@sjcrh/proteinpaint-client 2.74.2 → 2.76.0

package/dist/adSandbox-f438e388.js

@@ -0,0 +1 @@
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dt(e,t){if(e.isUi==true)return;const n=De.highlight(`runproteinpaint({\n    host: "${sessionStorage.getItem("hostURL")}",\n    holder: document.getElementById('a'),\n    `+JSON.stringify(e.runargs,"",4).replaceAll(/"(.+)"\s*:/g,"$1:").replaceAll(/\\t/g,"\t").replaceAll(/\\n/g,"\r\t").slice(1,-1).trim()+`\r})`,{language:"javascript"}).value;const s=`<pre style="border: 1px solid #d7d7d9; align-items: center; justify-content: center; margin: 0px 10px 5px 30px; overflow:auto; max-height:400px; ${e.jsonpath?`min-height:400px;`:`min-height: auto;`}">\n\t<code style="font-size:14px; display:block;">${n}</code></pre>`;t.push({name:"Code",callback:async t=>{try{if(e.jsonpath){const n=await ut(e);const i="<p style='margin:20px 5px 20px 25px;'>ProteinPaint JS code</p>";const o=t.append("div").style("display","grid").style("grid-template-columns","repeat(auto-fit, minmax(100px, 1fr))").style("gap","5px");o.append("div").style("display","block").html(i+s);o.append("div").style("display","block").html(n)}else{t.append("div").html(s)}}catch(e){alert("Error: "+e)}}})}async function ut(e){const t=await o("textfile",{file:e.jsonpath});const n=JSON.parse(t.text);const s=e.jsonpath.split("/");const i=s[s.length-1];let a=JSON.stringify(n,"",4).split("\n");let r;if(a.length>120){a=a.slice(0,100);r=true}const c=De.highlight(a.join("\n"),{language:"json"}).value;const l=`<div>\n\t\t\t<p style="margin: 20px 5px 20px 25px; display: inline-block;">JSON code </p>\n\t\t\t<p style="display: inline-block; color: #696969; font-style:oblique;"> (contents of ${i})</p>\n\t\t</div> \n\t\t<pre style="border: 1px solid #d7d7d9; align-items: center; justify-content: center; margin: 0px 10px 5px 10px; max-height:400px; min-height:400px; overflow:auto;">\n\t\t\t<code class="sjpp-json-code" style="font-size:14px; display:block;">${r==true?`${c} ...<br><p style='margin:20px 25px; justify-content:center;'>Showing first 100 lines. To see the entire JSON, download ${i} from the button above.</p>`:`${c}`}\n\t\t\t</code>\n\t\t</pre>`;return l}function pt(e,t,n){e.push({name:n,callback:async e=>{try{e.append("div").style("margin-left","5w").html(`<span style="display: inline-block;">${t.title}. <em>${t.journal}</em>, ${t.year}.\n\t\t\t\t\t\t${t.pmid?` PMID: <a href="${t.pmidURL}" target="${t.pmid}">${t.pmid}</a>`:` doi: <a href="${t.doi}" target="${t.doi}">${t.doi}</a>`}</span>`)}catch(e){alert("Error: "+e)}}})}function gt(e,t,n,s,i){n.append("div").html(`\n\t\t${i?`<p style="display:block;">${i}<p>`:""}\n\t\t<p style="display: inline-block;">Data preview <span style="color: #696969; font-style:oblique;"> \n\t\t${t>10?`(first ${e.length} rows of ${s})</span></p>`:`(content of ${s})</span></p>`} \n\t`);const o=n.append("div").style("display","grid").style("grid-template-columns","1fr").style("max-width","80%").style("margin-left","10px").style("border","1px solid rgb(227, 227, 230)").style("white-space","pre").style("overflow-x","scroll").style("opacity","0.65").style("padding","1vw");e.forEach((e=>{o.append("code").html(e)}))}async function ft(e,t,s){e.push({name:"View Data",callback:async e=>{try{for(const s of t){const t=await n(`/cardsjson?datafile=${s.file}&tabixCoord=${s.tabixQueryCoord}`);if(t.error){console.error(`Error: ${t.error}`);return}const i=t.file;const o=i.length;const a=i.slice(0,10);const