@jbrowse/plugin-linear-genome-view 1.4.4 → 1.5.3

package/dist/plugin-linear-genome-view.cjs.production.min.js

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r.createElement(r.Fragment,null,r.createElement("line",{x1:s,x2:u,y1:10,y2:10,stroke:"black"}),r.createElement("line",{x1:s,x2:s,y1:5,y2:15,stroke:"black"}),r.createElement("line",{x1:u,x2:u,y1:5,y2:15,stroke:"black"}),r.createElement("text",{x:s+(u-s)/2,y:2*o,textAnchor:"middle",fontSize:o},t))}function gr(e){var t=e.model,n=e.fontSize,o=t.dynamicBlocks.contentBlocks,a=t.offsetPx,i=t.bpPerPx,l=o.length<5;return r.createElement(r.Fragment,null,r.createElement("defs",null,r.createElement("clipPath",{id:"clip-ruler"},r.createElement("rect",{x:0,y:0,width:e.width,height:20}))),o.map((function(e){var t=e.offsetPx-a;return r.createElement("g",{key:"".concat(e.key),transform:"translate(".concat(t," 0)")},r.createElement("text",{x:t/i,y:n,fontSize:n},e.refName),l?r.createElement("g",{transform:"translate(0 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t=e.model,o=e.offset;return r.createElement(r.Fragment,null,e.displayResults.map((function(e){var a=e.track,i=e.result,l=o,c=n.getConf(a,"name")||"Reference sequence (".concat(n.readConfObject(y.getParent(a.configuration),"name"),")");return o+=a.displays[0].height+20+20,r.createElement("g",{key:a.configuration.trackId,transform:"translate(0 ".concat(l,")")},r.createElement("text",{fontSize:15,x:Math.max(-t.offsetPx,0)},c),r.createElement("g",{transform:"translate(0 ".concat(20,")")},i))})))}function kr(e,t){return wr.apply(this,arguments)}function wr(){return(wr=ye(Ie.mark((function e(t,n){var o,a,i,l,c,s;return Ie.wrap((function(e){for(;;)switch(e.prev=e.next){case 0:return e.next=2,v.when((function(){return t.initialized}));case 2:return o=t.width,i=50,l=110,c=hr(a=t.tracks)+l,e.next=8,Promise.all(a.map(function(){var e=ye(Ie.mark((function e(t){var r;return Ie.wrap((function(e){for(;;)switch(e.prev=e.next){case 0:return r=t.displays[0],e.next=3,v.when((function(){return void 0===r.ready||r.ready}));case 3:return e.next=5,r.renderSvg(n);case 5:return e.abrupt("return",{track:t,result:e.sent});case 7:case"end":return e.stop()}}),e)})));return function(t){return e.apply(this,arguments)}}()));case 8:return s=e.sent,e.abrupt("return",A.renderToStaticMarkup(r.createElement("svg",{width:o,height:c,xmlns:"http://www.w3.org/2000/svg",xmlnsXlink:"http://www.w3.org/1999/xlink",viewBox:[0,0,o+2*i,c].toString()},r.createElement("rect",{width:o+2*i,height:c,fill:"white"}),r.createElement("g",{stroke:"none",transform:"translate(".concat(i," ").concat(15,")")},r.createElement(vr,{model:t}),r.createElement(br,{model:t,displayResults:s,offset:l}),r.createElement(yr,{model:t})))));case 10:case"end":return e.stop()}}),e)})))).apply(this,arguments)}var xr={__proto__:null,default:w.observer((function(e){var t=e.model,n=t.tracks,o=t.error,a=t.hideHeader,i=t.initialized,l=t.hasDisplayedRegions,c=mr();return i||o?!l||o?r.createElement(nr,{model:t}):r.createElement("div",{style:{position:"relative"}},t.seqDialogDisplayed?r.createElement(sr,{model:t,handleClose:function(){t.setSequenceDialogOpen(!1)}}):null,t.isSearchDialogDisplayed?r.createElement(er,{model:t,handleClose:function(){t.setSearchResults(void 0,void 0)}}):null,a?r.createElement("div",{style:{position:"absolute",right:0,zIndex:1001}},r.createElement(or,{model:t})):r.createElement(Bt,{model:t}),r.createElement(Qt,{model:t},n.length?n.map((function(e){return r.createElement(It,{key:e.id,model:t,track:e})})):r.createElement(b.Paper,{variant:"outlined",className:c.errorMessage},r.createElement(b.Typography,null,"No tracks active."),r.createElement(b.Button,{variant:"contained",color:"primary",onClick:t.activateTrackSelector,style:{zIndex:1e3}},r.createElement(M.TrackSelector,{className:c.spacer}),"Open track selector")))):null})),renderToSvg:kr},Er=E.makeStyles((function(e){return{closeButton:{position:"absolute",right:e.spacing(1),top:e.spacing(1),color:e.palette.grey[500]}}}));function Sr(e){var n,o=e.model,a=e.handleClose,i=Pe(t.useState("undefined"!=typeof OffscreenCanvas),2),l=i[0],c=i[1],s=Pe(t.useState(!1),2),u=s[0],d=s[1],f=Pe(t.useState(),2),m=f[0],p=f[1],g=Er();return r.createElement(b.Dialog,{open:!0,onClose:a},r.createElement(b.DialogTitle,null,"Export SVG",r.createElement(b.IconButton,{className:g.closeButton,onClick:a},r.createElement(ne,null))),r.createElement(b.DialogContent,null,m?r.createElement("div",{style:{color:"red"}},"".concat(m)):u?r.createElement("div",null,r.createElement(b.CircularProgress,{size:20,style:{marginRight:20}}),r.createElement(b.Typography,{display:"inline"},"Creating SVG")):null,"undefined"!=typeof OffscreenCanvas?r.createElement(b.FormControlLabel,{control:r.createElement(b.Checkbox,{checked:l,onChange:function(){return c((function(e){return!e}))}}),label:"Rasterize canvas based tracks? File may be much larger if this is turned off"}):r.createElement(b.Typography,null,"Note: rasterizing layers not yet supported in this browser, so SVG size may be large")),r.createElement(b.DialogActions,null,r.createElement(b.Button,{variant:"contained",color:"secondary",onClick:function(){return a()}},"Cancel"),r.createElement(b.Button,{variant:"contained",color:"primary",type:"submit",onClick:(n=ye(Ie.mark((function e(){return Ie.wrap((function(e){for(;;)switch(e.prev=e.next){case 0:return d(!0),p(void 0),e.prev=2,e.next=5,o.exportSvg({rasterizeLayers:l});case 5:a(),e.next=11;break;case 8:e.prev=8,e.t0=e.catch(2),p(e.t0);case 11:return e.prev=11,d(!1),e.finish(11);case 14:case"end":return e.stop()}}),e,null,[[2,8,11,14]])}))),function(){return n.apply(this,arguments)})},"Submit")))}var Cr=E.makeStyles((function(e){return{closeButton:{position:"absolute",right:e.spacing(1),top:e.spacing(1),color:e.palette.grey[500]}}}));function Pr(e){var t=e.model,n=e.handleClose,o=Cr();return r.createElement(b.Dialog,{maxWidth:"xl",open:!0,onClose:n},r.createElement(b.DialogTitle,null,"Reference sequence",n?r.createElement(b.IconButton,{className:o.closeButton,onClick:function(){n()}},r.createElement(ne,null)):null),r.createElement(b.Divider,null),r.createElement(b.DialogContent,null,r.createElement(b.Typography,null,"Are you sure you want to return to the import form? 