async-ideogram.js

/*! For license information please see async-ideogram.js.LICENSE.txt */
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.gpos33 {fill: url("#gpos33")} #_ideogram .gpos50 {fill: url("#gpos50")} #_ideogram .gpos66 {fill: url("#gpos66")} #_ideogram .gpos75 {fill: url("#gpos75")} #_ideogram .gpos100 {fill: url("#gpos100")} #_ideogram .gpos {fill: url("#gpos100")} #_ideogram .acen {fill: url("#acen")} #_ideogram .stalk {fill: url("#stalk")} #_ideogram .gvar {fill: url("#gvar")} #_ideogram .noBands {fill: url("#noBands")} #_ideogram .chromosome {fill: url("#noBands")} ';function vi(t){var n;this.config=JSON.parse(JSON.stringify(t)),(n=this).chromosomesArray=[],n.coordinateSystem="iscn",n.maxLength={bp:0,iscn:0},n.chromosomes={},n.numChromosomes=0,n.config.debug||(n.config.debug=!1),n.config.dataDir||(n.config.dataDir=n.getDataDir()),n.config.container||(n.config.container="body"),n.selector=n.config.container+" #_ideogram",n.config.resolution||(n.config.resolution=""),n.config.orientation||(n.config.orientation="vertical"),n.config.brush||(n.config.brush=null),n.config.rows||(n.config.rows=1),"showChromosomeLabels"in n.config==0&&(n.config.showChromosomeLabels=!0),n.config.showNonNuclearChromosomes||(n.config.showNonNuclearChromosomes=!1),n.config.chromosomeScale||(n.config.chromosomeScale="absolute"),n.config.showTools||(n.config.showTools=!1),function(t){t.config.ploidy||(t.config.ploidy=1),t.config.ploidy>1&&(t.sexChromosomes={},t.config.sex||(t.config.sex="male"),2!==t.config.ploidy||t.config.ancestors||(t.config.ancestors={M:"#ffb6c1",P:"#add8e6"},t.config.ploidyDesc="MP"))}(this),function(t){t.config.showBandLabels||(t.config.showBandLabels=!1),"showFullyBanded"in t.config==0&&(t.config.showFullyBanded=!0),t.bandsToShow=[],t.bandData={}}(this),function(t){var n,e,r;t.config.chrHeight||(n=t.config.container,e=document.querySelector(n).getBoundingClientRect(),r="vertical"===t.config.orientation?e.height:e.width,"body"!==n&&0!==r||(r=400),t.config.chrHeight=r)}(this),function(t){var n,e;t.config.chrWidth||(n=10,(e=t.config.chrHeight)<900&&e>500?n=Math.round(e/40):e>=900&&(n=Math.round(e/45)),t.config.chrWidth=n)}(this),function(t){t.config.geometry&&"collinear"===t.config.geometry?"chrMargin"in t.config==0&&(t.config.chrMargin=0):(t.config.chrMargin||(1===t.config.ploidy?t.config.chrMargin=10:t.config.chrMargin=Math.round(t.config.chrWidth/4)),t.config.showBandLabels&&(t.config.chrMargin+=20))}(this),function(t,n){t.onLoad&&(n.onLoadCallback=t.onLoad),t.onLoadAnnots&&(n.onLoadAnnotsCallback=t.onLoadAnnots),t.onDrawAnnots&&(n.onDrawAnnotsCallback=t.onDrawAnnots),t.onBrushMove&&(n.onBrushMoveCallback=t.onBrushMove),t.onBrushEnd&&(n.onBrushEndCallback=t.onBrushEnd),t.onCursorMove&&(n.onCursorMoveCallback=t.onCursorMove),t.onDidRotate&&(n.onDidRotateCallback=t.onDidRotate),t.onWillShowAnnotTooltip&&(n.onWillShowAnnotTooltipCallback=t.onWillShowAnnotTooltip),t.onClickAnnot&&(n.onClickAnnotCallback=t.onClickAnnot)}(t,this),function(t){t.organisms=Object.assign({},Ko),t.organismsWithBands=Object.assign({},t.organisms)}(this),function(t){t.bump=Math.round(t.config.chrHeight/125),t.adjustedBump=!1,t.config.chrHeight<200&&(t.adjustedBump=!0,t.bump=4)}(this),function(t,n){t.chromosome&&(n.config.chromosomes=[t.chromosome],"showBandLabels"in t==0&&(n.config.showBandLabels=!0),"rotatable"in t==0&&(n.config.rotatable=!1))}(t,this),function(t){var n=t.config;n.chrLabelSize||(t.config.chrLabelSize=9),n.chrLabelColor||(t.config.chrLabelColor="#000"),n.fontFamily||(t.config.fontFamily="");var e="font-size: ".concat(n.chrLabelSize,"px"),r="fill: ".concat(n.chrLabelColor),o="font-family: ".concat(n.fontFamily);gi+="#_ideogram text {".concat(o,"; ").concat(e,"; ").concat(r,";}"),gi+="#_ideogramLabel text {".concat(o,";}")}(this),this.initAnnotSettings(),this.config.geometry&&"parallel"!==this.config.geometry||(this.config.chrMargin+=this.config.chrWidth,"heatmap"===this.config.annotationsLayout?this.config.chrMargin+=this.config.annotTracksHeight:this.config.chrMargin+=2*this.config.annotTracksHeight),this.init()}var yi=function(t){var n,e,r,o,i,a=t.config,s=a.annotationHeight||0;if("vertical"!==a.orientation){t.config.annotLabelHeight=12;var c=t.config.annotLabelHeight;if("demarcateCollinearChromosomes"in t.config==0&&(t.config.demarcateCollinearChromosomes=!0),n=document.querySelectorAll(".chromosome-set"),r=a.numAnnotTracks*(s+c+4)-a.chrWidth+1,e=function(t,n){var e,r,o,i,a,s,c,l={};for(e=[],r=0;r<t.length;r++)c=n.chromosomesArray[r].id.split("-")[1],o=0===r?r:r-1,i=n.chromosomesArray[o],0===r||c in l==0?(a=20,l[c]=1):(s=i.width,a=e[o]+s+(n.config.showChromosomeLabels?0:2)+n.config.chrMargin),e.push(a);return e}(n,t),function(t,n,e,r){var o,i,a,s,c,l,u,h=r.config,f=h.chrWidth,d=h.chrLabelSize;for(o=0;o<t.length;o++)i=t[o],s=n[o],a=r.chromosomesArray[o].id.split("-")[1],c=e+200*(l=h.taxids.indexOf(a)),0===l&&r.config.multiorganism?(u=d-4,c+=2*f+d):u=2*f+d+2,r.config.showChromosomeLabels&&(i.querySelector(".chrLabel").setAttribute("y",u),i.querySelector(".chrLabel").setAttribute("text-anchor","middle")),i.setAttribute("transform","translate("+s+","+c+")"),i.querySelector(".chromosome").setAttribute("transform","translate(-13, 10)");h.multiorganism&&function(t){t.config.taxids.forEach((function(n,e){var r=t.organisms[n],o=t.config,i=r.scientificName;Zo.select(t.selector).append("text").attr("class","genomeLabel italic").attr("x",5).attr("y",o.chrLabelSize+(200+3*o.chrWidth)*e).text(i)}))}(r)}(n,e,r,t),o=r+2*a.chrWidth+20,a.multiorganism){o*=8;var l=0;e.forEach((function(t){t>l&&(l=t)})),i=l+20}else i=e.slice(-1)[0]+20;Zo.select(t.selector).attr("width",i).attr("height",o),Zo.select("#_ideogramTrackLabelContainer").remove(),Zo.select("#_ideogramInnerWrap").insert("div",":first-child").attr("id","_ideogramTrackLabelContainer").style("position","absolute")}else!function(t){var n,e,r,o,i=t.config;if(t.config.annotLabelHeight=12,"demarcateCollinearChromosomes"in t.config==0&&(t.config.demarcateCollinearChromosomes=!0),e=function(t,n){var e,r,o,i,a,s,c,l={};for(e=[],r=0;r<t.length;r++)c=n.chromosomesArray[r].id.split("-")[1],o=0===r?r:r-1,i=n.chromosomesArray[o],0===r||c in l==0?(a=20,l[c]=1):(s=i.width,a=e[o]+s+(n.config.showChromosomeLabels?0:2)+n.config.chrMargin),e.push(a);return e}(n=document.querySelectorAll(".chromosome-set"),t),function(t,n,e,r){var o,i,a,s,c,l,u,h=r.config,f=h.chrLabelSize;for(o=0;o<t.length;o++){if(i=t[o],a=n[o]+23-f,l=r.chromosomesArray[o].id.split("-")[1],c=-40-200*(u=r.config.taxids.indexOf(l))-30-5,0===u?(s=-34,c+=2*r.config.chrWidth-16):s=2*r.config.chrWidth-24,h.showChromosomeLabels){var d=i.querySelector(".chrLabel > tspan");d.setAttribute("x",s),d.setAttribute("dy",f-8),i.querySelector(".chrLabel").setAttribute("text-anchor","start")}i.setAttribute("transform","rotate(90) translate("+a+","+c+")"),i.querySelector(".chromosome").setAttribute("transform","translate(-13, 10)")}!function(t){t.config.taxids.forEach((function(n,e){var r=t.organisms[n].scientificName;Zo.select(t.selector).append("text").attr("class","genomeLabel italic").attr("x",55+200*e).attr("y",10).text(r).attr("text-anchor","middle")}))}(r)}(n,e,0,t),o=Math.round(e.slice(-1)[0]+70),i.multiorganism){r*=8;var a=0;e.forEach((function(t){t>a&&(a=t)})),r=a+30}else r=xOffsets.slice(-1)[0]+30;Zo.select(t.selector).attr("height",r).attr("width",o),Zo.select("#_ideogramTrackLabelContainer").remove(),Zo.select("#_ideogramInnerWrap").insert("div",":first-child").attr("id","_ideogramTrackLabelContainer").style("position","absolute")}(t)};function bi(t){void 0!==t.timeout&&window.clearTimeout(t.timeout),t.rawAnnots=t.setOriginalTrackIndexes(t.rawAnnots),t.config.annotationsDisplayedTracks?t.annots=t.updateDisplayedTracks(t.config.annotationsDisplayedTracks):(t.annots=t.processAnnotData(t.rawAnnots),t.config.filterable&&t.initCrossFilter(),t.drawProcessedAnnots(t.annots))}function wi(t){var n=(new Date).getTime(),e=this,r=e.config,o=r.annotations;e.initDrawChromosomes(),r.annotationsPath&&function(t){t.rawAnnots?bi(t):function n(){t.timeout=setTimeout((function(){!t.rawAnnots||t.rawAnnots&&void 0!==t.rawAnnots.then?n():bi(t)}),50)}()}(e),function(t,n){var e,r,o,i;if(!0===t.showBandLabels&&(o=(new Date).getTime(),n.hideUnshownBandLabels(),i=(new Date).getTime(),t.debug&&console.log("Time in showing bands: "+(i-o)+" ms"),"vertical"===t.orientation))for(e=0;e<n.chromosomesArray.length;e++)r="#"+n.chromosomesArray[e].id,n.rotateChromosomeLabels(Zo.select(r),e);!0===t.showChromosomeLabels&&n.drawChromosomeLabels(n.chromosomes)}(r,e),r.brush?e.createBrush(r.brush):r.cursorPosition&&e.createClickCursor(r.cursorPosition),o&&(Array.isArray(o)?e.drawAnnots(o):(e.rawAnnots=o,e.afterRawAnnots(),bi(e))),function(t,n,e){var r=(new Date).getTime();t.debug&&console.log("Time in drawChromosome: "+(r-e)+" ms");var o=(new Date).getTime();t.debug&&console.log("Time constructing ideogram: "+(o-n)+" ms")}(r,t,n),e.setOverflowScroll(),"collinear"===r.geometry&&yi(e),e.onLoadCallback&&e.onLoadCallback()}var xi=function(){function t(n){u(this,t),this._config=n,this._description=this._normalize(this._config.ploidyDesc)}return f(t,[{key:"getChromosomesNumber",value:function(t){if(this._config.ploidyDesc){var n=this._config.ploidyDesc[t];return n instanceof Object?Object.keys(n)[0].length:n.length}return this._config.ploidy||1}},{key:"_normalize",value:function(t){var n,e,r=[];if(!t)return t;for(n in t)"string"==typeof(e=t[n])?