@sjcrh/proteinpaint-client 2.74.2 → 2.76.0

package/dist/block-6aedd569.js

@@ -0,0 +1 @@
+import{a7 as t,I as e,ag as s,aA as i,k as o,q as n,W as a,aB as r,aC as l,p as d,ac as c,aD as h,aE as p,ae as f,aF as m,j as g,ah as u,d as b,aG as k,aH as x,aI as y,aJ as w,r as v,aK as _,M as z,aL as j,aM as M,aN as N,ad as C,aO as B,z as I,aP as q,aQ as F,aR as A,ar as S,at as R,as as O,ak as U,ab as D,B as L,x as T,aS as E,aT as P,b as $,l as X,aU as H,aV as Y,aW as G,c as J,w as V,aX as W,a9 as Z,aY as K,Z as Q,n as tt,am as et,e as st,aZ as it,a_ as ot,a$ as nt,b0 as at,b1 as rt,b2 as lt,b3 as dt,b4 as ct,y as ht,b5 as pt,a as ft}from"./app-b369b169.js";import{l as mt,f as gt,s as ut,m as bt,i as kt,d as xt,a as yt,r as wt,b as vt,c as _t,e as zt,g as jt,h as Mt,j as Nt,k as Ct}from"./block.legend-d3f61ef7.js";import{d as Bt,b as It,a as qt,c as Ft}from"./axis-747c801e.js";import{m as At}from"./checkbox-96437f4d.js";import{p as St}from"./pointer-c7475677.js";function Rt(t,e){if(!e.file&&!e.url&&!e.gdcFile)return"neither file or url given";return null}function Ot(t,e){t.uninitialized=true}function Ut(t,e){import("./block.tk.bam-00fba6e8.js").then((s=>{s.loadTk(t,e)}))}function Dt(t,e){t._template=e}function Lt(t,e){t.uninitiated=1}function Tt(t,e){import("./block.tk.pgv-9af2bd64.js").then((s=>{s.loadTk(t,e)}))}function Et(t,e){t._template=e}function Pt(t,e){t.uninitiated=1}function $t(t,e){import("./block.tk.ld-d15bde41.js").then((s=>{s.loadTk(t,e)}))}function Xt(t,e){if(!e.tracks){if(e.file||e.url){e.tracks=[{file:e.file,url:e.url,indexURL:e.indexURL}];delete e.file;delete e.url;delete e.indexURL;delete t.file;delete t.url;delete t.indexURL}else{return".tracks[] missing from junction track template"}}t.tracks=[];for(const s of e.tracks){const e={};for(const t in s){e[t]=s[t]}t.tracks.push(e)}if(t.tracks.length==0){return".tracks[] has 0 length for junction track"}if(e.categories){t.categories={};for(const s in e.categories){const i=e.categories[s];t.categories[s]={color:i.color,label:i.label}}}else{t.nocatepreconfig=true}return null}function Ht(t,e){t.uninitialized=true}function Yt(t,e){import("./block.tk.junction-b43a4cda.js").then((s=>{s.junctionload(t,e)}))}function Gt(t,e){if(!t.fineheight){t.fineheight=200}if(!t.allheight){t.allheight=100}if(!t.midpad){t.midpad=15}if(!t.fineymax){t.fineymax=50}}function Jt(t,e){t.img=t.glider.append("image").on("click",(s=>{if(!t.link)return;if(e.exonsf<1)return;const i=s.clientX-e.svg.node().getBoundingClientRect().left-e.leftheadw-e.lpad;const[o,n]=e.pxoff2region(i);const a=e.rglst[o].chr;const r=t.link.replace("__CHR__",a).replace("__POS__",n+1);window.open(r)}));t.allaxis=t.gleft.append("g");t.fineaxis=t.gleft.append("g").attr("transform","translate(0,"+(t.allheight+t.midpad)+")");t.config_handle=e.maketkconfighandle(t).on("click",(s=>{Wt(t,e)}))}function Vt(i,o){o.tkcloakon(i);const 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t.message})).then((t=>{i.height_main=i.toppad+i.allheight+i.midpad+i.fineheight+i.bottompad;o.tkcloakoff(i,{error:t});o.block_setheight()}))}function Wt(t,e){t.tkconfigtip.clear().showunder(t.config_handle.node());const s=t.tkconfigtip.d;if(t.grades){const i=s.append("table").style("margin-bottom","10px");for(const s of t.grades){const o=i.append("tr");o.append("td").html(s==t.usegrade?"&#10004;":"");o.append("td").text(s).classed("sja_menuoption",true).on("click",(i=>{t.usegrade=s;Vt(t,e);t.tkconfigtip.hide()}))}}else{s.append("div").style("margin","10px").text("No grades yet.")}{const i=s.append("div").style("margin-bottom","10px");i.append("div").text("Read depth cutoff:").style("font-size",".8em");const o=i.append("input").attr("size",5).on("keyup",(s=>{if(s.code!="Enter")return;const i=s.target.value;if(!i)return;const o=Number.parseInt(i);if(Number.isNaN(o))return;if(o<=0)return;t.fineymax=o;Vt(t,e)}));i.append("button").text("Set").style("margin-left","3px").on("click",(s=>{const i=o.property("value");if(!i)return;const n=Number.parseInt(i);if(Number.isNaN(n))return;if(n<=0)return;t.fineymax=n;Vt(t,e)}))}for(const t in i){const e=s.append("div").style("margin-bottom","3px");e.append("div").style("width","12px").style("height","12px").style("display","inline-block").style("background-color",i[t]).style("margin-right","10px");e.append("span").text(t)}}function Zt({holder:t,callback:e,setting:s,noPercentile:i}){if(!t)throw"no holder";if(typeof e!="function")throw"callback not function";if(!s)s={auto:1};if(s.auto);else if(s.fixed){if(!Number.isFinite(s.fixed.min))throw"fixed.min is not number";if(!Number.isFinite(s.fixed.max))throw"fixed.max is not number";if(s.fixed.min>=s.fixed.max)throw"fixed min>=max"}else if(s.percentile){if(s.percentile<0||s.percentile>100)throw"invalid 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i=c.append("div");i.append("span").html("Min&nbsp;").style("font-family","Courier").style("font-size",".9em");l=i.append("input").attr("type","number").style("width","50px");if(s.fixed)l.property("value",s.fixed.min);i.append("button").text("Set").style("margin-left","5px").on("click",(()=>{let t,s;s=r.property("value");if(s==""){return}s=Number.parseFloat(s);if(Number.isNaN(s)){alert("invalid max value");return}t=l.property("value");if(t==""){return}t=Number.parseFloat(t);if(Number.isNaN(t)){alert("invalid min value");return}if(t>=s){alert("Min must be smaller than max");return}e({fixed:{min:t,max:s}})}))}const h=n.append("div").style("margin-top","6px").style("display",s.percentile?"block":"none");h.append("span").html("Percentile&nbsp;").style("font-family","Courier").style("font-size",".9em");d=h.append("input").attr("type","number").style("width","50px");if(s.percentile){d.property("value",s.percentile)}const p=t=>{if(t=="")return;const 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o=i.tkarg_q(t);if(t.dotplotfactor){o.dotplotfactor=t.dotplotfactor}t.height_main=t.toppad+t.barheight+t.bottompad;t.img.attr("width",i.width).attr("height",t.barheight);n("tkbigwig",o).then((i=>{if(i.error)throw i.error;t.tklabel.transition().attr("y",t.barheight/2);t.img.attr("xlink:href",i.src);if(i.minv!=undefined){t.scale.min=i.minv}if(i.maxv!=undefined){t.scale.max=i.maxv}t.leftaxis.selectAll("*").remove();if(i.nodata){throw"no data in view range"}const o=e().domain([t.scale.min,t.scale.max]).range([t.barheight,0]);const n=It().scale(o).tickValues([t.scale.min,t.scale.max]);if(t.integer4axis){n.tickFormat(a("d"))}s({axis:t.leftaxis.call(n),color:"black",showline:true})})).catch((e=>{t.img.attr("width",1).attr("height",1);if(e.stack){console.log(e.stack)}return typeof e=="string"?e:e.message})).then((e=>{i.tkcloakoff(t,{error:e});i.block_setheight();for(const e of t.subpanels){ee(t,i,e)}}))}function ee(t,e,s){e.tkcloakon_subpanel(s);const i=e.tkarg_q(t);if(t.dotplotfactor){i.dotplotfactor=t.dotplotfactor}i.width=s.width;i.rglst=[{chr:s.chr,start:s.start,stop:s.stop,width:s.width}];delete i.percentile;delete i.autoscale;s.img.attr("width",s.width).attr("height",t.barheight);n("tkbigwig",i).then((t=>{if(t.error)throw t.error;s.img.attr("xlink:href",t.src)})).catch((t=>{s.img.attr("width",1).attr("height",1);if(t.stack){console.log(t.stack)}return typeof t=="string"?t:t.message})).then((t=>{e.tkcloakoff_subpanel(s,{error:t})}))}function se(t,e,s,i){const o={pcolor:{},ncolor:{},pcolor2:{},ncolor2:{},dotplot:{},dividefactor:{}};{const e=s.append("div").style("margin-bottom","15px");e.append("span").html("Height&nbsp;&nbsp;");e.append("input").attr("size",5).property("value",t.barheight).on("keyup",(e=>{if(e.code!="Enter")return;const s=e.target.value;if(s=="")return;const o=Number.parseInt(s);if(Number.isNaN(o)||o<=1){alert("track height must be positive 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t.scale.auto;t.scale.percentile=e.percentile;i(r.percentilescale)}})}{o.dotplot.row=s.append("div").style("margin-bottom","15px");o.dotplot.row.append("span").html("Dot plot&nbsp;&nbsp;");const e=o.dotplot.row.append("select").on("change",(e=>{const s=e.target.selectedIndex;if(s==0){delete t.dotplotfactor}else{t.dotplotfactor=Number.parseInt(e.target.options[s].innerHTML)}i(s==0?r.nodotplot:r.usedotplot)}));let n=e.append("option").text("no");if(!t.dotplotfactor){n.property("selected",1)}n=e.append("option").text("5");if(t.dotplotfactor==5){n.property("selected",1)}n=e.append("option").text("10");if(t.dotplotfactor==10){n.property("selected",1)}n=e.append("option").text("15");if(t.dotplotfactor==15){n.property("selected",1)}n=e.append("option").text("20");if(t.dotplotfactor==20){n.property("selected",1)}}o.dividefactor.row=s.append("div");{const e=Math.random().toString();const s=o.dividefactor.row.append("input").attr("type","checkbox").attr("id",e);if(!t.normalize.disable){s.property("checked",1)}o.dividefactor.row.append("label").html("&nbsp;Apply normalization").attr("for",e);const n=o.dividefactor.row.append("div").style("margin","5px 10px 0px 20px").style("display",t.normalize.disable?"none":"block");n.append("span").html("Divide raw value by&nbsp;");const a=n.append("input").attr("type","number").style("width","60px").property("value",t.normalize.dividefactor).on("keyup",(e=>{if(e.code!="Enter"&&e.code!="NumpadEnter")return;const s=e.target.value;if(s<=0){return}t.normalize.dividefactor=s;i(r.usedividefactor)}));n.append("div").text("Enter a value above zero").style("font-size",".7em").style("color","#858585");s.on("change",(e=>{if(e.target.checked){d(n);delete t.normalize.disable;a.property("value",t.normalize.dividefactor);i(r.usedividefactor);return}c(n);t.normalize.disable=1;i(r.nodividefactor)}))}return o}function ie(t,e){if(!e.file&&!e.url)return"no file or url";return null}function oe(t,e){t.uninitialized=true}function ne(t,e){import("./block.tk.aicheck-6770e333.js").then((s=>{s.loadTk(t,e)}))}function ae(t,e,s){import("./block.tk.aicheck-6770e333.js").then((i=>{i.loadTksubpanel(t,e,s)}))}function re(t,e){if(e.strand1){const s={};for(const t in e.strand1){s[t]=e.strand1[t]}s.scale={};if(e.strand1.scale){for(const t in e.strand1.scale){s.scale[t]=e.strand1.scale[t]}}else{s.scale.auto=1}s.barheight=e.strand1.height||50;if(!s.ncolor)s.ncolor="#BD005E";if(!s.ncolor2)s.ncolor2="#5E00BD";if(!s.pcolor)s.pcolor="#005EBD";if(!s.pcolor2)s.pcolor2="#FA7D00";if(s.normalize);else{s.normalize={dividefactor:1,disable:1}}t.strand1=s;if(!t.strand1.name)t.strand1.name="Forward"}if(e.strand2){const s={};for(const t in e.strand2){s[t]=e.strand2[t]}s.scale={};if(e.strand2.scale){for(const t in e.strand2.scale){s.scale[t]=e.strand2.scale[t]}}else{s.scale.auto=1}s.barheight=e.strand2.height||50;if(!s.ncolor)s.ncolor="#BD005E";if(!s.ncolor2)s.ncolor2="#5E00BD";if(!s.pcolor)s.pcolor="#005EBD";if(!s.pcolor2)s.pcolor2="#FA7D00";if(s.normalize);else{s.normalize={dividefactor:1,disable:1}}t.strand2=s;if(!t.strand2.name)t.strand2.name="Reverse"}t.height_main=t.toppad+(t.strand1?t.strand1.barheight:0)+(t.strand2?t.strand2.barheight:0)+t.bottompad}function le(t,e){const s=[];t.tklabel.attr("y",1).each((function(){s.push(this.getBBox().width)}));t.labforward=e.maketklefthandle(t).text(t.strand1.name).each((function(){s.push(this.getBBox().width)}));t.labreverse=e.maketklefthandle(t).text(t.strand2.name).each((function(){s.push(this.getBBox().width)}));t.leftLabelMaxwidth=Math.max(...s);t.leftaxis=t.gleft.append("g").attr("transform","translate("+e.lpad+",0)");if(t.strand1){t.strand1.img=t.glider.append("image")}if(t.strand2){t.strand2.img=t.glider.append("image")}t.config_handle=e.maketkconfighandle(t).on("click",(()=>{t.tkconfigtip.clear().showunder(t.config_handle.node());he(t,e)}))}function de(t,i){if(!t.strand1){t.height_main=50;i.tkcloakoff(t,{error:t.name+": forward strand track missing"});i.block_setheight();return}if(!t.strand2){t.height_main=50;i.tkcloakoff(t,{error:t.name+": reverse strand track missing"});i.block_setheight();return}i.tkcloakon(t);t.strand1.img.attr("width",i.width).attr("height",t.strand1.barheight);t.strand2.img.attr("width",i.width).attr("height",t.strand2.barheight).attr("y",t.strand1.barheight);const o=i.tkarg_q(t.strand1);o.name=t.name+" forward strand";n("tkbigwig",o).then((e=>{if(e.error)throw"forward strand error: "+e.error;t.strand1.img.attr("xlink:href",e.src);if(i.pannedpx!=undefined){t.strand1.img.attr("x",-i.pannedpx)}if(e.minv!=undefined){t.strand1.scale.min=e.minv}if(e.maxv!=undefined){t.strand1.scale.max=e.maxv}t.strand1.nodata=e.nodata;const s=i.tkarg_q(t.strand2);s.name=t.name+" reverse strand";return n("tkbigwig",s).then((e=>{if(e.error)throw"reverse strand error: "+e.error;t.strand2.img.attr("xlink:href",e.src);if(e.minv!