push({refName:p,length:m}),c=c+8+d,c>a.length)return console.warn(`BAM header is very big. Re-fetching ${n} bytes.`),this._readRefSeqs(t,n*2,r)}return{chrToIndex:u,indexToChr:f}}async getRecordsForRange(t,n,r,i){return NQ(this.streamRecordsForRange(t,n,r,i))}async*streamRecordsForRange(t,n,r,i){var o;await this.getHeader(i);const s=(o=this.chrToIndex)===null||o===void 0?void 0:o[t];if(s===void 0||!this.index)yield[];else{const a=await this.index.blocksForRange(s,n-1,r,i);yield*this._fetchChunkFeatures(a,s,n,r,i)}}async*_fetchChunkFeatures(t,n,r,i,o={}){const{viewAsPairs:s}=o,a=[];let l=!1;for(const c of t){const u=await this.featureCache.get(c.toString(),{chunk:c,opts:o},o.signal),f=[];for(const h of u)if(h.ref_id===n)if(h.start>=i){l=!0;break}else h.end>=r&&f.push(h);if(a.push(f),yield f,l)break}SQ(o.signal),s&&(yield this.fetchPairs(n,a,o))}async fetchPairs(t,n,r){const{pairAcrossChr:i,maxInsertSize:o=2e5}=r,s={},a={};n.map(h=>{const d={};for(const p of h){const m=p.name,b=p.id;d[m]||(d[m]=0),d[m]++,a[b]=1}for(const[p,m]of Object.entries(d))m===1&&(s[p]=!0)});const l=[];n.map(h=>{for(const d of h){const p=d.name,m=d.start,b=d.next_pos,g=d.next_refid;this.index&&s[p]&&(i||g===t&&Math.abs(m-b)<o)&&l.push(this.index.blocksForRange(g,b,b+1,r))}});const c=new Map,u=await Promise.all(l);for(const h of u.flat())c.has(h.toString())||c.set(h.toString(),h);return(await Promise.all([...c.values()].map(async h=>{const{data:d,cpositions:p,dpositions:m,chunk:b}=await this._readChunk({chunk:h,opts:r}),g=[];for(const y of await this.readBamFeatures(d,p,m,b))s[y.name]&&!a[y.id]&&g.push(y);return g}))).flat()}async _readRegion(t,n,r={}){const{bytesRead:i,buffer:o}=await this.bam.read(ot.Buffer.alloc(n),0,n,t,r);return o.subarray(0,Math.min(i,n))}async _readChunk({chunk:t,opts:n}){const r=await this._readRegion(t.minv.blockPosition,t.fetchedSize(),n),{buffer:i,cpositions:o,dpositions:s}=await RC(r,t);return{data:i,cpositions:o,dpositions:s,chunk:t}}async readBamFeatures(t,n,r,i){let o=0;const s=[];let a=0,l=+Date.now();for(;o+4<t.length;){const c=t.readInt32LE(o),u=o+4+c-1;if(r){for(;o+i.minv.dataPosition>=r[a++];);a--}if(u<t.length){const f=new Pa({bytes:{byteArray:t,start:o,end:u},fileOffset:n.length>0?n[a]*256+(o-r[a])+i.minv.dataPosition+1:MQ.signed(t.slice(o,u))});s.push(f),this.yieldThreadTime&&+Date.now()-l>this.yieldThreadTime&&(await EQ(1),l=+Date.now())}o=u+1}return s}async hasRefSeq(t){var n,r;const i=(n=this.chrToIndex)===null||n===void 0?void 0:n[t];return i===void 0?!1:(r=this.index)===null||r===void 0?void 0:r.hasRefSeq(i)}async lineCount(t){var n;const r=(n=this.chrToIndex)===null||n===void 0?void 0:n[t];return r===void 0||!this.index?0:this.index.lineCount(r)}async indexCov(t,n,r){var i;if(!this.index)return[];await this.index.parse();const o=(i=this.chrToIndex)===null||i===void 0?void 0:i[t];return o===void 0?[]:this.index.indexCov(o,n,r)}async blocksForRange(t,n,r,i){var o;if(!this.index)return[];await this.index.parse();const s=(o=this.chrToIndex)===null||o===void 0?void 0:o[t];return s===void 0?