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y.types.compose(o.BaseViewModel,y.types.model("LinearGenomeView",{id:C.ElementId,type:y.types.literal("LinearGenomeView"),offsetPx:0,bpPerPx:1,displayedRegions:y.types.array(C.Region),tracks:y.types.array(e.pluggableMstType("track","stateModel")),hideHeader:!1,hideHeaderOverview:!1,trackSelectorType:y.types.optional(y.types.enumeration(["hierarchical"]),"hierarchical"),trackLabels:"overlapping",showCenterLine:!1})).volatile((function(){return{volatileWidth:void 0,minimumBlockWidth:3,draggingTrackId:void 0,volatileError:void 0,afterDisplayedRegionsSetCallbacks:[],scaleFactor:1,trackRefs:{},coarseDynamicBlocks:[],coarseTotalBp:0,leftOffset:void 0,rightOffset:void 0,searchResults:void 0,searchQuery:void 0,seqDialogDisplayed:!1}})).views((function(e){return{get width(){if(void 0===e.volatileWidth)throw new Error("width undefined, make sure to check for model.initialized");return e.volatileWidth},get interRegionPaddingWidth(){return 2}}})).views((function(e){return{get assemblyErrors(){var t=s.getSession(e).assemblyManager;return this.assemblyNames.map((function(e){var r;return null===(r=t.get(e))||void 0===r?void 0:r.error})).filter((function(e){return!!e})).join(", ")},get assembliesInitialized(){var t=s.getSession(e).assemblyManager;return this.assemblyNames.every((function(e){var r;return null===(r=t.get(e))||void 0===r?void 0:r.initialized}))},get initialized(){return void 0!==e.volatileWidth&&this.assembliesInitialized},get hasDisplayedRegions(){return e.displayedRegions.length>0},get isSearchDialogDisplayed(){return void 0!==e.searchResults},get scaleBarHeight(){return Mr+Lr},get headerHeight(){return e.hideHeader?0:e.hideHeaderOverview?Rr:Rr+Nr},get trackHeights(){return e.tracks.map((function(e){return e.displays[0].height})).reduce((function(e,t){return e+t}),0)},get trackHeightsWithResizeHandles(){return this.trackHeights+e.tracks.length*Lr},get height(){return this.trackHeightsWithResizeHandles+this.headerHeight+this.scaleBarHeight},get totalBp(){var t=0;return e.displayedRegions.forEach((function(e){t+=e.end-e.start})),t},get maxBpPerPx(){return this.totalBp/(.9*e.width)},get minBpPerPx(){return.02},get error(){return e.volatileError||this.assemblyErrors},get maxOffset(){return this.displayedRegionsTotalPx-10},get minOffset(){return 30-e.width},get displayedRegionsTotalPx(){return this.totalBp/e.bpPerPx},renderProps:function(){return ge(ge({},m.getParentRenderProps(e)),{},{bpPerPx:e.bpPerPx,highResolutionScaling:n.getConf(s.getSession(e),"highResolutionScaling")})},get assemblyNames(){return Te(new Set(e.displayedRegions.map((function(e){return e.assemblyName}))))},searchScope:function(t){return{assemblyName:t,includeAggregateIndexes:!0,tracks:e.tracks}},bpToPx:function(t){var r=t.refName,n=t.coord,o=t.regionNumber,a=0,i=e.interRegionPaddingWidth*e.bpPerPx,l=e.minimumBlockWidth*e.bpPerPx,c=e.displayedRegions.findIndex((function(t,c){var s=t.end-t.start;return r===t.refName&&n>=t.start&&n<=t.end&&(!o||o===c)?(a+=t.reversed?t.end-n:n-t.start,!0):(a+=s>l&&a/e.bpPerPx>=0&&a/e.bpPerPx<e.width?s+i:s,!1)}));if(e.displayedRegions[c])return{index:c,offsetPx:Math.round(a/e.bpPerPx)}},pxToBp:function(t){var r=0,n=(e.offsetPx+t)*e.bpPerPx,o=e.displayedRegions.length;if(n<0){var a=e.displayedRegions[0],i=n;return ge(ge({},y.getSnapshot(a)),{},{oob:!0,coord:a.reversed?Math.floor(a.end-i)+1:Math.floor(a.start+i)+1,offset:i,index:0})}for(var l=e.interRegionPaddingWidth*e.bpPerPx,c=e.minimumBlockWidth*e.bpPerPx,s=0;s<e.displayedRegions.length;s+=1){var u=e.displayedRegions[s],d=u.end-u.start,f=n-r;if(d+r>n&&r<=n)return ge(ge({},y.getSnapshot(u)),{},{oob:!1,offset:f,coord:u.reversed?Math.floor(u.end-f)+1:Math.floor(u.start+f)+1,index:s});r+=u.end-u.start>c&&f/e.bpPerPx>0&&f/e.bpPerPx<e.width?d+l:d}if(n>=r){var m=e.displayedRegions[o-1],p=n-r+(m.end-m.start);return ge(ge({},y.getSnapshot(m)),{},{oob:!0,offset:p,coord:m.reversed?Math.floor(m.end-p)+1:Math.floor(m.start+p)+1,index:o-1})}return{coord:0,index:0,refName:"",oob:!0,assemblyName:"",offset:0,start:0,end:0,reversed:!1}},getTrack:function(t){return e.tracks.find((function(e){return e.configuration.trackId===t}))},rankSearchResults:function(t){var r=e.tracks.map((function(e){return e.configuration.trackId}));return t.forEach((function(e){r!==[]&&r.includes(e.trackId)&&e.updateScore(e.getScore()+1)})),t},rewriteOnClicks:function(t,r){var n=this;r.forEach((function(r){if("subMenu"in r&&n.rewriteOnClicks(t,r.subMenu),"onClick"in r){var o=r.onClick;r.onClick=function(){for(var r=arguments.length,n=new Array(r),a=0;a<r;a++)n[a]=arguments[a];e.tracks.forEach((function(e){e.type===t&&o.apply(e,[e].concat(n))}))}}}))},get trackTypeActions(){var t=this,r=new Map;return e.tracks.forEach((function(e){if(!r.get(e.type)){var n=z(e.viewMenuActions);t.rewriteOnClicks(e.type,n),r.set(e.type,n)}})),r},get centerLineInfo(){return e.displayedRegions.length?this.pxToBp(e.width/2):void 0}}})).actions((function(t){return{setWidth:function(e){t.volatileWidth=e},setError:function(e){t.volatileError=e},toggleHeader:function(){t.hideHeader=!t.hideHeader},toggleHeaderOverview:function(){t.hideHeaderOverview=!t.hideHeaderOverview},scrollTo:function(e){var r=s.clamp(e,t.minOffset,t.maxOffset);return t.offsetPx=r,r},zoomTo:function(e){var r=s.clamp(e,t.minBpPerPx,t.maxBpPerPx);if(r===t.bpPerPx)return r;var n=t.bpPerPx;if(t.bpPerPx=r,Math.abs(n-r)<1e-6)return console.warn("zoomTo bpPerPx rounding error"),n;var o=t.width;return this.scrollTo(Math.round((t.offsetPx+o/2)*n/r-o/2)),r},setOffsets:function(e,r){t.leftOffset=e,t.rightOffset=r},setSearchResults:function(e,r){t.searchResults=e,t.searchQuery=r},setSequenceDialogOpen:function(e){t.seqDialogDisplayed=e},setNewView:function(e,t){this.zoomTo(e),this.scrollTo(t)},horizontallyFlip:function(){t.displayedRegions=y.cast(t.displayedRegions.slice().reverse().map((function(e){return ge(ge({},e),{},{reversed:!e.reversed})}))),this.scrollTo(t.totalBp/t.bpPerPx-t.offsetPx-t.width)},showTrack:function(r){var n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:{},o=arguments.length>2&&void 0!