("vertical"===this._config.orientation&&(e=e.split("").reverse()),r.push({ancestors:e,existence:this._getexistenceArray(e.length)})):r.push({ancestors:Object.keys(e)[0],existence:e[Object.keys(e)[0]]});return r}},{key:"_getexistenceArray",value:function(t){for(var n=[],e=0;e<t;e++)n.push("11");return n}},{key:"getSetSize",value:function(t){return this._description?this._description[t].ancestors.length:1}},{key:"getAncestor",value:function(t,n){return this._description?this._description[t].ancestors[n]:""}},{key:"exists",value:function(t,n,e){if(this._description){var r=this._description[t].existence[n][e];return Number(r)>0}return!0}}]),t}(),_i=function(){function t(n){u(this,t),this._node=n}return f(t,[{key:"getLabel",value:function(){return Zo.select(this._node.parentNode).select("text.chrLabel").text()}},{key:"getSetLabel",value:function(){return Zo.select(this._node.parentNode).select("text.chrSetLabel").text()}}]),t}(),Ai=function(){function t(n,e){if(u(this,t),this._config=n,this._ideo=e,this._ploidy=this._ideo._ploidy,this._translate=void 0,"chrSetMargin"in n)this.chrSetMargin=n.chrSetMargin;else{var r=this._config.chrMargin;this.chrSetMargin=this._config.ploidy>1?r:0}this._tickSize=8,this._isRotated=!1}return f(t,[{key:"_getLeftMargin",value:function(){return this.margin.left}},{key:"_getYScale",value:function(){return 20/this._config.chrWidth}},{key:"getChromosomeLabels",value:function(t){var n=new _i(t),e=[];return this._ideo.config.ploidy>1&&e.push(n.getSetLabel()),e.push(n.getLabel()),e.filter((function(t){return t.length>0}))}},{key:"getChromosomeBandLabelTranslate",value:function(t){var n,e,r,o=this._ideo,i=this._tickSize,a=o.config.orientation;return"vertical"===a?r="rotate(-90)translate("+(n=i)+","+(e=o.round(2+t.px.start+t.px.width/2))+")":"horizontal"===a&&(r="translate("+(n=o.round(-i+t.px.start+t.px.width/2))+","+(e=-10)+")"),{x:n,y:e,translate:r}}},{key:"didRotate",value:function(t,n){var e,r,o,i,a,s,c,l,u;r=(e=this._ideo).config.taxid,o=n.id.split("-")[0].replace("chr",""),i=(a=e.chromosomes[r][o]).bands,l=(c=Zo.select(n.parentNode)).attr("transform"),u=/scale\(.*\)/.exec(l),l=l.replace(u,""),c.attr("transform",l),s=a.width,(a=e.getChromosomeModel(i,o,r,t)).oldWidth=s,e.chromosomes[r][o]=a,e.drawChromosome(a),e.handleRotateOnClick(),e.rawAnnots&&(e.displayedTrackIndexes?e.updateDisplayedTracks(e.displayedTrackIndexes):(e.annots=e.processAnnotData(e.rawAnnots),e.drawProcessedAnnots(e.annots),e.config.filterable&&e.initCrossFilter())),!0===e.config.showBandLabels&&(e.drawBandLabels(e.chromosomes),e.hideUnshownBandLabels()),e.onDidRotateCallback&&e.onDidRotateCallback(a)}},{key:"rotate",value:function(t,n,e){var r,o,i,a;r=this._ideo,a=r.selector+" .chrSetLabel, "+r.selector+" .chrLabel",i=document.querySelector(r.selector).getBoundingClientRect(),o=Zo.selectAll(r.selector+" g.chromosome").filter((function(){return this!==e})),this._isRotated?(this._isRotated=!1,r.config.chrHeight=r.config.chrHeightOriginal,r.config.chrWidth=r.config.chrWidthOriginal,r.config.annotationHeight=r.config.annotationHeightOriginal,this.rotateBack(t,n,e,(function(){o.style("display",null),Zo.selectAll(a).style("display",null),r._layout.didRotate(n,e)}))):(this._isRotated=!0,o.style("display","none"),Zo.selectAll(a).style("display","none"),this.rotateForward(t,n,e,(function(){var t,o,a;r.config.chrHeightOriginal=r.config.chrHeight,r.config.chrWidthOriginal=r.config.chrWidth,r.config.annotationHeightOriginal=r.config.annotationHeight,"VerticalLayout"===r._layout._class?(o=i.width-20,a=window.innerWidth-20):(o=i.height-10,a=window.innerHeight-10),t=a<o?a:o,t-=2*r.config.chrMargin,r.config.chrHeight=t,r.config.chrWidth*=2.3,r.config.annotationHeight*=1.7,r._layout.didRotate(n,e)})))}},{key:"getChromosomeLabelClass",value:function(){return 1===this._config.ploidy?"chrLabel":"chrSetLabel"}},{key:"_getAdditionalOffset",value:function(){var t=this._config,n=t.annotationsNumTracks||t.numAnnotTracks||1;return(t.annotationHeight||0)*n}},{key:"_getChromosomeSetSize",value:function(t){return this._ploidy.getSetSize(t)*this._config.chrWidth*2+this.chrSetMargin}},{key:"getChromosomeSetLabelAnchor",value:function(){return"middle"}},{key:"getChromosomeLabelYPosition",value:function(){return-5.5}},{key:"getChromosomeSetLabelYPosition",value:function(t){return 1===this._config.ploidy?this.getChromosomeLabelYPosition(t):-2*this._config.chrWidth}}]),t}(),ki=function(t){i(e,t);var n=s(e);function e(t,r){var o;return u(this,e),(o=n.call(this,t,r))._class="VerticalLayout",o.margin={top:30,left:15},o}return f(e,[{key:"rotateForward",value:function(t,n,e,r){var o="translate(20, 25) "+this.getChromosomeScale(e);Zo.select(e.parentNode).transition().attr("transform",o).on("end",r);var i=this.getChromosomeLabels(e),a=1.3*(20+this._config.chrWidth);Zo.select(this._ideo.getSvg()).append("g").attr("class","tmp").selectAll("text").data(i).enter().append("text").attr("class",(function(t,n){return 0===n&&2===i.length?"chrSetLabel":null})).attr("x",0).attr("y",a).style("opacity",0).text(String).transition().style("opacity",1),this._ideo.config.orientation="horizontal"}},{key:"rotateBack",value:function(t,n,e,r){var o=this.getChromosomeScaleBack(e),i=this.getChromosomeSetTranslate(t);Zo.select(e.parentNode).transition().attr("transform",i+" "+o).on("end",r),Zo.selectAll(this._ideo.selector+" g.tmp").style("opacity",0).remove(),this._ideo.config.orientation="vertical"}},{key:"getHeight",value:function(){return this._config.chrHeight+1.5*this.margin.top}},{key:"getWidth",value:function(){return"97%"}},{key:"getChromosomeBandTickY1",value:function(){return 2}},{key:"getChromosomeBandTickY2",value:function(){return 10}},{key:"getChromosomeSetLabelTranslate",value:function(){return"rotate(-90)"}},{key:"getChromosomeBandLabelAnchor",value:function(){return null}},{key:"getChromosomeScale",value:function(t){var n,e;return n=Zo.select(this._ideo.selector).node().getBoundingClientRect(),e=t.getBoundingClientRect(),"scale("+n.width/e.height*.97+", "+this._getYScale()+")"}},{key:"getChromosomeScaleBack",value:function(t){var n,e,r;return e=(r=this._ideo.config).taxid,n=t.id.split("-")[0].replace("chr",""),"scale("+this._ideo.chromosomes[e][n].oldWidth/(3*r.chrHeight)*.97+", "+1/this._getYScale()+")"}},{key:"getChromosomeSetTranslate",value:function(t){return"rotate(90) translate("+this.margin.top+", -"+this.getChromosomeSetYTranslate(t)+")"}},{key:"getChromosomeSetYTranslate",value:function(t){var n,e=this._getAdditionalOffset(),r=this._config,o=r.chrMargin,i=r.chrWidth;if(!r.ploidyDesc)return"histogram"===r.annotationsLayout?o+t*(o+i+3)+2*r.barWidth:(n=i+t*(o+i)+2*e+("legendPad"in r?r.legendPad:0),e>0?n:n+4+2*t);if(!this._translate){var a;this._translate=[this._ploidy.getSetSize(0)*i*2];for(var s=1;s<this._config.ploidyDesc.length;s++)a=this._translate[s-1],this._translate[s]=a+this._getChromosomeSetSize(s-1)}return this._translate[t]}},{key:"getChromosomeSetLabelXPosition",value:function(){return this._config.chrWidth*this._config.ploidy/-2}},{key:"getChromosomeLabelXPosition",value:function(){return this._config.chrWidth/-2}}]),e}(Ai),Ci=function(t){i(e,t);var n=s(e);function e(t,r){var o;return u(this,e),(o=n.call(this,t,r))._class="HorizontalLayout",o.margin={left:20,top:30},o}return f(e,[{key:"_getLeftMargin",value:function(){var t=Ai.prototype._getLeftMargin.call(this);return this._config.ploidy>1&&(t*=1.8),t}},{key:"rotateForward",value:function(t,n,e,r){var o;Zo.select(e.parentNode).transition().attr("transform","rotate(90) translate(30, -37.5) ").on("end",r),o=this.getChromosomeLabels(e),Zo.select(this._ideo.getSvg()).append("g").attr("class","tmp").selectAll("text").data(o).enter().append("text").attr("class",(function(t,n){return 0===n&&2===o.length?"chrSetLabel":null})).attr("x",26).attr("y",(function(t,n){return 12*(n+1+o.length%2)})).style("text-anchor","middle").style("opacity",0).text(String).transition().style("opacity",1),this._ideo.config.orientation="vertical"}},{key:"rotateBack",value:function(t,n,e,r){var o=this.getChromosomeSetTranslate(t);Zo.select(e.parentNode).transition().attr("transform",o).on("end",r),Zo.selectAll(this._ideo.selector+" g.tmp").style("opacity",0).remove(),this._ideo.config.orientation="horizontal"}},{key:"getHeight",value:function(t){void 0===t&&(t=this._config.taxids[0]);var n=this._config.chromosomes[t].length,e=this.getChromosomeSetYTranslate(n-1);return(e+=this._getChromosomeSetSize(n-1))+2*this._getAdditionalOffset()}},{key:"getWidth",value:function(){return this._config.chrHeight+1.5*this.margin.top}},{key:"getChromosomeSetLabelAnchor",value:function(){return"end"}},{key:"getChromosomeBandLabelAnchor",value:function(){return null}},{key:"getChromosomeBandTickY1",value:function(){return 2}},{key:"getChromosomeBandTickY2",value:function(){return 10}},{key:"getChromosomeSetLabelTranslate",value:function(){return null}},{key:"getChromosomeSetTranslate",value:function(t){return"translate("+this._getLeftMargin()+", "+this.getChromosomeSetYTranslate(t)+")"}},{key:"getChromosomeSetYTranslate",value:function(t){if(!this._config.ploidyDesc)return