[]:this.index.blocksForRange(s,n,r,i)}}async function A5(e,t){const n=await Promise.all(e.map(async r=>{const{url:i,headers:o}=r;if(i.startsWith("data:"))return ot.Buffer.from(i.split(",")[1],"base64");{const{referer:s,...a}=o,l=await fetch(i,{...t,headers:{...t==null?void 0:t.headers,...a}});if(!l.ok)throw new Error(`HTTP ${l.status} fetching ${i}: ${await l.text()}`);return ot.Buffer.from(await l.arrayBuffer())}}));return ot.Buffer.concat(await Promise.all(n.map(r=>io(r))))}class UQ extends x5{constructor(t){super({htsget:!0}),this.baseUrl=t.baseUrl,this.trackId=t.trackId}async*streamRecordsForRange(t,n,r,i){var o;const a=`${`${this.baseUrl}/${this.trackId}`}?referenceName=${t}&start=${n}&end=${r}&format=BAM`,l=(o=this.chrToIndex)===null||o===void 0?void 0:o[t];if(l===void 0)yield[];else{const c=await fetch(a,{...i});if(!c.ok)throw new Error(`HTTP ${c.status} fetching ${a}: ${await c.text()}`);const u=await c.json(),f=await A5(u.htsget.urls.slice(1),i);yield*this._fetchChunkFeatures([{buffer:f,_fetchedSize:void 0,bin:0,compareTo(){return 0},toUniqueString(){return`${t}_${n}_${r}`},fetchedSize(){return 0},minv:{dataPosition:0,blockPosition:0,compareTo:()=>0},maxv:{dataPosition:Number.MAX_SAFE_INTEGER,blockPosition:0,compareTo:()=>0},toString(){return`${t}_${n}_${r}`}}],l,n,r,i)}}async _readChunk({chunk:t}){if(!t.buffer)throw new Error("expected chunk.buffer in htsget");return{data:t.buffer,cpositions:[],dpositions:[],chunk:t}}async getHeader(t={}){const n=`${this.baseUrl}/${this.trackId}?referenceName=na&class=header`,r=await fetch(n,t);if(!r.ok)throw new Error(`HTTP ${r.status} fetching ${n}: ${await r.text()}`);const i=await r.json(),o=await A5(i.htsget.urls,t);if(o.readInt32LE(0)!==w5)throw new Error("Not a BAM file");const s=o.readInt32LE(4),a=o.toString("utf8",8,8+s),l=y5(a),c=[],u={},f=l.filter(h=>h.tag==="SQ");for(const[h,d]of f.entries()){let p="",m=0;for(const b of d.data)b.tag==="SN"?p=b.value:b.tag==="LN"&&(m=+b.value);u[p]=h,c[h]={refName:p,length:m}}return this.chrToIndex=u,this.indexToChr=c,l}}const HQ=Object.freeze(Object.defineProperty({__proto__:null,BAI:Ma,BamFile:x5,BamRecord:Pa,CSI:Cd,HtsgetFile:UQ},Symbol.toStringTag,{value:"Module"}));function E5(e){if(e.greaterThan(Number.MAX_SAFE_INTEGER)||e.lessThan(Number.MIN_SAFE_INTEGER))throw new Error("integer overflow");return e.toNumber()}class GQ extends Error{}function hu(e){if(e&&e.aborted){if(typeof DOMException<"u")throw new DOMException("aborted","AbortError");{const t=new GQ("aborted");throw t.code="ERR_ABORTED",t}}}function jQ(e,t){return t.minv.blockPosition-e.maxv.blockPosition<65e3&&t.maxv.blockPosition-e.minv.blockPosition<5e6}function S5(e,t){const n=[];let r=null;return e.length===0?e:(e.sort(function(i,o){const s=i.minv.blockPosition-o.minv.blockPosition;return s!==0?s:i.minv.dataPosition-o.minv.dataPosition}),e.forEach(i=>{(!t||i.maxv.compareTo(t)>0)&&(r===null?(n.push(i),r=i):jQ(r,i)?i.maxv.compareTo(r.maxv)>0&&(r.maxv=i.maxv):(n.push(i),r=i))}),n)}class gb{constructor(t,n){this.blockPosition=t,this.dataPosition=n}toString(){return`${this.blockPosition}:${this.dataPosition}`}compareTo(t){return this.blockPosition-t.blockPosition||this.dataPosition-t.dataPosition}}function Oa(e,t=0,n=!1){if(n)throw new Error("big-endian virtual file offsets not implemented");return new gb(e[t+7]*1099511627776+e[t+6]*4294967296+e[t+5]*16777216+e[t+4]*65536+e[t+3]*256+e[t+2],e[t+1]<<8|e[t])}class Td{constructor(t,n,r,i=void 0){this.minv=t,this.maxv=n,this.bin=r,this._fetchedSize=i}toUniqueString(){return`${this.minv}..${this.maxv} (bin ${this.bin}, fetchedSize ${this.fetchedSize()})`}toString(){return this.toUniqueString()}compareTo(t){return this.minv.compareTo(t.minv)||this.maxv.compareTo(t.maxv)||this.bin-t.bin}fetchedSize(){return this._fetchedSize!