==arguments[2]?arguments[2]:{},a=e.pluggableConfigSchemaType("track"),i=y.resolveIdentifier(a,y.getRoot(t),r);if(!i)throw new Error("Could not resolve identifier");var l=e.getTrackType(null==i?void 0:i.type);if(!l)throw new Error("unknown track type ".concat(i.type));var c=e.getViewType(t.type),s=c.displayTypes.map((function(e){return e.name})),u=i.displays.find((function(e){return s.includes(e.type)}));if(!u)throw new Error("could not find a compatible display for view type ".concat(t.type));var d=t.tracks.filter((function(e){return e.configuration===i}));if(0===d.length){var f=l.stateModel.create(ge(ge({},n),{},{type:i.type,configuration:i,displays:[ge({type:u.type,configuration:u},o)]}));return t.tracks.push(f),f}return d[0]},hideTrack:function(r){var n=e.pluggableConfigSchemaType("track"),o=y.resolveIdentifier(n,y.getRoot(t),r),a=t.tracks.filter((function(e){return e.configuration===o}));return v.transaction((function(){return a.forEach((function(e){return t.tracks.remove(e)}))})),a.length}}})).actions((function(e){return{moveTrack:function(t,r){var n=e.tracks.findIndex((function(e){return e.id===t}));if(-1===n)throw new Error("Track ID ".concat(t," not found"));var o=e.tracks.findIndex((function(e){return e.id===r}));if(-1===o)throw new Error("Track ID ".concat(r," not found"));var a=y.getSnapshot(e.tracks[n]);e.tracks.splice(n,1),e.tracks.splice(o,0,a)},closeView:function(){var t=s.getContainingView(e);t?s.isViewContainer(t)&&t.removeView(e):s.getSession(e).removeView(e)},toggleTrack:function(t){e.hideTrack(t)||e.showTrack(t)},setTrackLabels:function(t){e.trackLabels=t},toggleCenterLine:function(){e.showCenterLine=!e.showCenterLine},setDisplayedRegions:function(t){e.displayedRegions=y.cast(t),e.zoomTo(e.bpPerPx)},activateTrackSelector:function(){if("hierarchical"===e.trackSelectorType){var t=s.getSession(e);if(s.isSessionModelWithWidgets(t)){var r=t.addWidget("HierarchicalTrackSelectorWidget","hierarchicalTrackSelector",{view:e});return t.showWidget(r),r}}throw new Error("invalid track selector type ".concat(e.trackSelectorType))},navToLocString:function(t,r){var n=s.getSession(e).assemblyManager,o=n.isValidRefName,a=t.split(";");if(e.displayedRegions.length>1){var i=a.map((function(e){return s.parseLocString(e,o)}));this.navToMultiple(i)}else{var l=r,c="";0!==e.displayedRegions.length&&(l=e.displayedRegions[0].assemblyName,c=e.displayedRegions[0].refName);var u=l&&n.get(l);if(!u)throw new Error("Could not find assembly ".concat(l));var d=u.regions;if(!d)throw new Error("Regions for assembly ".concat(l," not yet loaded"));if(a.length>1)throw new Error("Navigating to multiple locations is not allowed when viewing a whole chromosome");var f=s.parseLocString(a[0],(function(e){return o(e,l)})),m=!1;if(f.assemblyName&&f.assemblyName!==l){var p=n.get(f.assemblyName);if(!p)throw new Error("Could not find assembly ".concat(f.assemblyName));u=p,m=!0;var g=p.regions;if(!g)throw new Error("Regions for assembly ".concat(f.assemblyName," not yet loaded"));d=g}var h=u.getCanonicalRefName(f.refName);if(!h)throw new Error("Could not find refName ".concat(f.refName," in ").concat(u.name));if(m||h!==c){var v=d.find((function(e){return e.refName===h}));if(!v)throw new Error("Could not find refName ".concat(f.refName," in 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n=N.create(ge(ge({},y.getSnapshot(e)),{},{interRegionPaddingWidth:e.interRegionPaddingWidth}));return n.setVolatileWidth(e.width),n.zoomToDisplayedRegions(t,r),n.dynamicBlocks.contentBlocks.map((function(e){return ge(ge({},e),{},{start:Math.floor(e.start),end:Math.ceil(e.end)})}))},afterDisplayedRegionsSet:function(t){e.afterDisplayedRegionsSetCallbacks.push(t)},moveTo:function(t,r){var n=0;if(t.index===r.index)n+=r.offset-t.offset;else{var o=e.displayedRegions[t.index];if(n+=o.end-o.start-t.offset,r.index-t.index>=2)for(var a=t.index+1;a<r.index;a+=1)n+=e.displayedRegions[a].end-e.displayedRegions[a].start;n+=r.offset}var i=n/(e.width-e.interRegionPaddingWidth*(r.index-t.index)),l=e.zoomTo(i),c=0;i<l&&(c=(l-i)*e.width/2);for(var s=-c,u=0;u<e.displayedRegions.length;u+=1){var d=e.displayedRegions[u];if(t.index===u){s+=t.offset;break}s+=d.end-d.start}e.scrollTo(Math.round(s/e.bpPerPx)+e.interRegionPaddingWidth*t.index)},horizontalScroll:function(t){var r=e.offsetPx;return 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Blob([f||""],{type:"text/x-fasta;charset=utf-8"});D.saveAs(e,"jbrowse_ref_seq.fa")},disabled:p||!!c,color:"primary",startIcon:n.createElement(pe,null)},"Download FASTA"),n.createElement(b.Button,{onClick:o,color:"primary",autoFocus:!0},"Close")))}var Nn=w.observer(Rn),Mn=b.makeStyles((function(e){return{dialogContent:{width:"80em"},closeButton:{position:"absolute",right:e.spacing(1),top:e.spacing(1),color:e.palette.grey[500]}}}));function Ln(e){var t,r,o=e.model,a=e.optAssemblyName,i=e.handleClose,l=Mn(),c=s.getSession(o),u=y.getEnv(c).pluginManager,d=c.assemblyManager,f=a;if(o.displayedRegions.length>0&&(f=null===(r=o.displayedRegions[0])||void 0===r?void 0:r.assemblyName),!f)throw new Error("Assembly name not found");var m=d.get(f);if(!m)throw new Error("assembly ".concat(f," not found"));if(!m.regions)throw new Error("assembly ".concat(f," regions not loaded"));var p=m.regions;function g(e){if(e){var t,n=u.pluggableConfigSchemaType("track"),r=y.resolveIdentifier(n,y.getRoot(o),e);if(r)return null===(t=r.name)||void 0===t?void 0:t.value}return""}return n.createElement(b.Dialog,{open:!0,maxWidth:"xl",onClose:i},n.createElement(b.DialogTitle,null,"Search results",i?n.createElement(b.IconButton,{"data-testid":"close-resultsDialog",className:l.closeButton,onClick:function(){i()}},n.createElement(Y,null)):null),n.createElement(b.Divider,null),n.createElement(b.DialogContent,null,null!