r=s.file.split("/");const c=r[r.length-1];gt(a,o,e,c,s.message)}}catch(e){alert("Error: "+e)}}})}async function ht(e,t,n){const s=e?.fromApp?e.genomes[t.button.availableGenomes[0]]:e.app.opts.genomes[t.button.availableGenomes[0]];const i=e?.fromApp?e.genomes:e.app.opts.genomes;const o={availableGenomes:t.button.availableGenomes,genome:s,intro:t.button.intro,name:t.button.name,runargs:t.button.runargs,searchBar:t.button.searchBar,dsURLparam:t.button.dsURLparam,citation:t.citation_id};const r=n.body.append("div").style("padding","1em").style("border-bottom","1px solid #d0e3ff");if(o.citation){const t=r.append("div").style("margin-bottom","20px");const n=r.append("div");await rt(o,"main",t,n,e)}if(o.intro){r.append("div").style("line-height","1.5em").style("padding","0.5em 0.5em 1em 0.5em").html(o.intro)}if(o.searchBar=="none"){const e=sessionStorage.getItem("hostURL");const t={holder:n.body.append("div").style("margin","20px").style("overflow-x","auto").node(),host:o.runargs.host||e};const s=JSON.parse(JSON.stringify(o.runargs));runproteinpaint(Object.assign(t,s));if(e!=sessionStorage.getItem("hostURL"))sessionStorage.setItem("hostURL",e);return}if(o.availableGenomes.length>1)g(r,i);else{r.append("div").style("display","inline-block").style("margin-left","20px").style("color","rgb(117, 115, 115)").text(o.availableGenomes[0])}const d=r.append("div").style("display","inline-block").style("padding","0.5em");const u=n.body.append("div").style("max-width","90vw");const p=c({genome:o.genome,tip:new a({padding:""}),row:d,searchOnly:o.searchBar=="gene"?"gene":"",focusOff:true,callback:async e=>{const t=u.insert("div",":first-child").style("max-width","90vw").style("margin","1vw");t.append("div").style("display","inline-block").style("cursor","default").style("margin","0px").style("font-size","1.5em").html("&times;").on("click",(()=>{t.selectAll("*").remove()}));bt(t,p,o);const n={holder:t.append("div").style("margin","20px").node(),host:sessionStorage.getItem("hostURL"),genome:o.genome.name};o.runargs.block==true?(n.position=`${p.chr}:${p.start}-${p.stop}`)&&(n.nativetracks="Refgene"):n.gene=p.geneSymbol;const s=JSON.parse(JSON.stringify(o.runargs));runproteinpaint(Object.assign(n,s))}});function g(e,t){e.append("div").style("display","inline-block").style("padding","10px 10px 0px 20px");const n=[];o.availableGenomes.forEach((e=>{n.push({label:e,callback:(n,s)=>{o.genome=t[e]}})}));new l({holder:e,tabs:n,noContent:true}).main()}}function bt(e,t,n){const s=d({div:e,text:"Run Result from URL"});const i=n.runargs.block==true?`position=${t.chr}:${t.start}-${t.stop}`:`gene=${t.geneSymbol}`;s.on("click",(e=>{e.stopPropagation();const t=mt();window.open(`${t}/?genome=${n.genome.name}&${i}&${n.dsURLparam}`,"_blank")}))}function mt(){const e=sessionStorage.getItem("hostURL");if(e.startsWith("http://localhost")||e.startsWith("https://pp")){return e}else return"https://proteinpaint.stjude.org"}var yt=Object.freeze({__proto__:null,openSandbox:Ve});export{yt as a,d as m,Ve as o};

package/dist/app-3320ab6f.js

@@ -0,0 +1 @@