==void 0?this._fetchedSize:this.maxv.blockPosition+65536-this.minv.blockPosition}}class C5{constructor({filehandle:t,renameRefSeqs:n=r=>r}){this.filehandle=t,this.renameRefSeq=n}async getMetadata(t={}){const{indices:n,...r}=await this.parse(t);return r}_findFirstData(t,n){return t?t.compareTo(n)>0?n:t:n}async parse(t={}){return this.parseP||(this.parseP=this._parse(t).catch(n=>{throw this.parseP=void 0,n})),this.parseP}async hasRefSeq(t,n={}){var r;return!!(!((r=(await this.parse(n)).indices[t])===null||r===void 0)&&r.binIndex)}}const VQ=21578324,k5=14;function qQ(e,t){return e+=1,t-=1,[[0,0],[1+(e>>26),1+(t>>26)],[9+(e>>23),9+(t>>23)],[73+(e>>20),73+(t>>20)],[585+(e>>17),585+(t>>17)],[4681+(e>>14),4681+(t>>14)]]}class La extends C5{async lineCount(t,n={}){const r=await this.parse(n),i=r.refNameToId[t];if(i===void 0||!r.indices[i])return-1;const{stats:s}=r.indices[i];return s?s.lineCount:-1}async _parse(t={}){const n=await this.filehandle.readFile(t),r=await io(n);if(hu(t.signal),r.readUInt32LE(0)!==VQ)throw new Error("Not a TBI file");const i=r.readInt32LE(4),o=r.readInt32LE(8),s=o&65536?"zero-based-half-open":"1-based-closed",l={0:"generic",1:"SAM",2:"VCF"}[o&15];if(!l)throw new Error(`invalid Tabix preset format flags ${o}`);const c={ref:r.readInt32LE(12),start:r.readInt32LE(16),end:r.readInt32LE(20)},u=r.readInt32LE(24),f=5,h=((1<<(f+1)*3)-1)/7,d=2**(14+f*3),p=u?String.fromCharCode(u):null,m=r.readInt32LE(28),b=r.readInt32LE(32),{refNameToId:g,refIdToName:y}=this._parseNameBytes(r.slice(36,36+b));let v=36+b,w;return{indices:new Array(i).fill(0).map(()=>{const E=r.readInt32LE(v);v+=4;const k={};let M;for(let I=0;I<E;I+=1){const q=r.readUInt32LE(v);if(v+=4,q>h+1)throw new Error("tabix index contains too many bins, please use a CSI index");if(q===h+1){const Z=r.readInt32LE(v);v+=4,Z===2&&(M=this.parsePseudoBin(r,v)),v+=16*Z}else{const Z=r.readInt32LE(v);v+=4;const te=new Array(Z);for(let J=0;J<Z;J+=1){const ce=Oa(r,v),ae=Oa(r,v+8);v+=16,w=this._findFirstData(w,ce),te[J]=new Td(ce,ae,q)}k[q]=te}}const D=r.readInt32LE(v);v+=4;const B=new Array(D);for(let I=0;I<D;I+=1)B[I]=Oa(r,v),v+=8,w=this._findFirstData(w,B[I]);return{binIndex:k,linearIndex:B,stats:M}}),metaChar:p,maxBinNumber:h,maxRefLength:d,skipLines:m,firstDataLine:w,columnNumbers:c,coordinateType:s,format:l,refIdToName:y,refNameToId:g,maxBlockSize:65536}}parsePseudoBin(t,n){return{lineCount:E5(fd.fromBytesLE(t.slice(n+16,n+24),!0))}}_parseNameBytes(t){let n=0,r=0;const i=[],o={};for(let s=0;s<t.length;s+=1)if(!t[s]){if(r<s){let a=t.toString("utf8",r,s);a=this.renameRefSeq(a),i[n]=a,o[a]=n}r=s+1,n+=1}return{refNameToId:o,refIdToName:i}}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const o=await this.parse(i),s=o.refNameToId[t];if(s===void 0)return[];const a=o.indices[s];if(!a)return[];(a.linearIndex.length?a.linearIndex[n>>k5>=a.linearIndex.length?a.linearIndex.length-1:n>>k5]:new gb(0,0))||console.warn("querying outside of possible tabix range");const c=qQ(n,r),u=[];for(const[m,b]of c)for(let g=m;g<=b;g++)if(a.binIndex[g])for(const y of a.binIndex[g])u.push(new Td(y.minv,y.maxv,g));const f=a.linearIndex.length;let h=null;const d=Math.min(n>>14,f-1),p=Math.min(r>>14,f-1);for(let m=d;m<=p;++m){const b=a.linearIndex[m];b&&(!h||b.compareTo(h)<0)&&(h=b)}return S5(u,h)}}const $Q=21582659,WQ=38359875;function YQ(e,t){return e*2**t}function T5(e,t){return