this._config.chrMargin*(t+1);if(!this._translate){this._translate=[1];for(var n=1;n<this._config.ploidyDesc.length;n++)this._translate[n]=this._translate[n-1]+this._getChromosomeSetSize(n-1)}return this._translate[t]}},{key:"getChromosomeSetLabelXPosition",value:function(t){return 1===this._config.ploidy?this.getChromosomeLabelXPosition(t):-20}},{key:"getChromosomeSetLabelYPosition",value:function(t){var n=this._ploidy.getSetSize(t),e=this._config,r=e.chrMargin,o=e.chrWidth;return 1===e.ploidy?o/2+3:n*r/2}},{key:"getChromosomeLabelXPosition",value:function(){return-8}},{key:"getChromosomeLabelYPosition",value:function(){return this._config.chrWidth}}]),e}(Ai),Ti=function(t){i(e,t);var n=s(e);function e(t,r){var o;return u(this,e),(o=n.call(this,t,r))._class="PairedLayout",o.margin={left:30},o}return f(e,[{key:"getHeight",value:function(){return this._config.chrHeight+1.5*this.margin.left}},{key:"getWidth",value:function(){return"97%"}},{key:"getChromosomeBandTickY1",value:function(t){return t%2?this._config.chrWidth:2*this._config.chrWidth}},{key:"getChromosomeBandTickY2",value:function(t){var n=this._config.chrWidth;return t%2?n-this._tickSize:2*n+this._tickSize}},{key:"getChromosomeBandLabelAnchor",value:function(t){return t%2?null:"end"}},{key:"getChromosomeBandLabelTranslate",value:function(t,n){var e=n%2?10:-this._config.chrWidth-10,r=this._ideo.round(t.px.start+t.px.width/2)+3;return{x:r,y:r,translate:"rotate(-90) translate("+e+", "+r+")"}}},{key:"getChromosomeLabelXPosition",value:function(){return-this._tickSize}},{key:"getChromosomeSetLabelXPosition",value:function(){return this._config.chrWidth/-2}},{key:"getChromosomeSetLabelTranslate",value:function(){return"rotate(-90)"}},{key:"getChromosomeSetTranslate",value:function(t){var n=this.getChromosomeSetYTranslate(t);return"rotate(90) translate("+this.margin.left+", -"+n+")"}},{key:"getChromosomeSetYTranslate",value:function(t){return 200*(t+1)}}]),e}(Ai),Li=function(t){i(e,t);var n=s(e);function e(t,r){var o;u(this,e),(o=n.call(this,t,r))._class="SmallLayout",o.margin={left:36.5,top:10};var i=o._ideo.getTaxid(o._ideo.config.organism);o.chrs=t.chromosomes[i];var a=o.chrs.length;return o.chrsPerRow=Math.ceil(a/t.rows),o}return f(e,[{key:"getHeight",value:function(){var t=1.25*this._config.chrHeight;return this._config.rows*(t+this.margin.top)}},{key:"getWidth",value:function(){return"97%"}},{key:"getChromosomeBandLabelTranslate",value:function(){}},{key:"getChromosomeSetLabelTranslate",value:function(){return"rotate(-90)"}},{key:"getChromosomeSetTranslate",value:function(t){var n,e;return t>this.chrsPerRow-1?(n=this.margin.left+1.3*this._config.chrHeight,e=this.getChromosomeSetYTranslate(t-this.chrsPerRow)):(n=this.margin.left,e=this.getChromosomeSetYTranslate(t)),"rotate(90) translate("+n+", -"+e+")"}},{key:"getChromosomeSetYTranslate",value:function(t){var n=.3*this._getAdditionalOffset();return this.margin.left*t+this._config.chrWidth+2*n+n*t}},{key:"getChromosomeSetLabelXPosition",value:function(t){return(this._ploidy.getSetSize(t)*this._config.chrWidth+20)/-2+(this._config.ploidy>1?0:this._config.chrWidth)}},{key:"getChromosomeLabelXPosition",value:function(){return this._config.chrWidth/-2}}]),e}(Ai);function Si(t){var n=this;n.config.annotationsPath&&n.fetchAnnots(n.config.annotationsPath),function(t){if("ploidyDesc"in t.config&&"string"==typeof t.config.ploidyDesc){for(var n=[],e=0;e<t.numChromosomes;e++)n.push(t.config.ploidyDesc);t.config.ploidyDesc=n}t._ploidy=new xi(t.config)}(n),n._layout=function(t){var n=t.config;return"perspective"in n&&"comparative"===n.perspective?new Ti(n,t):"rows"in n&&n.rows>1?new Li(n,t):"vertical"===n.orientation?new ki(n,t):"horizontal"===n.orientation?new Ci(n,t):new ki(n,t)}(n),function(t){Zo.selectAll(t.config.container+" #_ideogramOuterWrap").remove(),Zo.select(t.config.container).append("div").attr("id","_ideogramOuterWrap").append("div").attr("id","_ideogramTrackLabelContainer").style("position","absolute"),Zo.select(t.config.container+" #_ideogramOuterWrap").append("div").attr("id","_ideogramMiddleWrap").style("position","relative").style("overflow-x","auto").style("transform","translateZ(0)").append("div").attr("id","_ideogramInnerWrap").append("svg").attr("id","_ideogram").attr("class",function(t){var n="";return t.config.showChromosomeLabels&&("horizontal"===t.config.orientation?n+="labeledLeft ":n+="labeled "),!1===t.config.rotatable&&(n+="no-rotate "),t.config.annotationsLayout&&"overlay"===t.config.annotationsLayout&&(n+="faint"),n}(t)).attr("width",t._layout.getWidth()).attr("height",t._layout.getHeight()).html(t.getBandColorGradients())}(n),n.isOnlyIdeogram=1===document.querySelectorAll("#_ideogram").length,function(t){Zo.select(t.config.container+" #_ideogramOuterWrap").append("div").attr("class","_ideogramTooltip").attr("id","_ideogramTooltip").style("opacity",0).style("position","fixed").style("text-align","center").style("padding","4px").style("font","12px sans-serif").style("background","white").style("border","1px solid black").style("border-radius","5px").style("z-index","1000")}(n),n.finishInit(t)}var Mi="";function Pi(t,n,e){return e.config.dataDir+t[n]}function Ni(t,n,e){var r=e.config.ploidy;return"sex"in e.config&&(2===r&&e.sexChromosomes.index+1===n||"female"===e.config.sex&&"Y"===t.name)}function Ei(t,n,e,r){var o,i,a,s,c;for(o=0;o<n.length;o++)a=n[o],void 0!==t&&(i=t[o]),c=o+r.config.taxids.indexOf(e),s=r.getChromosomeModel(i,a,e,c),"string"!=typeof a&&(a=a.name.split(" ").slice(-1)[0].replace("chr","")),r.chromosomes[e][a]=s,r.chromosomesArray.push(s),Ni(s,o,r)||r.drawChromosome(s)}function Ii(t,n){"undefined"!=typeof chrBands&&t.length>=chrBands.length/2&&(n.coordinateSystem="bp")}function Bi(){var t,n,e,r,o=this,i=o.config.taxids;for(n=0;n<i.length;n++)t=i[n],e=o.config.chromosomes[t],r=o.bandsArray[t],o.config.showNonNuclearChromosomes||(e=e.filter((function(t){return"MT"!==t})),void 0!==r&&(r=r.filter((function(t){return"MT"!==t[0].chr})))),Ii(e,o),o.chromosomes[t]={},o.setSexChromosomes(e),Ei(r,e,t,o),o.config.showBandLabels&&o.drawBandLabels(o.chromosomes),o.handleRotateOnClick(),o._gotChrModels=!0}function Di(){var t=this;"rotatable"in t.config&&!1===t.config.rotatable?Zo.selectAll(t.selector).style("cursor","default"):Zo.selectAll(t.selector+" .chromosome-set").on("click",(function(){var n=this.children[1];t.rotateAndToggleDisplay(n)}))}function Fi(){call(this.onLoadCallback)}function Oi(t,n,e){var r,o,i,a=e.config;r=e.organisms[t],a.assembly||(e.config.assembly="default"),o=r.assemblies,i=function(t,n,e){var r=e.organisms[t],o=[hi(r.scientificName)],i=r.assemblies,a=e.config.resolution;return n!==i.default&&o.push(n),"9606"===t&&(n in i==="false"&&Object.values(i).includes(config.assembly)||""!==a&&850!==a)&&o.push(a),o=o.join("-"),["9606","10090","10116"].includes(t)&&!e.config.showFullyBanded&&(o+="-no-bands"),o+".json"}(t,e.assemblyIsAccession()?a.assembly:o[a.assembly],e);var s="-1"===t;return(t in e.organismsWithBands||s)&&(n[t]=i),n}function Ri(t,n,e,r){return function(t,n,e){var r=Pi(t,n,e);return(!(void 0!==window.chrBands&&""===Mi)||Mi!==r)&&function(t){return"assembly"in t.config&&!1===/(GCA_)/.test(t.config.assembly)}(e)&&n in t}(n,t,r)?function(t,n,e,r){var o=Pi(t,n,r);return r.numBandDataResponses||(r.numBandDataResponses=0),ei(o).then((function(n){return n.json().then((function(e){Mi=o,delete window.chrBands,window.chrBands=e.chrBands,function(t,n,e,r){var o,i,a;for(o in n)a=n[o],t.includes(a)&&""!==a&&(i=o);r.bandData[i]=e}(n.url,t,chrBands,r)}))}))}(n,t,0,r).then((function(){return r.processBandData(t)})):new Promise((function(n){r.processBandData(t),n([t,void 0])}))}var ji={},zi={},Hi={};function Gi(t){var n=(t=t||this).config.container;Hi[n]?(zi[n]=!0,ji[n]=t):(Hi[n]=!0,function(t){return new Promise((function(n){var e=t.config.organism;"number"==typeof e?t.getOrganismFromEutils(e,(function(){t.getTaxids(n)})):t.getTaxids(n)}))}(t).then((function(e){var r=e[0];t.config.taxid=r,t.config.taxids=e,t.organismScientificName=t.getScientificName(t.config.taxid),function(t,n,e){var r,o,i,a=[];for(i in r={},Ko)r[i]="";for(o=0;o<t.length;o++)r=Oi(i=String(t[o]),r,e),a.push(Ri(i,r,0,e));Promise.all(a).then((function(t){var r,i,a;for(o=0;o<t.length;o++)i=(r=t[o])[0],a=r[1],"bandsArray"in e==0&&(e.bandsArray={}),e.bandsArray[i]=a;e.writeContainer(n)}))}(e,(new Date).getTime(),t),Hi[n]=!1,zi[n]&&(zi[n]=!1,Gi(ji[n]))})))}var Wi=function(){function t(n,e){u(this,t),this.rawAnnots=this.parseBed(n,e)}return f(t,[{key:"parseGenomicCoordinates",value:function(t,n){var e,r,o,i;return e=t[0],r=parseInt(t[1],10),i=(o=parseInt(t[2],10))-r,n&&(e=e.slice(3)),[e,r,o,i]}},{key:"parseAnnotFromTsvLine",value:function(n,e,r){var i,a,s,c,l,u,h,f,d=n.split(/\s/g);return c=(i=o(this.parseGenomicCoordinates(d,r),4))[0],l=i[1],stop=i[2],length=i[3],-1===(s=e.indexOf(c))?[null,null]:(a=["",l,length,0],d.length>=4&&(f=d[3],a[0]=f),d.length>=8&&(u=d[8].split(","),h=t.rgbToHex(u[0],u[1],u[2]),a.push(h)),[s,a])}},{key:"parseRawAnnots",value:function(t,n,e,r){var i,a,s,c,l,u;for(u=!0,!1===isNaN(parseInt(e[n],10))&&(u=!1),i=n;i<e.length;i++){var h;a=e[i],s=(h=o(this.parseAnnotFromTsvLine(a,r,u),2))[0],c=h[1],null!