=undefined){t.strand2.scale.min=e.minv}if(e.maxv!=undefined){t.strand2.scale.max=e.maxv}t.strand2.nodata=e.nodata}))})).then((()=>{t.strand1.img.attr("x",0);i.tkcloakoff(t,{});t.leftaxis.selectAll("*").remove();const o=t.strand2.nodata?0:t.strand2.scale.min;const n=t.strand1.nodata?0:t.strand1.scale.max;const r=e().domain([o,0,n]).range([t.strand1.barheight+t.strand2.barheight,t.strand1.barheight,0]);let l="r";if(t.integer4axis){l="d"}const d=Bt().scale(r).tickFormat(a(l)).tickValues([o,0,n]);s({axis:t.leftaxis.call(d),color:"black",showline:true});t.height_main=t.toppad+t.strand1.barheight+t.strand2.barheight+t.bottompad;t.labforward.transition().attr("y",t.strand1.barheight/2);t.labreverse.transition().attr("y",t.strand1.barheight+t.strand2.barheight/2);i.block_setheight();for(const e of t.subpanels){ce(t,i,e)}})).catch((e=>{t.strand1.img.attr("x",0);t.height_main=50;i.tkcloakoff(t,{error:typeof e=="string"?e:e.message});if(e.stack)console.log(e.stack);i.block_setheight()}))}function ce(t,e,s){e.tkcloakon_subpanel(s);s.strand1.img.attr("width",s.width).attr("height",t.strand1.barheight);s.strand2.img.attr("width",s.width).attr("height",t.strand2.barheight).attr("y",t.strand1.barheight);const i=e.tkarg_q(t.strand1);i.width=s.width;i.rglst=[{chr:s.chr,start:s.start,stop:s.stop,width:s.width}];i.maxv=t.strand1.scale.max;i.minv=t.strand1.scale.min;delete i.autoscale;delete i.percentile;n("tkbigwig",i).then((i=>{if(i.error)throw i.error;s.strand1.img.attr("xlink:href",i.src);const o=e.tkarg_q(t.strand2);o.width=s.width;o.rglst=[{chr:s.chr,start:s.start,stop:s.stop,width:s.width}];o.maxv=t.strand2.scale.max;o.minv=t.strand2.scale.min;delete o.autoscale;delete o.percentile;return n("tkbigwig",o).then((t=>{if(t.error)throw t.error;s.strand2.img.attr("xlink:href",t.src)}))})).catch((t=>{if(t.stack){console.log(t.stack)}return typeof t=="string"?t:t.message})).then((t=>{e.tkcloakoff_subpanel(s,{error:t})}))}function he(t,e){const s=t.tkconfigtip.d;{const i=h({holder:s,margin:"0px 0px 15px 0px",label:t.strand1.name});const o=se(t.strand1,e,i,(()=>de(t,e)));o.ncolor.row.remove();o.dotplot.row.remove();if(o.ncolor2.row){o.ncolor2.row.remove()}o.pcolor.lab.text("Color");if(o.pcolor2.lab){o.pcolor2.lab.text("Beyond threshold")}}{const i=h({holder:s,label:t.strand2.name});const o=se(t.strand2,e,i,(()=>de(t,e)));o.pcolor.row.remove();o.dotplot.row.remove();if(o.pcolor2.row){o.pcolor2.row.remove()}o.ncolor.lab.text("Color");if(o.ncolor2.lab){o.ncolor2.lab.text("Beyong threshold")}}}function pe(t,e){t.stackheight=e.stackheight||12;t.stackspace=e.stackspace||1;t.color=t.color||"#6188FF";if(e.usevalue){if(!e.usevalue.key){return".usevalue.key missing"}t.usevalue={};for(const s in e.usevalue){t.usevalue[s]=e.usevalue[s]}}t.busy=true;return null}function fe(t,e){t.img=t.glider.append("image");if(t.categories&&e.legend&&e.legend.holder){const[s,i]=mt(e,t.name);t.tr_legend=s;p(t.categories,i);s.style("display","none");d(s,"table-row")}t.config_handle=e.maketkconfighandle(t).on("click",(()=>{ue(t,e)}))}function me(e,s){if(s.viewrangeabovelimit(e.viewrangeupperlimit)){s.tkcloakoff(e,{error:e.name+": zoom in under "+f(e.viewrangeupperlimit)+" to view data"});e.height_main=30;e.img.attr("width",1).attr("height",1);s.block_setheight();return}s.tkcloakon(e);const i=s.tkarg_bedj(e);if(e.__isgene){if(!s.gmmode||s.gmmode==m.genomic){i.__isgene=true}}t("tkbedj",{method:"POST",body:JSON.stringify(i)}).then((t=>{if(e.__isgene){if(t.returngmdata){e.gmdata=t.returngmdata}else{delete e.gmdata}}if(t.error)throw{message:t.error};e.img.attr("width",s.width).attr("height",t.height).attr("xlink:href",t.src);e.height_main=e.toppad+t.height+e.bottompad;return t})).catch((t=>{e.height_main=30;if(t.stack){console.log(t.stack)}return{error:t.message}})).then((t=>{s.tkcloakoff(e,t);s.block_setheight();s.bedj_tooltip(e,t)}))}function ge(e,s,i){if(e.viewrangeupperlimit&&e.viewrangeupperlimit>=i.stop-i.start){i.height=30;i.img.attr("width",1).attr("height",1);s.block_setheight();return}const 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n=s.append("input").attr("type","checkbox").attr("id",o).on("change",(()=>{for(const t of i.values()){t.checkbox.node().checked=n.node().checked}}));let a=true;for(const t of i.values()){if(!t.hidden){a=false;break}}if(!a){n.property("checked",true)}s.append("label").html("&nbsp;&nbsp;"+t).attr("for",o).attr("class","sja_clbtext");for(const[t,s]of i){const i=e.append("div").style("margin","3px 5px 3px 30px");const o=Math.random();s.checkbox=i.append("input").attr("type","checkbox").attr("id",o);if(!s.hidden){s.checkbox.property("checked",true)}i.append("label").html("&nbsp;&nbsp;"+t.isoform+' <span style="color:#858585">'+(t.cdslen?Math.ceil(t.cdslen/3)+" AA":"noncoding")+"</span>").attr("for",o).attr("class","sja_clbtext")}}e.append("button").style("display","block").style("margin-top","5px").text("Apply changes").on("click",(()=>{let e=0;const i=new Set;for(const t of s.values()){for(const[s,o]of t){const t=o.checkbox.node().checked;if(t){e++}else{i.add(s)}}}if(e<=1){window.alert("Must select at least two isoforms");return}for(const e of t.allgm){e.hidden=i.has(e)}delete t.gmmode;t.setgmmode(m.gmsum,true)}))}function _e(t,e){t.busy=false;e.ifbusy();t.glider.attr("transform","translate(0,0)").selectAll("*").remove();if(!e.gmmode){e.tkerror(t,"running usegm track but gmmode not set");return}const s=[];if(e.gmmode==m.gmsum){t.tklabel.text("");t.isoformlabel.text("");t.isoformnames=[];const i=t.stackheight*.7;let o=0;for(const n of e.allgm){if(n.hidden){continue}n.__tkg=t.glider.append("g").attr("transform","translate(0,"+o+")");n.__tky=o;ze(n,i,t,e);const a=n.__tkg.append("text").text(n.isoform).attr("y",i/2).attr("x",-12).attr("text-anchor","end").attr("dominant-baseline","central").attr("font-family",u).attr("fill","black").attr("font-size",e.labelfontsize).each((function(){s.push(this.getBBox().width)})).on("mousedown",(s=>{s.preventDefault();s.stopPropagation();je(n,e,s.clientY,i+t.stackspace)}));t.isoformnames.push(a);o+=i+t.stackspace}t.height_main=o+t.bottompad}else{t.isoformnames=null;e.usegm.__tkg=t.glider.append("g");ze(e.usegm,t.stackheight,t,e);t.height_main=t.toppad+t.stackheight+t.bottompad;t.tklabel.text(e.usegm.name).each((function(){s.push(this.getBBox().width)}));t.isoformlabel.text(e.usegm.isoform).each((function(){s.push(this.getBBox().width)}))}t.leftLabelMaxwidth=Math.max(...s);e.block_setheight();e.setllabel()}function ze(t,i,o,n){const r=t.__tkg;const l=Math.floor(i/5);let d=null;let c=0;for(let e=n.startidx;e<=n.stopidx;e++){const s=n.rglst[e];if(s.chr!=t.chr){c+=s.width+n.regionspace;continue}const i=Math.max(s.start,t.start),o=Math.min(s.stop,t.stop);if(i<o){d=c+(s.reverse?s.stop-o:i-s.start)*n.exonsf;break}c+=s.width+n.regionspace}if(d==null){r.append("text").attr("text-anchor","middle").attr("fill",be).attr("dominant-baseline","central").attr("font-size",Math.min(15,i)).attr("x",n.width/2).attr("y",i/2).text(t.name+" "+t.isoform+" is not in view range");return}let h=null;c=0;for(let e=n.startidx;e<=n.stopidx;e++){const s=n.rglst[e];if(s.chr!=t.chr){c+=s.width+n.regionspace;continue}const i=Math.max(s.start,t.start),o=Math.min(s.stop,t.stop);if(i<o){h=c+(s.reverse?s.stop-i:o-s.start)*n.exonsf}c+=s.width+n.regionspace}if(h==null){console.log("should not happen: stop position not found");r.append("text").attr("text-anchor","middle").attr("dominant-baseline","central").attr("font-size",Math.min(15,i)).attr("x",n.width/2).attr("y",i/2).text(t.name+" not in view range");return}const p=d;const f=h;r.append("line").attr("x1",p).attr("y1",i/2).attr("x2",f).attr("y2",i/2).attr("stroke",be).attr("shape-rendering","crispEdges");const g=[];const u=[];if(n.gmmode!=m.protein){if(t.utr5){u.push(...t.utr5)}if(t.utr3){u.push(...t.utr3)}if(t.exon&&!t.coding){u.push(...t.exon)}for(const e of u){c=0;for(let s=n.startidx;s<=n.stopidx;s++){const a=n.rglst[s];if(a.chr!=t.chr){c+=a.width+n.regionspace;continue}const d=Math.max(a.start,e[0]),h=Math.min(a.stop,e[1]);if(d>=h){c+=a.width+n.regionspace;continue}const p=r.append("rect").attr("x",c+(a.reverse?a.stop-h:d-a.start)*n.exonsf).attr("y",l).attr("width",Math.max(1,(h-d)*n.exonsf)).attr("height",i-l*2).attr("fill",o.noncodingcolor);g.push({b:p,r:a,start:d,stop:h})}}}if(t.pdomains){t.pdomains.sort(((t,e)=>e.stop-e.start-(t.stop-t.start)))}let b=null,k=null,x=null,y=null;if(t.coding){for(let e=0;e<t.coding.length;e++){const s=t.coding[e];c=0;for(let o=n.startidx;o<=n.stopidx;o++){const a=n.rglst[o];if(a.chr!=t.chr){c+=a.width+n.regionspace;continue}const l=Math.max(a.start,s[0]),d=Math.min(a.stop,s[1]);if(l>=d){c+=a.width+n.regionspace;continue}const h=c+(a.reverse?a.stop-d:l-a.start)*n.exonsf;const p=Math.max(1,(d-l)*n.exonsf);if(b==null){b=h;k=l;y=d}else{k=Math.min(l,k);y=Math.max(d,y)}x=h+p;const f=r.append("rect").attr("x",h).attr("width",p).attr("height",i).attr("fill","white");g.push({b:f,r:a,start:l,stop:d});if(t.pdomains){let o=0;for(let s=0;s<e;s++){o+=t.coding[s][1]-t.coding[s][0]}const c=o+(a.reverse?s[1]-d:l-s[0]);const p=o+(a.reverse?s[1]-l:d-s[0]);for(const e of t.pdomains){if(e.name+e.description in t.domain_hidden){continue}const s=Math.max(c,(e.start-1)*3);const o=Math.min(p,e.stop*3);if(s<o){r.append("rect").attr("x",h+(s-c)*n.exonsf).attr("width",Math.max(1,(o-s)*n.exonsf)).attr("height",i).attr("fill",e.color)}}}if(n.gmmode!=m.protein&&n.gmmode!=m.exononly){if(l==s[0]){const 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a=true;if(t.coding){if(s.reverse){a=s.start<=t.codingstart||s.start>=t.codingstop}else{a=s.stop<=t.codingstart||s.stop>=t.codingstop}}r.append("line").attr("class",ke).attr("x1",c+s.width+n.regionspace/2).attr("x2",c+s.width+n.regionspace/2).attr("y1",a?l:0).attr("y2",i-(a?l:0)).attr("stroke",be).attr("stroke-dasharray","4,2").attr("shape-rendering","crispEdges").attr("stroke-opacity",o.exonboundaryhide?0:1)}}const w=n.exonsf>=6;if(t.coding&&(n.gmmode==m.protein||n.gmmode==m.exononly||n.gmmode==m.splicingrna)){const l=n.exonsf>=2;const d=(i-2)/3;let h;if(n.gmmode==m.protein){h=0}else{h=t.utr5?t.utr5.reduce(((t,e)=>t+e[1]-e[0]),0):0}const p=[],f=[];for(let e=n.startidx;e<=n.stopidx;e++){const s=n.rglst[e];if(s.chr!=t.chr){continue}c=0;for(let t=n.startidx;t<e;t++){c+=n.rglst[t].width+n.regionspace}const o=n.regioncumlen(e);const a=o+s.stop-s.start;if(o>=h+t.cdslen||a<=h){continue}let m,g;if(o<h){m=0;g=(h-o)*n.exonsf}else{m=o-h;g=0}const u=t.startCodonFrame?3-t.startCodonFrame:0;const b=Math.min(t.cdslen,a-h);p.push(1+Math.floor(m/3));f.push(c+g+n.exonsf*(m%3==0?1.5:m%3==1?.5:-.5));p.push(1+Math.floor(b/3));f.push(c+g+(b-m)*n.exonsf);if(w){for(let e=m;e<b;e++){const s=e-u;if(Math.floor(s/3)%2==0){r.append("rect").attr("x",c+g+(e-m)*n.exonsf).attr("width",n.exonsf).attr("height",d*2).attr("fill","black").attr("fill-opacity",.1)}r.append("text").text(t.cdseq[e]).attr("font-family","Courier").attr("font-size",d).attr("dominant-baseline","central").attr("text-anchor","middle").attr("fill","black").attr("x",c+g+(e-m+.5)*n.exonsf).attr("y",2+d/2)}}if(m%3==2){m++;g+=n.exonsf}if(l){for(let e=m;e<b;e++){const s=e-u;if(s%3!=1){continue}r.append("text").text(t.aaseq[Math.floor(s/3)]).attr("font-family","Courier").attr("font-size",d).attr("font-weight","bold").attr("fill","black").attr("dominant-baseline",w?"central":"auto").attr("text-anchor","middle").attr("x",c+g+(e-m+.5)*n.exonsf).attr("y",i/2)}}}if(p.length&&!o.noCodonNumberInsideBox){const 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o=i.append("div").style("margin-bottom","5px");o.append("span").style("font-size",".7em").html("Stratify by&nbsp;&nbsp;");const n=as(t);const a=o.append("select").on("change",(()=>{const e=a.node();const i=e.options[e.selectedIndex].innerHTML;ls(i,t,s,r)}));const r=i.append("div");for(const t of n){a.append("option").text(t)}if(n[0]){ls(n[0],t,s,r)}}function ls(t,e,s,i){const o=new Map;for(const s of e.mlst){let e=s[t];if(e==undefined){continue}if(typeof e=="boolean"){if(e){e="true"}else{e="false"}}if(o.has(e)){o.get(e).push(s)}else{o.set(e,[s])}}const n=[...o];n.sort(((t,e)=>e[1].length-t[1].length));i.selectAll("*").remove();if(o.size>10){i.style("height","200px").style("overflow-y","scroll").style("resize","vertical").style("padding","5px")}const a=i.append("table").style("border-spacing","1px").style("border-collapse","separate").style("font-size",".8em");for(const[i,o]of n){const n=a.append("tr");n.append("td").text(o.length).style("text-align","right");const r=n.append("td").classed("sja_menuoption",true);r.text(i);r.on("click",(()=>{const n=e.ds.label+" - "+t+" - "+i;if(s.ownds[n]){s.deletecustomdsbyname(n)}else{const t={label:n,bulkdata:{},parentname:e.ds.label,iscustom:true,sampleselectable:e.ds.sampleselectable};t.bulkdata[s.usegm.name.toUpperCase()]=o;s.addchilddsnoload(t);const i=s.block_addtk_template({type:C.ds,ds:t});xt(i,s)}}));const l=n.append("td");ds(o,l)}}function ds(t,e){const s=new Map;for(const e of t){if(s.has(e.class)){s.set(e.class,s.get(e.class)+1)}else{s.set(e.class,1)}}const i=[...s];i.sort(((t,e)=>e[1]-t[1]));for(const t of i){e.append("span").html(t[1]==1?"