Math.floor(e/2**t)}class Id extends C5{constructor(t){super(t),this.maxBinNumber=0,this.depth=0,this.minShift=0}async lineCount(t,n={}){const r=await this.parse(n),i=r.refNameToId[t];if(i===void 0||!r.indices[i])return-1;const{stats:s}=r.indices[i];return s?s.lineCount:-1}indexCov(){throw new Error("CSI indexes do not support indexcov")}parseAuxData(t,n){const r=t.readInt32LE(n),i=r&65536?"zero-based-half-open":"1-based-closed",o={0:"generic",1:"SAM",2:"VCF"}[r&15];if(!o)throw new Error(`invalid Tabix preset format flags ${r}`);const s={ref:t.readInt32LE(n+4),start:t.readInt32LE(n+8),end:t.readInt32LE(n+12)},a=t.readInt32LE(n+16),l=a?String.fromCharCode(a):null,c=t.readInt32LE(n+20),u=t.readInt32LE(n+24),{refIdToName:f,refNameToId:h}=this._parseNameBytes(t.slice(n+28,n+28+u));return{refIdToName:f,refNameToId:h,skipLines:c,metaChar:l,columnNumbers:s,format:o,coordinateType:i}}_parseNameBytes(t){let n=0,r=0;const i=[],o={};for(let s=0;s<t.length;s+=1)if(!t[s]){if(r<s){let a=t.toString("utf8",r,s);a=this.renameRefSeq(a),i[n]=a,o[a]=n}r=s+1,n+=1}return{refNameToId:o,refIdToName:i}}async _parse(t={}){const n=await io(await this.filehandle.readFile(t));let r;if(n.readUInt32LE(0)===$Q)r=1;else if(n.readUInt32LE(0)===WQ)r=2;else throw new Error("Not a CSI file");this.minShift=n.readInt32LE(4),this.depth=n.readInt32LE(8),this.maxBinNumber=((1<<(this.depth+1)*3)-1)/7;const i=2**(this.minShift+this.depth*3),o=n.readInt32LE(12),s=o&&o>=30?this.parseAuxData(n,16):{refIdToName:[],refNameToId:{},metaChar:null,columnNumbers:{ref:0,start:1,end:2},coordinateType:"zero-based-half-open",format:"generic"},a=n.readInt32LE(16+o);let l,c=16+o+4;const u=new Array(a).fill(0).map(()=>{const f=n.readInt32LE(c);c+=4;const h={};let d;for(let p=0;p<f;p+=1){const m=n.readUInt32LE(c);if(m>this.maxBinNumber)d=this.parsePseudoBin(n,c+4),c+=48;else{const b=Oa(n,c+4);l=this._findFirstData(l,b);const g=n.readInt32LE(c+12);c+=16;const y=new Array(g);for(let v=0;v<g;v+=1){const w=Oa(n,c),S=Oa(n,c+8);c+=16,y[v]=new Td(w,S,m)}h[m]=y}}return{binIndex:h,stats:d}});return{...s,csi:!0,refCount:a,maxBlockSize:65536,firstDataLine:l,csiVersion:r,indices:u,depth:this.depth,maxBinNumber:this.maxBinNumber,maxRefLength:i}}parsePseudoBin(t,n){return{lineCount:E5(fd.fromBytesLE(t.slice(n+28,n+36),!0))}}async blocksForRange(t,n,r,i={}){n<0&&(n=0);const o=await this.parse(i),s=o.refNameToId[t];if(s===void 0)return[];const a=o.indices[s];if(!a)return[];const l=this.reg2bins(n,r),c=[];for(const[u,f]of l)for(let h=u;h<=f;h++)if(a.binIndex[h])for(const d of a.binIndex[h])c.push(new Td(d.minv,d.maxv,h));return S5(c,new gb(0,0))}reg2bins(t,n){t-=1,t<1&&(t=1),n>2**50&&(n=2**34),n-=1;let r=0,i=0,o=this.minShift+this.depth*3;const s=[];for(;r<=this.depth;o-=3,i+=YQ(1,r*3),r+=1){const a=i+T5(t,o),l=i+T5(n,o);if(l-a+s.length>this.maxBinNumber)throw new Error(`query ${t}-${n} is too large for current binning scheme (shift ${this.minShift}, depth ${this.depth}), try a smaller query or a coarser index binning scheme`);s.push([a,l])}return s}}function QQ(e){return/^[\u0000-\u007F]*$/.test(e)}const Na=typeof TextDecoder<"u"?new TextDecoder("utf8"):void 0;class ZQ{constructor({path:t,filehandle:n,url:r,tbiPath:i,tbiUrl:o,tbiFilehandle:s,csiPath:a,csiUrl:l,csiFilehandle:c,renameRefSeqs:u=h=>h,chunkCacheSize:f=5*2**20}){if(n)this.filehandle=n;else if(t)this.filehandle=new qt(t);else if(r)this.filehandle=new