==s&&t[s].annots.push(c)}return l=["name","start","length","trackIndex"],e[n].length>=8&&l.push("color"),{keys:l,annots:t}}},{key:"parseBed",value:function(t,n){var e,r,o,i,a=[],s=t.split(/\r\n|\n/);for(r=Object.keys(n.chromosomes[n.config.taxid]),e=0;e<r.length;e++)o=r[e],a.push({chr:o,annots:[]});return i=0,("chr"===s[0].slice(0,3)||isNaN(parseInt(s[0],10)))&&(i=1),this.parseRawAnnots(a,i,s,r)}}],[{key:"componentToHex",value:function(t){var n=parseInt(t,10).toString(16);return 1===n.length?"0"+n:n}},{key:"rgbToHex",value:function(n,e,r){return"#"+t.componentToHex(n)+t.componentToHex(e)+t.componentToHex(r)}}]),t}(),qi=function(){function t(n,e){u(this,t),this.rawAnnots=this.parseTsv(n,e)}return f(t,[{key:"parseGenomicCoordinates",value:function(t){var n,e;return[t[1],n=parseInt(t[2],10),n+(e=parseInt(t[3],10)),e]}},{key:"getValueColumnIndex",value:function(t,n){var e;return n.split(/\t/g).forEach((function(n,r){n.includes(t)&&(e=r)})),e}},{key:"parseAnnotFromTsvLine",value:function(t,n,e){var r,i,a,s,c,l,u,h,f,d=t.split(/\t/g);return s=(r=o(this.parseGenomicCoordinates(d),4))[0],c=r[1],stop=r[2],length=r[3],-1===(a=e.indexOf(s))?[null,null]:(i=[d[0],c,length,0],n.includes("color")&&(l=d[this.getValueColumnIndex("color",n)],i.push(l)),n.includes("full_name")&&(u=d[this.getValueColumnIndex("full_name",n)],i.push(u)),n.includes("citations")&&(f=d[this.getValueColumnIndex("citations",n)],i.push(f)),n.includes("significance")&&(h=d[this.getValueColumnIndex("significance",n)],i.push(h)),[a,i])}},{key:"parseRawAnnots",value:function(t,n,e,r){var i,a,s,c,l,u=e[0];for(i=n;i<e.length;i++){var h;0!==(a=e[i]).length&&(s=(h=o(this.parseAnnotFromTsvLine(a,u,r),2))[0],c=h[1],null!==s&&t[s].annots.push(c))}return l=["name","start","length","trackIndex"],u.includes("color")&&l.push("color"),u.includes("full_name")&&l.push("fullName"),u.includes("citations")&&l.push("citations"),u.includes("significance")&&l.push("significance"),{keys:l,annots:t}}},{key:"parseTsv",value:function(t,n){var e,r,o,i,a,s=[],c=t.split(/\r\n|\n/);for(r=Object.keys(n.chromosomes[n.config.taxid]),e=0;e<r.length;e++)o=r[e],s.push({chr:o,annots:[]});if(i=0,("chr"===c[0].slice(0,3)||isNaN(parseInt(c[0],10)))&&(i=1),a=this.parseRawAnnots(s,i,c,r),1===i&&c[0].includes("citations")){var l=c[0].split("\t"),u=l[6].split("citations_")[1];a.annots=a.annots.map((function(t){return t.annots=t.annots.map((function(t){return t[6]=t[6]+" citations "+u.replace(/_/g," "),t})),t}))}return a}}]),t}(),Yi=["name","start","length","trackIndex","trackIndexOriginal","color"],Xi={3:["00B","DDD","F00"],5:["00D","66D","DDD","F88","F00"],17:["00D","00D","00D","00D","00D","44D","44D","DDD","DDD","DDD","DDD","F88","F66","F22","F22","F00","F00","F00"]};function Ui(t){var n,e,r;if(t.rawAnnots.metadata&&t.rawAnnots.metadata.trackLabels)n=t.rawAnnots.metadata.trackLabels;else if(t.config.heatmaps)for(n=[],e=t.config.heatmaps,r=0;r<e.length;r++)n.push(e[r].key);else n=t.rawAnnots.keys.slice(0).filter((function(t){return!Yi.includes(t)}));return t.displayedTrackIndexes&&(n=n.filter((function(n,e){return t.displayedTrackIndexes.includes(e+1)}))),n}function Vi(t){var n,e,r=t.rawAnnots;if(!r.metadata||r.metadata.heatmapThresholds||t.config.heatmapThresholds)return n=t.config.heatmapThresholds?t.config.heatmapThresholds:t.rawAnnots.metadata.heatmapThresholds,e=Xi[n.length+1],(n=n.map((function(t,n){return[t,"#"+e[n]]}))).push(["+","#"+e.slice(-1)[0]]),n}function Qi(t,n,e,r,o){return t===n&&"+"===o&&e>r||e===o||0!==t&&t!==n&&e<=o&&e>r||0===t&&e<=o}function $i(t,n){var e,r,o,i,a,s,c,l;for(e=0;e<t.length;e++)r=t.length-1,i=(o=t[e])[0],a=parseFloat(i),!1===isNaN(a)&&(i=a),0!==e&&(c=parseFloat(t[e-1][0])),s=o[1],Qi(e,r,n,c,i)&&(l=s);return l}function Ji(t,n,e){var r,o,i,a,s,c=t.width,l=[],u=e.config.annotLabelHeight,h=e.config.numAnnotTracks;for(r=0;r<h;r++)i=e.config.annotationHeight+u+4,s=t.id+"-canvas-"+r,o=n,t.chrIndex>0&&(o+=e.config.chrMargin*t.chrIndex-1),a=Zo.select(e.config.container+" #_ideogramInnerWrap").append("canvas").attr("id",s).attr("width",c+1).attr("height",i).style("position","absolute").style("left",o+"px").style("top",i*r+1+"px").nodes()[0].getContext("2d"),l.push([a,t]);return l}function Ki(t,n,e){var r,o,i,a,s=e.config.annotLabelHeight,c=e.config.annotationHeight,l=e.config.demarcateCollinearChromosomes,u=c+s+4;for(r=0;r<t.length;r++)if(i=n[(o=t[r]).trackIndex][0],a=n[o.trackIndex][1],i.fillStyle=o.color,l){if(o.startPx<1||o.startPx>a.width-1)continue;i.fillRect(o.startPx,1,.5,u)}else i.fillRect(o.startPx,s+1,.5,c);if(l)for(r=0;r<n.length;r++)i=n[r][0],a=n[r][1],i.fillStyle="#555",0===a.chrIndex&&i.fillRect(0,0,1,u),i.fillRect(a.width-1,0,1.1,u),i.fillRect(0,0,a.width+1,1),e.config.chrMargin&&i.fillRect(0,0,1.1,u)}function Zi(t,n,e){var r,o,i,a=e.config.annotationHeight,s=e._layout.margin.top;for(i=t.values,r=0;r<i.length;r++)n.fillStyle=i[r],o=(r-1)*a,n.fillRect(o,t.startPx+s,a,2)}function ta(t,n,e,r,o,i,a){var s,c,l,u,h,f,d,m=a.config.heatmapThresholds;for(s=0;s<e.annots.length;s++){for(u=e.annots[s],(l={}).values=[],c=0;c<3;c++)l[i[c]]=u[c];for(c=3;c<i.length;c++)d=$i(m,u[c]),l.values.push(d);h=l.start+l.length,l.chr=e.chr,l.chrIndex=o,l.startPx=a.convertBpToPx(r,l.start),f=a.convertBpToPx(r,h),l.px=Math.round((l.startPx+f)/2),t.push(l)}return t.shift(),[t,n]}function na(t){!1!==t.config.showTrackLabel&&(t.hideTrackLabelTimeout=window.setTimeout((function(){Zo.select(t.config.container+" 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e,r,o=n.config.container,i=n._layout.margin.top,a=n.config.chrHeight+i,s=n.config.annotationHeight*t[0].values.length;for(Zo.selectAll(o+" canvas").remove(),Zo.select(o+" #_ideogramInnerWrap").style("max-width",s+"px"),Zo.select(o+" #_ideogram").attr("width",s),e=function(t,n,e,r){var o,i;return i=t.id+"-canvas",o=2*r.config.chrWidth+r.config.annotationHeight-.5,Zo.select(r.config.container+" #_ideogramInnerWrap").append("canvas").attr("id",i).attr("width",e).attr("height",n).style("position","absolute").style("left",o+"px").style("top","0px").nodes()[0].getContext("2d")}(n.chromosomesArray[0],a,s,n),r=0;r<t.length;r++)Zi(t[r],e,n);n.onDrawAnnotsCallback&&n.onDrawAnnotsCallback()}(t,a);for(Zo.selectAll(a.config.container+" canvas").remove(),function(t){Zo.select(t.config.container+" #_ideogramTrackLabelContainer").append("div").attr("id","_ideogramTrackLabel").style("opacity",0).style("position","absolute").style("text-align","center").style("padding","1px").style("font","11px 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cs(t){var n,e=this;if(n="taxid"in e.config,e.config.multiorganism=function(t,n){return"organism"in n.config&&n.config.organism instanceof Array||t&&n.config.taxid instanceof Array}(n,e),e.config.multiorganism&&(e.coordinateSystem="bp"),"organism"in e.config){var r=e.config.organism;"string"==typeof r&&(e.config.organism=hi(r.toLowerCase())),function(t,n){(function(t){var n,e,r,o,i,a=t.config;return n=[],e={},function(t,n){var e,r,o,i=[],a={};for(o=0;o<t.length;o++)r=!1===ss(e=t[o],n)?os(e,n).then((function(t){var e,r,o=t[1];r=(e=t[0].replace("-"," "))[0].toUpperCase()+e.slice(1),a[o]={scientificName:r,commonName:"",assemblies:{default:""}},Object.assign(n.organisms,a)}),(function(t){console.warn(t);var r={scientificName:e,commonName:e,assemblies:{default:""}};n.organisms[-1]=r,a[-1]=r})):new Promise((function(t){var r=n.getTaxid(e);a[r]=n.organisms[r],t()})),i.push(r);return Promise.all(i).then((function(){return a}))}(a.multiorganism?a.organism:[a.organism],t).then((function(t){var 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r;e.config.multiorganism?t&&(r=e.config.taxid):(t&&(r=[e.config.taxid]),e.config.taxids=r),n(r)}(n,t,e)}function ls(t,n){var e,r,i,a;return e=function(t,n){var e=t.genome;return"mitochondrion"===e?function(t,n){var e,r;return n.config.showNonNuclearChromosomes?(e=t.genome,[-1===(r=t.subtype.split("|").indexOf("plasmid"))?"MT":t.subname.split("|")[r],e]):[null,null]}(t,n):"chloroplast"===e||"plastid"===e?function(t){return t.config.showNonNuclearChromosomes?["CP","chloroplast"]:[null,null]}(n):"apicoplast"===e?function(t){return t.config.showNonNuclearChromosomes?["AP","apicoplast"]:[null,null]}(n):function(t){var n,e;return n=t.subtype.split("|").indexOf("chromosome"),void 0!==(e=t.subname.split("|")[n])&&"chr"===e.substr(0,3)&&(e=e.substr(3)),[e,"nuclear"]}(t)}(t,n),i=(r=o(e,2))[0],a=r[1],{name:i,length:t.slen,type:a}}function us(t,n){var e,r=this,o=function(t,n){var e;return 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n=o.round(t.px.start+t.px.width/2),r[e.id].push(n+13),"translate("+n+",-10)"})).append("line").attr("x1",0).attr("y1",o._layout.getChromosomeBandTickY1(e.chrIndex)).attr("x2",0).attr("y2",o._layout.getChromosomeBandTickY2(e.chrIndex))}function ys(t){var n,e,r,o,i,a=this,s={};for(o=function(t){var n,e,r=[];for(n in t)for(e in t[n])r.push(t[n][e]);return r}(t),n=0;n<o.length;n++)r=o[n],e=Zo.select(a.selector+" #"+r.id),s[r.id]=[],i=r.bands.filter((function(t){return"pter"!==t.name})),s=a.drawBandLabelText(e,i,r,s),a.drawBandLabelStalk(e,i,r,s);a.setBandsToShow(o,s)}function bs(t,n){return[n[t][0],n[t][1],n[t][2],n[t][3]]}function ws(){var t="";return t=function(t){var n,e,r,i,a,s="";for(n=0;n<t.length;n++){var c;e=(c=o(bs(n,t),4))[0],r=c[1],i=c[2],a=c[3],s+='<linearGradient id="'+e+'" x1="0%" y1="0%" x2="0%" y2="100%">',s+="gneg"===e?'