==(t=o.searchResults)&&void 0!==t&&t.length?n.createElement(n.Fragment,null,n.createElement(b.Typography,null,"Showing results for ",n.createElement("b",null,o.searchQuery)),n.createElement(b.TableContainer,{component:b.Paper},n.createElement(b.Table,null,n.createElement(b.TableHead,null,n.createElement(b.TableRow,null,n.createElement(b.TableCell,null,"Name"),n.createElement(b.TableCell,{align:"right"},"Location"),n.createElement(b.TableCell,{align:"right"},"Track"),n.createElement(b.TableCell,{align:"right"}))),n.createElement(b.TableBody,null,o.searchResults.map((function(e){return n.createElement(b.TableRow,{key:"".concat(e.getId())},n.createElement(b.TableCell,{component:"th",scope:"row"},e.getLabel()),n.createElement(b.TableCell,{align:"right"},e.getLocation()),n.createElement(b.TableCell,{align:"right"},g(e.getTrackId())||"N/A"),n.createElement(b.TableCell,{align:"right"},n.createElement(b.Button,{onClick:function(){!function(e){try{var t=p.find((function(t){return e===t.refName}));t?(o.setDisplayedRegions([t]),o.showAllRegions()):o.navToLocString(e,f)}catch(e){console.warn(e),c.notify("".concat(e),"warning")}}(e.getLocation());var t=e.getTrackId();t&&o.showTrack(t),i()},disabled:!g(e.getTrackId()),color:"primary",variant:"contained"},"Go")))})))))):n.createElement(b.Typography,null,"No results found for ",n.createElement("b",null,o.searchQuery))),n.createElement(b.Divider,null),n.createElement(b.DialogActions,null,n.createElement(b.Button,{onClick:function(){return i()},color:"primary"},"Cancel")))}var Dn={__proto__:null,useStyles:Mn,default:Ln},On=b.makeStyles((function(e){return{note:{textAlign:"center",paddingTop:e.spacing(1),paddingBottom:e.spacing(1)},dots:{"&::after":{display:"inline-block",animation:"$ellipsis 1.5s infinite",content:'"."',width:"1em",textAlign:"left"}},"@keyframes ellipsis":{"0%":{content:'"."'},"33%":{content:'".."'},"66%":{content:'"..."'}}}})),In={__proto__:null,default:w.observer((function(e){var t=e.model,r=t.tracks,o=t.error,a=t.hideHeader,i=t.initialized,l=t.hasDisplayedRegions,c=On();return i||o?!l||o?n.createElement(Sn,{model:t}):n.createElement("div",{style:{position:"relative"}},t.seqDialogDisplayed?n.createElement(Nn,{model:t,handleClose:function(){t.setSequenceDialogOpen(!1)}}):null,t.isSearchDialogDisplayed?n.createElement(Ln,{model:t,handleClose:function(){t.setSearchResults(void 0,void 0)}}):null,a?n.createElement("div",{style:{position:"absolute",right:0,zIndex:1001}},n.createElement(Cn,{model:t})):n.createElement(Zt,{model:t}),n.createElement(wn,{model:t},r.length?r.map((function(e){return n.createElement(tn,{key:e.id,model:t,track:e})})):n.createElement(b.Paper,{variant:"outlined",className:c.note},n.createElement(b.Typography,null,"No tracks active."),n.createElement(b.Button,{variant:"contained",color:"primary",onClick:t.activateTrackSelector,style:{zIndex:1e3},startIcon:n.createElement(O.TrackSelector,null)},"Open track selector")))):n.createElement(b.Typography,{className:c.dots,variant:"h5"},"Loading")}))};function Fn(e){if(!e.length)return"";var t=e.every((function(t){return t.assemblyName===e[0].assemblyName}));return e.map((function(e){return s.assembleLocString(he(he({},e),{},{start:Math.round(e.start),end:Math.round(e.end),assemblyName:t?void 0:e.assemblyName}))})).join(";")}var jn=48,zn=20,qn=17,An=3;function Hn(e){return y.types.compose(o.BaseViewModel,y.types.model("LinearGenomeView",{id:C.ElementId,type:y.types.literal("LinearGenomeView"),offsetPx:0,bpPerPx:1,displayedRegions:y.types.array(C.Region),tracks:y.types.array(e.pluggableMstType("track","stateModel")),hideHeader:!1,hideHeaderOverview:!1,trackSelectorType:y.types.optional(y.types.enumeration(["hierarchical"]),"hierarchical"),trackLabels:"overlapping",showCenterLine:!1,showCytobandsSetting:!0})).volatile((function(){return{volatileWidth:void 0,minimumBlockWidth:3,draggingTrackId:void 0,volatileError:void 0,afterDisplayedRegionsSetCallbacks:[],scaleFactor:1,trackRefs:{},coarseDynamicBlocks:[],coarseTotalBp:0,leftOffset:void 0,rightOffset:void 0,searchResults:void 0,searchQuery:void 0,seqDialogDisplayed:!1}})).views((function(e){return{get width(){if(void 0===e.volatileWidth)throw new Error("width undefined, make sure to check for model.initialized");return e.volatileWidth},get interRegionPaddingWidth(){return 2}}})).views((function(e){return{get assemblyErrors(){var t=s.getSession(e).assemblyManager;return this.assemblyNames.map((function(e){var n;return null===(n=t.get(e))||void 0===n?void 0:n.error})).filter((function(e){return!!e})).join(", ")},get assembliesInitialized(){var t=s.getSession(e).assemblyManager;return this.assemblyNames.every((function(e){var n;return null===(n=t.get(e))||void 0===n?void 0:n.initialized}))},get initialized(){return void 0!==e.volatileWidth&&this.assembliesInitialized},get hasDisplayedRegions(){return e.displayedRegions.length>0},get isSearchDialogDisplayed(){return void 0!