ur(r);else throw new TypeError("must provide either filehandle or path");if(s)this.index=new La({filehandle:s,renameRefSeqs:u});else if(c)this.index=new Id({filehandle:c,renameRefSeqs:u});else if(i)this.index=new La({filehandle:new qt(i),renameRefSeqs:u});else if(a)this.index=new Id({filehandle:new qt(a),renameRefSeqs:u});else if(t)this.index=new La({filehandle:new qt(`${t}.tbi`),renameRefSeqs:u});else if(l)this.index=new Id({filehandle:new ur(l)});else if(o)this.index=new La({filehandle:new ur(o)});else if(r)this.index=new La({filehandle:new ur(`${r}.tbi`)});else throw new TypeError("must provide one of tbiFilehandle, tbiPath, csiFilehandle, csiPath, tbiUrl, csiUrl");this.renameRefSeq=u,this.chunkCache=new hs({cache:new dd({maxSize:Math.floor(f/65536)}),fill:(h,d)=>this.readChunk(h,{signal:d})})}async getLines(t,n,r,i){var o,s;let a,l={},c;typeof i=="function"?c=i:(l=i,c=i.lineCallback,a=i.signal);const u=await this.index.getMetadata(l);hu(a);const f=n??0,h=r??u.maxRefLength;if(!(f<=h))throw new TypeError("invalid start and end coordinates. start must be less than or equal to end");if(f===h)return;const d=await this.index.blocksForRange(t,f,h,l);hu(a);for(const p of d){const{buffer:m,cpositions:b,dpositions:g}=await this.chunkCache.get(p.toString(),p,a);hu(a);let y=0,v=0;const w=(o=Na==null?void 0:Na.decode(m))!==null&&o!==void 0?o:m.toString(),S=m.length<5e8&&QQ(w);for(;y<w.length;){let E,k;if(S){if(k=w.indexOf(`
|
|
3926
3926
|
`,y),k===-1)break;E=w.slice(y,k)}else{if(k=m.indexOf(`
|
|
3927
|
-
`,y),k===-1)break;const B=m.slice(y,k);E=(s=Na==null?void 0:Na.decode(B))!==null&&s!==void 0?s:B.toString()}if(g){for(;y+p.minv.dataPosition>=g[v++];);v--}const{startCoordinate:M,overlaps:D}=this.checkLine(u,t,f,h,E);if(D)c(E,b[v]*256+(y-g[v])+p.minv.dataPosition+1);else if(M!==void 0&&M>=h)return;y=k+1}}}async getMetadata(t={}){return this.index.getMetadata(t)}async getHeaderBuffer(t={}){const{firstDataLine:n,metaChar:r,maxBlockSize:i}=await this.getMetadata(t);hu(t.signal);const o=((n==null?void 0:n.blockPosition)||0)+i,s=await this._readRegion(0,o,t),a=await io(s);if(r){let l=-1;const c=10,u=r.charCodeAt(0);for(let f=0;f<a.length&&!(f===l+1&&a[f]!==u);f+=1)a[f]===c&&(l=f);return a.subarray(0,l+1)}return a}async getHeader(t={}){return(await this.getHeaderBuffer(t)).toString("utf8")}async getReferenceSequenceNames(t={}){return(await this.getMetadata(t)).refIdToName}checkLine(t,n,r,i,o){const{columnNumbers:s,metaChar:a,coordinateType:l,format:c}=t;if(a&&o.startsWith(a))return{overlaps:!1};let{ref:u,start:f,end:h}=s;u||(u=0),f||(f=0),h||(h=0),c==="VCF"&&(h=8);const d=Math.max(u,f,h);let p=1,m=0,b="",g=-1/0;const y=o.length;for(let v=0;v<y+1;v++)if(o[v]===" "||v===y){if(p===u){if(this.renameRefSeq(o.slice(m,v))!==n)return{overlaps:!1}}else if(p===f){if(g=parseInt(o.slice(m,v),10),l==="1-based-closed"&&(g-=1),g>=i)return{startCoordinate:g,overlaps:!1};if((h===0||h===f)&&g+1<=r)return{startCoordinate:g,overlaps:!1}}else if(c==="VCF"&&p===4)b=o.slice(m,v);else if(p===h&&(c==="VCF"?this._getVcfEnd(g,b,o.slice(m,v)):Number.parseInt(o.slice(m,v),10))<=r)return{overlaps:!1};if(m=v+1,p+=1,p>d)break}return{startCoordinate:g,overlaps:!0}}_getVcfEnd(t,n,r){let i=t+n.length;const o=r.includes("SVTYPE=TRA");if(r[0]!=="."