<stop offset="70%" stop-color="'+i+'" /><stop offset="95%" stop-color="'+a+'" /><stop offset="100%" stop-color="'+r+'" />':'<stop offset="5%" 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Date).getTime();return n=[],"chromosomes"in o&&(e=o.multiorganism?o.chromosomes:t in o.chromosomes?o.chromosomes[t].slice():o.chromosomes.slice()),n=function(t,n,e,r){var o,i;if(t in r.bandData||t in Ko&&!1===r.assemblyIsAccession())e=function(t,n,e,r){var o,i,a;o=function(t,n,e){var r,o,i,a,s,c,l={};c=e.bandData[t],Array.isArray(c)&&(s="native"),n=function(t){var n,e;if(t instanceof Array&&"object"==typeof t[0]){for(n=[],e=0;e<t.length;e++)n.push(t[e].name);t=n}return t}(n);var u=function(t,n){var e,r,o;return"undefined"==typeof chrBands&&"native"!==t?(e=/\t/,r=n.split(/\r\n|\n/),o=1):(e=/ /,r=n,o=0),[e,r,o]}(s,c);for(r=u[0],o=u[1],a=u[2];a<o.length;a++)_s(n,(i=o[a].split(r))[0],t,e)||(l=xs(l,i,t));return l}(t,n,r),n=Object.keys(o).sort(Ideogram.sortChromosomes),"chromosomes"in 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a,s,c;a=i.convertBpToPx(t,n)+r,s=i.convertBpToPx(t,e)+r,c=i._layout.getChromosomeSetYTranslate(0)+(i.config.chrWidth-o)/2,Zo.select(i.selector).append("g").attr("class","brush").attr("transform","translate(0, "+c+")").call(i.brush).call(i.brush.move,[a,s])}(c,n,e,m,d,f)}function Ss(){call(this.onCursorMoveCallback)}function Ms(t){var n,e,r,i=this,a=i.config.chrWidth+6.5,s=i._layout.margin.left;if(void 0===t)return!1;r=function(t,n){var e,r;for(e=0;e<n.chromosomesArray.length;e++)if((r=n.chromosomesArray[e]).name===t)return r}(i.config.chromosome,i),n=function(t,n){var e,r,o=[1],i=[1],a=t.bands.slice(-1)[0];for(r=0;r<t.bands.length;r++)e=t.bands[r],o.push(e.bp.start),i.push(e.px.start+n);return o.push(a.bp.stop-1),i.push(a.px.stop+n),[o,i]}(r,s),function(t,n,e,r,o,i){var a;a=Zo.scaleLinear().domain(n).range(e),"rotatable"in i.config&&!1===i.config.rotatable||console.warn("Using the cursor with rotate is not supported.");var s=i._layout.getChromosomeSetYTranslate(0)+(i.config.chrWidth-o)/2,c=Zo.select(i.selector).append("g").attr("class","brush").attr("transform","translate(0, "+s+")").append("rect").attr("class","cursor").attr("x",a(t)).attr("y",0).attr("width",1).attr("height",30);i.onCursorMove&&i.onCursorMoveCallback(t),i.setCursorPosition||(i.setCursorPosition=function(t){c.attr("x",a(t)),i.onCursorMove&&i.onCursorMoveCallback(t)}),Zo.selectAll(i.selector+" .chromosome").on("click",(function(t){var n=t.offsetX;n-=6,c.attr("x",n);var e=Math.floor(a.invert(n));i.onCursorMove&&i.onCursorMoveCallback(e)}))}(t,(e=o(n,2))[0],e[1],0,a,i)}function Ps(t,n){var e,r,o,i,a,s,c,l,u,h;for(e=this.bandsArray,r=this.config.taxid,o=this.config.chromosomes[r],a=(i="male"===this.config.sex?[1,0]:[0,0]).length,h=0;h<a;h++)s=o[u=i[h]+n],c=e[r][u],l=this.getChromosomeModel(c,s,r,u),this.appendHomolog(l,n,h,t)}function Ns(t){var n,e,r=this,o={X:1,Y:1};if(2===this.config.ploidy&&this.config.sex)for(r.sexChromosomes.list=[],e=0;e<t.length;e++)n=t[e],"male"===r.config.sex&&n in o?(r.sexChromosomes.list.push(n),r.sexChromosomes.index||(r.sexChromosomes.index=e)):"X"===n&&(r.sexChromosomes.list.push(n,n),r.sexChromosomes.index=e)}function Es(t,n){var e,r,i,a;if(t.bands.length>1||"MT"===t.name){if(i=function(t,n){var e,r,o,i,a,s,c,l,u;for(e=0;e<t.bands.length;e++)if(a=(r=t.bands[e]).bp.start,c=(s=r.bp.stop)-a,o=r.iscn.start,i=r.iscn.stop-o,l=r.px.start,u=r.px.width,n>=a&&n<=s)return[l+u*(o+i/c*(n-a)-o)/i,r];return[null,r]}(t,n),r=(a=o(i,2))[0],e=a[1],null!==r)return r}else if(n>=1&&n<=t.length)return t.scale.bp*n;!function(t,n,e){throw new Error("Base pair out of range.  bp: "+t+"; length of chr"+n.name+": "+e.bp.stop)}(n,t,e)}function Is(t,n,e,r,o,i,a){var s,c,l,u;return a=t-n,s=r-o,c=i.bp.stop-i.bp.start,l=n+a/s*(e-o),u=i.bp.start+c*(l-n)/a,Math.round(u)}function Bs(t,n){var 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n?{arm:n,centromere:""}:n}},{key:"_getPolyploidArmColor",value:function(t,n,e){if(this._ploidy.exists(t,n,e)){var r=this._ploidy.getAncestor(t,n,e);return this._config.ancestors[r]}return"transparent"}}]),t}(),Ic=function(){function t(n){u(this,t),this._data=n,this.start=n.start,this.stop=n.stop,this.length=this.stop-this.start}return f(t,[{key:"getColor",value:function(t){return"ploidy"in this._data?"ploidy"in this._data&&this._data.ploidy[t]?this._getColor(t):"transparent":this._getColor(t)}},{key:"_getColor",value:function(t){return Array.isArray(this._data.color)?this._data.color[t]:this._data.color}}]),t}(),Bc=function(){function t(n,e,r){u(this,t),this._adapter=n,this._model=this._adapter.getModel(),this._config=e,this._ideo=r,this._color=new Ec(this._config),this._bumpCoefficient=5}return f(t,[{key:"_addPArmShape",value:function(t,n){return n?t.concat(this._getPArmShape()):t}},{key:"_addQArmShape",value:function(t,n){return n?t.concat(this._getQArmShape()):t}},{key:"render",value:function(t,n,e){var r,o,i,a,s,c,l,u;if(r=this,t=t.append("g").attr("class","bands").attr("clip-path","url(#"+this._model.id+"-chromosome-set-clippath)"),o=this._renderArm(t,n,e,"p"),i=this._renderArm(t,n,e,"q"),this._renderRangeSet(t,n,e),a=[],a=this._addPArmShape(a,o),a=this._addQArmShape(a,i),s="0",c="",l=this.isFullyBanded(),"ancestors"in this._ideo.config&&!("rangeSet"in this._ideo.config)?(c=r._color.getArmColor(n,e,0),l&&(s="0.5")):l?(s=null,c="transparent"):"ancestors"in this._ideo.config||(s="1"),this._ideo.config.chrFillColor){var h=r._color.getFillColor();c=h.arm,u=h.centromere}return t.append("g").attr("class","chromosome-border").selectAll("path").data(a).enter().append("path").attr("fill",c).style("fill-opacity",s).style("fill",(function(t){if("acen"===t.class&&u)return u})).attr("stroke",(function(t,o){return r._color.getBorderColor(n,e,o)})).attr("stroke-width",(function(t){return"strokeWidth"in t?t.strokeWidth:1})).attr("d",(function(t){return t.path})).attr("class",(function(t){return t.class})),a}},{key:"_renderRangeSet",value:function(t,n,e){var r,o,i,a;"rangeSet"in this._config&&(o=this._config.rangeSet.filter((function(t){return t.chr-1===n})).map((function(t){return new Ic(t)})),i=t.append("g").attr("class","range-set"),a=(r=this)._ideo,i.selectAll("rect.range").data(o).enter().append("rect").attr("class","range").attr("x",(function(t){return a.convertBpToPx(r._model,t.start)})).attr("y",0).attr("width",(function(t){return a.convertBpToPx(r._model,t.length)})).attr("height",this._config.chrWidth).style("fill",(function(t){return t.getColor(e)})))}},{key:"_getShapeData",value:function(){var t,n,e,r;for(n=0;n<this._model.bands.length;n++)if("q"===this._model.bands[n].name[0]){t=this._model.bands[n];break}return e=this._model.bands.length-1,r=this._model.bands[e].px.stop,{x1:0,x2:t?t.px.start:r,x3:r,w:this._config.chrWidth,b:this._config.chrWidth/this._bumpCoefficient}}},{key:"_getPArmShape",value:function(){var t=this._getShapeData(),n=t.x2-t.b;return this.isFullyBanded()||"ancestors"in this._ideo.config?{class:"",path:"M"+t.b+",0 L"+n+",0 Q"+(t.x2+t.b)+","+t.w/2+","+n+","+t.w+" L"+t.b+","+t.w+" Q-"+t.b+","+t.w/2+","+t.b+",0"}:[{class:"",path:"M"+t.b+",0 L"+(n-2)+",0 L"+(n-2)+","+t.w+" L"+t.b+","+t.w+" Q-"+t.b+","+t.w/2+","+t.b+",0"},{class:"acen",path:"M"+n+",0 Q"+(t.x2+t.b)+","+t.w/2+","+n+","+t.w+" L"+n+","+t.w+" L"+(n-2)+","+t.w+" L"+(n-2)+",0"}]}},{key:"_getQArmShape",value:function(){var t=this._getShapeData(),n=t.x3-t.b,e=t.x2+t.b;return this.isFullyBanded()||"ancestors"in this._ideo.config?{class:"",path:"M"+e+",0 L"+n+",0 Q"+(t.x3+t.b)+","+t.w/2+","+n+","+t.w+" L"+e+","+t.w+" Q"+(t.x2-t.b)+","+t.w/2+","+e+",0"}:[{path:"M"+e+",0 L"+n+",0 Q"+(t.x3+t.b)+","+t.w/2+","+n+","+t.w+" L"+e+","+t.w+" L"+e+",0"},{class:"acen",path:"M"+e+",0Q"+(t.x2-t.b)+","+t.w/2+","+e+","+t.w+" L"+e+","+t.w+"L"+(e+2)+","+t.w+"L"+(e+2)+",0"}]}},{key:"isFullyBanded",value:function(){return this._model.bands&&(2!==this._model.bands.length||"q"===this._model.bands[0].name[0])}},{key:"_renderBands",value:function(t,n,e,r,o){var i,a,s;a="p"===o?0:1,s="","ancestors"in(i=this)._ideo.config&&!i.isFullyBanded()&&(s=i._color.getArmColor(n,e,a)),t.selectAll("path.band."