+import{h as e,T as t,d as s,Y as i,i as r,a,k as o,y as l,o as n,M as p,b as d,K as c}from"./app-b369b169.js";import{T as m,n as h,t as u,e as f,d as y}from"./termsetting-33ea66f1.js";import{g as b,i as v,a as _,f as g,s as T,v as x}from"./FilterRxComp-701a1480.js";import{termInfoInit as S}from"./termInfo-bf99a37e.js";import{_ as I}from"./tslib.es6-c3c2d88f.js";import{T as k}from"./toggleButtons-dbdbad01.js";import"path";import"./table-29d5a973.js";import"./partjson.esm-b3f1fc21.js";import"./termdb.bins-8b656cc3.js";const C="25px";const A="root";const w=20;const N="400px";const D="termdiv",E="termchilddiv",O="termbtn",j="termlabel",L="termloading",B="termcheck";class V{constructor(e){this.type="tree";G(this);R(this);this.loadingTermSet=new Set;this.termsByCohort={};this.expandAll="expandAll"in e?e.expandAll:false}init(){this.dom={holder:this.opts.holder.append("div")}}reactsTo(e){if(e.type.startsWith("tree_"))return true;if(e.type.startsWith("filter_"))return true;if(e.type.startsWith("cohort_"))return true;if(e.type.startsWith("info_"))return true;if(e.type.startsWith("submenu_"))return true;if(e.type=="app_refresh")return true;if(e.type=="set_term_type_group")return true}getState(e){const t=b(e.termfilter.filter);const s={isVisible:!e.submenu.term,activeCohort:e.activeCohort,expandedTermIds:e.tree.expandedTermIds,selectedTerms:e.selectedTerms,termfilter:{filter:t},usecase:e.tree.usecase,termTypeGroup:e.termTypeGroup};if(e.termdbConfig.selectCohort){s.toSelectCohort=true;const t=e.termdbConfig.selectCohort.values[e.activeCohort];if(t){s.cohortValuelst=t.keys}}return s}async main(){if(this.state.termTypeGroup!=t.DICTIONARY_VARIABLES){this.dom.holder.style("display","none");return}if(!this.state.isVisible){this.dom.holder.style("display","none");return}if(this.state.toSelectCohort){if(!this.state.cohortValuelst){return}}this.termsById=this.getTermsById();const e=this.termsById[A];e.terms=await this.requestTermRecursive(e);this.dom.holder.style("display","block");await this.renderBranch(e,this.dom.holder);this.dom.holder.selectAll(".termbtn, .sja_tree_click_term").attr("tabindex",0).attr("data-testid","sjpp_termdbbutton").on("keyup",(e=>{if(e.key=="Enter")e.target.click()}))}getTermsById(){if(!(this.state.activeCohort in this.termsByCohort)){this.termsByCohort[this.state.activeCohort]={[A]:{id:A,__tree_isroot:true}}}return this.termsByCohort[this.state.activeCohort]}async requestTermRecursive(e){const t=await this.app.vocabApi.getTermChildren(e,this.state.toSelectCohort?this.state.cohortValuelst:null);if(t.error)throw t.error;if(!t.lst||t.lst.length==0){return[]}const s=[];for(const e of t.lst){const t=Object.assign({},e);s.push(t);if(this.state.expandedTermIds.includes(t.id)){t.terms=await this.requestTermRecursive(t)}else{const e=this.termsById[t.id];if(e&&e.terms){t.terms=e.terms}}this.termsById[t.id]=t}return s}bindKey(e){return e.id}}const P=e(V);function R(e){e.renderBranch=(t,s,i)=>{if(!t||!t.terms)return;if(t.terms.length>=w){if(s.classed("sjpp_show_scrollbar"));else{s.style("max-height",N).style("padding","10px").style("resize","vertical").classed("sjpp_show_scrollbar",true)}}if(e.opts.disable_terms){t.terms.forEach((t=>{if(t.disabled)e.opts.disable_terms.push(t)}))}e.included_terms=[];if(e.state.usecase){for(const s of t.terms){if(v(s,e.state.usecase,e.app.vocabApi.termdbConfig).size){e.included_terms.push(s)}}}else{e.included_terms.push(...t.terms)}if(!(t.id in e.termsById)||!e.included_terms.length){s.style("display","none");return}if(e.loadingTermSet.has(t.id)){e.loadingTermSet.delete(t.id);s.select("."+L).remove()}const r=e.state.expandedTermIds;if(!r.includes(t.id)){s.style("display","none");if(i)i.text("+");return}s.style("display","block");if(i)i.text("-");const a=s.selectAll("."+D).data(e.included_terms,e.bindKey);a.exit().each(e.hideTerm);a.each(e.updateTerm);a.enter().append("div").each(e.addTerm);for(const i of t.terms){if(r.includes(i.id)){e.renderBranch(i,s.selectAll("."