&&!o){let s=";";for(let a=0;a<r.length;a+=1){if(s===";"&&r.slice(a,a+4)==="END="){let l=r.indexOf(";",a);l===-1&&(l=r.length),i=parseInt(r.slice(a+4,l),10);break}s=r[a]}}else if(o)return t+1;return i}async lineCount(t,n={}){return this.index.lineCount(t,n)}async _readRegion(t,n,r={}){const i=ot.Buffer.alloc(n),{bytesRead:o,buffer:s}=await this.filehandle.read(i,0,n,t,r);return s.subarray(0,o)}async readChunk(t,n={}){const r=await this._readRegion(t.minv.blockPosition,t.fetchedSize(),n);return RC(r,t)}}const XQ=Object.freeze(Object.defineProperty({__proto__:null,CSI:Id,TBI:La,TabixIndexedFile:ZQ},Symbol.toStringTag,{value:"Module"}));var _d={exports:{}},I5;function mb(){if(I5)return _d.exports;I5=1;var e=typeof Reflect=="object"?Reflect:null,t=e&&typeof e.apply=="function"?e.apply:function(S,E,k){return Function.prototype.apply.call(S,E,k)},n;e&&typeof e.ownKeys=="function"?n=e.ownKeys:Object.getOwnPropertySymbols?n=function(S){return Object.getOwnPropertyNames(S).concat(Object.getOwnPropertySymbols(S))}:n=function(S){return Object.getOwnPropertyNames(S)};function r(w){console&&console.warn&&console.warn(w)}var i=Number.isNaN||function(S){return S!==S};function o(){o.init.call(this)}_d.exports=o,_d.exports.once=g,o.EventEmitter=o,o.prototype._events=void 0,o.prototype._eventsCount=0,o.prototype._maxListeners=void 0;var s=10;function a(w){if(typeof w!="function")throw new TypeError('The "listener" argument must be of type Function. 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Ie(F,A){l("onunpipe"),F===se&&A&&A.hasUnpiped===!1&&(A.hasUnpiped=!0,Bt())}function Me(){l("onend"),L.end()}var wt=Ae(se);L.on("drain",wt);var hn=!1;function Bt(){l("cleanup"),L.removeListener("close",Wt),L.removeListener("finish",st),L.removeListener("drain",wt),L.removeListener("error",Nt),L.removeListener("unpipe",Ie),se.removeListener("end",Me),se.removeListener("end",Yt),se.removeListener("data",nt),hn=!0,pe.awaitDrain&&(!L._writableState||L._writableState.needDrain)&&wt()}se.on("data",nt);function nt(F){l("ondata");var A=L.write(F);l("dest.write",A),A===!1&&((pe.pipesCount===1&&pe.pipes===L||pe.pipesCount>1&&ye(pe.pipes,L)!==-1)&&!hn&&(l("false write response, pause",pe.awaitDrain),pe.awaitDrain++),se.pause())}function Nt(F){l("onerror",F),Yt(),L.removeListener("error",Nt),t(L,"error")===0&&S(L,F)}k(L,"error",Nt);function Wt(){L.removeListener("finish",st),Yt()}L.once("close",Wt);function st(){l("onfinish"),L.removeListener("close",Wt),Yt()}L.once("finish",st);function 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L==="data"?(pe.readableListening=this.listenerCount("readable")>0,pe.flowing!==!1&&this.resume()):L==="readable"&&!pe.endEmitted&&!pe.readableListening&&(pe.readableListening=pe.needReadable=!0,pe.flowing=!1,pe.emittedReadable=!1,l("on readable",pe.length,pe.reading),pe.length?ae(this):pe.reading||process.nextTick(H,this)),se},D.prototype.addListener=D.prototype.on,D.prototype.removeListener=function(L,R){var se=n.prototype.removeListener.call(this,L,R);return L==="readable"&&process.nextTick(Ce,this),se},D.prototype.removeAllListeners=function(L){var R=n.prototype.removeAllListeners.apply(this,arguments);return(L==="readable"||L===void 0)&&process.nextTick(Ce,this),R};function Ce(L){var R=L._readableState;R.readableListening=L.listenerCount("readable")>0,R.resumeScheduled&&!R.paused?R.flowing=!0:L.listenerCount("data")>0&&L.resume()}function H(L){l("readable nexttick read 0"),L.read(0)}D.prototype.resume=function(){var L=this._readableState;return L.flowing||(l("resume"),L.flowing=!L.readableListening,ze(this,L)),L.paused=!1,this};function ze(L,R){R.resumeScheduled||(R.resumeScheduled=!0,process.nextTick(qe,L,R))}function qe(L,R){l("resume",R.reading),R.reading||L.read(0),R.resumeScheduled=!1,L.emit("resume"),Q(L),R.flowing&&!R.reading&&L.read(0)}D.prototype.pause=function(){return l("call pause flowing=%j",this._readableState.flowing),this._readableState.flowing!