&nbsp;":t[1]).style("background-color",I[t[0]].color).classed("sja_mcdot",true)}}function cs(t,e,s,i){i.clear();const o=i.d;if(!t.mlst){console.error(".mlst missing for "+t.name);return}if(t.mlst.length==0){return}if(t.ds.id2vcf);else{if(t.mlst.length<1e3){rs(t,o,e)}else{o.append("div").text("Stratify "+t.mlst.length+" 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n=os(t,e);kt({mlst:n,pane:true,x:s.left,y:s.top,tk:t,block:e})}));o.append("div").text("Download").classed("sja_menuoption",true).on("click",(()=>{i.hide();ns(t,e)}));i.showunder(s.node())}function hs(t,e,s,i){i.clear();const o=os(t,e);let n=[];if(s.bycohort){if(!t.ds||!t.ds.cohort||!t.ds.cohort.levels){console.error("some part is missing: tk.ds.cohort.levels");return}n=t.ds.cohort.levels}else{if(s.attr1){n.push({label:s.attr1.label,k:s.attr1.k})}if(s.attr2){n.push({label:s.attr2.label,k:s.attr2.k})}if(s.attr3){n.push({label:s.attr3.label,k:s.attr3.k})}}const a=j()(M(o,n));a.sum((t=>t.value));const r=i.d.append("table");const l=r.append("tr").style("font-size",".9em").style("color","#858585");l.append("td").text(s.label.toUpperCase());if(s.bycohort&&t.ds.cohort.root){l.append("td").text("% TUMOR")}l.append("td");l.append("td").text("MUTATIONS");a.eachBefore((i=>{if(!i.parent)return;const o=t.ds.label+" - "+i.data.name;const 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&times;2").on("click",(()=>this.zoomblock(2,true))).on("mouseover",(()=>this.zoombutton_mouseover(2,true,this.ctrl.zobutt1.node())));this.ctrl.zobutt2=e.append("button").html("&times;10").on("click",(()=>this.zoomblock(10,true))).on("mouseover",(()=>this.zoombutton_mouseover(10,true,this.ctrl.zobutt2.node())));this.ctrl.zobutt3=e.append("button").html("&times;50").on("click",(()=>this.zoomblock(50,true))).on("mouseover",(()=>this.zoombutton_mouseover(50,true,this.ctrl.zobutt3.node())));{const t=e.append("button").text("Tracks").style("margin-left","10px");const s=new z({padding:"none"});t.on("click",(t=>{this.pannedpx=undefined;this.zoomedin=false;this.resized=false;const e=t.target.getBoundingClientRect();import("./block.tk.menu-3aeb93c6.js").then((t=>{t.default(this,s,e.left-100,e.top+e.height-15)}))}))}{const t=new z;e.append("button").style("margin-left","10px").text("More").on("click",(e=>{t.clear();const s=e.target.getBoundingClientRect();this.moremenu(t);t.show(s.left-50,s.top+s.height-15)}))}this.gdcBamSliceDownloadBtn=e.append("button").style("margin-left","10px").style("display","none").text("Download GDC BAM slice").on("click",(async()=>{const t=this.tklst.find((t=>t.type=="bam"&&t.gdcFile));if(!t)return;this.gdcBamSliceDownloadBtn.property("disabled",true);const e={"Content-Type":"application/json",Accept:"application/json"};if(t.gdcToken){e["X-Auth-Token"]=t.gdcToken}const s=["clientdownloadgdcslice=1","gdcFileUUID="+t.gdcFile.uuid,"gdcFilePosition="+t.gdcFile.position];const i=await $("tkbam?"+s.join("&"),{headers:e});this.gdcBamSliceDownloadBtn.property("disabled",false);const o=document.createElement("a");o.href=URL.createObjectURL(i);o.download=t.aboutThisFile?t.aboutThisFile[0].v+".bam":"gdc.bam";o.style.display="none";document.body.appendChild(o);o.click();document.body.removeChild(o)}));this.gbase=this.svg.append("g").attr("transform","translate(0,0)");this.gCloak=this.svg.append("g").attr("transform","scale(0)");this.gCloakRect=this.gCloak.append("rect").attr("fill","white");this.gCloakWord=this.gCloak.append("text").attr("id","loadinggCloak").text("Loading ...").attr("fill",X).attr("fill-opacity",0).attr("font-weight","bold").attr("font-size","18px").attr("text-anchor","middle").attr("dominant-baseline","middle");this.pica={g:this.svg.append("g")};this.hlregion={g:this.gbase.append("g"),lst:[]};Ns(this);this.leftheadw=t.leftheadw||100;this.rightheadw=t.rightheadw||100;this.rulerheight=20;this.rulerfontsize=13;this.rulerticksize=6;this.lpad=3;this.rpad=10;this.coordyp1=3;this.coordyp2=3;this.coord.g0=this.gbase.append("g").attr("transform","translate("+(this.leftheadw+this.lpad)+","+(this.coordyp1+this.rulerheight)+")");this.coord.g=this.coord.g0.append("g");this.coord.gcoordsubpanels=this.coord.g0.append("g");this.coord.name=this.coord.g.append("text").attr("text-anchor","end").attr("x",-this.lpad+this.tkleftlabel_xshift).attr("y",-this.rulerheight/2).attr("dominant-baseline","central").attr("font-size",13).attr("font-family",u);if(this.hidegenecontrol){this.coord.name.text("Zoom out").classed("sja_clbtext",true).on("click",(()=>{if(this.busy)return;if(this.nozoomout()){return}this.zoomblock(2,true)}))}this.coord.axesg=this.coord.g.append("g");this.coord.grab=this.coord.g.append("rect").attr("fill","white").attr("fill-opacity",0).attr("x",0).attr("y",-this.coordyp1-this.rulerheight).attr("width",this.width).on("mousedown",(t=>{this.rulermousedown(t,this).then((t=>{const[e,s,i]=t;if(this.toselecthlregion){this.busy=false;delete this.toselecthlregion;const[t,e]=this.pxoff2region(s);const[o,n]=this.pxoff2region(s+i);const a=this.rglst[t].chr;if(a==this.rglst[o].chr){this.addhlregion(a,Math.min(e,n),Math.max(e,n))}return}if(e){this.busy=false;return}this.zoomedin=true;this.zoom2px(s,s+i)})).catch((t=>{if(t=="busy")return;this.error(t.message);console.log(t.stack)}))}));this.subpanels=[];if(t.subpanels){this.subpanels=t.subpanels;for(const[t,e]of this.subpanels.entries()){e.exonsf=e.width/(e.stop-e.start);this.init_coord_subpanel(e)}}this.updateruler();if(t.hlregions){for(const e of t.hlregions){this.addhlregion(e.chr,e.start,e.stop,e.color)}}if(t.tklst){for(const e of t.tklst){if(!e.type){this.error("missing type in a track");continue}let t=e;const s=t.hidden;delete t.hidden;if(t.type=="vcf"){const[s,i]=H(t);if(s){this.error("VCF track error: "+s);continue}t=i;t.iscustom=e.iscustom}if(t.iscustom){if(!Y(t,this.genome.tracks)){t.tkid=Math.random().toString();this.genome.tracks.push(t)}}if(!s){this.block_addtk_template(t)}}}if(t.nativetracks){const e=new Map;if(this.genome.tracks){for(const t of this.genome.tracks){if(t.iscustom)continue;e.set(t.name.toLowerCase(),t)}}let s=[];if(Array.isArray(t.nativetracks)){for(const i of t.nativetracks){if(typeof i=="string"){const t=e.get(i.toLowerCase());if(t){s.push(t)}}else{if(!i.name)continue;if(typeof i.name!="string")continue;const t=e.get(i.name.toLowerCase());if(t){for(const e in i){if(e=="name")continue;t[e]=i[e]}s.push(t)}}}}else if(typeof t.nativetracks=="string"){for(const i of t.nativetracks.split(",")){const t=e.get(i.toLowerCase());if(t){s.push(t)}}}else{this.error("invalid value for nativetracks")}for(const t of s){if(!Y(t,this.tklst)){this.block_addtk_template(t)}}}if(this.tklst.find((t=>t.type==C.bam))){const t=this.tklst.findIndex((t=>t.type==C.bedj));if(t!=-1){const e=this.tklst[t];this.tklst.splice(t,1);this.tklst.unshift(e)}}this.tk_load_all();if(t.mset){for(const e of t.mset){const t={iscustom:true,mlst:e.mlst,label:e.name};this.ownds[e.name]=t;const s=this.block_addtk_template({type:C.ds,ds:t});xt(s,this)}}if(t.datasetlst){for(const e of t.datasetlst){let s=null;for(const t in this.genome.datasets){if(t.toUpperCase()==e.toUpperCase()){s=this.genome.datasets[t];break}}if(!s){this.error("Invalid dataset to load: "+e);continue}if(s.isMds3){const t=this.block_addtk_template({type:C.mds3,dslabel:e});this.tk_load(t);continue}const i=this.block_addtk_template({type:C.ds,ds:s});if(t.hlaachange){i.hlaachange=t.hlaachange}if(t.hlvariants){i.hlvariants=t.hlvariants}i.legacyDsFilter=t.legacyDsFilter;xt(i,this)}}let s=false;if(t.datasetqueries){if(!Array.isArray(t.datasetqueries)){this.error("datasetqueries should be array")}else{t.datasetqueries.forEach((t=>{if(!t.dataset)return this.error("datasetqueries error: .dataset missing from a query");if(!t.querykey)return this.error("datasetqueries error: .querykey missing from a query");const e=this.genome.datasets[t.dataset];if(!e)return this.error("invalid dataset name: "+t.dataset);if(!e.isMds)return this.error("query not supported in dataset: "+t.dataset);this.mds_load_query_bykey(e,t);s=true}))}}this.ifbusy();if(this.tklst.length==0&&!s){this.error('No tracks specified. If you don\'t expect to see this, delete the "block:true" from runproteinpaint() argument.')}}async make_legend_img(t,e){const s=await $("img?file="+t.file);if(s.error){e.text(s.error);return}let i=true;const o=e.append("img").attr("class","sja_clbb").attr("src",s.src).style("height","80px");o.on("click",(()=>{if(i){i=false;o.transition().style("height",t.height?t.height+"px":"auto")}else{i=true;o.transition().style("height","80px")}}))}regioncumlen(t,e){let s=0;if(!e){const e=this.rglst[t];s=e.reverse?e.bstop-e.stop:e.start-e.bstart}for(let e=0;e<t;e++){const t=this.rglst[e];s+=t.bstop-t.bstart}return s}blocksetw(){const t=this.leftheadw+this.lpad+this.width+this.subpanels.reduce(((t,e)=>t+e.width+e.leftpad),0)+this.rpad+this.rightheadw;this.svg.attr("width",t);this.coord.gcoordsubpanels.transition().attr("transform","translate("+this.width+",0)");let e=0;for(const t of this.subpanels){t.coord.g0.transition().attr("transform","translate("+(e+t.leftpad)+",0)");e+=t.leftpad+t.width;t.coord.grab.attr("width",t.width);t.subpanelbgrect.attr("width",t.width)}for(const e of this.tklst){if(e.hidden)continue;e.gtksubpanels.transition().attr("transform","translate("+(this.leftheadw+this.lpad+this.width)+",0)");let s=0;for(const t of e.subpanels){t.gtksubpanel.transition().attr("transform","translate("+(s+t.leftpad)+",0)");s+=t.leftpad+t.width}e.gright.transition().attr("transform","translate("+(t-this.rightheadw)+",0)")}if(this.resizewidthbutton){this.resizewidthbutton.style("right",this.rpad+this.rightheadw+"px")}}updateruler(){this.coord.g.attr("transform","translate(0,0)");this.coord.grab.attr("width",this.width);this.blocksetw();if(this.coord.input&&this.startidx==this.stopidx){const t=this.rglst[this.startidx];this.coord.input.node().value=t.chr+":"+t.start+"-"+t.stop;this.coordwidthsays.text(f(t.stop-t.start))}for(let t=this.startidx;t<=this.stopidx;t++){const e=this.rglst[t];if(t!=this.startidx){if(e.reverse){e.stop=e.bstop}else{e.start=e.bstart}}if(t!=this.stopidx){if(e.reverse){e.start=e.bstart}else{e.stop=e.bstop}}}let t=0;for(let e=this.startidx;e<=this.stopidx;e++){t+=this.rglst[e].stop-this.rglst[e].start}this.exonsf=(this.width-this.regionspace*(this.stopidx-this.startidx))/t;for(let t=this.startidx;t<=this.stopidx;t++){const e=this.rglst[t];e.width=(e.stop-e.start)*this.exonsf}this.update_ruler_height();this.coord.grab.attr("height",this.coord.height);this.coord.axesg.selectAll("*").remove();if(!this.gmmode||this.gmmode==m.genomic){{const t=this.coord.axesg.append("g").attr("transform","translate(0,0)");this.region_makeruler(t)}for(let t=this.startidx;t<=this.stopidx;t++){let e=0;for(let s=this.startidx;s<t;s++){e+=this.rglst[s].width+this.regionspace}const s=this.rglst[t];if(s.stop-s.start<=s.width){if(this.usegm&&this.gmmode!=m.genomic){continue}const t=this.coord.axesg.append("g").attr("transform","translate("+e+","+this.coordyp2+")");this.getntsequence4ruler(s,t)}}}else{if(this.gmmode==m.exononly||this.gmmode==m.protein){const i=this.gmmode==m.exononly;if(!this.hidegenecontrol){this.coord.name.text(i?"RNA bp len":"Protein length")}this.rglst[this.startidx];const o=this.regioncumlen(this.startidx);const n=e().domain(i?