+E).filter((e=>e.id==i.id)),s.selectAll("."+O).filter((e=>e.id==i.id)))}}};e.hideTerm=function(t){if(t.id in e.termsById&&e.state.expandedTermIds.includes(t.id))return;s(this).style("display","none")};e.updateTerm=function(t){const i=s(this);if(!(t.id in e.termsById)){i.style("display","none");return}const r=e.opts.disable_terms?.includes(t.id);const a=v(t,e.state.usecase,e.app.vocabApi.termdbConfig);i.style("display","");const o=e.state.expandedTermIds.includes(t.id);i.select("."+O).text(o?"-":"+");i.select("."+E).style("display",o?"block":"none");const l=e.state.selectedTerms.find((e=>e.name===t.name&&e.type===t.type));i.select("."+j).style("background-color",!a.has("plot")||r?"":l?"rgba(255, 194, 10,0.5)":"#cfe2f3");i.select("."+B).style("display",a.has("plot")&&l&&!r?"inline-block":"none")};e.addTerm=async function(t){const i=e.opts.disable_terms?.includes(t.id);const r=v(t,e.state.usecase,e.app.vocabApi.termdbConfig);const a=s(this).attr("class",D).style("margin",t.isleaf?"":"2px").style("padding","0px 5px");if(r.has("branch")){a.append("div").attr("class","sja_menuoption "+O).style("display","inline-block").style("padding","4px 9px").style("font-family","courier").text("+").on("click",(s=>{s.stopPropagation();e.toggleBranch(t)}));if(e.expandAll)e.toggleBranch(t)}const o=e.state.selectedTerms.find((e=>e.name===t.name&&e.type===t.type));const l=a.append("div").attr("class",j).style("display","inline-block").style("padding","5px").style("opacity",i?.4:null).text(t.name);let n;if(t.hashtmldetail){n=a.append("div").style("display","inline-block")}if(r.size>0){if(i){l.attr("class","sja_tree_click_term_disabled "+j).style("padding","5px 8px").style("margin","1px 0px").style("opacity",.7)}else if(r.has("plot")){l.attr("class","ts_pill sja_filter_tag_btn sja_tree_click_term "+j).style("color","black").style("padding","5px 8px").style("border-radius","6px").style("background-color",o?"rgba(255, 194, 10,0.5)":"#cfe2f3").style("margin","1px 0px").style("cursor","default").on("click",(()=>e.clickTerm(t)))}if(t.samplecount!==undefined){a.append("div").style("font-size",".8em").style("display","inline-block").style("margin-left","5px").style("color",t.samplecount?"#777":"#ddd").text("n="+t.samplecount)}}if(t.hashtmldetail){S({vocabApi:e.app.vocabApi,icon_holder:n,content_holder:a.append("div"),id:t.id,state:{term:t}})}if(e.opts.submit_lst){a.append("div").attr("class",B).style("color","#008000").style("display",o?"inline-block":"none").html("&check;")}if(!t.isleaf){a.append("div").attr("class",E).style("padding-left",C)}}}function G(e){e.toggleBranch=function(t){if(t.isleaf)return;const i=e.termsById[t.id];if(!i)throw"invalid term id";if(!i.terms){if(e.loadingTermSet.has(i.id))return;e.loadingTermSet.add(i.id);s(this.parentNode).selectAll("."+E).filter((e=>e.id===i.id)).style("display","block").append("div").text("Loading...").attr("class",L).style("opacity",.5).style("padding","5px")}const r=e.state.expandedTermIds.includes(t.id);const a=r?"tree_collapse":"tree_expand";e.app.dispatch({type:a,termId:t.id})};e.clickTerm=async t=>{if(e.opts.click_term2select_tvs){e.app.dispatch({type:"submenu_set",submenu:{term:t,type:"tvs"}});return}if(e.opts.click_term_wrapper){e.opts.click_term_wrapper(t);return}if(e.opts.submit_lst){const s=e.state.selectedTerms.findIndex((e=>e.name===t.name));if(s==-1){e.app.dispatch({type:"app_refresh",state:{selectedTerms:[...e.state.selectedTerms,t]}})}else{const