==!1&&(l("pause"),this._readableState.flowing=!1,this.emit("pause")),this._readableState.paused=!0,this};function Q(L){var R=L._readableState;for(l("flow",R.flowing);R.flowing&&L.read()!==null;);}D.prototype.wrap=function(L){var R=this,se=this._readableState,pe=!1;L.on("end",function(){if(l("wrapped end"),se.decoder&&!se.ended){var Ie=se.decoder.end();Ie&&Ie.length&&R.push(Ie)}R.push(null)}),L.on("data",function(Ie){if(l("wrapped data"),se.decoder&&(Ie=se.decoder.write(Ie)),!(se.objectMode&&Ie==null)&&!(!se.objectMode&&(!Ie||!Ie.length))){var 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this._flush=="function"&&!this._readableState.destroyed?this._flush(function(f,h){c(u,f,h)}):c(this,null,null)}a.prototype.push=function(u,f){return this._transformState.needTransform=!1,o.prototype.push.call(this,u,f)},a.prototype._transform=function(u,f,h){h(new t("_transform()"))},a.prototype._write=function(u,f,h){var d=this._transformState;if(d.writecb=h,d.writechunk=u,d.writeencoding=f,!d.transforming){var p=this._readableState;(d.needTransform||p.needReadable||p.length<p.highWaterMark)&&this._read(p.highWaterMark)}},a.prototype._read=function(u){var f=this._transformState;f.writechunk!==null&&!f.transforming?(f.transforming=!0,this._transform(f.writechunk,f.writeencoding,f.afterTransform)):f.needTransform=!0},a.prototype._destroy=function(u,f){o.prototype._destroy.call(this,u,function(h){f(h)})};function c(u,f,h){if(f)return u.emit("error",f);if(h!=null&&u.push(h),u._writableState.length)throw new i;if(u._transformState.transforming)throw new r;return u.push(null)}return Bb}var Fb,K5;function rZ(){if(K5)return Fb;K5=1,Fb=t;var e=X5();za()(t,e);function t(n){if(!(this instanceof t))return new t(n);e.call(this,n)}return t.prototype._transform=function(n,r,i){i(null,n)},Fb}var Mb,J5;function iZ(){if(J5)return Mb;J5=1;var e;function t(h){var d=!1;return function(){d||(d=!0,h.apply(void 0,arguments))}}var n=Ua().codes,r=n.ERR_MISSING_ARGS,i=n.ERR_STREAM_DESTROYED;function o(h){if(h)throw h}function s(h){return h.setHeader&&typeof h.abort=="function"}function a(h,d,p,m){m=t(m);var b=!1;h.on("close",function(){b=!0}),e===void 0&&(e=Ib()),e(h,{readable:d,writable:p},function(y){if(y)return m(y);b=!0,m()});var g=!1;return function(y){if(!b&&!g){if(g=!0,s(h))return h.abort();if(typeof h.destroy=="function")return h.destroy();m(y||new i("pipe"))}}}function l(h){h()}function c(h,d){return h.pipe(d)}function u(h){return!h.length||typeof h[h.length-1]!="function"?o:h.pop()}function f(){for(var h=arguments.length,d=new Array(h),p=0;p<h;p++)d[p]=arguments[p];var m=u(d);if(Array.isArray(d[0])&&(d=d[0]),d.length<2)throw new r("streams");var b,g=d.map(function(y,v){var w=v<d.length-1,S=v>0;return a(y,w,S,function(E){b||(b=E),E&&g.forEach(l),!w&&(g.forEach(l),m(b))})});return d.reduce(c)}return Mb=f,Mb}var Pb,ek;function oZ(){if(ek)return Pb;ek=1,Pb=n;var e=mb().EventEmitter,t=za();t(n,e),n.Readable=Q5(),n.Writable=H5(),n.Duplex=Ha(),n.Transform=X5(),n.PassThrough=rZ(),n.finished=Ib(),n.pipeline=iZ(),n.Stream=n;function n(){e.call(this)}return n.prototype.pipe=function(r,i){var o=this;function s(d){r.writable&&r.write(d)===!1&&o.pause&&o.pause()}o.on("data",s);function a(){o.readable&&o.resume&&o.resume()}r.on("drain",a),!r._isStdio&&(!i||i.end!