[o,o+t]:[Math.floor(o/3)+1,Math.floor((o+t)/3)+1]).range([0,this.width]);const r=Ft().scale(n).tickFormat(a("d"));const l=this.coord.axesg.append("g").attr("transform","translate(0,0)");s({axis:l.call(r),color:"black",showline:true})}else{const t=[],i=[];let o;if(this.gmmode==m.splicingrna){if(!this.hidegenecontrol){this.coord.name.text("RNA bp len")}let e=this.regioncumlen(this.startidx);let s=0;for(let o=this.startidx;o<=this.stopidx;o++){const n=this.rglst[o];t.push(e);i.push(s);e+=n.stop-n.start;t.push(e);i.push(s+n.width);s+=n.width+this.regionspace}o=a(",d")}else if(this.gmmode==m.gmsum){if(!this.hidegenecontrol){this.coord.name.text("Genomic")}let e=0;for(let s=this.startidx;s<=this.stopidx;s++){const o=this.rglst[s];t.push(o.reverse?o.stop:o.start);i.push(e);t.push(o.reverse?o.start:o.stop);i.push(e+o.width);e+=o.width+this.regionspace}o=a(",d")}else{this.error("unknown gmmode for making single ruler: "+this.gmmode);return}const n=e().domain(t).range(i);const r=Ft().scale(n).tickFormat(o);const l=this.coord.axesg.append("g").attr("transform","translate(0,0)");s({axis:l.call(r),color:"black",showline:true})}}const i=this.nozoomout();this.ctrl.zobutt1.attr("disabled",i?"true":null);this.ctrl.zobutt2.attr("disabled",i?"true":null);this.ctrl.zobutt3.attr("disabled",i?"true":null);this.ctrl.zinbutt.attr("disabled",this.exonsf>=bs?1:null)}update_ruler_height(){let t=false;if(this.gmmode&&this.gmmode!=m.genomic);else{for(let e=this.startidx;e<=this.stopidx;e++){const s=this.rglst[e];if(s.stop-s.start<=s.width)t=true}}for(const e of this.subpanels){if(e.stop-e.start<=e.width)t=true}this.coord.height=this.coordyp1+this.rulerheight+this.coordyp2+(t?us+2:0)}async getntsequence4ruler(t,e){t.busy=true;try{const s=await $("ntseq",{method:"POST",body:JSON.stringify({genome:this.genome.name,coord:t.chr+":"+(t.start+1)+"-"+t.stop})});e.selectAll("*").remove();if(s.error)throw s.error;const o=t.width/s.seq.length;let n=Math.min(this.rulerheight,o/G);if(n>6){for(let i=0;i<s.seq.length;i++){let a=s.seq[t.reverse?s.seq.length-1-i:i];if(t.reverse){a=_(a)}e.append("text").text(a).attr("font-family","Courier").attr("font-size",n).attr("dominant-baseline","hanging").attr("x",o*i+o/2).attr("text-anchor","middle")}}else{n=0}for(let a=0;a<s.seq.length;a++){let r=s.seq[t.reverse?s.seq.length-1-a:a];if(t.reverse){r=_(r)}e.append("rect").attr("x",a*o).attr("y",Math.min(us-2,n)).attr("width",o).attr("height",Math.max(2,us-n)).attr("fill",i[r.toUpperCase()]||gs)}}catch(t){e.append("text").text(t.message||t);if(t.stack)console.log(t.stack)}t.busy=false;this.ifbusy()}nozoomout(){let t=false;this.rglst[this.startidx];this.rglst[this.stopidx];if(this.startidx==0&&this.stopidx==this.rglst.length-1){const e=this.rglst[this.startidx];if(e.reverse?e.stop>=e.bstop:e.start<=e.bstart){const e=this.rglst[this.stopidx];if(e.reverse?e.start<=e.bstart:e.stop>=e.bstop){t=true}}}return t}region_makeruler(t){if(this.usegm&&this.gmmode!=m.genomic)return;const i=t.append("g");if(!this.hidegenecontrol){this.coord.name.text("Genomic")}const o=[],n=[];let r=0;for(let t=this.startidx;t<=this.stopidx;t++){const e=this.rglst[t];if(e.reverse){o.push(e.stop);o.push(e.start+1)}else{o.push(e.start+1);o.push(e.stop)}n.push(r+this.exonsf/2);n.push(r+e.width-this.exonsf/2);r+=e.width+this.exonsf/2}let l;{const t=Math.max(this.rglst[this.startidx].stop,this.rglst[this.stopidx].stop);const e=i.append("text").text(t>1e6?a("s")(t):a(",d")(t)).attr("font-size",this.rulerfontsize).attr("font-family",u);l=Math.floor(this.width/(e.node().getBBox().width+60));e.remove()}const d=this.rglst[this.startidx];const c=e().domain(o).range(n);const h=Ft().scale(c).tickSize(this.rulerticksize).ticks(l);if(d.stop-d.start>1e6){h.tickFormat(a("s"))}else{h.tickFormat(a(",d"))}s({axis:i.call(h),color:"black",showline:true,fontsize:this.rulerfontsize})}rulermousedown(t,e){return new Promise(((s,i)=>{if(e.busy)i("busy");e.busy=true;e.pannedpx=undefined;e.resized=false;const o=1;const n=t=>t/e.exonsf<e.width/bs;const r=n(o)?"#ccc":"#ff6633";const l=b(document.body);const d=l.append("svg").style("display","block").style("position","absolute").style("z-index",xs);const c=d.append("rect").attr("fill",r).attr("fill-opacity",.2).attr("stroke",r);const h=d.append("text").attr("text-anchor","middle").attr("dominant-baseline","central").attr("font-size","18px").attr("fill","none").attr("stroke","white").attr("stroke-width",3);const p=d.append("text").attr("text-anchor","middle").attr("dominant-baseline","central").attr("font-size",18).attr("fill","black");const f=t=>{if(t<=0){p.text("");h.text("");return}const s=Math.ceil(t/e.exonsf);const i=a(".2s")(e.gmmode==m.protein?Math.ceil(s/3):s);h.text(i);p.text(i)};let g,u,k,x;let y,w,v;if(e.rotated){const s=e.coord.g0.node().getBoundingClientRect();y=s.left;w=t.target.getBoundingClientRect().top;k=this.totalheight();v=t.clientY}else{g=t.target.getBoundingClientRect().left;const s=e.coord.g0.node().getBoundingClientRect();u=s.top;k=this.totalheight();x=t.clientX}if(e.rotated){d.attr("width",k).attr("height",o).style("left",window.pageXOffset+y+"px").style("top",window.pageYOffset+v+"px");c.attr("width",k).attr("height",o);h.attr("y",0).attr("x",k/2);p.attr("y",0).attr("x",k/2)}else{d.attr("width",o).attr("height",k).style("left",window.pageXOffset+x+"px").style("top",window.pageYOffset+u+"px");c.attr("width",o).attr("height",k);h.attr("x",0).attr("y",k/2);p.attr("x",0).attr("y",k/2)}l.on("mousemove",(t=>{t.preventDefault();if(e.rotated){const s=t.clientY;let i=0;if(s>v){i=o+Math.min(w+e.width,s)-v}else if(s<v){i=o+v-Math.max(w,s);d.style("top",window.pageYOffset+v+Math.max(w,s)-v+"px")}d.attr("height",i);c.attr("height",i);const a=n(i)?"#ccc":"#ff6633";h.attr("y",i/2);p.attr("y",i/2);c.attr("fill",a).attr("stroke",a);f(i)}else{const s=t.clientX;let i=0;if(s>x){i=o+Math.min(g+e.width,s)-x}else if(s<x){i=o+x-Math.max(g,s);d.style("left",window.pageXOffset+x+Math.max(g,s)-x+"px")}d.attr("width",i);c.attr("width",i);const a=n(i)?"#ccc":"#ff6633";h.attr("x",i/2);p.attr("x",i/2);c.attr("fill",a).attr("stroke",a);f(i)}})).on("mouseup",(()=>{let t,i;if(e.rotated){const s=Number.parseInt(d.attr("height"));t=e.width-(s+Number.parseInt(d.style("top"))-w-window.pageYOffset);i=s}else{i=Number.parseInt(d.attr("width"));t=Number.parseInt(d.style("left"))-g-window.pageXOffset}d.remove();l.on("mousemove",null).on("mouseup",null);s([n(i),t,i])}))}))}highlight_1basedcoordinate(t){const e=t.split(/[:-]/);if(e.length!=3)return;const s=Number.parseInt(e[1]);const i=Number.parseInt(e[2]);if(Number.isNaN(s)||Number.isNaN(i)){return}this.addhlregion(e[0],s-1,i-1)}addhlregion(t,e,s,i){const o=this.seekcoord(t,e)[0];if(!o){return}const n=this.seekcoord(t,s)[0];if(!n){return}let a,r;if(o.x>n.x){a=n.x-this.exonsf/2;r=o.x+this.exonsf/2}else{a=o.x-this.exonsf/2;r=n.x+this.exonsf/2}const l={chr:t,start:e,stop:s,x:a,color:i||ks,rect:this.hlregion.g.append("rect").attr("x",a).attr("y",0).attr("width",r-a).attr("fill",i||ks)};this.hlregion.lst.push(l);this.block_setheight()}pxoff2region(t){let e=this.startidx;let s=this.rglst[e];if(t==0)return[e,s.reverse?s.stop:s.start];if(t>0){while(1){if(e>=this.rglst.length){const t=this.rglst[this.rglst.length-1];return[this.rglst.length-1,t.reverse?t.bstart:t.bstop]}const s=this.rglst[e];let i;if(s.reverse){const o=e>=this.startidx&&e<=this.stopidx?s.stop:s.bstop;i=(o-s.bstart)*this.exonsf;if(i+this.regionspace>=t){return[e,o-Math.floor(t/this.exonsf)]}}else{const o=e>=this.startidx&&e<=this.stopidx?s.start:s.bstart;i=(s.bstop-o)*this.exonsf;if(i+this.regionspace>=t){return[e,o+Math.floor(t/this.exonsf)]}}t-=i+this.regionspace;e++}}t=-t;s=this.rglst[this.startidx];if(s.reverse){const i=(s.bstop-s.stop)*this.exonsf;if(i+this.regionspace>=t){return[e,s.stop+Math.floor(t/this.exonsf)]}}else{const i=(s.start-s.bstart)*this.exonsf;if(i+this.regionspace>=t){return[e,s.start-Math.floor(t/this.exonsf)]}}e--;while(1){if(e<0){const t=this.rglst[0];return[0,t.reverse?t.bstop:t.bstart]}const s=this.rglst[e];const i=(s.bstop-s.bstart)*this.exonsf;if(i+this.regionspace>=t){if(s.reverse)return[e,s.bstart+Math.floor(t/this.exonsf)];return[e,s.bstop-Math.floor(t/this.exonsf)]}t-=i+this.regionspace;e--}}zoomblock(t,e){if(this.busy)return;this.pannedpx=undefined;this.resized=false;let s,i;if(e){this.zoomedin=false;const e=Math.floor(this.width*(t-1)/2);s=-e;i=this.width+e}else{this.zoomedin=true;const e=Math.max(this.width/bs*this.exonsf,this.width/t);s=Math.floor(this.width/2-e/2);i=Math.floor(this.width/2+e/2)}this.zoom2px(s,i)}zoom2px(t,e){const[s,i]=this.pxoff2region(t);const[o,n]=this.pxoff2region(e);this.startidx=s;this.stopidx=o;const a=this.rglst[s];if(a.reverse){a.stop=i}else{a.start=i}const r=this.rglst[o];if(r.reverse){r.start=n}else{r.stop=n}this.block_coord_updated()}block_coord_updated(t){this.busy=true;this.updateruler();this.tk_load_all();if(this.tklst.length==0){this.busy=false}let e=this.coord.height;for(const t of this.tklst){if(t.hidden)continue;e+=t.height}for(const t of this.hlregion.lst){const s=this.seekcoord(t.chr,t.start)[0];const i=this.seekcoord(t.chr,t.stop)[0];if(!s||!i){t.rect.attr("width",0);continue}const o=Math.min(s.x,i.x)-this.exonsf/2;const n=Math.max(s.x,i.x)+this.exonsf/2;if(o>=this.width||n<=0){t.rect.attr("width",0);continue}t.x=o;t.rect.attr("x",Math.max(0,o)).attr("width",Math.max(2,Math.min(this.width,n)-Math.max(0,o))).attr("height",e)}if(this.onCoordinateChange){this.onCoordinateChange(this.rglst)}}async jump_1basedcoordinate(t){if(this.busy)return;this.zoomedin=false;this.pannedpx=undefined;this.resized=false;if(typeof t=="string"){const e=J(t,this.genome);if(e){this.rglst=[{chr:e.chr,bstart:0,bstop:e.chrlen,start:Math.max(0,e.start-1),stop:e.stop-1,reverse:this.showreverse}];if(e.actualposition&&e.actualposition.len<=40){this.addhlregion(e.chr,e.actualposition.position-1,e.actualposition.position-1+e.actualposition.len-1)}this.startidx=this.stopidx=0;this.block_coord_updated();return}}else if(typeof t=="object"&&t.chr&&Number.isInteger(t.start)){const e=this.genome.chrlookup[t.chr.toUpperCase()];if(e){let s=t.start,i=Number.isInteger(t.stop)?t.stop:t.start;const o=s,n=i;const a=Math.ceil(this.width/bs);if(i-s<a){const t=Math.ceil(a/2);const e=Math.floor((s+i)/2);s=e-t;i=e+t}this.rglst=[{chr:e.name,bstart:0,bstop:e.len,start:s-1,stop:i-1,reverse:this.showreverse}];this.startidx=this.stopidx=0;if(n-o<40){this.addhlregion(t.chr,o-1,n-1)}this.block_coord_updated();return}else{this.error("Invalid chr: "+t.chr);return}}await this.block_jump_gene(t)}async block_jump_gene(t){try{const e=await $("genelookup",{body:{genome:this.genome.name,input:t,deep:1}});if(e.error)throw e.error;if(!e.gmlst||e.gmlst.length==0){if(this.genome.hasSNP){if(t.toLowerCase().startsWith("rs")){this.block_jump_snp(t)}else{this.inputerr("Not a gene or SNP: "+t)}}else{this.inputerr("Unknown gene name: "+t)}return}for(const e of this.tklst){if(e.type==C.pgv){e.genename=t}}const s=V(e.gmlst);if(s.length==1){const t=s[0];const e=T(this.genome,t.chr,t.start,t.stop);if(e){this.inputerr("this should not happen: gene error: "+e);return}this.rglst=[{chr:t.chr,bstart:0,bstop:this.genome.chrlookup[t.chr.toUpperCase()].len,start:t.start,stop:t.stop,reverse:this.showreverse}];this.startidx=this.stopidx=0;this.block_coord_updated();return}this.coord.inputtipshow();for(const t of s){this.coord.inputtip.d.append("div").attr("class","sja_menuoption").text(t.name+" "+t.chr+":"+t.start+"-"+t.stop).on("click",(()=>{this.coord.inputtip.hide();this.rglst=[{chr:t.chr,bstart:0,bstop:this.genome.chrlookup[t.chr.toUpperCase()].len,start:t.start,stop:t.stop,reverse:this.showreverse}];this.startidx=this.stopidx=0;this.block_coord_updated()}))}}catch(t){this.inputerr(t.message||t)}}block_jump_snp(t){W(this.genome,t).then((t=>{const e=Math.ceil(this.width/bs);this.rglst=[{chr:t.chr,bstart:0,bstop:this.genome.chrlookup[t.chr.toUpperCase()].len,start:Math.max(0,t.start-Math.ceil(e/2)),stop:t.start+e,reverse:this.showreverse}];this.startidx=this.stopidx=0;this.addhlregion(t.chr,t.start,t.stop-1);this.block_coord_updated()})).catch((e=>{this.inputerr(t+": not a gene or SNP");if(e.stack)console.log(e.stack)}))}inputerr(t){this.coord.inputtipshow();this.coord.inputtip.d.append("div").text(t).style("border","solid 1px red").style("padding","10px 20px")}genemenu(){for(const t of this.tklst){if(t.type==C.usegm){if(t.controller){t.controller.paneoff()}break}}const t=this.usegm;if(!t){console.log("usegm missing!!");return}this.usegmtip.clear();const e=this.usegmtip.d;const s=e.append("div").style("padding","20px").style("background-color","#E6EEF5").style("margin-bottom","20px");const i=s.append("div").style("width","580px");if(!t.description){i.html(`${t.name}: No description`)}else if(t.description.length>=120){const e=t.description.substring(0,100);let o=false;i.html(`${t.name}: <strong>${e}</strong> ...