==e.searchResults},get scaleBarHeight(){return qn+An},get headerHeight(){return e.hideHeader?0:e.hideHeaderOverview?jn:jn+zn},get trackHeights(){return e.tracks.map((function(e){return e.displays[0].height})).reduce((function(e,t){return e+t}),0)},get trackHeightsWithResizeHandles(){return this.trackHeights+e.tracks.length*An},get height(){return this.trackHeightsWithResizeHandles+this.headerHeight+this.scaleBarHeight},get totalBp(){var t=0;return e.displayedRegions.forEach((function(e){t+=e.end-e.start})),t},get maxBpPerPx(){return this.totalBp/(.9*e.width)},get minBpPerPx(){return.02},get error(){return e.volatileError||this.assemblyErrors},get maxOffset(){return this.displayedRegionsTotalPx-10},get minOffset(){return 30-e.width},get displayedRegionsTotalPx(){return this.totalBp/e.bpPerPx},renderProps:function(){return he(he({},m.getParentRenderProps(e)),{},{bpPerPx:e.bpPerPx,highResolutionScaling:r.getConf(s.getSession(e),"highResolutionScaling")})},get assemblyNames(){return Be(new Set(e.displayedRegions.map((function(e){return e.assemblyName}))))},searchScope:function(t){return{assemblyName:t,includeAggregateIndexes:!0,tracks:e.tracks}},bpToPx:function(t){var n=t.refName,r=t.coord,o=t.regionNumber,a=0,i=e.interRegionPaddingWidth*e.bpPerPx,l=e.minimumBlockWidth*e.bpPerPx,c=e.displayedRegions.findIndex((function(t,c){var s=t.end-t.start;return n===t.refName&&r>=t.start&&r<=t.end&&(!o||o===c)?(a+=t.reversed?t.end-r:r-t.start,!0):(a+=s>l&&a/e.bpPerPx>=0&&a/e.bpPerPx<e.width?s+i:s,!1)}));if(e.displayedRegions[c])return{index:c,offsetPx:Math.round(a/e.bpPerPx)}},pxToBp:function(t){var n=0,r=(e.offsetPx+t)*e.bpPerPx,o=e.displayedRegions.length;if(r<0){var a=e.displayedRegions[0],i=r;return he(he({},y.getSnapshot(a)),{},{oob:!0,coord:a.reversed?Math.floor(a.end-i)+1:Math.floor(a.start+i)+1,offset:i,index:0})}for(var l=e.interRegionPaddingWidth*e.bpPerPx,c=e.minimumBlockWidth*e.bpPerPx,s=0;s<e.displayedRegions.length;s+=1){var u=e.displayedRegions[s],d=u.end-u.start,f=r-n;if(d+n>r&&n<=r)return he(he({},y.getSnapshot(u)),{},{oob:!1,offset:f,coord:u.reversed?Math.floor(u.end-f)+1:Math.floor(u.start+f)+1,index:s});n+=u.end-u.start>c&&f/e.bpPerPx>0&&f/e.bpPerPx<e.width?d+l:d}if(r>=n){var m=e.displayedRegions[o-1],p=r-n+(m.end-m.start);return he(he({},y.getSnapshot(m)),{},{oob:!0,offset:p,coord:m.reversed?Math.floor(m.end-p)+1:Math.floor(m.start+p)+1,index:o-1})}return{coord:0,index:0,refName:"",oob:!0,assemblyName:"",offset:0,start:0,end:0,reversed:!1}},getTrack:function(t){return e.tracks.find((function(e){return e.configuration.trackId===t}))},rankSearchResults:function(t){var n=e.tracks.map((function(e){return e.configuration.trackId}));return t.forEach((function(e){n!==[]&&n.includes(e.trackId)&&e.updateScore(e.getScore()+1)})),t},rewriteOnClicks:function(t,n){var r=this;n.forEach((function(n){if("subMenu"in n&&r.rewriteOnClicks(t,n.subMenu),"onClick"in n){var o=n.onClick;n.onClick=function(){for(var n=arguments.length,r=new Array(n),a=0;a<n;a++)r[a]=arguments[a];e.tracks.forEach((function(e){e.type===t&&o.apply(e,[e].concat(r))}))}}}))},get trackTypeActions(){var t=this,n=new Map;return e.tracks.forEach((function(e){if(!n.get(e.type)){var r=L(e.viewMenuActions);t.rewriteOnClicks(e.type,r),n.set(e.type,r)}})),n},get centerLineInfo(){return e.displayedRegions.length?this.pxToBp(e.width/2):void 0}}})).actions((function(t){return{setShowCytobands:function(e){t.showCytobandsSetting=e},setWidth:function(e){t.volatileWidth=e},setError:function(e){t.volatileError=e},toggleHeader:function(){t.hideHeader=!t.hideHeader},toggleHeaderOverview:function(){t.hideHeaderOverview=!t.hideHeaderOverview},scrollTo:function(e){var n=s.clamp(e,t.minOffset,t.maxOffset);return t.offsetPx=n,n},zoomTo:function(e){var n=s.clamp(e,t.minBpPerPx,t.maxBpPerPx);if(n===t.bpPerPx)return n;var r=t.bpPerPx;if(t.bpPerPx=n,Math.abs(r-n)<1e-6)return console.warn("zoomTo bpPerPx rounding error"),r;var o=t.width;return this.scrollTo(Math.round((t.offsetPx+o/2)*r/n-o/2)),n},setOffsets:function(e,n){t.leftOffset=e,t.rightOffset=n},setSearchResults:function(e,n){t.searchResults=e,t.searchQuery=n},setSequenceDialogOpen:function(e){t.seqDialogDisplayed=e},setNewView:function(e,t){this.zoomTo(e),this.scrollTo(t)},horizontallyFlip:function(){t.displayedRegions=y.cast(t.displayedRegions.slice().reverse().map((function(e){return he(he({},e),{},{reversed:!e.reversed})}))),this.scrollTo(t.totalBp/t.bpPerPx-t.offsetPx-t.width)},showTrack:function(n){var r=arguments.length>1&&void 0!==arguments[1]?arguments[1]:{},o=arguments.length>2&&void 0!==arguments[2]?arguments[2]:{},a=e.pluggableConfigSchemaType("track"),i=y.resolveIdentifier(a,y.getRoot(t),n);if(!i)throw new Error("Could not resolve identifier");var l=e.getTrackType(null==i?void 0:i.type);if(!l)throw new Error("unknown track type ".concat(i.type));var c=e.getViewType(t.type),s=c.displayTypes.map((function(e){return e.name})),u=i.displays.find((function(e){return s.includes(e.type)}));if(!u)throw new Error("could not find a compatible display for view type ".concat(t.type));var d=t.tracks.filter((function(e){return e.configuration===i}));if(0===d.length){var f=l.stateModel.create(he(he({},r),{},{type:i.type,configuration:i,displays:[he({type:u.type,configuration:u},o)]}));return t.tracks.push(f),f}return d[0]},hideTrack:function(n){var r=e.pluggableConfigSchemaType("track"),o=y.resolveIdentifier(r,y.getRoot(t),n),a=t.tracks.filter((function(e){return e.configuration===o}));return v.transaction((function(){return a.forEach((function(e){return t.tracks.remove(e)}))})),a.length}}})).actions((function(e){return{moveTrack:function(t,n){var r=e.tracks.findIndex((function(e){return e.id===t}));if(-1===r)throw new Error("Track ID ".concat(t," not found"));var o=e.tracks.findIndex((function(e){return e.id===n}));if(-1===o)throw new Error("Track ID ".concat(n," not found"));var a=y.getSnapshot(e.tracks[r]);e.tracks.splice(r,1),e.tracks.splice(o,0,a)},closeView:function(){var t=s.getContainingView(e);t?s.isViewContainer(t)&&t.removeView(e):s.getSession(e).removeView(e)},toggleTrack:function(t){e.hideTrack(t)||e.showTrack(t)},setTrackLabels:function(t){e.trackLabels=t},toggleCenterLine:function(){e.showCenterLine=!e.showCenterLine},setDisplayedRegions:function(t){e.displayedRegions=y.cast(t),e.zoomTo(e.bpPerPx)},activateTrackSelector:function(){if("hierarchical"===e.trackSelectorType){var t=s.getSession(e);if(s.isSessionModelWithWidgets(t)){var n=t.addWidget("HierarchicalTrackSelectorWidget","hierarchicalTrackSelector",{view:e});return t.showWidget(n),n}}throw new Error("invalid track selector type ".concat(e.trackSelectorType))},navToLocString:function(t,n){var r=s.getSession(e).assemblyManager,o=r.isValidRefName,a=t.split(";");if(e.displayedRegions.length>1){var i=a.map((function(e){return s.parseLocString(e,o)}));this.navToMultiple(i)}else{var l=n,c="";0!