+o).data(r).enter().append("path").attr("id",(function(t){return i._model.id+"-"+t.name.replace(".","-")})).attr("class",(function(t){return"band "+o+"-band "+t.stain})).attr("d",(function(t){var n;return"M "+i._ideo.round(t.px.start)+", 0l "+(n=i._ideo.round(t.px.width))+" 0 l 0 "+i._config.chrWidth+" l -"+n+" 0 z"})).style("fill",s)}},{key:"_renderArm",value:function(t,n,e,r){var o=this._model.bands.filter((function(t){return t.name[0]===r}));return this._renderBands(t,n,e,o,r),Boolean(o.length)}}],[{key:"getInstance",value:function(t,n,e){var r=t.getModel().centromerePosition;return"telocentric-p"===r?new Fc(t,n,e):"telocentric-q"===r?new Oc(t,n,e):new Dc(t,n,e)}}]),t}(),Dc=function(t){i(e,t);var n=s(e);function e(t,r,o){var i;return u(this,e),(i=n.call(this,t,r,o))._class="MetacentricChromosome",i}return f(e)}(Bc),Fc=function(t){i(e,t);var n=s(e);function e(t,r,o){var i;return u(this,e),(i=n.call(this,t,r,o))._class="TelocentricPChromosome",i._pArmOffset=3,i}return f(e,[{key:"_addPArmShape",value:function(t){return t.concat(this._getPArmShape())}},{key:"_getPArmShape",value:function(){var t=this._getShapeData();return t.o=this._pArmOffset,[{class:"acen",path:"M"+(t.x2+2)+",1L"+(t.x2+t.o+3.25)+",1 L"+(t.x2+t.o+3.25)+","+(t.w-1)+" L"+(t.x2+2)+","+(t.w-1)},{class:"gpos66",path:"M"+(t.x2-t.o+5)+",0L"+(t.x2-t.o+3)+",0 L"+(t.x2-t.o+3)+","+t.w+" L"+(t.x2-t.o+5)+","+t.w,strokeWidth:.5}]}},{key:"_getQArmShape",value:function(){var t=this._getShapeData(),n=t.x3-t.b,e=this._pArmOffset+3;return{class:"",path:"M"+(t.x2+e)+",0 L"+n+",0 Q"+(t.x3+t.b)+","+t.w/2+","+n+","+t.w+" L"+(t.x2+e)+","+t.w}}}]),e}(Bc),Oc=function(t){i(e,t);var n=s(e);function e(t,r,o){var i;return u(this,e),(i=n.call(this,t,r,o))._class="TelocentricQChromosome",i._qArmOffset=3,i}return f(e,[{key:"_getPArmShape",value:function(){var t=this._getShapeData(),n=t.x3-t.b,e=this._qArmOffset;return{class:"",path:"M"+(t.x2+e)+",0 L"+(n+e)+",0 L"+(n+e)+","+t.w+" L"+t.b+","+t.w+" Q-"+t.b+","+t.w/2+","+t.b+",0"}}},{key:"_addQArmShape",value:function(t){return t.concat(this._getQArmShape())}},{key:"_getQArmShape",value:function(){var t=this._getShapeData();return t.o=this._qArmOffset,[{class:"acen",path:"M"+(t.x2+2)+",1 L"+(t.x2+t.o+3.25)+",1 L"+(t.x2+t.o+3.25)+","+(t.w-1)+" L"+(t.x2+2)+","+(t.w-1)},{class:"gpos66",path:"M"+(t.x2+t.o+5)+",0 L"+(t.x2+t.o+3)+",0 L"+(t.x2+t.o+3)+","+t.w+" L"+(t.x2+t.o+5)+","+t.w,strokeWidth:.5}]}}]),e}(Bc);function Rc(t,n,e,r){var o,i,a,s,c;s=Zo.select(this.selector+" defs"),c=Pc.getInstance(t),o=e*this.config.chrMargin,i=r.append("g").attr("id",t.id).attr("class","chromosome "+c.getCssClass()).attr("transform","translate(0, "+o+")"),a=Bc.getInstance(c,this.config,this).render(i,n,e),Zo.select("#"+t.id+"-chromosome-set-clippath").remove(),s.append("clipPath").attr("id",t.id+"-chromosome-set-clippath").selectAll("path").data(a).enter().append("path").attr("d",(function(t){return t.path})).attr("class",(function(t){return t.class})),t.width<1&&Zo.select("#"+t.id+" .bands").style("opacity",0)}function jc(t){var n,e,r,o,i,a;if(n=t.chrIndex,o=this._layout.getChromosomeSetTranslate(n),a=this.selector+" #"+t.id+"-chromosome-set",Zo.selectAll(a+" g").remove(),0===(e=Zo.select(a)).nodes().length&&(e=Zo.select(this.selector).append("g").attr("class","chromosome-set").attr("transform",o).attr("id",t.id+"-chromosome-set")),"sex"in this.config&&2===this.config.ploidy&&this.sexChromosomes.index===n)this.drawSexChromosomes(e,n);else for(r=1,this.config.ploidy>1&&(r=this._ploidy.getChromosomesNumber(n)),i=0;i<r;i++)this.appendHomolog(t,n,i,e)}function zc(t){var n,e;this.unhighlight(),this.config.taxid&&(n=t.id.split("-")[0].replace("chr",""),e=this.chromosomes[this.config.taxid][n].chrIndex,this._layout.rotate(e,e,t))}function Hc(){var t,n,e,r,o,i,a,s;n=(t=this).config,i=Zo.select(n.container+" svg#_ideogram"),r=Zo.select(n.container+" #_ideogramInnerWrap"),o=Zo.select(n.container+" #_ideogramMiddleWrap"),s=1===(a=n.ploidy)?a:1.12*a;var c=0;"annotationsLayout"in n&&(c=n.annotationHeight*n.numAnnotTracks),"vertical"===n.orientation&&"comparative"!==n.perspective&&"collinear"!==n.geometry&&(e=t.numChromosomes*(n.chrWidth+n.chrMargin+c),"heatmap-2d"!==n.annotationsLayout&&(e=Math.ceil(e*s/n.rows),"SmallLayout"===t._layout._class&&(e+=100),e+=35,o.style("height",t._layout.getHeight()+"px"),r.style("max-width",e+"px").style("overflow-x","scroll").style("position","absolute"),i.style("min-width",e-5+"px"),t.config.showTools&&Sc(t)))}function Gc(){(function(t){var n=t._layout;Zo.selectAll(t.selector+" .chromosome-set").insert("text",":first-child").data(t.chromosomesArray).attr("class",n.getChromosomeLabelClass()).attr("transform",n.getChromosomeSetLabelTranslate()).attr("x",n.getChromosomeSetLabelXPosition()).attr("y",(function(t,e){return n.getChromosomeSetLabelYPosition(e)})).attr("text-anchor",n.getChromosomeSetLabelAnchor()).each((function(n,e){!function(t,n,e,r){var o=function(t,n,e){var r;return r=-1===t.name.indexOf(" ")?[t.name]:t.name.match(/^(.*)\s+([^\s]+)$/).slice(1).reverse(),"sex"in e.config&&2===e.config.ploidy&&n===e.sexChromosomes.index&&(r="male"===e.config.sex?["XY"]:["XX"]),r}(t,n,r);Zo.select(e).selectAll("tspan").data(o).enter().append("tspan").attr("dy",(function(t,n){return-1.2*n+"em"})).attr("x",r._layout.getChromosomeSetLabelXPosition()).attr("class",(function(t,n){var e=r.config.fullChromosomeLabels;return 1===n&&e?"italic":null})).text(String)}(n,e,this,t)}))})(this),function(t){var n=t._layout;Zo.selectAll(t.selector+" .chromosome-set").each((function(e,r){Zo.select(this).selectAll(".chromosome").append("text").attr("class","chrLabel").attr("transform",n.getChromosomeSetLabelTranslate()).attr("x",(function(t,e){return n.getChromosomeLabelXPosition(e)})).attr("y",(function(t,e){return n.getChromosomeLabelYPosition(e)})).text((function(n,e){return t._ploidy.getAncestor(r,e)})).attr("text-anchor","middle")}))}(this)}function Wc(t,n,e,r){var o;n-=1,o=function(t){var n,e,r;return void 0===t||!t.hasOwnProperty("x")||1===t.x&&1===t.y?(n=-8,e=-16,t={x:1,y:1},r=""):(r="scale("+t.x+","+t.y+")",n=-6,e=""===t?-16:-14),{x:n,y:e,scaleSvg:r,scale:t}}(r),"vertical"===e||""===e?function(t,n,e,r){var o,i,a,s=r.config;n=function(t,n){return(n.numAnnotTracks>1||""===n.orientation)&&(t-=1),t}(n,s),o=-4,!0===s.showBandLabels&&(o=s.chrMargin+s.chrWidth+26),i=s.chrMargin*n,s.numAnnotTracks>1==0&&(i+=1),a=i+o,t.selectAll("text.chrLabel").attr("transform",e.scaleSvg).selectAll("tspan").attr("x",e.x).attr("y",a)}(t,n,o,this):function(t,n,e,r){var o,i,a,s=r.config;o=-s.chrWidth-2,!0===s.showBandLabels&&(o=s.chrMargin+8),i=s.annotTracksHeight,"overlay"!==s.annotationsLayout&&(i*=2),a=3-(s.chrMargin*n+o)+i,a/=e.scale.x,t.selectAll("text.chrLabel").attr("transform","rotate(-90)"+e.scaleSvg).selectAll("tspan").attr("x",a).attr("y",e.y)}(t,n,o,this)}function qc(t){return Math.round(performance.now()-t)}function Yc(t){t.time={rg:{t0:performance.now()}},"_didRelatedGenesFirstPlot"in t&&delete t._didRelatedGenesFirstPlot}function Xc(){var t=this.annotDescriptions.annots,n=Object.values(t).slice(),e=n.filter((function(t){return t.type&&t.type.includes("paralogous")})),r=n.filter((function(t){return t.type&&t.type.includes("interacting gene")}));return{related:n,paralogous:e,interacting:r,searched:Object.entries(t).filter((function(t){return t[1].type&&t[1].type.includes("searched gene")}))[0][0]}}function Uc(t){var n=this,e=performance.now()-n.time.prevTooltipOff,r=n.time.prevTooltipAnnotDomId;if(e<300&&t.domId===r)return null;var o=t.name,i=n.annotDescriptions.annots[t.name].type.split(" ")[0],a=Vc(n);return Object.assign({tooltipGene:o,tooltipRelatedType:i},a)}function Vc(t){var n=t.getRelatedGenesByType();return{numRelatedGenes:n.related.length,numParalogs:n.paralogous.length,numInteractingGenes:n.interacting.length,searchedGene:n.searched}}function Qc(t,n){var e="WBGene"===t?8:11;return t+n.padStart(e,"0")}function $c(t,n){return Jc.apply(this,arguments)}function Jc(){return Jc=e(d().mark((function t(n,r){var i,a,s,c,l,u,h,f,m,p,g,v,y,b,w,x,_=arguments;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:if(i=_.length>2&&void 0!==_[2]?_[2]:null,a=performance.now(),Mc={},function(t){var n=function(t){var n=function(t){for(var n in t=hi(t),Ko){var e=Ko[n],r=hi(e.commonName),o=hi(e.scientificName);if(r===t||o===t)return n}return null}(t);return Ko[n]}(t);return n.hasGeneCache&&!0===n.hasGeneCache}(n)){t.next=4;break}return t.abrupt("return");case 4:if(!Ideogram.geneCache||!Ideogram.geneCache[n]){t.next=6;break}return t.abrupt("return",void(r.geneCache=Ideogram.geneCache[n]));case 6:return Ideogram.geneCache||(Ideogram.geneCache={}),t.next=9,caches.open("ideogram-1.33.0");case 9:return Ideogram.cache=t.sent,s=function(t,n,e){var r=hi(t);if(!n){var o=e.config.dataDir.split("/"),i=o.indexOf("data");n=o.slice(0,i).join("/")+"/data/cache/"}return n+r+"-genes.tsv"}(n,i,r),c=performance.now(),t.next=14,function(){var t=e(d().mark((function t(n){return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:return t.t0=void 0,t.next=3,Ideogram.cache.match(n);case 3:if(t.t1=t.sent,t.t2=t.t0===t.t1,!t.t2){t.next=8;break}return t.next=8,Ideogram.cache.add(n);case 8:return t.next=10,Ideogram.cache.match(n);case 10:return t.abrupt("return",t.sent);case 11:case"end":return t.stop()}}),t)})));return function(n){return t.apply(this,arguments)}}()(s);case 14:return l=t.sent,t.next=17,l.text();case 17:u=t.sent,h=performance.now(),Mc.fetch=Math.round(h-c),f=function(t,n){var e,r=[],i={},a={},s={},c={},l={},u=[],h=performance.now(),f=t.split(/\r\n|\n/);Mc.rawTsvSplit=Math.round(performance.now()-h),h=performance.now();for(var d=0;d<f.length;d++){var m=f[d];if(""!==m)if("#"!