`);const n=s.append("a");n.text("Show More").style("display","inline-block").on("click",(()=>{o=!o;i.html(o==true?`${t.name}: <strong>${t.description}</strong>`:`${t.name}: <strong>${e}</strong> ...`);n.text(o==true?"Hide":"Show More")}))}else{i.html(`${t.name}: <strong>${t.description}</strong>`)}const o=s.append("div").style("margin-top","10px");o.append("span").text(t.isoform).style("padding-right","10px");o.append("a").attr("target","_blank").attr("href","https://www.ncbi.nlm.nih.gov/gene/?term="+t.isoform).style("padding-right","10px").text("NCBI");o.append("a").attr("target","_blank").attr("href","https://genome.ucsc.edu/cgi-bin/hgTracks?db="+this.genome.name+"&position="+t.isoform).text("UCSC");o.append("span").style("padding-left","30px").html(t.chr+":"+(t.start+1)+"-"+t.stop+'&nbsp;&nbsp;<span style="font-size:.7em">'+(t.strand=="+"?"FORWARD":"REVERSE")+"</span>"+'&nbsp;&nbsp;<span style="color:#555">'+f(t.stop-t.start)+"</span>");const n=e.append("div").style("margin","20px 30px 40px 30px");n.append("div").text("Switch display").style("font-size","1.5em").style("color","#555").style("margin-bottom","20px");this.showgmmode4switch(n,true);if(this.allgm.length>1){const t=e.append("div").style("padding","20px 30px 40px 30px");t.append("div").style("color","#555").style("font-size","1.5em").style("margin-bottom","20px").text("Switch isoform");this.showisoform4switch(t,true)}this.usegmtip.showunder(this.ctrl.namebutt.node())}old_dshandle_new(t){let e=this.genome.datasets[t];if(!e){e=this.ownds[t]}if(!e){this.error("unknown dsname "+t);return}const s=this.ctrl.dshandleholder.append("div").attr("class","sjpp-dshandleholder").style("font-family",u);const i=s.append("div").attr("class","sja_opaque8 sjpp-dslabel").text(e.label).on("click",(async()=>{this.pannedpx=undefined;this.resized=false;let t=this.tklst.find((t=>{if(e.isMds3){if(t.type==C.mds3&&t.mds&&t.mds.label==e.label)return t}else if(t.type==C.ds&&t.ds&&t.ds.label==e.label){return t}}));if(t){if(t.hidden){t.hidden=false;this.tk_load(t);this.setllabel()}else{this.tk_hide(t)}this.tkchangeaffectlegend(t);return}if(e.busy)return;if(e.isMds3){t=this.block_addtk_template({type:C.mds3,dslabel:e.label});this.tk_load(t);return}if(e.legacyDsIsUninitiated){const t=await $(`getDataset?genome=${this.genome.name}&dsname=${e.label}`);if(t.error)throw"invalid name";if(!t.ds)throw".ds missing";Object.assign(e,t.ds);const s=await import("./legacyDataset-e0e201ab.js");s.validate_oldds(e);delete e.legacyDsIsUninitiated}t=this.block_addtk_template({ds:e,type:C.ds});xt(t,this)})).on("mouseover",(t=>{if(e.iscustom){return}if(!e.dsinfo){return}this.blocktip.showunder(t.target).clear().d.append("div").style("font-size","80%").style("padding","10px").style("color","#858585").attr("class","sja_clb").text("ABOUT").on("click",(()=>{this.blocktip.clear();Z(this.blocktip.d,e.dsinfo).style("padding","10px")}))}));this.ds2handle[t]={handle:s,handlesays:i}}viewrangeabovelimit(t){if(t==undefined){return false}let e=0;for(let t=this.startidx;t<=this.stopidx;t++){const s=this.rglst[t];e+=s.stop-s.start}return e>=t}seekcoord(t,e){e+=.5;const s=[];const i=this.usegm&&t==this.usegm.chr&&this.gmmode!=m.genomic;for(let o=0;o<this.rglst.length;o++){const n=this.rglst[o];if(n.chr!=t)continue;if(e>=n.bstart&&e<n.bstop){s.push({ridx:o,x:(this.regioncumlen(o,true)+(n.reverse?n.bstop-e:e-n.bstart))*this.exonsf+o*this.regionspace});break}else if(o>0&&i){const i=this.rglst[o-1];if(i.chr!=t)continue;if(n.reverse){if(e<i.bstart&&e>=n.bstop){s.push({ridx:o,x:this.regioncumlen(o,true)*this.exonsf+o*this.regionspace-this.regionspace/2});break}}else{if(e<n.bstart&&e>=i.bstop){s.push({ridx:o,x:this.regioncumlen(o,true)*this.exonsf+o*this.regionspace-this.regionspace/2});break}}}}if(s.length==0&&i){let i=null,o=0;for(let t=0;t<this.rglst.length;t++){if(i==null){i=t}o=t}if(i==null){console.error("seekcoord: null startidx")}else{const n=this.rglst[i];const a=this.rglst[o];if(this.usegm.strand=="+"){if(e<n.bstart){s.push({ridx:i,x:this.regioncumlen(i,true)*this.exonsf+i*this.regionspace})}else if(e>=a.bstop){s.push({ridx:o,x:this.exonsf*(this.regioncumlen(o,true)+a.bstop-a.bstart)+o*this.regionspace})}else{console.error(t+":"+e+" not mapped to gene")}}else{if(e<a.bstart){s.push({ridx:o,x:this.exonsf*(this.regioncumlen(o,true)+a.bstop-a.bstart)+o*this.regionspace})}else if(e>=n.bstop){s.push({ridx:i,x:this.regioncumlen(i,true)*this.exonsf+i*this.regionspace})}else{console.error(t+":"+e+" not mapped to gene")}}}}const o=this.regioncumlen(this.startidx)*this.exonsf+this.startidx*this.regionspace;for(const t of s){t.x-=o}if(this.subpanels.length){let i=this.width;for(const[o,n]of this.subpanels.entries()){i+=n.leftpad;if(t==n.chr&&e>=n.start&&e<=n.stop){s.push({subpanelidx:o,x:i+n.exonsf*(e-n.start)})}i+=n.width}}return s}setllabel(){let t=10;for(const e of this.tklst){if(e.hidden){continue}t=Math.max(t,100,e.leftLabelMaxwidth+20)}this.leftheadw=t;this.hlregion.g.transition().attr("transform","translate("+(this.leftheadw+this.lpad)+",0)");this.coord.g0.transition().attr("transform","translate("+(this.leftheadw+this.lpad)+","+(this.coordyp1+this.rulerheight)+")");const e=this.leftheadw+this.lpad+this.width+this.subpanels.reduce(((t,e)=>t+e.leftpad+e.width),0)+this.rpad;for(const t of this.tklst){t.gleft.transition().attr("transform","translate("+this.leftheadw+",0)");t.gmiddle.transition().attr("transform","translate("+(this.leftheadw+this.lpad)+",0)");t.gright.transition().attr("transform","translate("+e+",0)")}this.blocksetw()}tk_remove(t){const e=this.tklst[t];if(e.type==C.ds&&e.ds&&e.ds.iscustom){delete this.genome.datasets[e.ds.label];const t=this.ownds[e.ds.label];if(t){delete this.ownds[t.label];if(t.parentname){const e=this.ds2handle[t.parentname];if(e&&e.childicon){const t=Number.parseInt(e.childicon.text());if(t==1){e.childicon.remove();delete e.childicon}else{e.childicon.text(t-1)}}}}}this.tklst[t].g.remove();this.tklst.splice(t,1);this.setllabel();this.block_setheight();if(e.type==C.ds){const t=this.ds2handle[e.name];if(t){t.handlesays.style("background-color","white").style("color","black")}if(e.eplst){for(const t of e.eplst){if(t.handle){t.handle.remove()}if(t.pane){t.pane.pane.remove()}}}}if(e.tr_legend){E(e.tr_legend,true)}}deletecustomdsbyname(t){for(let e=0;e<this.tklst.length;e++){const s=this.tklst[e];if(s.type==C.ds&&s.ds.label==t){this.tk_remove(e);break}}}addchilddsnoload(t){const e=t.parentname;const s=this.ds2handle[e];if(s){const t=s.childicon;if(t){t.text(Number.parseInt(t.text())+1)}else{s.childicon=s.handle.append("div").style("display","inline-block").style("margin-left","1px").style("padding","2px 5px").style("background-color","#ccc").classed("sja_opaque8",true).text(1).on("click",(t=>{const s=this.tip.clear().showunder(t.target).d.append("div").style("padding","20px");s.append("div").text("Click to remove").style("font-size",".9em").style("color","#858585").style("margin-bottom","10px");for(const t of this.tklst){if(!t.ds||t.ds.parentname!=e)continue;const i=s.append("div").classed("sja_menuoption",true).text(t.ds.label);i.on("click",(()=>{i.remove();this.deletecustomdsbyname(t.ds.label)}))}}))}}this.ownds[t.label]=t}block_addtk_template(t){const e={height_main:25,height:30,tkid:Math.random().toString(),toppad:5,bottompad:5,yoff:0,axisfontsize:12,busy:false,leftLabelMaxwidth:0,rightheadw_tk:this.rightheadw,subpanels:[]};for(const s in t){e[s]=t[s]}switch(t.type){case C.bampile:Gt(e);break;case C.ds:if(!e.ds){this.error("dstk template missing .ds");return}if(!e.ds.label){this.error("dstk template missing .ds.label");return}e.name=e.ds.label;e.dsuninitiated=true;break;case C.pgv:const s=Dt(e,t);if(s){this.error(s);return}break;case C.ld:const i=Et(e,t);if(i){this.error(i);return}break;case C.bam:const o=Rt(e,t);if(o){this.error(o);return}break;case C.usegm:xe(e);break;case C.bedj:const n=pe(e,t);if(n){this.error(n)}break;case C.junction:const a=Xt(e,t);if(a){this.error(a);return}break;case C.aicheck:ie(e,t);break;case C.bigwig:Kt(e,t);break;case C.bigwigstranded:re(e,t);break;case C.bam:e.stackheight=e.stackheight||10;e.barheight=e.barheight||80;e.fcolor=e.fcolor||"#005EBD";e.rcolor=e.rcolor||"#D66B00";e.mmcolor=e.mmcolor||"#FF3D3D";break;case C.mdsjunction:const r=Le(e,t);if(r){this.error(r);return}break;case C.mdscnv:Pe(e,t);break;case C.mdssvcnv:const l=He(e,t);if(l){this.error(l);return}break;case C.mds2:break;case C.mds3:break;case C.bedgraphdot:break;case C.mdsexpressionrank:break;case C.hicstraw:const d=Fe(e,t);if(d){this.error(d);return}break;case C.ase:const c=Re(e,t);if(c){this.error(c);return}break;default:this.error("addtk: unknown template tk type "+t.type)}this.tklst.push(e);this.block_maketk(e);this.blocksetw();return e}block_maketk(t){t.tktip=new z({padding:"15px"});t.tkconfigtip=new z({padding:"15px"});t.g=this.gbase.append("g").attr("data-testid","sja_sample_menu_opener").attr("transform","translate(0,0)");t.gtksubpanels=t.g.append("g");t.gmiddle=t.g.append("g").attr("transform","translate("+(this.leftheadw+this.lpad)+",0)");t.tkbodybgrect=t.gmiddle.append("rect").attr("fill","white").attr("fill-opacity",0);t.glider=t.gmiddle.append("g").attr("transform","translate(0,0)").style("cursor","default");t.gleft=t.g.append("g").attr("transform","translate("+this.leftheadw+",0)");t.gright=t.g.append("g").attr("transform","translate("+(this.leftheadw+this.lpad+this.width+this.rpad)+",0)");t.tklabel=this.maketklefthandle(t).attr("class",null).attr("font-weight","bold");if(t.name){const s=t.name.length>=25;if(s){t.tklabel.text(t.name.substring(0,20)+" ...")}else{t.tklabel.text(t.name)}if(s||t.list_description){let i=false;t.tktip.onHide=()=>{i=false};t.tklabel.on("mouseover",(o=>{if(i==true)return;e(o,t,s);i=false}));t.tklabel.on("mouseout",(()=>{if(i==true)return;t.tktip.hide()}));t.tklabel.on("click",(o=>{i=!i;if(i==true){e(o,t,s)}}))}t.leftLabelMaxwidth=t.tklabel.node().getBBox().width}function e(t,e,s){e.tktip.clear().show(t.clientX,t.clientY-30);if(s){const t=e.tktip.d.append("div").text(e.name);if(e.list_description)t.style("margin-bottom","5px")}if(e.list_description){Z(e.tktip.d.append("div"),e.list_description).style("margin","0px")}}t.pica={g:t.gmiddle.append("g")};t.cloak=t.gmiddle.append("g").attr("transform","scale(0)");t.cloakbox=t.cloak.append("rect").attr("fill","white").attr("fill-opacity",0);t.cloaktext=t.cloak.append("text").attr("data-testid","loading_message").text("Loading ...").attr("fill",X).attr("fill-opacity",0).attr("font-weight","bold").attr("font-size","18px").attr("text-anchor","middle").attr("dominant-baseline","middle");t.cloakline=t.cloak.append("line").attr("stroke",X).attr("stroke-width","2px");switch(t.type){case C.bampile:Jt(t,this);break;case C.ds:is(t,this);break;case C.pgv:Lt(t);break;case C.ld:Pt(t);break;case C.bam:Ot(t);break;case C.usegm:ye(t,this);break;case C.bedj:fe(t,this);break;case C.junction:Ht(t);break;case C.aicheck:oe(t);break;case C.bigwig:Qt(t,this);break;case C.bigwigstranded:le(t,this);break;case C.mdsjunction:Te(t);break;case C.mdscnv:$e(t);break;case C.mdssvcnv:Ye(t);break;case C.mds2:We(t);break;case C.mds3:Ke(t);break;case C.bedgraphdot:ts(t);break;case C.mdsexpressionrank:Je(t);break;case C.hicstraw:Ae(t);break;case C.ase:Oe(t);break;default:this.error("maketk: unknown template tk type "+t.type)}this.setllabel();t.gmiddle.on("mousedown",(t=>{if(this.busy)return;if(t.which==3){return}this.busy=true;this.resized=false;t.preventDefault();const e=b(document.body);const s=this.rotated?t.clientY:t.clientX;e.on("mousemove",(t=>{const e=(this.rotated?t.clientY:t.clientX)-s;this.panning(e)}));e.on("mouseup",(t=>{e.on("mousemove",null).on("mouseup",null);const i=(this.rotated?t.clientY:t.clientX)-s;this.pannedby(i)}))}));t.gleft.on("mousedown",(e=>{e.preventDefault();const s=b(document.body);let i=e.clientY;s.on("mousemove",(e=>{const s=e.clientY-i;t.g.attr("transform","translate(0,"+(t.yoff+s)+")");let o=0;for(let e=0;e<this.tklst.length;e++){if(this.tklst[e].tkid==t.tkid){o=e;break}}if(s<0&&o>0){let n=o-1,a=this.tklst[n];while(a.hidden){n--;if(n<0){return}a=this.tklst[n]}if(!a){return}if(-s>=a.height){this.tklst[n]=t;this.tklst[o]=a;t.yoff=a.yoff-a.toppad+t.toppad;a.yoff+=t.height;a.g.transition().attr("transform","translate(0,"+a.yoff+")");i=e.clientY;if(t.type==C.usegm&&a.type==C.ds&&a.aboveprotein){Mt(a)}else if(a.type==C.usegm&&t.type==C.ds&&!t.aboveprotein){Mt(t)}}}else if(s>0&&o<this.tklst.length-1){let n=o+1,a=this.tklst[n];while(a.hidden){n++;if(n>=this.tklst.length){return}a=this.tklst[n]}if(!a){return}if(s>=a.height){this.tklst[n]=t;this.tklst[o]=a;a.yoff=t.yoff-t.toppad+a.toppad;t.yoff+=a.height;a.g.transition().attr("transform","translate(0,"+a.yoff+")");i=e.clientY;if(t.type==C.usegm&&a.type==C.ds&&!a.aboveprotein){Mt(a)}else if(a.type==C.usegm&&t.type==C.ds&&t.aboveprotein){Mt(t)}}}}));s.on("mouseup",(()=>{t.g.transition().attr("transform","translate(0,"+t.yoff+")");s.on("mousemove",null).on("mouseup",null)}))}))}panning(t){if(this.showreverse){t*=-1}this.coord.g.attr("transform","translate("+t+",0)");for(const e of this.tklst){e.glider.attr("transform","translate("+t+",0)");if(e.type==C.pgv){for(const s of e.tracks){s.immobileg.attr("transform","translate("+-t+",0)")}}}for(const e of this.hlregion.lst){e.rect.attr("x",e.x+t)}if(this.onpanning){this.onpanning(t)}}pannedby(t){if(t==0){this.busy=false;this.pannedpx=undefined;return}if(this.showreverse){t*=-1}let e=false;if(t<0){if(this.stopidx==this.rglst.length-1){const t=this.rglst[this.stopidx];if(t.reverse){if(t.start<=t.bstart)e=true}else{if(t.stop>=t.bstop)e=true}}}else{if(this.startidx==0){const t=this.rglst[0];if(t.reverse){if(t.stop>=t.bstop)e=true}else{if(t.start<=t.bstart)e=true}}}if(e){this.coord.g.transition().attr("transform","translate(0,0)");for(const t of this.tklst){t.glider.transition().attr("transform","translate(0,0)")}this.busy=false;this.pannedpx=undefined;for(const t of this.hlregion.lst){t.rect.transition().attr("x",t.x)}if(this.onpanning){this.onpanning(0)}return}this.pannedpx=t;this.zoomedin=false;this.zoom2px(-t,this.width-t)}tk_hide(t){t.hidden=true;t.g.remove();if(t.eplst){for(const e of t.eplst){if(e.pane&&e.pane.pane&&e.pane.pane.style("display")!