==e.displayedRegions.length&&(l=e.displayedRegions[0].assemblyName,c=e.displayedRegions[0].refName);var u=l&&r.get(l);if(!u)throw new Error("Could not find assembly ".concat(l));var d=u.regions;if(!d)throw new Error("Regions for assembly ".concat(l," not yet loaded"));if(a.length>1)throw new Error("Navigating to multiple locations is not allowed when viewing a whole chromosome");var f=s.parseLocString(a[0],(function(e){return o(e,l)})),m=!1;if(f.assemblyName&&f.assemblyName!==l){var p=r.get(f.assemblyName);if(!p)throw new Error("Could not find assembly ".concat(f.assemblyName));u=p,m=!0;var g=p.regions;if(!g)throw new Error("Regions for assembly ".concat(f.assemblyName," not yet loaded"));d=g}var h=u.getCanonicalRefName(f.refName);if(!h)throw new Error("Could not find refName ".concat(f.refName," in ").concat(u.name));if(m||h!==c){var v=d.find((function(e){return e.refName===h}));if(!v)throw new Error("Could not find refName ".concat(f.refName," in ").concat(u.name));this.setDisplayedRegions([v])}var y=d.find((function(e){return e.refName===h}));if(y){var b,k,w=s.clamp(null!==(b=null==f?void 0:f.start)&&void 0!==b?b:0,0,y.end),E=s.clamp(null!==(k=null==f?void 0:f.end)&&void 0!==k?k:y.end,0,y.end);this.navTo(he(he({},f),{},{start:w,end:E}))}}},navTo:function(e){this.navToMultiple([e])},navToMultiple:function(t){var n=t[0],r=n.refName,o=n.start,a=n.end,i=n.assemblyName,l=void 0===i?e.assemblyNames[0]:i;if(void 0!==o&&void 0!==a&&o>a)throw new Error('start "'.concat(o+1,'" is greater than end "').concat(a,'"'));var c=s.getSession(e).assemblyManager.get(l);if(c){var u=c.getCanonicalRefName(r);u&&(r=u)}for(var d,f=o,m=a,p=!1,g=function(e){if(r===e.refName){if(p=!0,void 0===f&&(f=e.start),void 0===m&&(m=e.end),f>=e.start&&f<=e.end&&m<=e.end&&m>=e.start)return!0;f=o,m=a}return!1},h=s.findLastIndex(e.displayedRegions,g);d!==h;)try{var v=d;if(d=e.displayedRegions.slice(void 0===v?0:v+1).findIndex(g),void 0!==v&&(d+=v+1),!p)throw new Error('could not find a region with refName "'.concat(r,'"'));if(void 0===f)throw new Error('could not find a region with refName "'.concat(r,'" that contained an end position ').concat(m));if(void 0===m)throw new Error('could not find a region with refName "'.concat(r,'" that contained a start position ').concat(f+1));if(-1===d)throw new Error('could not find a region that completely contained "'.concat(s.assembleLocString(n),'"'));if(1===t.length){var y=e.displayedRegions[d];return void this.moveTo({index:d,offset:y.reversed?y.end-m:f-y.start},{index:d,offset:y.reversed?y.end-f:m-y.start})}for(var b=0,k=0,w=0;b<t.length;b++){var E=t[b],x=e.displayedRegions[d+b];if(k=E.start||x.start,w=E.end||x.end,E.refName!==x.refName)throw new Error("Entered location ".concat(s.assembleLocString(E)," does not match with displayed regions"));if(b>0&&!(x.reversed?w===x.end:k===x.start))throw new Error("".concat(x.reversed?"End":"Start"," of region ").concat(s.assembleLocString(E)," should be ").concat((x.reversed?x.end:x.start+1).toLocaleString("en-US"),", but it is not"));if(b!==t.length-1&&!(x.reversed?k===x.start:w===x.end))throw new Error("".concat(x.reversed?"Start":"End"," of region ").concat(s.assembleLocString(E)," should be ").concat((x.reversed?x.start+1:x.end).toLocaleString("en-US"),", but it is not"))}var S=e.displayedRegions[d],C=e.displayedRegions[d+(b-=1)];return void this.moveTo({index:d,offset:S.reversed?S.end-m:f-S.start},{index:d+b,offset:C.reversed?C.end-k:w-C.start})}catch(e){if(d===h)throw e}},zoomToDisplayedRegions:function(t,n){if(void 0!==t&&void 0!==n){if(t.refName===n.refName&&t.index===n.index&&n.offset<t.offset||t.index>n.index){var r=[n,t];t=r[0],n=r[1]}var o={start:t.start,end:t.end,index:t.index,offset:t.offset},a={start:n.start,end:n.end,index:n.index,offset:n.offset};o&&a?this.moveTo(o,a):s.getSession(e).notify("No regions found to navigate to","warning")}},getSelectedRegions:function(t,n){var r=M.create(he(he({},y.getSnapshot(e)),{},{interRegionPaddingWidth:e.interRegionPaddingWidth}));return r.setVolatileWidth(e.width),r.zoomToDisplayedRegions(t,n),r.dynamicBlocks.contentBlocks.map((function(e){return he(he({},e),{},{start:Math.floor(e.start),end:Math.ceil(e.end)})}))},afterDisplayedRegionsSet:function(t){e.afterDisplayedRegionsSetCallbacks.push(t)},moveTo:function(t,n){var r=0;if(t.index===n.index)r+=n.offset-t.offset;else{var o=e.displayedRegions[t.index];if(r+=o.end-o.start-t.offset,n.index-t.index>=2)for(var a=t.index+1;a<n.index;a+=1)r+=e.displayedRegions[a].end-e.displayedRegions[a].start;r+=n.offset}var i=r/(e.width-e.interRegionPaddingWidth*(n.index-t.index)),l=e.zoomTo(i),c=0;i<l&&(c=(l-i)*e.width/2);for(var s=-c,u=0;u<e.displayedRegions.length;u+=1){var d=e.displayedRegions[u];if(t.index===u){s+=t.offset;break}s+=d.end-d.start}e.scrollTo(Math.round(s/e.bpPerPx)+e.interRegionPaddingWidth*t.index)},horizontalScroll:function(t){var n=e.offsetPx;return e.scrollTo(e.offsetPx+t)-n},centerAt:function(t,n,r){var o=e.bpToPx({refName:n,coord:t,regionNumber:r});o&&e.scrollTo(Math.round(o.offsetPx-e.width/2))},center:function(){e.scrollTo(Math.round(e.totalBp/2/e.bpPerPx-e.width/2))},showAllRegions:function(){e.zoomTo(e.maxBpPerPx),this.center()},showAllRegionsInAssembly:function(t){var n=s.getSession(e),r=n.assemblyManager;if(!t){var o=Be(new Set(e.displayedRegions.map((function(e){return e.assemblyName}))));if(o.length>1)return void n.notify("Can't perform this with multiple assemblies currently");t=Te(o,1)[0]}var a=r.get(t);if(a){var i=a.regions;i&&(this.setDisplayedRegions(i),e.zoomTo(e.maxBpPerPx),this.center())}},setDraggingTrackId:function(t){e.draggingTrackId=t},setScaleFactor:function(t){e.scaleFactor=t}}})).actions((function(e){var t=function(){};return{slide:function(n){var r=Te(s.springAnimate(e.offsetPx,e.offsetPx+e.width*n,e.scrollTo),2),o=r[0],a=r[1];t(),t=a,o()}}})).actions((function(e){var t=function(){};return{zoom:function(n){if(e.zoomTo(e.bpPerPx),!