t=e.state.selectedTerms.slice(0);t.splice(s,1);e.app.dispatch({type:"app_refresh",state:{selectedTerms:t}})}return}throw"missing term click callback"}}const U={header_mode:"search_only",activeCohort:0,tree:{usecase:{},expandedTermIds:[]},submenu:{},search:{isVisible:true},selectedTerms:[],termfilter:{filter:{type:"tvslst",in:true,join:"",lst:[]}}};class M{constructor(e){this.type="store";this.defaultState=U;i(this,e);this.prevGeneratedId=0}validateOpts(e){if(!e.state)throw".state{} missing";const t=e.state;if(t.vocab){if(t.vocab.dslabel){if(!t.vocab.genome)throw".state[.vocab].genome missing"}else if(t.vocab.genome){if(!t.vocab.dslabel)throw".state[.vocab].dslabel missing"}else{if(!Array.isArray(t.vocab.terms))throw"vocab.terms must be an array of objects"}}}validateState(){const e=this.state;if(e.tree.expandedTermIds.length==0){e.tree.expandedTermIds.push(A)}else{if(e.tree.expandedTermIds[0]!=A){e.tree.expandedTermIds.unshift(A)}}}async init(){this.state.termdbConfig=await this.app.vocabApi.getTermdbConfig();let e=_(this.state.termfilter.filter,"filterUiRoot");if(!e){this.state.termfilter.filter.tag="filterUiRoot";e=this.state.termfilter.filter}if(this.state.termdbConfig.selectCohort){let t=_(this.state.termfilter.filter,"cohortFilter");if(!t){t={tag:"cohortFilter",type:"tvs",tvs:{term:JSON.parse(JSON.stringify(this.state.termdbConfig.selectCohort.term)),values:this.state.activeCohort==-1?[]:this.state.termdbConfig.selectCohort.values[this.state.activeCohort].keys.map((e=>({key:e,label:e})))}};this.state.termfilter.filter={type:"tvslst",in:true,join:"and",lst:[t,e]}}else{const e=(e,t)=>e<t?-1:1;t.tvs.values.sort(((e,t)=>e.key<t.key?-1:1));const s=JSON.stringify(t.tvs.values.map((e=>e.key)).sort(e));const i=this.state.termdbConfig.selectCohort.values.findIndex((t=>s==JSON.stringify(t.keys.sort(e))));if(this.state.activeCohort!==-1&&this.state.activeCohort!==0&&i!==this.state.activeCohort){console.log("Warning: cohortFilter will override the state.activeCohort due to mismatch")}this.state.activeCohort=i}}else{this.state.activeCohort=-1;if(this.state.header_mode==="with_cohortHtmlSelect"){console.warn(`no termdbConfig.selectCohort to use for state.header_mode = 'with_cohortHtmlSelect'`);this.state.header_mode="search_only"}}}fromJson(e){const t=JSON.parse(e);return t}setId(e){e.$id=this.prevGeneratedId++;if(e.$lst){for(const t of e.$lst){this.setId(t)}}}}M.prototype.actions={app_refresh(e={}){this.state=this.copyMerge(this.toJson(this.state),e.state?e.state:{},this.replaceKeyVals)},cohort_set(e){this.state.activeCohort=e.activeCohort;const t=this.state.termdbConfig.selectCohort.values[e.activeCohort];const s=_(this.state.termfilter.filter,"cohortFilter");if(!s)throw`No item tagged with 'cohortFilter'`;s.tvs.values=t.keys.map((e=>({key:e,label:e})))},tree_expand(e){if(this.state.tree.expandedTermIds.includes(e.termId))return;this.state.tree.expandedTermIds.push(e.termId)},tree_collapse(e){const t=this.state.tree.expandedTermIds.indexOf(e.termId);if(t==-1)return;this.state.tree.expandedTermIds.splice(t,1)},filter_replace(e){const t=e.filter?e.filter:{type:"tvslst",join:"",in:1,lst:[]};if(!e.filter.tag){this.state.termfilter.filter=t}else{const s=_(this.state.termfilter.filter,e.filter.tag);if(!s)throw`cannot replace missing filter with tag '${e.filter.tag}'`;const i=g(this.state.termfilter.filter,s.