="none"){e.epaintfold(this)}}}this.setllabel();this.block_setheight();if(t.type==C.ds){const e=this.ds2handle[t.name];if(e){e.handlesays.style("background-color","#999").style("color","white")}}if(t.tr_legend){E(t.tr_legend)}}tkchangeaffectlegend(t){if(!this.legend)return;if(t.type==C.ds){let t=false;for(const e of this.tklst){if(!e.hidden&&e.type==C.ds){t=true;break}}if(t){this.legend.tr_mclass.style("display","table-row");Nt(this);this.legend.tr_morigin.style("display","table-row");Ct(this)}else{this.legend.tr_mclass.style("display","none");this.legend.tr_morigin.style("display","none")}}}tk_load_all(){for(const t of this.tklst){t.busy=true}for(const t of this.tklst){this.tk_load(t)}}tk_load(t){if(t.hidden){if(t.g){t.g.remove()}return}if(!t.g.node().parentNode){this.gbase.node().appendChild(t.g.node())}if(t.tr_legend&&t.tr_legend.style("display")=="none"){P(t.tr_legend,"table-row")}t.busy=true;switch(t.type){case C.bampile:Vt(t,this);break;case C.pgv:Tt(t,this);break;case C.ld:$t(t,this);break;case C.bam:Ut(t,this);break;case C.ds:const e=this.ds2handle[t.name];if(e){e.handlesays.style("background-color","#ddd").style("color","black")}if(t.dsuninitiated||!this.usegm||this.gmmode==m.genomic||this.gmmodepast==m.genomic){xt(t,this);return}yt(t,this);break;case C.usegm:_e(t,this);break;case C.bigwig:te(t,this);break;case C.aicheck:ne(t,this);break;case C.bigwigstranded:de(t,this);break;case C.junction:Yt(t,this);break;case C.bam:this.loadtk_bam(t);break;case C.vafs1:this.loadtk_vafs1(t);break;case C.bedj:me(t,this);break;case C.mdsjunction:Ee(t,this);break;case C.mdscnv:Xe(t,this);break;case C.mdssvcnv:Ge(t,this);break;case C.mds2:Ze(t,this);break;case C.mds3:Qe(t,this);break;case C.bedgraphdot:es(t,this);break;case C.mdsexpressionrank:Ve(t,this);break;case C.hicstraw:Se(t,this);break;case C.ase:Ue(t,this);break;default:this.error("tk_load: unknown tk type")}}cloakOn(){const t=Number(this.svg.attr("width")),e=Number(this.svg.attr("height"));this.gCloak.attr("transform","scale(1)");this.gCloakRect.attr("width",t).attr("height",e).transition().duration(600).attr("fill-opacity",.5);this.gCloakWord.attr("x",t/2).attr("y",e/2).transition().duration(600).attr("fill-opacity",1)}cloakOff(){this.gCloak.attr("transform","scale(0)")}tkcloakon(t){t.busy=true;this.busy=true;t.cloak.attr("transform","scale(1)");t.cloakbox.attr("width",this.width).attr("height",t.height).transition().duration(600).attr("fill-opacity",.5);t.cloaktext.attr("x",this.width/2).attr("y",t.height/2).transition().duration(600).attr("fill-opacity",1);t.cloakline.attr("y1",t.height).attr("y2",t.height).attr("x2",0);if(t.gerror){t.gerror.remove()}}tkcloakoff(t,e){t.busy=false;this.ifbusy();t.cloak.attr("transform","scale(0)");t.cloakbox.attr("fill-opacity",0).attr("height",0);t.cloaktext.attr("fill-opacity",0);t.cloakline.attr("x2",0);t.glider.attr("transform","translate(0,0)");if(t.gerror){t.gerror.remove()}if(!e){this.tkerror(t,"Server error ...")}else if(e.error){this.tkerror(t,e.error)}}ifbusy(){let t=true;for(const e of this.tklst){if(!e.hidden&&e.busy)t=false}for(const e of this.rglst){if(e.busy)t=false}if(t){this.busy=false;this.add_subpanel();while(this.onloadalltk.length>0){const t=this.onloadalltk.pop();t()}if(this.onloadalltk_always){this.onloadalltk_always(this)}}}tkprogress(t,e){t.cloakline.attr("x2",this.width*e)}tkerror(t,e,s){t.gerror=t.glider.append("text").text(e.length>this.width/10?e.substring(0,this.width/10-20)+"...":e).attr("x",this.width/2).attr("text-anchor","middle").attr("y",s?s:(t.height_main-t.toppad-t.bottompad)/2).attr("dominant-baseline","central").attr("font-size","14px").attr("font-family",u)}block_setheight(){let t=this.coord.height;for(const e of this.tklst){if(e.hidden)continue;e.yoff=t+e.toppad;e.g.transition().attr("transform","translate(0,"+e.yoff+")");if(!Number.isFinite(e.height_main)){if(this.debugmode){console.log("block_setheight: invalid height_main for "+e.name)}continue}{const t=e.subpanels.map((t=>t.height));t.push(e.height_main);e.height=Math.max(...t)}t+=e.height;e.tkbodybgrect.attr("width",this.width).attr("height",e.height);for(const[t,s]of e.subpanels.entries()){s.subpaneltkbgrect.attr("width",this.subpanels[t].width).attr("height",e.height)}}for(const e of this.subpanels){e.subpanelbgrect.attr("height",t);e.subpanelleftborder.attr("height",t)}this.svg.transition().attr("height",t);for(const e of this.hlregion.lst){e.rect.attr("height",t)}if(this.onsetheight){this.onsetheight(t)}}tkarg_bedj(t){const e={name:t.name,genome:this.genome.name,rglst:this.tkarg_rglst(),stackheight:t.stackheight,stackspace:t.stackspace,regionspace:this.regionspace,width:this.width,devicePixelRatio:window.devicePixelRatio>1?window.devicePixelRatio:1};if(t.file){e.file=t.file}else{e.url=t.url;if(t.indexURL)e.indexURL=t.indexURL}if(t.color)e.color=t.color;if(t.categories)e.categories=t.categories;if(t.translatecoding)e.translatecoding=1;if(t.onerow)e.onerow=1;if(t.usevalue)e.usevalue=t.usevalue;if(t.bplengthUpperLimit)e.bplengthUpperLimit=t.bplengthUpperLimit;if(t.hideItemNames)e.hideItemNames=t.hideItemNames;if(t.filterByName)e.filterByName=t.filterByName;if(this.usegm&&this.gmmode!=m.genomic){e.gmregion=this.tkarg_maygm(t)[0];e.isoform=this.usegm.isoform}return e}bedj_tooltip(t,e,s){let i=0;if(e.mapisoform)i+=e.mapisoform.length;if(e.mapexon)i+=e.mapexon.length;if(e.mapaa)i+=e.mapaa.length;const o=(s||t).img;if(i){o.on("mousemove",(s=>{if(this.busy)return;const i=[];const n=St(s,o.node());let a;if(e.mapisoform){for(const s of e.mapisoform){const e=(s.y-1)*(t.stackheight+t.stackspace);if(s.x1<n[0]&&s.x2>n[0]&&e<n[1]&&e+t.stackheight>n[1]){a=s.y;i.push(s.name+' <span style="opacity:.5;font-size:.7em">'+s.chr+":"+(s.start+1)+"-"+(s.stop+1)+" "+f(s.stop-s.start)+"</span>")}}}if(e.mapexon){for(const s of e.mapexon){const e=(s.y-1)*(t.stackheight+t.stackspace);if(s.x1<n[0]&&s.x2>n[0]&&e<n[1]&&e+t.stackheight>n[1]){a=s.y;i.push(s.name+' <span style="opacity:.5;font-size:.7em">'+s.chr+":"+(s.start+1)+"-"+(s.stop+1)+" "+f(s.stop-s.start)+"</span>")}}}if(e.mapaa){for(const s of e.mapaa){const e=(s.y-1)*(t.stackheight+t.stackspace);if(s.x1<n[0]&&s.x2>n[0]&&e<n[1]&&e+t.stackheight>n[1]){a=s.y;i.push(s.name);break}}}if(i.length){t.tktip.clear();for(const e of i){t.tktip.d.append("div").html(e)}t.tktip.show(s.clientX,o.node().getBoundingClientRect().top+a*(t.stackheight+t.stackspace)-10)}else{t.tktip.hide()}})).on("mouseout",(()=>{t.tktip.hide()}));if(e.mapisoform){if(t.itemurl_appendname){o.on("click",(s=>{const i=St(s,o.node());for(const s of e.mapisoform){const e=(s.y-1)*(t.stackheight+t.stackspace);if(s.x1<i[0]&&s.x2>i[0]&&e<i[1]&&e+t.stackheight>i[1]&&s.name){window.open(t.itemurl_appendname+s.name);return}}}))}else if(e.mapisoform.find((t=>t.isoform))){if(t.__isgene){if(this.tklst.find((t=>t.type=="bam")));else{o.on("click",(s=>{const i=St(s,o.node());for(const o of e.mapisoform){const e=(o.y-1)*(t.stackheight+t.stackspace);if(o.x1<i[0]&&o.x2>i[0]&&e<i[1]&&e+t.stackheight>i[1]&&o.isoform){t.tkconfigtip.clear().show(s.clientX-40,s.clientY).d.append("div").attr("class","sja_menuoption").text("Gene/protein view for "+o.isoform).on("click",(()=>{t.tkconfigtip.hide();this.to_proteinview(o.isoform,t)}));return}}}))}}}else{o.on("click",null)}}else{o.on("click",null)}}else{o.on("mouseover",null).on("click",null)}}to_proteinview(t,e){let s;const i=K(".sja_root_holder").nodes();const o=K(".sja_root_holder > div").nodes();const n=o.length==1||i.length>1;if(n)s=Q({x:100,y:100});else{const t=b(o[2]);s=tt(t)}s.header.text(t);const a={genome:this.genome,debugmode:this.debugmode,holder:s.body,jwt:this.jwt,hostURL:this.hostURL,tklst:[],query:t};for(const t of this.tklst){if(e&&t.tkid==e.tkid){continue}if(t.type==et.mdsexpressionrank){continue}a.tklst.push(t)}st(a)}tkarg_rglst(){const t=[];for(let e=this.startidx;e<=this.stopidx;e++){const s=this.rglst[e];t.push({chr:s.chr,start:s.start,stop:s.stop,width:s.width,reverse:s.reverse})}return t}tkarg_maygm(t){if(!this.usegm||this.gmmode==m.genomic){return this.tkarg_rglst()}const e=this.rglst[this.startidx];const s=e.reverse;if(t.type==C.ds||t.mds){return[{chr:this.usegm.chr,start:this.usegm.start,stop:this.usegm.stop,width:this.width,reverse:s}]}let i=Math.min(e.start,e.stop);let o=Math.max(e.start,e.stop);for(let t=this.startidx+1;t<=this.stopidx;t++){const e=this.rglst[t];i=Math.min(i,e.start,e.stop);o=Math.max(o,e.start,e.stop)}return[{chr:this.usegm.chr,start:i,stop:o,width:this.width,reverse:s}]}tkarg_q(t){const e={jwt:this.jwt,name:t.name,rglst:this.tkarg_rglst(),regionspace:this.regionspace,width:this.width,file:t.file,url:t.url,indexURL:t.indexURL,barheight:t.barheight,minv:t.scale.min,maxv:t.scale.max,percentile:t.scale.percentile,autoscale:t.scale.auto,pcolor:t.pcolor,pcolor2:t.pcolor2,ncolor:t.ncolor,ncolor2:t.ncolor2,devicePixelRatio:window.devicePixelRatio>1?window.devicePixelRatio:1};if(t.normalize&&!t.normalize.disable){e.dividefactor=t.normalize.dividefactor}return e}maketkconfighandle(t){return t.gright.append("text").text("CONFIG").attr("fill","#555").attr("font-family",u).attr("font-size",this.labelfontsize).attr("y",this.labelfontsize).attr("class","sja_clbtext2")}maketklefthandle(t,e){return t.gleft.append("text").attr("font-size",this.labelfontsize).attr("font-family",u).attr("y",this.labelfontsize/2+(e||0)).attr("text-anchor","end").attr("dominant-baseline","central").attr("class","sja_clbtext2").attr("fill","black").attr("x",this.tkleftlabel_xshift)}setgmmode(t,e){if(!t)return this.error("setgmmode: no given mode");if(typeof t!="string")return this.error("setgmmode: mode value is not string");if(!this.usegm)return this.error("setgmmode: this.usegm missing");this.rglst=[];const s=this.genome.chrlookup[this.usegm.chr.toUpperCase()];if(!s){this.error("invalid chr of usegm: "+this.usegm.chr);return true}if(this.gmmode==t){return}if(this.gmmode){this.gmmodepast=this.gmmode}this.gmmode=t;let i=false;switch(this.gmmode){case m.genomic:this.rglst=[{chr:this.usegm.chr,bstart:0,bstop:s.len,start:this.usegm.start,stop:this.usegm.stop,reverse:this.usegm.strand=="-"}];this.regionspace=0;i=true;break;case m.splicingrna:for(const t of this.usegm.exon){this.rglst.push({chr:this.usegm.chr,bstart:t[0],bstop:t[1],start:t[0],stop:t[1],reverse:this.usegm.strand=="-"})}this.regionspace=10;break;case m.exononly:for(const t of this.usegm.exon){this.rglst.push({chr:this.usegm.chr,bstart:t[0],bstop:t[1],start:t[0],stop:t[1],reverse:this.usegm.strand=="-"})}this.regionspace=0;break;case m.protein:for(const t of this.usegm.coding){this.rglst.push({chr:this.usegm.chr,bstart:t[0],bstop:t[1],start:t[0],stop:t[1],reverse:this.usegm.strand=="-"})}this.regionspace=0;break;case m.gmsum:this.rglst=zs(this.allgm)[0];this.regionspace=10;break;default:this.error("setgmmode: unknown mode "+this.gmmode);this.gmmode=this.gmmodepast;return}this.startidx=0;this.stopidx=this.rglst.length-1;if(this.rglst.length>1&&this.regionspace>0){if(this.regionspace*(this.rglst.length-1)>this.width*.3){this.regionspace=Math.max(2,this.width*.3/(this.rglst.length-1))}const t=this.regionspace*(this.rglst.length-1);const e=this.rglst.reduce(((t,e)=>t+e.stop-e.start),0);this.exonsf=(this.width-(t>this.width*.4?0:t))/e;this.width=e*this.exonsf+t}if(this.gbase){let t=false;for(const e of this.tklst){if(e.