(n<e.bpPerPx&&e.bpPerPx===e.minBpPerPx||n>e.bpPerPx&&e.bpPerPx===e.maxBpPerPx)){var r=Te(s.springAnimate(1,e.bpPerPx/n,e.setScaleFactor,(function(){e.zoomTo(n),e.setScaleFactor(1)})),2),o=r[0],a=r[1];t(),t=a,o()}}}})).views((function(e){return{get canShowCytobands(){return 1===e.displayedRegions.length&&this.anyCytobandsExist},get showCytobands(){return this.canShowCytobands&&e.showCytobandsSetting},get anyCytobandsExist(){var t=s.getSession(e).assemblyManager;return e.assemblyNames.some((function(e){var n,r;return null===(n=t.get(e))||void 0===n||null===(r=n.cytobands)||void 0===r?void 0:r.length}))},get cytobandOffset(){return this.showCytobands?s.measureText(e.displayedRegions[0].refName,12)+15:0}}})).views((function(e){var t,n="";return{menuItems:function(){var t,n=e.showCytobands,r=[{label:"Return to import form",onClick:function(){s.getSession(e).queueDialog((function(t){return[Wt,{model:e,handleClose:t}]}))},icon:z},{label:"Export SVG",icon:q,onClick:function(){s.getSession(e).queueDialog((function(t){return[qt,{model:e,handleClose:t}]}))}},{label:"Open track selector",onClick:e.activateTrackSelector,icon:O.TrackSelector},{label:"Horizontally flip",icon:I,onClick:e.horizontallyFlip},{type:"divider"},{label:"Show all regions in assembly",icon:F,onClick:e.showAllRegionsInAssembly},{label:"Show center line",icon:F,type:"checkbox",checked:e.showCenterLine,onClick:e.toggleCenterLine},{label:"Show header",icon:F,type:"checkbox",checked:!e.hideHeader,onClick:e.toggleHeader},{label:"Show header overview",icon:F,type:"checkbox",checked:!e.hideHeaderOverview,onClick:e.toggleHeaderOverview,disabled:e.hideHeader},{label:"Track labels",icon:j,subMenu:[{label:"Overlapping",icon:F,type:"radio",checked:"overlapping"===e.trackLabels,onClick:function(){return e.setTrackLabels("overlapping")}},{label:"Offset",icon:F,type:"radio",checked:"offset"===e.trackLabels,onClick:function(){return e.setTrackLabels("offset")}},{label:"Hidden",icon:F,type:"radio",checked:"hidden"===e.trackLabels,onClick:function(){return e.setTrackLabels("hidden")}}]}].concat(Be(e.canShowCytobands?[{label:n?"Hide ideogram":"Show ideograms",onClick:function(){e.setShowCytobands(!n)}}]:[])),o=Me(e.trackTypeActions.entries());try{for(o.s();!(t=o.n()).done;){var a=Te(t.value,2),i=a[1];i.length&&(r.push({type:"divider"},{type:"subHeader",label:a[0]}),i.forEach((function(e){r.push(e)})))}}catch(e){o.e(e)}finally{o.f()}return r},get staticBlocks(){var r=N(e),o=JSON.stringify(r);return n!==o&&(t=r,n=o),t},get dynamicBlocks(){return R(e)},get roundedDynamicBlocks(){return this.dynamicBlocks.contentBlocks.map((function(e){return he(he({},e),{},{start:Math.floor(e.start),end:Math.ceil(e.end)})}))},get visibleLocStrings(){return Fn(this.dynamicBlocks.contentBlocks)},get coarseVisibleLocStrings(){return Fn(e.coarseDynamicBlocks)}}})).actions((function(e){return{clearView:function(){e.setDisplayedRegions([]),e.tracks.clear(),e.scrollTo(0),e.zoomTo(10)},setCoarseDynamicBlocks:function(t){e.coarseDynamicBlocks=t.contentBlocks,e.coarseTotalBp=t.totalBp},afterAttach:function(){var t=this;y.addDisposer(e,v.autorun((function(){e.initialized&&t.setCoarseDynamicBlocks(e.dynamicBlocks)}),{delay:150}))}}})).actions((function(e){return{exportSvg:function(){var t=arguments;return be(Oe.mark((function n(){var r,o;return Oe.wrap((function(n){for(;;)switch(n.prev=n.next){case 0:return r=t.length>0&&void 0!==t[0]?t[0]:{},n.next=3,Mt(e,r);case 3:o=new Blob([n.sent],{type:"image/svg+xml"}),D.saveAs(o,"image.svg");case 6:case"end":return n.stop()}}),n)})))()}}})).views((function(e){return{rubberBandMenuItems:function(){return[{label:"Zoom to region",icon:A,onClick:function(){var t=e.leftOffset,n=e.rightOffset;t&&n&&e.moveTo(t,n)}},{label:"Get sequence",icon:h,onClick:function(){e.setSequenceDialogOpen(!0)}}]}}}))}var Wn=t.lazy((function(){return Promise.resolve().then((function(){return Zn}))})),_n=function(e){return y.types.compose("LinearBasicDisplay",ot,y.types.model({type:y.types.literal("LinearBasicDisplay"),trackShowLabels:y.types.maybe(y.types.boolean),trackShowDescriptions:y.types.maybe(y.types.boolean),trackDisplayMode:y.types.maybe(y.types.string),trackMaxHeight:y.types.maybe(y.types.number),configuration:r.ConfigurationReference(e)})).views((function(e){return{get rendererTypeName(){return r.getConf(e,["renderer","type"])},get showLabels(){var t=r.getConf(e,["renderer","showLabels"]);return void 0!==e.trackShowLabels?e.trackShowLabels:t},get showDescriptions(){var t=r.getConf(e,["renderer","showLabels"]);return void 0!==e.trackShowDescriptions?e.trackShowDescriptions:t},get maxHeight(){var t=r.getConf(e,["renderer","maxHeight"]);return void 0!==e.trackMaxHeight?e.trackMaxHeight:t},get displayMode(){var t=r.getConf(e,["renderer","displayMode"]);return void 0!