==m[0]){var p=o(m.trim().split(/\t/),5),g=p[0],v=p[1],y=p[2],b=p[3],w=p[4],x=parseInt(v),_=x+parseInt(y),A=Qc(e,b);u.push([g,x,_,A,w]);var k=[g,x,_];r.push(w),i[w.toLowerCase()]=w,a[A]=w,s[w]=A,c[w]=k,l[A]=k}else"## prefix"===m.slice(0,9)&&(e=m.split("prefix: ")[1])}var C=performance.now();Mc.parseCacheLoop=Math.round(C-h);var T=function(t){for(var n={},e=0;e<t.length;e++){var r=o(t[e],5),i=r[0],a=r[1],s=r[2],c=r[3],l=r[4];if(i in n){var u={name:l,start:a,stop:s,ensemblId:c};n[i].annots.push(u)}else n[i]={chr:i,annots:[]}}var h={};return Object.entries(n).forEach((function(t){var n=o(t,2),e=n[0],r=n[1];h[e]={chr:e,annots:r.annots.sort((function(t,n){return t.start-n.start}))}})),h}(u);return Mc.parseAnnots=Math.round(performance.now()-C),[r,i,a,s,c,l,T]}(u),m=o(f,7),p=m[0],g=m[1],v=m[2],y=m[3],b=m[4],w=m[5],x=m[6],Mc.parseCache=Math.round(performance.now()-h),r.geneCache={interestingNames:p,nameCaseMap:g,namesById:v,idsByName:y,lociByName:b,lociById:w,sortedAnnots:x},Ideogram.geneCache[n]=r.geneCache,r.config.debug&&(Mc.total=Math.round(performance.now()-a),console.log("perfTimes in initGeneCache:",Mc));case 22:case"end":return t.stop()}}),t)}))),Jc.apply(this,arguments)}var Kc={Arrow:["acts on","acted on by"],TBar:["inhibits","is inhibited by"],"mim-binding":["binds","binds"],"mim-catalysis":["catalyzes","catalyzed by"],"mim-cleavage":["cleaves","cleaved by"],"mim-conversion":["converts","converted by"],"mim-inhibition":["inhibits","is inhibited by"],"mim-modification":["modifies","is modified by"],"mim-necessary-stimulation":["necessarily stimulates","is necessarily stimulated by"],"mim-stimulation":["stimulates","is stimulated by"],"mim-transcription-translation":["transcribes / translates","is transcribed / translated by"]};function Zc(t){return tl.apply(this,arguments)}function tl(){return tl=e(d().mark((function t(n){var e;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:return t.next=2,fetch("https://mygene.info/v3/query"+n+"&size=400");case 2:return e=t.sent,t.next=5,e.json();case 5:return t.abrupt("return",t.sent);case 6:case"end":return t.stop()}}),t)}))),tl.apply(this,arguments)}function nl(t){var n=t.name,e=t.genomic_pos.ensemblgene,r=e;return void 0===e&&(r=t.genomic_pos.filter((function(t){return!t.chr.includes("_")}))[0].ensemblgene),{name:n,ensemblId:r}}function el(t,n){var e=n.organismScientificName;throw Error('"'.concat(t,'" is not a known gene in ').concat(e))}function rl(t,n,e){return ol.apply(this,arguments)}function ol(){return ol=e(d().mark((function t(n,e,r){var o,i,a,s;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:if("string"==typeof n&&(n=[n]),i="?q=".concat(n.map((function(t){return"".concat(e,":").concat(t.trim())})).join(" OR "),"&species=").concat(r.config.taxid,"&fields="),!r.geneCache){t.next=7;break}a=function(t,n,e){var r=e.geneCache,o="symbol"===n,i=o?r.lociByName:r.lociById,a=o?r.idsByName:r.namesById;return t.map((function(t){var n=t.toLowerCase();if(!i[t]&&!r.nameCaseMap[n]){if(!o)return;el(t,e)}o&&!i[t]&&r.nameCaseMap[n]&&(t=r.nameCaseMap[n]);var s=i[t],c=o?t:a[t],l=o?a[t]:t;return{symbol:c,name:"",source:"cache",genomic_pos:{chr:s[0],start:s[1],end:s[2],ensemblgene:l}}})).filter((function(t){return void 0!==t}))}(n,e,r),o=Zc("".concat(i,"symbol,name")).then((function(t){t.hits.forEach((function(t){var n=t.symbol,e=t.name;n in r.annotDescriptions.annots?r.annotDescriptions.annots[n].name=e:r.annotDescriptions.annots[n]={name:e}}))})),o={hits:a,fromGeneCache:!0},t.next=11;break;case 7:return s="".concat(i,"symbol,genomic_pos,name"),t.next=10,Zc(s);case 10:o=t.sent;case 11:return t.abrupt("return",o);case 12:case"end":return t.stop()}}),t)}))),ol.apply(this,arguments)}function il(t,n){return Array.isArray(t.genomic_pos)?t.genomic_pos.filter((function(t){return t.chr in n.chromosomes[n.config.taxid]}))[0]:t.genomic_pos}function al(t,n){var e=arguments.length>2&&void 0!==arguments[2]?arguments[2]:"red",r=il(t,n);return{name:t.symbol,chr:r.chr,start:r.start,stop:r.end,id:r.ensemblgene,color:e}}function sl(){var t=document.querySelector("#_ideogramInnerWrap"),n="position: absolute; top: 15px; left: ".concat(_l({}).legendPad+20,"px"),e=document.querySelector("#_ideogramLegend");t.prepend(e),e.style=n}function cl(t,n){return new Promise(function(){var o=e(d().mark((function o(i){var a,s,c,l;return d().wrap((function(o){for(;;)switch(o.prev=o.next){case 0:return s=performance.now(),o.next=3,function(){var t=e(d().mark((function t(n,e){var r,o,i,a,s;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:return r={},o={},i=e.config.organism.replace(/-/g," "),a="https://webservice.wikipathways.org/findInteractions?query=".concat(n.name,"&format=json"),t.next=6,fetch(a);case 6:return s=t.sent,t.next=9,s.json();case 9:return t.sent.result.forEach((function(t){if(t.species.toLowerCase()===i){var a=t.fields.right.values,s=t.fields.left.values,c=a.concat(s),l=t.name,u=t.id;c.forEach((function(t){if(!t.includes(n.name)){var i=l+u,a=function(t,n,e,r,o){var i;return i="geneCache"in 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e=n.relatedAnnots.slice();e=function(t,n){if("all"===n.config.annotsInList)return t;var e=[];return t.forEach((function(t){n.config.annotsInList.includes(t.name.toLowerCase())&&e.push(t)})),e}(e,n),e=ba(e=fl(e),40,n),n.relatedAnnots=fl(e),n.relatedAnnots=ba(e,40,n),e.sort(ul),n.relatedAnnots.sort(ul),e.length>1&&n.onFindRelatedGenesCallback&&n.onFindRelatedGenesCallback(),n.drawAnnots(e),n.config.showAnnotLabels&&(function(t){var n=[],e=t.chromosomesArray.map((function(t){return t.name})),r={};t.relatedAnnots.forEach((function(t){t.chr in r?r[t.chr].push(t):r[t.chr]=[t]}));var i={};Object.entries(r).map((function(n){var e=o(n,2),r=e[0],a=e[1];a.sort((function(n,e){return t.annotSortFunction(n,e)}));var s=a.map((function(t){return t.name})).reverse();i[r]=s})),t.relatedAnnots.forEach((function(t){var r=t.chr,o=e.indexOf(r),a=i[r].indexOf(t.name);t.domId=Ya(o,a),n.push(t)})),t.relatedAnnots=n}(n),n.fillAnnotLabels(n.relatedAnnots)),sl(),function(t,n){var e=n.getRelatedGenesByType(),r={paralogous:"interacting",interacting:"paralogous"}[t],o=e[t].length,i=e[r]?e[r].length:0;if(n._didRelatedGenesFirstPlot)if(o>0&&i>0){var a=n.time.rg.timestampFirstPlot;n.time.rg.totalLastPlotDiff=qc(a)}else o>0&&0===i?(n.time.rg.timestampFirstPlot=performance.now(),n.time.rg.totalFirstPlot=qc(n.time.rg.t0),n._relatedGenesFirstPlotType=t,n.time.rg.totalLastPlotDiff=0):(0===o&&i>0||(n._relatedGenesFirstPlotType="searched"),n.time.rg.totalLastPlotDiff=0);else n._didRelatedGenesFirstPlot=!0,n.time.rg.totalFirstPlot=qc(n.time.rg.t0),o>0&&(n.time.rg.timestampFirstPlot=performance.now(),n._relatedGenesFirstPlotType=t)}(t,n)}function ml(t){var n=document.querySelector(t.config.container);n.style.visibility="",n.style.position="absolute",n.style.width="100%";var e=document.querySelector("#_ideogramInnerWrap");e.style.position="relative",e.style.marginLeft="auto",e.style.marginRight="auto",e.style.overflowY="hidden",document.querySelector("#_ideogramMiddleWrap").style.overflowY="hidden";var r=t.config.legendPad;if(void 0===t.didAdjustIdeogramLegend){var o=document.querySelector("#_ideogram");e.style.maxWidth=parseInt(e.style.maxWidth)+160+r+"px",o.style.minWidth=parseInt(o.style.minWidth)+r+"px",o.style.maxWidth=parseInt(o.style.minWidth)+r+"px",o.style.position="relative",o.style.left="160px",t.didAdjustIdeogramLegend=!0}}function pl(){return gl.apply(this,arguments)}function gl(){return gl=e(d().mark((function t(){var n,r,o,i,a,s,c=arguments;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:if(n=c.length>0&&void 0!==c[0]?c[0]:null,(r=this).clearAnnotLabels(),(o=document.querySelector("#_ideogramLegend"))&&o.remove(),n){t.next=6;break}return t.abrupt("return",Al());case 6:return r.config=_l(r.config),i=["# Related genes for 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t.stop()}}),t,this)}))),gl.apply(this,arguments)}function vl(t){var n=this,r=n.annotDescriptions.annots[t.name],i=r.description.length>0?"<br/>".concat(r.description):"",a=r.name,s='<span id="ideo-related-gene" style="color: #0366d6; cursor: pointer;">'.concat(t.name,"</span><br/>").concat(a,"<br/>").concat(i,"<br/>");return t.displayName=s,r.type.includes("interacting gene")&&(r.originalDisplay=s,r.description=i,function(t,n,r){var i,a=n.description,s=n.originalDisplay,c=n.pathwayIds;t.displayName=t.displayName.replace(a,""),(i=e(d().mark((function t(n,r,i){var a;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:return a={},t.next=3,Promise.all(r.map(function(){var t=e(d().mark((function t(r){var s;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:return t.next=2,function(){var t=e(d().mark((function t(n,e,r){var i,a,s,c,l,u,h,f,m,p,g,v,y,b;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:return 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t(n){u(this,t),this.configure=vi,this.initDrawChromosomes=Bi,this.onLoad=Fi,this.handleRotateOnClick=Di,this.init=Gi,this.finishInit=wi,this.writeContainer=Si,this.onLoadAnnots=sa,this.onDrawAnnots=ca,this.processAnnotData=Va,this.restoreDefaultTracks=za,this.updateDisplayedTracks=Ha,this.initAnnotSettings=Ja,this.fetchAnnots=ts,this.drawAnnots=Ma,this.getHistogramBars=Aa,this.drawHeatmaps=oa,this.deserializeAnnotsForHeatmap=aa,this.fillAnnots=ns,this.drawProcessedAnnots=Pa,this.drawSynteny=ja,this.startHideAnnotTooltipTimeout=la,this.showAnnotTooltip=fa,this.onWillShowAnnotTooltip=ua,this.onClickAnnot=ha,this.setOriginalTrackIndexes=Ga,this.afterRawAnnots=Ka,this.downloadAnnotations=$a,this.addAnnotLabel=ya,this.removeAnnotLabel=xa,this.fillAnnotLabels=wa,this.clearAnnotLabels=_a,this.flattenAnnots=Za,this.highlight=es,this.unhighlight=rs,this.esearch="https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?retmode=json&api_key=7e33ac6a08a6955ec3b83d214d22b21a2808",this.esummary="https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?retmode=json&api_key=7e33ac6a08a6955ec3b83d214d22b21a2808",this.elink="https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?retmode=json&api_key=7e33ac6a08a6955ec3b83d214d22b21a2808",this.getOrganismFromEutils=is,this.getTaxids=cs,this.getAssemblyAndChromosomesFromEutils=us,this.drawBandLabels=ys,this.getBandColorGradients=ws,this.processBandData=ks,this.setBandsToShow=ps,this.hideUnshownBandLabels=hs,this.drawBandLabelText=gs,this.drawBandLabelStalk=vs,this.onBrushMove=Cs,this.onBrushEnd=Ts,this.createBrush=Ls,this.createClickCursor=Ms,this.onCursorMove=Ss,this.drawSexChromosomes=Ps,this.setSexChromosomes=Ns,this.convertBpToPx=Es,this.convertPxToBp=Bs,this.unpackAnnots=wc,this.packAnnots=xc,this.initCrossFilter=_c,this.filterAnnots=Ac,this.assemblyIsAccession=ti,this.getDataDir=ri,this.round=oi,this.onDidRotate=ii,this.getSvg=ai,this.fetch=si,this.getTaxid=ci,this.getCommonName=li,this.getScientificName=ui,this.getChromosomeModel=Cc,this.getChromosomePixels=kc,this.drawChromosomeLabels=Gc,this.rotateChromosomeLabels=Wc,this.appendHomolog=Rc,this.drawChromosome=jc,this.rotateAndToggleDisplay=zc,this.setOverflowScroll=Hc,this.plotRelatedGenes=pl,this.getRelatedGenesByType=Xc,this.configure(n)}return f(t,null,[{key:"version",get:function(){return"1.33.0"}},{key:"d3",get:function(){return Zo}},{key:"fetchEnsembl",value:(n=e(d().mark((function t(n){var e,r,o,i,a,s=arguments;return d().wrap((function(t){for(;;)switch(t.prev=t.next){case 0:return e=s.length>1&&void 0!