__isgene)t=true}if(i){if(!t){for(const t of this.genome.tracks){if(t.__isgene){this.block_addtk_template(t);break}}}}else{if(t){while(t){for(let t=0;t<this.tklst.length;t++){if(this.tklst[t].__isgene){this.tk_remove(t);break}}t=false}}}if(e){delete this.pannedpx;this.block_coord_updated()}}}showgmmode4switch(t,e){let s,i,o,n,a;const r=400;if(this.allowGenomeMode()){s=t.append("div").style("margin","1px").attr("class",this.gmmode==m.genomic?"sja_inset_a":"sja_menuoption").on("click",(()=>{this.setgmmode(m.genomic,true);if(e){this.usegmtip.fadeout()}else{s.attr("class","sja_inset_a");if(i)i.attr("class","sja_menuoption");if(o)o.attr("class","sja_menuoption");if(n)n.attr("class","sja_menuoption");if(a)a.attr("class","sja_menuoption")}}));it(s.append("div").style("vertical-align","middle").style("display","inline-block"),this.usegm,r,20,this.usegm.start,this.usegm.stop,ot,true,this.usegm.strand=="-");s.append("div").style("display","inline-block").style("padding","13px").text(m.genomic)}if(this.usegm.exon.length>1){i=t.append("div").style("margin","1px").attr("class",this.gmmode==m.splicingrna?"sja_inset_a":"sja_menuoption").on("click",(()=>{this.setgmmode(m.splicingrna,true);if(e){this.usegmtip.fadeout()}else{i.attr("class","sja_inset_a");if(s)s.attr("class","sja_menuoption");if(o)o.attr("class","sja_menuoption");if(n)n.attr("class","sja_menuoption");if(a)a.attr("class","sja_menuoption")}}));nt(i.append("div").style("vertical-align","middle").style("display","inline-block").style("padding","0px"),this.usegm,r,ot);i.append("div").style("display","inline-block").style("padding","13px").text(m.splicingrna)}o=t.append("div").style("margin","1px").attr("class",this.gmmode==m.exononly?"sja_inset_a":"sja_menuoption").on("click",(()=>{if(e){this.usegmtip.fadeout()}else{o.attr("class","sja_inset_a");if(s)s.attr("class","sja_menuoption");if(i)i.attr("class","sja_menuoption");if(n)n.attr("class","sja_menuoption");if(a)a.attr("class","sja_menuoption")}this.setgmmode(m.exononly,true)}));at(o.append("div").style("vertical-align","middle").style("display","inline-block").style("padding","0px"),this.usegm,r,ot);o.append("div").style("display","inline-block").style("padding","13px").text(this.usegm.exon.length==1?"RNA":m.exononly);if(this.usegm.coding){n=t.append("div").style("margin","1px").attr("class",this.gmmode==m.protein?"sja_inset_a":"sja_menuoption").on("click",(()=>{if(e){this.usegmtip.fadeout()}else{n.attr("class","sja_inset_a");if(s)s.attr("class","sja_menuoption");if(i)i.attr("class","sja_menuoption");if(o)o.attr("class","sja_menuoption");if(a)a.attr("class","sja_menuoption")}this.setgmmode(m.protein,true)}));rt(n.append("div").style("vertical-align","middle").style("display","inline-block").style("padding","0px"),this.usegm,r);n.append("div").style("display","inline-block").style("padding","13px").text(m.protein)}if(this.allgm.length>1){a=t.append("div").style("margin","1px").attr("class",this.gmmode==m.gmsum?"sja_inset_a":"sja_menuoption").on("click",(()=>{if(e){this.usegmtip.fadeout()}else{a.attr("class","sja_inset_a");if(s)s.attr("class","sja_menuoption");if(i)i.attr("class","sja_menuoption");if(o)o.attr("class","sja_menuoption");if(n)n.attr("class","sja_menuoption")}this.setgmmode(m.gmsum,true)}));a.append("div").style("padding","13px").style("text-align","center").text("Aggregation of "+this.allgm.length+" isoforms")}}allowGenomeMode(){for(const t of this.tklst){if(t.type=="mds3"&&t.mds?.noGenomicMode4lollipopTk)return false}return true}showisoform4switch(t,e){if(!this.allgm){this.error("this.allgm[] missing");return}if(!this.usegm){this.error("this.usegm missing");return}const[s,i]=zs(this.allgm);let o=370;let n=10;if(n*(s.length-1)>o*.3){n=Math.max(2,o*.3/(s.length-1))}const a=n*(s.length-1);const r=s.reduce(((t,e)=>t+e.stop-e.start),0);const l=(o-(a>o*.4?0:a))/r;o=r*l+a;for(const t of s){t.width=Math.ceil((t.stop-t.start)*l)}let d=t;if(this.allgm.length>10){d=t.append("div").attr("tabindex",0).style("height","200px").style("overflow-y","scroll").style("resize","vertical")}const c=d.append("table").style("color","#555");const h=[];for(const t of this.allgm){const a=c.append("tr").attr("class","sja_clb").on("click",(async()=>{if(e){this.usegmtip.fadeout()}else{for(const e of h){e.label.style("color",e.isoform==t.isoform&&e.chr==t.chr&&e.start==t.start?"#cc0000":"#545454")}}this.holder0.selectAll("*").remove();if(!t.genomicseq){const e=await $("ntseq",{method:"POST",body:JSON.stringify({genome:this.genome.name,coord:t.chr+":"+(t.start+1)+"-"+t.stop})});if(e.error){this.error(e.error);return}t.genomicseq=e.seq;t.aaseq=lt(t)}const s=[];for(const t of this.tklst){if(t.type==C.usegm)continue;if(t.type==C.mds3)delete t.mds;s.push(t)}new ws({holder:this.holder0,genome:this.genome,hostURL:this.hostURL,nobox:true,gmstackheight:37,usegm:t,allgm:this.allgm,tklst:s,gmmode:t.cdslen?m.protein:m.exononly,hidedatasetexpression:this.hidedatasetexpression,hidegenecontrol:this.hidegenecontrol,hidegenelegend:this.hidegenelegend,variantPageCall_snv:this.variantPageCall_snv,samplecart:this.samplecart,debugmode:this.debugmode})}));a.append("td").text(t.isdefault?"DEFAULT":"").style("font-size",".6em");const r=a.append("td").text(t.isoform).style("color",t.isoform==this.usegm.isoform&&t.chr==this.usegm.chr&&t.start==this.usegm.start?"#cc0000":"#545454");h.push({isoform:t.isoform,chr:t.chr,start:t.start,label:r});if(i>1){a.append("td").text(t.chr)}dt(a.append("td"),s,t,l,n,o,16,ot);ct(a.append("td"),t)}}add_subpanel(){if(this.subpanels.length==0){this.clean_subpanel();return}for(let t=0;t<this.subpanels.length;t++){const e=this.subpanels[t];for(const s of this.tklst){if(s.hidden)continue;if(!s.subpanels[t]){s.subpanels[t]=this.new_tk_subpanel(s,e)}const i=s.subpanels[t];{let s=e.leftpad;for(let e=0;e<t;e++){s+=this.subpanels[e].leftpad+this.subpanels[e].width}i.gtksubpanel.transition().attr("transform","translate("+s+",0)")}if(i.chr==e.chr&&i.start==e.start&&i.stop==e.stop&&i.width==e.width){continue}i.chr=e.chr;i.start=e.start;i.stop=e.stop;i.width=e.width;i.leftpad=e.leftpad;this.updateruler_subpanel(e);switch(s.type){case C.bam:Ut(s,this);break;case C.bedj:ge(s,this,i);break;case C.bigwig:ee(s,this,i);break;case C.bigwigstranded:ce(s,this,i);break;case C.hicstraw:Se(s,this);break;case C.ase:Ue(s,this);break;case C.mdsjunction:Ee(s,this);break;case C.mdssvcnv:Ge(s,this);break;case C.mds2:Ze(s,this);break;case C.mds3:Qe(s,this);break;case C.bedgraphdot:es(s,this);break;case C.mdsexpressionrank:Ve(s,this);break;case C.aicheck:ae(s,this,i);break}}}this.clean_subpanel()}new_tk_subpanel(t,e){const s={height:30};s.gtksubpanel=t.gtksubpanels.append("g").on("mousedown",(t=>{t.preventDefault();const s=b(document.body);const i=t.clientX;s.on("mousemove",(t=>{e.coord.g.attr("transform","translate("+(t.clientX-i)+",0)");for(const s of this.tklst){if(s.hidden)continue;const o=s.subpanels.find((t=>t.chr==e.chr&&t.start==e.start&&t.stop==e.stop));if(o){o.glider.attr("transform","translate("+(t.clientX-i)+",0)")}else{console.log(e.chr,e.start,e.stop)}}})).on("mouseup",(t=>{s.on("mousemove",null).on("mouseup",null);const o=t.clientX-i;if(o==0)return;const n=e.stop-e.start;const a=Math.ceil(Math.abs(o)*n/e.width);let r=false;if(o>0){if(e.start<=0){r=true}else{if(e.start<a){e.start=0;e.stop=a}else{e.start-=a;e.stop-=a}}}else{const t=this.genome.chrlookup[e.chr.toUpperCase()].len;if(e.stop>=t){r=true}else{if(e.stop+a>t){e.stop=t;e.start=e.stop-n}else{e.start+=a;e.stop+=a}}}if(r){e.coord.g.transition().attr("transform","translate(0,0)");for(const t of this.tklst){if(t.hidden)continue;const s=t.subpanels.find((t=>t.chr==e.chr&&t.start==e.start&&t.stop==e.stop));if(s){s.glider.transition().attr("transform","translate(0,0)")}}return}delete this.pannedpx;this.add_subpanel()}))}));s.subpaneltkbgrect=s.gtksubpanel.append("rect").attr("fill","white").attr("fill-opacity",0);s.glider=s.gtksubpanel.append("g");if(t.type==C.bedj){s.img=s.glider.append("image")}else if(t.type==C.bigwig){s.img=s.glider.append("image")}else if(t.type==C.bigwigstranded){s.strand1={img:s.glider.append("image")};s.strand2={img:s.glider.append("image")}}else if(t.type==C.aicheck){s.img=s.glider.append("image")}s.cloak=s.gtksubpanel.append("g").attr("transform","scale(0)");s.cloakbox=s.cloak.append("rect").attr("fill","white").attr("fill-opacity",0);s.cloaktext=s.cloak.append("text").attr("id","loadingCloak2").text("Loading ...").attr("fill",X).attr("fill-opacity",0).attr("font-weight","bold").attr("font-size","18px").attr("text-anchor","middle").attr("dominant-baseline","middle");return s}clean_subpanel(){let t=false;for(const e of this.tklst){if(e.hidden)continue;while(e.subpanels.length>this.subpanels.length){const s=e.subpanels.pop();s.gtksubpanel.remove();t=true}}if(t){this.blocksetw()}}tkcloakon_subpanel(t){t.cloak.attr("transform","scale(1)");t.cloakbox.attr("width",t.width).attr("height",t.height).transition().duration(600).attr("fill-opacity",.5);t.cloaktext.attr("x",t.width/2).attr("y",t.height/2).transition().duration(600).attr("fill-opacity",1);if(t.gerror){t.gerror.remove()}}tkcloakoff_subpanel(t,e){t.cloak.attr("transform","scale(0)");t.cloakbox.attr("fill-opacity",0);t.cloaktext.attr("fill-opacity",0);t.glider.attr("transform","translate(0,0)");if(!e){this.tkerror_subpanel(t,"Server error ...")}else if(e.error){this.tkerror_subpanel(t,e.error)}}tkerror_subpanel(t,e){t.gerror=t.glider.append("text").text(e).attr("x",t.width/2).attr("text-anchor","middle").attr("y",t.height/2).attr("dominant-baseline","central").attr("font-size","14px").attr("font-family",u)}zoombutton_mouseover(t,e,s){if(this.subpanels.length==0)return;{const t=s.getBoundingClientRect();this.blocktip.clear().showunder(s).d.style("top",null).style("bottom",window.innerHeight-t.top-window.pageYOffset+3+"px")}this.blocktip.d.append("div").html("ZOOM "+(e?"OUT":"IN")+" "+t+" FOLDS ON A SUB PANEL").style("font-size",".7em").style("color","#858585").style("margin","5px");const i=this.blocktip.d.append("table");for(const[s,o]of this.subpanels.entries()){const s=i.append("tr");s.append("td").attr("class","sja_menuoption").text(o.chr+":"+o.start+"-"+o.stop).on("click",(()=>{const s=Math.ceil((o.start+o.stop)/2);const i=Math.ceil(Math.max((o.stop-o.start)*(e?t:1/t),o.width/bs));const n=this.genome.chrlookup[o.chr.toUpperCase()].len;if(s<i/2){o.start=0;o.stop=i}else if(s+i/2>n){o.stop=n;o.start=n-i}else{o.start=s-Math.ceil(i/2);o.stop=o.start+i}o.start=Math.max(0,o.start);o.stop=Math.min(o.stop,n);o.exonsf=o.width/(o.stop-o.start);this.blocktip.hide();this.add_subpanel()}))}}init_coord_subpanel(t){t.coord={};t.coord.g0=this.coord.gcoordsubpanels.append("g");t.subpanelbgrect=t.coord.g0.append("rect").attr("y",-this.coordyp1-this.rulerheight);if(t.background){t.subpanelbgrect.attr("fill",t.background)}else{t.subpanelbgrect.attr("fill","white").attr("fill-opacity",0)}t.subpanelleftborder=t.coord.g0.append("rect").attr("y",-this.coordyp1-this.rulerheight).attr("x",-t.leftpad).attr("width",t.leftpad);if(t.leftborder){t.subpanelleftborder.attr("fill",t.leftborder)}else{t.subpanelleftborder.attr("fill","white").attr("fill-opacity",0)}t.coord.g=t.coord.g0.append("g");t.coord.axesg=t.coord.g.append("g");t.coord.grab=t.coord.g.append("rect").attr("fill","white").attr("fill-opacity",0).attr("y",-this.coordyp1-this.rulerheight).on("mousedown",(e=>{this.rulermousedown(e,t).then((e=>{t.busy=false;const[s,i,o]=e;if(s){return}t.zoomedin=true;t.start+=Math.ceil(i/t.exonsf);t.stop=t.start+Math.ceil(o/t.exonsf);t.exonsf=t.width/(t.stop-t.start);delete this.pannedpx;this.add_subpanel()})).catch((t=>{if(t=="busy")return;this.error(t.message);console.log(t.stack)}))}))}updateruler_subpanel(t){t.coord.g.attr("transform","translate(0,0)");t.coord.height=this.coordyp1+this.rulerheight+this.coordyp2+(t.stop-t.start<=t.width?us+2:0);this.update_ruler_height();t.coord.grab.attr("height",t.coord.height);t.coord.axesg.selectAll("*").remove();const