$id);if(i==s){this.state.termfilter.filter=t}else{const e=i.lst.indexOf(s);i.lst[e]=t}}},submenu_set(e){const t=e.submenu&&e.submenu.term;if(!t){this.state.submenu={};this.state.tree.expandedTermIds=[A]}else{const s=[A];if(t.__ancestors){s.push(...t.__ancestors)}if(v(t,{},this.state.termdbConfig).has("plot")){Object.assign(this.state.submenu,e.submenu)}else{s.push(t.id);delete this.state.submenu.term}this.state.tree.expandedTermIds=s}},set_term_type_group({value:e}){this.state.termTypeGroup=e}};const Y=r(M);function F(e){switch(e){case"./handlers/geneExpression.ts":return import("./geneExpression-0d1b7244.js");case"./handlers/geneVariant.ts":return import("./geneVariant-89601b34.js");case"./handlers/snp.ts":return import("./snp-37d06246.js");case"./handlers/snplocus.ts":return import("./snplocus-90e52cf4.js");case"./handlers/snplst.ts":return import("./snplst-7c59f059.js");default:return new Promise((function(t,s){(typeof queueMicrotask==="function"?queueMicrotask:setTimeout)(s.bind(null,new Error("Unknown variable dynamic import: "+e)))}))}}const $={matrix:[t.SNP_LOCUS,t.SNP_LIST],filter:[t.SNP_LOCUS,t.SNP_LIST],dictionary:[t.SNP_LOCUS,t.SNP_LIST],summary:[t.SNP_LOCUS,t.SNP_LIST],barchart:[t.SNP_LOCUS,t.SNP_LIST],violin:[t.SNP_LOCUS,t.SNP_LIST],sampleScatter:[t.SNP_LOCUS,t.SNP_LIST],cuminc:[t.SNP_LOCUS,t.SNP_LIST,t.MUTATION_CNV_FUSION,t.METABOLITE_INTENSITY],dataDownload:[t.MUTATION_CNV_FUSION],survival:[t.SNP_LOCUS,t.SNP_LIST],default:[t.SNP_LOCUS,t.SNP_LIST],regression:[t.SNP_LIST,t.SNP_LOCUS,t.GENE_EXPRESSION,t.METABOLITE_INTENSITY],metaboliteIntensity:[t.SNP_LOCUS,t.SNP_LIST,t.MUTATION_CNV_FUSION,t.DICTIONARY_VARIABLES,t.GENE_EXPRESSION],geneExpression:[t.SNP_LOCUS,t.SNP_LIST,t.MUTATION_CNV_FUSION,t.DICTIONARY_VARIABLES,t.METABOLITE_INTENSITY]};class q{constructor(e){this.type="termTypeSearch";this.genomeObj=e.genome;this.click_term=e.click_term;this.submit_lst=e.submit_lst;const t=e.topbar.append("div").append("div").style("width","99%").style("display","flex").style("flex-wrap","wrap").style("gap","5px").style("min-height","20px").style("border","solid 1px #aaa").style("margin","10px 0px").style("padding","6px 2px").style("min-height","30px");this.types=[];this.tabs=[];this.handlerByType={};this.dom={holder:e.holder,topbar:e.topbar,selectedTermsDiv:t,submitDiv:e.submitDiv};this.useCasesExcluded=structuredClone($)}init(e){var s,i,r;return I(this,void 0,void 0,(function*(){this.types=((s=this.app.vocabApi.termdbConfig)===null||s===void 0?void 0:s.allowedTermTypes)||["categorical"];if(!this.types)return;if((i=this.app.vocabApi.termdbConfig)===null||i===void 0?void 0:i.useCasesExcluded)Object.assign(this.useCasesExcluded,(r=this.app.vocabApi.termdbConfig)===null||r===void 0?void 0:r.useCasesExcluded);const a=this.getState(e);yield this.addTabsAllowed(a);if(this.submit_lst)this.dom.clearbt=this.dom.submitDiv.append("button").style("margin-left","5px").text("Clear").on("click",(()=>this.selectTerms([])));if(this.tabs.length==0)throw"No term types allowed for this use case";this.app.dispatch({type:"set_term_type_group",value:this.tabs[0].termTypeGroup});if(this.tabs.length==1&&this.tabs[0].termTypeGroup==t.DICTIONARY_VARIABLES)return;new k({holder:this.dom.holder,tabsPosition:"vertical",linePosition:"right",tabs:this.tabs}).main();for(const[e]of this.tabs.entries()){const t=this.tabs[e].contentHolder.style("padding-left","20px");t.append("div")}}))}reactsTo(e){if(e.type.startsWith("submenu_"))return true;if(e.type=="set_term_type_group")return true;if(e.type=="app_refresh")return