==!1)&&(o.on("end",c),o.on("close",u));var l=!1;function c(){l||(l=!0,r.end())}function u(){l||(l=!0,typeof r.destroy=="function"&&r.destroy())}function f(d){if(h(),e.listenerCount(this,"error")===0)throw d}o.on("error",f),r.on("error",f);function h(){o.removeListener("data",s),r.removeListener("drain",a),o.removeListener("end",c),o.removeListener("close",u),o.removeListener("error",f),r.removeListener("error",f),o.removeListener("end",h),o.removeListener("close",h),r.removeListener("close",h)}return o.on("end",h),o.on("close",h),r.on("close",h),r.emit("pipe",o),r},Pb}var tk=oZ(),sZ=kb();function du(e){return e.replace(/%([0-9A-Fa-f]{2})/g,(t,n)=>String.fromCharCode(parseInt(n,16)))}function nk(e,t){return String(t).replace(e,n=>`%${n.charCodeAt(0).toString(16).toUpperCase().padStart(2,"0")}`)}function pu(e){return nk(/[\n;\r\t=%&,\x00-\x1f\x7f-\xff]/g,e)}function li(e){return nk(/[\n\r\t%\x00-\x1f\x7f-\xff]/g,e)}function rk(e){if(!(e&&e.length)||e===".")return{};const t={};return e.replace(/\r?\n$/,"").split(";").forEach(n=>{const r=n.split("=",2);if(!(r[1]&&r[1].length))return;r[0]=r[0].trim();let i=t[r[0].trim()];i||(i=[],t[r[0]]=i),i.push(...r[1].split(",").map(o=>o.trim()).map(du))}),t}function ik(e){const t=e.split(" ").map(r=>r==="."||r===""?null:r);return{seq_id:t[0]&&du(t[0]),source:t[1]&&du(t[1]),type:t[2]&&du(t[2]),start:t[3]===null?null:parseInt(t[3],10),end:t[4]===null?null:parseInt(t[4],10),score:t[5]===null?null:parseFloat(t[5]),strand:t[6],phase:t[7],attributes:t[8]===null?null:rk(t[8])}}function ok(e){const t=/^\s*##\s*(\S+)\s*(.*)/.exec(e);if(!t)return null;const[,n]=t;let[,,r]=t;const i={directive:n};if(r.length&&(r=r.replace(/\r?\n$/,""),i.value=r),n==="sequence-region"){const o=r.split(/\s+/,3);return{...i,seq_id:o[0],start:o[1]&&o[1].replace(/\D/g,""),end:o[2]&&o[2].replace(/\D/g,"")}}else if(n==="genome-build"){const[o,s]=r.split(/\s+/,2);return{...i,source:o,buildName:s}}return i}function sk(e){const t=[];return Object.entries(e).forEach(([n,r])=>{if(!r)return;let i;r.hasOwnProperty("toString")?i=pu(r.toString()):Array.isArray(r)?i=r.map(pu).join(","):i=pu(r),t.push(`${pu(n)}=${i}`)}),t.length?t.join(";"):"."}function aZ(e,t){const n=e.attributes===null||e.attributes===void 0?".":sk(e.attributes),i=`${[e.seq_id===null?".":li(e.seq_id),e.source===null?".":li(e.source),e.type===null?".":li(e.type),e.start===null?".":li(e.start),e.end===null?".":li(e.end),e.score===null?".":li(e.score),e.strand===null?".":li(e.strand),e.phase===null?".":li(e.phase),n].join(" ")}
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`;return t[i]?"":(t[i]=!0,i)}function Bd(e,t){if(Array.isArray(e))return e.map(r=>Bd(r,t)).join("");const n=[aZ(e,t)];return lZ(e)&&n.push(...e.child_features.map(r=>Bd(r,t)),...e.derived_features.map(r=>Bd(r,t))),n.join("")}function ak(e){return Bd(e,{})}function lk(e){let t=`##${e.directive}`;return e.value&&(t+=` ${e.value}`),t+=`
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`,t}function ck(e){return`# ${e.comment}
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`}function Ob(e){return`>${e.id}${e.description?` ${e.description}`:""}
|