==e.trackDisplayMode?e.trackDisplayMode:t},get rendererConfig(){var t=r.getConf(e,["renderer"])||{};return e.rendererType.configSchema.create(he(he({},t),{},{showLabels:this.showLabels,showDescriptions:this.showDescriptions,displayMode:this.displayMode,maxHeight:this.maxHeight}),y.getEnv(e))}}})).actions((function(e){return{toggleShowLabels:function(){e.trackShowLabels=!e.showLabels},toggleShowDescriptions:function(){e.trackShowDescriptions=!e.showDescriptions},setDisplayMode:function(t){e.trackDisplayMode=t},setMaxHeight:function(t){e.trackMaxHeight=t}}})).views((function(e){var t=e.trackMenuItems,n=e.renderProps;return{renderProps:function(){var t=e.rendererConfig;return he(he({},n()),{},{config:t})},trackMenuItems:function(){return[].concat(Be(t()),[{label:"Show labels",icon:F,type:"checkbox",checked:e.showLabels,onClick:function(){e.toggleShowLabels()}},{label:"Show descriptions",icon:F,type:"checkbox",checked:e.showDescriptions,onClick:function(){e.toggleShowDescriptions()}},{label:"Display mode",icon:F,subMenu:["compact","reducedRepresentation","normal","collapse"].map((function(t){return{label:t,onClick:function(){e.setDisplayMode(t)}}}))},{label:"Set max height",onClick:function(){s.getSession(e).queueDialog((function(t){return[Wn,{model:e,handleClose:t}]}))}}])}}}))};function Vn(e){return r.ConfigurationSchema("LinearBasicDisplay",{mouseover:{type:"string",description:"what to display in a given mouseover",defaultValue:"jexl:get(feature,'name')",contextVariable:["feature"]},renderer:e.pluggableConfigSchemaType("renderer"),maxDisplayedBpPerPx:{type:"number",description:"maximum bpPerPx that is displayed in the view",defaultValue:1e3}},{baseConfiguration:Le,explicitlyTyped:!0})}var Gn=function(e){!function(e,t){if("function"!=typeof t&&null!==t)throw new TypeError("Super expression must either be null or a function");e.prototype=Object.create(t&&t.prototype,{constructor:{value:e,writable:!0,configurable:!0}}),t&&xe(e,t)}(f,c);var n,d=Pe(f);function f(){var e;return ke(this,f),(e=d.apply(this,arguments)).name="LinearGenomeViewPlugin",e.exports={BaseLinearDisplayComponent:Xe,BaseLinearDisplay:ot,baseLinearDisplayConfigSchema:Le},e}return(n=[{key:"install",value:function(e){e.addTrackType((function(){var t=r.ConfigurationSchema("FeatureTrack",{},{baseConfiguration:o.createBaseTrackConfig(e),explicitIdentifier:"trackId"});return new a({name:"FeatureTrack",configSchema:t,stateModel:o.createBaseTrackModel(e,"FeatureTrack",t)})})),e.addTrackType((function(){var t=r.ConfigurationSchema("BasicTrack",{},{baseConfiguration:o.createBaseTrackConfig(e),explicitIdentifier:"trackId"});return new a({name:"BasicTrack",configSchema:t,stateModel:o.createBaseTrackModel(e,"BasicTrack",t)})})),e.addDisplayType((function(){var t=at(e);return new i({name:"LinearBareDisplay",configSchema:t,stateModel:it(t),trackType:"BasicTrack",viewType:"LinearGenomeView",ReactComponent:Xe})})),e.addDisplayType((function(){var t=Vn(e);return new i({name:"LinearBasicDisplay",configSchema:t,stateModel:_n(t),trackType:"FeatureTrack",viewType:"LinearGenomeView",ReactComponent:Xe})})),e.addViewType((function(){return new l({name:"LinearGenomeView",stateModel:Hn(e),ReactComponent:t.lazy((function(){return Promise.resolve().then((function(){return In}))}))})}))}},{key:"configure",value:function(e){s.isAbstractMenuManager(e.rootModel)&&e.rootModel.appendToSubMenu(["Add"],{label:"Linear genome view",icon:u,onClick:function(e){e.addView("LinearGenomeView",{})}})}}])&&function(e,t){for(var n=0;n<t.length;n++){var r=t[n];r.enumerable=r.enumerable||!1,r.configurable=!0,"value"in r&&(r.writable=!0),Object.defineProperty(e,r.key,r)}}(f.prototype,n),f}(),Xn=b.makeStyles((function(e){return{closeButton:{position:"absolute",right:e.spacing(1),top:e.spacing(1),color:e.palette.grey[500]}}})),Un={__proto__:null,useStyles:Xn,default:function(e){var t=e.handleClose,r=Xn();return n.createElement(b.Dialog,{open:!0,maxWidth:"xl",onClose:t},n.createElement(b.DialogTitle,null,"Using the search box",t?n.createElement(b.IconButton,{"data-testid":"close-resultsDialog",className:r.closeButton,onClick:function(){t()}},n.createElement(Y,null)):null),n.createElement(b.Divider,null),n.createElement(b.DialogContent,null,n.createElement("h3",null,"Searching"),n.createElement("ul",null,n.createElement("li",null,"Jump to a feature or reference sequence by typing its name in the location box and pressing Enter."),n.createElement("li",null,"Jump to a specific region by typing the region into the location box as: ",n.createElement("code",null,"ref:start..end")," or ",n.createElement("code",null,"ref:start-end"),". Commas are allowed in the start and end coordinates.")),n.createElement("h3",null,"Example Searches"),n.createElement("ul",null,n.createElement("li",null,n.createElement("code",null,"BRCA")," - searches for the feature named BRCA"),n.createElement("li",null,n.createElement("code",null,"chr4")," - jumps to chromosome 4"),n.createElement("li",null,n.createElement("code",null,"chr4:79,500,000..80,000,000")," - jumps the region on chromosome 4 between 79.5Mb and 80Mb."))),n.createElement(b.Divider,null),n.createElement(b.DialogActions,null,n.createElement(b.Button,{onClick:function(){return t()},color:"primary"},"Close")))}},Jn=b.makeStyles((function(e){return{root:{width:500},closeButton:{position:"absolute",right:e.spacing(1),top:e.spacing(1),color:e.palette.grey[500]},field:{margin:e.spacing(2)}}}));function Yn(e){var r=e.model,o=e.handleClose,a=Jn(),i=r.maxHeight,l=Te(t.useState("".concat(void 0===i?"":i)),2),c=l[0],s=l[1];return n.createElement(b.Dialog,{open:!0,onClose:o,"aria-labelledby":"alert-dialog-title","aria-describedby":"alert-dialog-description"},n.createElement(b.DialogTitle,{id:"alert-dialog-title"},"Filter options",n.createElement(b.IconButton,{"aria-label":"close",className:a.closeButton,onClick:o},n.createElement(Y,null))),n.createElement(b.DialogContent,null,n.createElement("div",{className:a.root},n.createElement(b.Typography,null,"Set max height for the track"),n.createElement(b.TextField,{value:c,onChange:function(e){s(e.target.value)},placeholder:"Enter max score"}),n.createElement(b.Button,{variant:"contained",color:"primary",type:"submit",style:{marginLeft:20},onClick:function(){r.setMaxHeight(""===c||Number.isNaN(+c)?void 0:+c),o()}},"Submit"))))}var Zn={__proto__:null,default:w.observer(Yn)};exports.BaseLinearDisplay=ot,exports.BaseLinearDisplayComponent=Xe,exports.RefNameAutocomplete=jt,exports.baseLinearDisplayConfigSchema=Le,exports.default=Gn,exports.linearBareDisplayConfigSchemaFactory=at,exports.linearBasicDisplayConfigSchemaFactory=Vn,exports.linearBasicDisplayModelFactory=_n,exports.renderToSvg=Mt;
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