true}main(){this.dom.holder.style("display",this.state.isVisible?"inline-block":"none");this.dom.topbar.style("display",this.state.isVisible?"inline-block":"none");if(this.submit_lst){this.renderTermsSelected();this.dom.selectedTermsDiv.style("display",this.state.selectedTerms.length>0?"inline-block":"none")}else this.dom.selectedTermsDiv.style("display","none");this.renderTermsSelected();if(this.dom.clearbt)this.dom.clearbt.property("disabled",this.state.selectedTerms.length==0)}renderTermsSelected(){this.dom.selectedTermsDiv.selectAll("*").remove();this.dom.selectedTermsDiv.selectAll("div").data(this.state.selectedTerms).enter().append("div").attr("aria-label","Click to delete").attr("class","sja_menuoption").attr("tabindex",0).style("position","relative").style("display","inline-block").style("padding","5px 16px 5px 9px").style("margin-left","5px").each(e).on("click",((e,t)=>this.deleteTerm(e,t))).on("mouseover",(function(e){const t=`<svg xmlns="http://www.w3.org/2000/svg" width="16" height="16" fill="#000" class="bi bi-x-lg" viewBox="0 0 16 16">\n\t\t\t\t<path stroke='#f00' d="M2.146 2.854a.5.5 0 1 1 .708-.708L8 7.293l5.146-5.147a.5.5 0 0 1 .708.708L8.707 8l5.147 5.146a.5.5 0 0 1-.708.708L8 8.707l-5.146 5.147a.5.5 0 0 1-.708-.708L7.293 8 2.146 2.854Z"/>\n\t\t\t\t</svg>`;const i=s(e.target);i.append("div").style("margin-left","4px").classed("sjpp_deletebt",true).style("display","inline-block").style("position","absolute").style("right","0px").style("top","0px").style("transform","scale(0.6)").style("pointer-events","none").html(t)})).on("mouseout",(function(e){s(e.target).select(".sjpp_deletebt").remove()}));function e(e){const t=s(this).style("border-radius","5px");t.insert("div").style("display","inline-block").html(e.name)}}deleteTerm(e,t){const s=this.state.selectedTerms.findIndex((e=>e.name===t.name));if(s!=-1){const e=[...this.state.selectedTerms];e.splice(s,1);this.app.dispatch({type:"app_refresh",state:{selectedTerms:e}})}}getState(e){return{dslabel:e.dslabel,termTypeGroup:e.termTypeGroup,usecase:e.tree.usecase,isVisible:!e.submenu.term,selectedTerms:e.selectedTerms,termfilter:e.termfilter}}addTabsAllowed(e){var s;return I(this,void 0,void 0,(function*(){for(const i of this.types){const r=u[i];let a=r;if(i==m.GENE_VARIANT){const e=[];if(this.app.vocabApi.termdbConfig.queries.snvindel)e.push("Mutation");if(this.app.vocabApi.termdbConfig.queries.cnv)e.push("CNV");if(this.app.vocabApi.termdbConfig.queries.svfusion)e.push("Fusion");if(e.length==0)continue;a=e.join("/")}if(i==m.SNP_LIST||i==m.SNP_LOCUS){continue}if(r&&!this.tabs.some((e=>e.label==r))){if(e.usecase.target=="regression"){if(i==m.SNP)continue;if(i==m.GENE_VARIANT&&e.usecase.detail!="independent")continue}if(e.usecase.target=="sampleScatter"){if(e.usecase.detail=="numeric"&&!h.has(i))continue}if((e.usecase.target=="survival"||e.usecase.target=="cuminc")&&r!=t.DICTIONARY_VARIABLES){if(e.usecase.detail=="term")continue}if(e.usecase.target=="dataDownload"){if(i==m.SNP)continue}if(e.usecase.target&&((s=this.useCasesExcluded[e.usecase.target])===null||s===void 0?void 0:s.includes(r)))continue;try{if(!this.usesDefaultSearch(r)){const e=yield F(`./handlers/${i}.ts`);this.handlerByType[i]=yield new e.SearchHandler;if(!this.handlerByType[i].init)throw"init not implemented"}this.addLoadTopTerms(i)}catch(e){throw`error with handler='./handlers/${i}.ts': ${e}`}this.tabs.push({label:a,callback:()=>this.setTermTypeGroup(i,r),termTypeGroup:r})}}}))}usesDefaultSearch(e){return