i=t.width/(t.stop-t.start);{const o=t.coord.axesg.append("g");const n=[t.start+1,t.stop+1];const r=[i/2,t.width-i/2];let l;{let e;const s=t.stop;o.append("text").text(s>1e6?a("s")(s):a(",d")(s)).attr("font-size",this.rulerfontsize).attr("font-family",u).each((function(){e=this.getBBox().width})).remove();l=Math.floor(t.width/(e+60))}const d=e().domain(n).range(r);const c=Ft().scale(d).tickSize(this.rulerticksize).ticks(l);if(t.stop-t.start>1e6){c.tickFormat(a("s"))}else{c.tickFormat(a(",d"))}s({axis:o.call(c),color:"black",showline:true,fontsize:this.rulerfontsize})}if(t.stop-t.start<=t.width){const e=t.coord.axesg.append("g").attr("transform","translate(0,"+this.coordyp2+")");this.getntsequence4ruler(t,e)}}error(t){ht(this.errdiv,t)}moremenu(t){{const e=t.d.append("div").style("margin-bottom","10px");e.append("button").text("Export SVG").on("click",(()=>{t.hide();import("./block.svg-9b916fa6.js").then((t=>{t.default(this)}))}));e.append("button").text("Reference DNA sequence").on("click",(()=>{Ms(this,t)}));if(this.genome.hasIdeogram){e.append("button").text((this.ideogram.visible?"Hide":"Show")+" ideogram").on("click",(()=>{this.toggleIdeogram();t.hide()}))}}{const e=t.d.append("div").style("border","solid 1px #eee").style("padding","10px").style("margin","20px 0px 20px 0px");const s=e.append("div");s.append("span").text("Highlight").style("opacity",.5).style("padding-right","10px");s.append("button").text("Select a region").on("click",(()=>{t.clear();t.d.append("div").html("&#9660; drag on the ruler");t.d.transition().style("top",Number.parseInt(t.d.style("top"))-60+"px");this.toselecthlregion=true}));s.append("button").text("Enter regions").on("click",(()=>{t.clear();const e=t.d.append("textarea").attr("rows",5).attr("cols",30);const s=t.d.append("div").style("margin-top","3px");s.append("button").text("Submit").on("click",(()=>{const s=e.property("value").trim();if(!s)return;for(const t of s.split("\n")){const e=t.split(" ");if(!e[0])continue;const s=J(e[0],this.genome,true);if(!s)continue;this.addhlregion(s.chr,s.start,s.stop,e[1]||ks)}this.moremenu(t.clear())}));s.append("button").text("Clear").on("click",(()=>{e.property("value","")}));t.d.append("div").html('<ul><li>Limited to adding regions to the current chromosome</li><li>One row per region</li><li>Example row: "chr1:123-456 #96FAF8"</li><li>Color is optional, must be hex format</li><li>If provided, separate coordinate and color by space</ul>')}));if(this.hlregion.lst.length){const t=e.append("div").style("margin-top","10px");for(const e of this.hlregion.lst){const s=t.append("div");s.append("div").html("&#10005;").style("display","inline-block").attr("class","sja_menuoption").on("click",(()=>{for(let t=0;t<this.hlregion.lst.length;t++){const s=this.hlregion.lst[t];if(s.chr==e.chr&&s.start==e.start&&s.stop==e.stop){this.hlregion.lst.splice(t,1);s.rect.remove();break}}s.remove()}));s.append("span").style("color","#858585").html("&nbsp;&nbsp;"+e.chr+":"+e.start+"-"+e.stop+"&nbsp;&nbsp;");s.append("input").attr("type","color").property("value",e.color).on("change",(t=>{e.color=t.target.value;e.rect.transition().attr("fill",e.color)}))}}}if(!JSON.parse(sessionStorage.getItem("optionalFeatures")).disableBlockExperimentFeatures){t.d.append("div").text("EXPERIMENTAL").style("font-size",".7em").style("margin","10px 0px 2px 0px").style("opacity",.5);t.d.append("button").text("Customize mutation class color").on("click",(()=>{t.clear();pt(t)}))}}initIdeogram(t){const e=5;this.ideogram={width:800,height:20,visible:t.showIdeogram,chr:null};this.ideogram.div=this.holder.append("div").style("position","relative").style("width",this.ideogram.width+"px").style("margin","5px");this.ideogram.canvas=this.ideogram.div.append("canvas").attr("width",this.ideogram.width).attr("height",this.ideogram.height).style("margin-top",e+"px");this.ideogram.ctx=this.ideogram.canvas.node().getContext("2d");this.ideogram.blueBox=this.ideogram.div.append("div").style("border","solid 1px blue").style("position","absolute").style("height",this.ideogram.height+e*2+"px").style("top","0px")}toggleIdeogram(){if(!this.ideogram)return;this.ideogram.visible=!this.ideogram.visible;if(!this.ideogram.visible){E(this.ideogram.div);return}P(this.ideogram.div);this.updateIdeogram()}async updateIdeogram(){if(!this.ideogram)return;const t=this.rglst[0].chr;if(t!=this.ideogram.chr)await this.plotIdeogram(t)}async plotIdeogram(t){if(!this.ideogram)return;try{if(!t)throw"unknonw chr to show ideogram";this.ideogram.chr=t;const e=await $("ideogram?genome="+this.genome.name+"&chr="+t);if(e.error)throw e.error;if(!Array.isArray(e))throw"data is not array";console.log(e)}catch(t){this.error(t.message||t)}}mds_handle_make(t){const e=this.genome.datasets[t];if(!e)return;const s=this.ctrl.mdsHandleHolder.append("div").style("display","inline-block").style("margin-right","2px").style("border","solid 1px black");e.handle={holder:s};e.handle.labelButton=s.append("div").text(e.label).attr("class","sja_handle_green").on("click",(async s=>{this.blocktip.clear().showunder(s.target);if(e.mdsIsUninitiated){const t=await $(`getDataset?genome=${this.genome.name}&dsname=${e.label}`);if(t.error)throw t.error;if(!t.ds)throw"ds missing";Object.assign(e,t.ds);delete e.mdsIsUninitiated}if(e.queries){const s=this.blocktip.d.append("table");for(const i in e.queries){if(e.queries[i].hideforthemoment)continue;const o=this.tklst.findIndex((e=>e.mds&&e.mds.label==t&&e.querykey==i));const n=s.append("tr");const a=n.append("td");if(o!=-1){a.html("&nbsp;&nbsp;SHOWN").style("color","#858585").style("font-size",".8em")}n.append("td").append("div").style("padding","10px 15px").attr("class","sja_menuoption").text(e.queries[i].name).on("click",(()=>{this.blocktip.hide();if(o!=-1){this.tk_remove(o);return}this.mds_load_query_bykey(e,{querykey:i})}))}}if(e.about){this.blocktip.d.append("div").style("margin","10px").append("span").attr("class","sja_clbtext").style("color","#858585").text("About this dataset").on("click",(()=>{this.blocktip.clear();Z(this.blocktip.d,e.about)}))}}))}async mds_load_query_bykey(t,e){if(t.mdsIsUninitiated){const e=await $(`getDataset?genome=${this.genome.name}&dsname=${t.label}`);if(e.error)throw e.error;if(!e.ds)throw"ds missing";Object.assign(t,e.ds);delete t.mdsIsUninitiated}if(!t.queries)return console.log("ds.queries{} missing");const s=t.queries[e.querykey];if(!s)return console.log("querykey not found in ds.queries: "+e.querykey);if(s.isgenenumeric){return}if(this.tklst.find((s=>s.mds&&s.mds.label==t.label&&s.querykey==e.querykey))){return}if(e.singlesample&&e.getsampletrackquickfix){const s=await $("mdssvcnv",{method:"POST",body:JSON.stringify({genome:this.genome.name,dslabel:t.label,querykey:e.querykey,gettrack4singlesample:e.singlesample.name})});if(s.error)throw s.error;if(s.tracks){for(const t of s.tracks){const e=this.block_addtk_template(t);this.tk_load(e)}}}const i=this.block_addtk_template(s);i.mds=t;i.querykey=e.querykey;if(e.singlesample){i.bplengthUpperLimit=0}i.customization=e;this.tk_load(i)}totalheight(){let t=this.coord.height;for(const e of this.tklst){if(e.hidden)continue;t+=e.height}return t}newblock(t){if(!t.holder)return this.error("holder missing");t.genome=this.genome;t.hostURL=this.hostURL;t.jwt=this.jwt;t.nobox=true;return new ws(t)}turnOnTrack(t){const e=Array.isArray(t)?t:[t];const s=[];for(const t of e){{const[e,s]=vs(this.tklst,t);if(s){continue}}const[e,i]=vs(this.genome.tracks,t);if(i){s.push(i)}else{s.push(t)}}for(const t of s){delete t.hidden;const e=this.block_addtk_template(t);this.tk_load(e)}}turnOffTrack(t){const e=Array.isArray(t)?t:[t];for(const t of e){const[e,s]=vs(this.tklst,t);if(e!=-1)this.tk_remove(e)}}showTrackByFile(t){if(!Array.isArray(t)){this.error("showTrackByFile() argument must be array");return}const e=new Map;for(const s of t){if(!s.type){this.error(".type missing from a file");return}if(!s.file){this.error(".file missing from a file");return}if(!e.has(s.type))e.set(s.type,new Set);e.get(s.type).add(s.file)}const s=this.tklst.filter((t=>e.has(t.type)&&!e.get(t.type).has(t.file)));const i=[];for(const[t,s]of e){for(const e of s){const s=this.genome.tracks.find((s=>s.type==t&&s.file==e));if(s&&!this.tklst.find((s=>s.type==t&&s.file==e))){i.push(s)}}}for(const t of s){this.tk_remove(this.tklst.findIndex((e=>e.type==t.type&&e.file==t.file)))}for(const t of i){const e=this.block_addtk_template(t);this.tk_load(e)}}}function vs(t,e){for(const[s,i]of t.entries()){if(i.type!=e.type)continue;if(e.type==C.junction){if(e.file||e.url){if(i.tracks.length==1){if(i.tracks[0].file?i.tracks[0].file==e.file:i.tracks[0].url==e.url){return[s,i]}}}else if(e.tracks){if(e.tracks.length==1&&i.tracks.length==1){if(i.tracks[0].file?i.tracks[0].file==e.tracks[0].file:i.tracks[0].url==e.tracks[0].url){return[s,i]}}}else;continue}if(i.type==e.type&&(i.file?i.file==e.file:i.url==e.url)){return[s,i]}}return[-1,null]}function _s(t,e){t.coord.inputtip=new z({padding:"0px",offsetX:0,offsetY:0});t.coord.input=e.append("input").attr("type","text").attr("size",20).style("margin-left","10px").style("padding-right","20px").attr("aria-label","Gene coordinates");t.coord.inputtipshow=()=>{t.coord.inputtip.clear();const e=t.coord.input.node().getBoundingClientRect();t.coord.inputtip.show(e.left,e.top+e.height+5)};t.coord.input.on("focus",(t=>{t.target.select()})).on("keyup",(e=>{t.zoomedin=false;t.pannedpx=undefined;t.resized=false;const s=e.target;const n=s.value.trim();if(n.length<=1){t.coord.inputtip.hide();return}if(o(e)){t.coord.inputtip.hide();s.blur();t.jump_1basedcoordinate(n);return}if(e.code=="Escape"){t.coord.inputtip.hide();if(t.rglst.length==1){const e=t.rglst[0];s.value=e.chr+":"+e.start+"-"+e.stop}s.blur();return}if(n.length>6)return;i()}));async function s(){const e=t.coord.input.property("value");if(!e)return;t.coord.inputtipshow();try{const s=await $("genelookup",{body:{genome:t.genome.name,input:e}});if(s.error)throw s.error;if(!s.hits||s.hits.length==0)return t.coord.inputtip.hide();for(const e of s.hits){t.coord.inputtip.d.append("div").attr("class","sja_menuoption").text(e).on("click",(()=>{t.coord.inputtip.hide();t.block_jump_gene(e)}))}}catch(e){t.inputerr(e.message||e)}}const i=ft.debounce(s,300)}function zs(t){const e=new Map;for(const s of t){if(s.hidden){continue}if(!e.has(s.chr)){e.set(s.chr,[])}e.get(s.chr).push(s)}const s=[];for(let[t,i]of e.entries()){const e=[];for(const t of i){for(const s of t.exon){e.push([s[0],s[1]])}}const o=i[0].strand=="-";e.sort(((t,e)=>t[0]-e[0]));let n=e[0];const a=[];for(let s=1;s<e.length;s++){const i=e[s];if(i[0]>n[1]){const e={chr:t,bstart:n[0],bstop:n[1],start:n[0],stop:n[1],reverse:o};if(o){a.unshift(e)}else{a.push(e)}n=i}else{n[1]=Math.max(n[1],i[1])}}const r={chr:t,bstart:n[0],bstop:n[1],start:n[0],stop:n[1],reverse:o};if(o){a.unshift(r)}else{a.push(r)}s.push(...a)}return[s,e.size]}const js=1e5;async function Ms(t,e){e.clear();const s=[];for(let e=t.startidx;e<=t.stopidx;e++){const i=t.rglst[e];s.push({chr:i.chr,start:i.start,stop:i.stop})}const i=s.reduce(((t,e)=>t+e.stop-e.start),0);if(i>js){e.d.append("div").text("Please zoom in under "+f(js)+" to get DNA sequence.");return}const o=[];for(const e of s){const s=e.chr+":"+(e.start+1)+"-"+e.stop;const i=await $("ntseq",{method:"POST",body:JSON.stringify({genome:t.genome.name,coord:s})});o.push(">"+s+"\n"+i.seq)}D("Reference DNA from "+t.genome.name,[{text:o.join("\n")}],1,1,10,100,e.d.style("left","100px"))}function Ns(t){t.cursorhlbarFillColor="#FFFF99";t.cursorhlbar=t.gbase.append("rect").attr("fill",t.cursorhlbarFillColor);t.gbase.on("mousemove",(e=>{const s=St(e,t.gbase.node())[0];let i=t.leftheadw+t.lpad;if(s<i){t.cursorhlbar.attr("width",0);return}let o,n;if(s<i+t.width){n=Math.max(2,t.exonsf);o=s;if(t.exonsf>=2){o-=(s-i)%t.exonsf}}else{i+=t.width;for(const e of t.subpanels){i+=e.leftpad;if(s<i+e.leftpad){break}if(s<i+e.leftpad+e.width){n=Math.max(2,e.exonsf);o=s;if(e.exonsf>=2){o-=(s-i-e.leftpad)%e.exonsf}break}i+=e.leftpad+e.width}}if(o){t.cursorhlbar.attr("x",o).attr("width",n).attr("height",t.totalheight())}})).on("mouseout",(()=>{t.cursorhlbar.attr("width",0)}))}var Cs=Object.freeze({__proto__:null,Block:ws});export{se as a,Kt as b,Cs as c,Zt as m};

package/dist/block.lazyload-87b12654.js

@@ -0,0 +1 @@
+let n;async function t(t){if(!n){const t=await import("./block-6aedd569.js").then((function(n){return n.c}));n=t.Block}return new n(t)}export{t as b};