==s[1]?s[1]:null,r=s.length>2&&void 0!==s[2]?s[2]:"GET",o={method:r},null!==e&&(o.body=JSON.stringify(e)),"GET"===r?(i=n.includes("&")?"&":"?",n+=i+"content-type=application/json"):o.headers={"Content-Type":"application/json"},t.next=6,fetch("https://rest.ensembl.org".concat(n),o);case 6:return a=t.sent,t.next=9,a.json();case 9:return t.abrupt("return",t.sent);case 10:case"end":return t.stop()}}),t)}))),function(t){return n.apply(this,arguments)})},{key:"getChrSortNamesAndTypes",value:function(t,n){var e,r,o,i,a,s,c,l,u,h;return"string"==typeof t||"chr"in t&&"annots"in t?(a="MT"===(e="string"==typeof t?t:t.chr),s="MT"===(r="string"==typeof n?n:n.chr),c="AP"===e,l="AP"===r,u=!(o="CP"===e)&&!a&&!c,h=!(i="CP"===r)&&!s&&!l):(e=t.name,r=n.name,o="chloroplast"===t.type,i="chloroplast"===n.type,a="mitochondrion"===t.type,s="mitochondrion"===n.type,c="apicoplast"===t.type,l="apicoplast"===n.type,u="nuclear"===t.type,h="nuclear"===n.type),[e,r,{aIsNuclear:u,bIsNuclear:h,aIsCP:o,bIsCP:i,aIsMT:a,bIsMT:s,aIsAP:c,bIsAP:l}]}},{key:"sortChromosomes",value:function(n,e){var r=o(t.getChrSortNamesAndTypes(n,e),3),i=r[0],a=r[1],s=r[2],c=s.aIsNuclear,l=s.bIsNuclear,u=s.aIsCP,h=s.bIsCP,f=s.aIsMT,d=s.bIsMT,m=s.aIsAP,p=s.bIsAP;return c&&l?(fi(i)&&fi(a)&&(i=di(i).toString(),a=di(a).toString()),i.localeCompare(a,"en",{numeric:!0})):!c&&l||f&&h?1:u&&d?-1:m||f||u||!(d||h||p)?void 0:-1}},{key:"initRelatedGenes",value:function(t){return function(t,n){"all"!==n&&(n=n.map((function(t){return t.toLowerCase()})));var e={showFullyBanded:!1,rotatable:!1,legend:wl,chrBorderColor:"#333",chrLabelColor:"#333",onWillShowAnnotTooltip:vl,annotsInList:n,showTools:!0,showAnnotLabels:!0};if("onWillShowAnnotTooltip"in t){var r="onWillShowAnnotTooltip",o=t[r],i=e[r];e[r]=function(t){return t=i.bind(this)(t),o.bind(this)(t)},delete t[r]}var a=Object.assign(e,t);a=_l(a);var s=new Ideogram(a);return t.onPlotRelatedGenes&&(s.onPlotRelatedGenesCallback=t.onPlotRelatedGenes),t.onFindRelatedGenes&&(s.onFindRelatedGenesCallback=t.onFindRelatedGenes),s.getTooltipAnalytics=Uc,s.annotSortFunction=ul,Yc(s),$c(s.config.organism,s),s}(t,arguments.length>1&&void 0!==arguments[1]?arguments[1]:"all")}},{key:"initGeneHints",value:function(t){return function(t,n){delete t.onPlotRelatedGenes,"all"!==n&&(n=n.map((function(t){return t.toLowerCase()})));var e=ni("cache/homo-sapiens-top-genes.tsv"),r={showFullyBanded:!1,rotatable:!1,legend:xl,chrMargin:-4,chrBorderColor:"#333",chrLabelColor:"#333",onWillShowAnnotTooltip:vl,annotsInList:n,showTools:!0,showAnnotLabels:!0,onDrawAnnots:Al,annotationsPath:e};if("onWillShowAnnotTooltip"in t){var o="onWillShowAnnotTooltip",i=t[o],a=r[o];r[o]=function(t){return t=a.bind(this)(t),i.bind(this)(t)},delete t[o]}if("onDrawAnnots"in t){var s="onDrawAnnots",c=t[s],l=r[s];r[s]=function(){l.bind(this)(),c.bind(this)()},delete t[s]}var u=Object.assign(r,t);u.showAnnotLabels?u.legendPad=80:u.legendPad=30;var h=new Ideogram(u);return t.onPlotRelatedGenes&&(h.onPlotRelatedGenesCallback=t.onPlotRelatedGenes),t.onFindRelatedGenes&&(h.onFindRelatedGenesCallback=t.onFindRelatedGenes),h.getTooltipAnalytics=Uc,h.annotSortFunction=ul,Yc(h),$c(h.config.organism,h),h}(t,arguments.length>1&&void 0!==arguments[1]?arguments[1]:"all")}}]),t;var n}();window.Ideogram=kl;var Cl=kl;return n}()},8850:function(t,n,e){"use 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p=["accessToken","ancestors","annotations","annotationHeight","annotationsColor","annotationsLayout","annotationsPath","annotationTracks","assembly","barWidth","brush","chrHeight","chrMargin","chrWidth","chromosomes","container","dataDir","demarcateCollinearChromosomes","geometry","histogramScaling","heatmaps","filterable","fullChromosomeLabels","legend","loading_state","onBrushMove","onDidRotate","onDrawAnnots","onLoadAnnots","onLoad","onWillShowAnnotTooltip","organism","orientation","perspective","ploidy","ploidyDesc","rangeSet","resolution","rotatable","rows","sex","showBandLabels","showChromosomeLabels","showAnnotTooltip","showFullyBanded","showNonNuclearChromosomes"],g=function(t){!function(t,n){if("function"!=typeof n&&null!==n)throw new TypeError("Super expression must either be null or a function");t.prototype=Object.create(n&&n.prototype,{constructor:{value:t,writable:!0,configurable:!0}}),Object.defineProperty(t,"prototype",{writable:!1}),n&&h(t,n)}(g,t);var n,e,r,i,c=(r=g,i=function(){if("undefined"==typeof Reflect||!Reflect.construct)return!1;if(Reflect.construct.sham)return!1;if("function"==typeof Proxy)return!0;try{return Boolean.prototype.valueOf.call(Reflect.construct(Boolean,[],(function(){}))),!0}catch(t){return!1}}(),function(){var t,n=m(r);if(i){var e=m(this).constructor;t=Reflect.construct(n,arguments,e)}else t=n.apply(this,arguments);return f(this,t)});function g(){var t;return function(t,n){if(!(t instanceof n))throw new TypeError("Cannot call a class as a function")}(this,g),(t=c.call(this)).ideogram=null,t.isRotated=!1,t.tooltipData=null,t.tooltipDataTwo=null,t.onBrushHandler=t.onBrushHandler.bind(d(t)),t.onLoadHandler=t.onLoadHandler.bind(d(t)),t.onRotateHandler=t.onRotateHandler.bind(d(t)),t.onHomologyHandler=t.onHomologyHandler.bind(d(t)),t.onToolTipHandler=t.onToolTipHandler.bind(d(t)),t.onMouseOverHandler=t.onMouseOverHandler.bind(d(t)),t.setConfig=t.setConfig.bind(d(t)),t.initIdeogram=t.initIdeogram.bind(d(t)),t}return n=g,(e=[{key:"onHomologyHandler",value:function(){var t=this.ideogram.chromosomes,n=null,e=null,r=this.props.organism,o=this.props.chromosomes,i=this.props.homology;"string"!=typeof this.props.organism?(n=t[i.chrOne.organism][o[r[0]]],e=t[i.chrTwo.organism][o[r[1]]]):(n=t[i.chrOne.organism][o[0]],e=t[i.chrTwo.organism][o[1]]);var a=[{r1:{chr:n,start:i.chrOne.start[0],stop:i.chrOne.stop[0]},r2:{chr:e,start:i.chrTwo.start[0],stop:i.chrTwo.stop[0]}},{r1:{chr:n,start:i.chrOne.start[1],stop:i.chrOne.stop[1]},r2:{chr:e,start:i.chrTwo.start[1],stop:i.chrTwo.stop[1]}}];this.ideogram.drawSynteny(a)}},{key:"onToolTipHandler",value:function(){this.tooltipDataTwo=this.tooltipData,this.props.setProps({annotationsData:this.tooltipData})}},{key:"onBrushHandler",value:function(){var t=this.ideogram.selectedRegion,n=t.from.toLocaleString(),e=t.to.toLocaleString(),r=t.extent.toLocaleString();void 0!==this.props.brush&&this.props.setProps({brushData:{start:n,end:e,extent:r}})}},{key:"onLoadHandler",value:function(){return void 0!==this.props.brush?this.onBrushHandler():void 0!==this.props.homology&&this.onHomologyHandler(),null}},{key:"onRotateHandler",value:function(){this.isRotated=!this.isRotated,this.props.setProps({rotated:this.isRotated})}},{key:"onMouseOverHandler",value:function(){this.tooltipData=document.getElementById("_ideogramTooltip").innerHTML,this.tooltipDataTwo=this.tooltipData!==this.tooltipDataTwo?this.onToolTipHandler():document.getElementById("_ideogramTooltip").innerHTML}},{key:"setConfig",value:function(){var t=(0,s.Z)(["setProps"],this.props);return t.onDidRotate=this.onRotateHandler,t.onBrushMove=this.props.brush?this.onBrushHandler:null,t.onLoad=this.onLoadHandler,t.container="#ideogram-container-"+this.props.id,t}},{key:"initIdeogram",value:function(){this.ideogram=new(a())(this.setConfig())}},{key:"shouldComponentUpdate",value:function(t){var n=this;return p.some((function(e){return n.props[e]!==t[e]}))}},{key:"componentDidMount",value:function(){this.initIdeogram()}},{key:"componentDidUpdate",value:function(){this.initIdeogram()}},{key:"render",value:function(){return o().createElement("div",{id:this.props.id,className:this.props.className,style:this.props.style,"data-dash-is-loading":this.props.loading_state&&this.props.loading_state.is_loading||void 0},o().createElement("div",l({},(0,s.Z)(["setProps","loading_state"],this.props),{id:"ideogram-container-"+this.props.id,onMouseOver:this.onMouseOverHandler})))}}])&&u(n.prototype,e),Object.defineProperty(n,"prototype",{writable:!1}),g}(r.Component);g.defaultProps=c.lG,g.propTypes=c.iG}}]);
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