e==t.DICTIONARY_VARIABLES||e==t.METABOLITE_INTENSITY}addLoadTopTerms(e){return I(this,void 0,void 0,(function*(){if(e==m.METABOLITE_INTENSITY)this.dom.submitDiv.append("button").style("margin-left","5px").text("Load top terms").on("click",(()=>I(this,void 0,void 0,(function*(){const t={filter0:this.state.termfilter.filter0,filter:this.state.termfilter.filter,type:e};const s=yield this.app.vocabApi.getTopTermsByType(t);this.selectTerms(s.terms)}))))}))}selectTerms(e){this.app.dispatch({type:"app_refresh",state:{selectedTerms:e}})}setTermTypeGroup(e,s){return I(this,void 0,void 0,(function*(){yield this.app.dispatch({type:"set_term_type_group",value:s});const i=this.tabs.find((e=>e.termTypeGroup==s));if(!i)return;const r=i.contentHolder;r.selectAll("*").remove();if(i.termTypeGroup!=t.DICTIONARY_VARIABLES&&i.termTypeGroup!=t.METABOLITE_INTENSITY){const t=this.handlerByType[e];yield t.init({holder:r,app:this.app,genomeObj:this.genomeObj,callback:e=>this.selectTerm(e)})}}))}selectTerm(e){if(this.click_term)this.click_term(e);else if(this.submit_lst){this.app.dispatch({type:"app_refresh",state:{selectedTerms:[...this.state.selectedTerms,e]}})}else this.app.dispatch({type:"submenu_set",submenu:{term:e,type:"tvs"}})}}const z=e(q);class K{constructor(e){this.type="submenu";this.dom={holder:e.holder};H(this)}reactsTo(e){if(e.type.startsWith("submenu_"))return true;if(e.type=="app_refresh")return true}getState(e){return{type:e.submenu.type,term:e.submenu.term,termfilter:e.termfilter}}main(){if(!this.state.term){this.dom.holder.style("display","none");return}if(this.state.type=="tvs")this.showTvsMenu(this.state.term);else throw`unsupported submenu.type='${this.state.type}'`}}const W=e(K);function H(e){e.showTvsMenu=function(t){e.dom.holder.selectAll("*").remove();e.dom.holder.style("display","block").append("div").style("margin","10px").append("span").html("&laquo; Back to variable selection").attr("class","sja_clbtext").on("click",(()=>e.app.dispatch({type:"submenu_set",submenu:{}})));e.dom.holder.style("display","block").append("div").style("margin","15px 0px 5px 10px").style("font-weight","bold").style("font-size",".9em").text(t.name);T({term:t,filter:e.state.termfilter.filter,holder:e.dom.holder.append("div"),vocabApi:e.app.vocabApi,debug:e.app.debug,getCategoriesArguments:e.app.opts.getCategoriesArguments,callback:e.app.opts.tree.click_term2select_tvs})}}class J{constructor(e){this.type="search";this.customEvents=["postSearch"];Z(this);Q(this);this.dom={holder:e.holder};this.isVisible="isVisible"in e?e.isVisible:true}async init(e){this.initUI(this.getState(e))}reactsTo(e){if(e.type=="set_term_type_group")return true;if(e.type=="app_refresh")return true;const t=e.type.split("_")[0];return["search","cohort","submenu"].includes(t)}getState(e){return{isVisible:!e.submenu.term&&this.isVisible,cohortStr:e.activeCohort==-1||!e.termdbConfig.selectCohort?"":e.termdbConfig.selectCohort.values[e.activeCohort].keys.slice().sort().join(","),allowedTermTypes:e.termdbConfig?.allowedTermTypes||[],expandedTermIds:e.tree.expandedTermIds,selectedTerms:e.selectedTerms,usecase:e.tree.usecase,search:e.search,isGeneSetTermdb:e.termdbConfig.isGeneSetTermdb,termTypeGroup:e.termTypeGroup}}isTermTypeSupported(){const e=this.state.termTypeGroup;if(e==t.DICTIONARY_VARIABLES)return true;if(e==t.METABOLITE_INTENSITY)return true;return false}async main(){if(!this.isTermTypeSupported()){this.dom.holder.style("display","none");return}this.dom.input.node().value="";this.dom.input.attr("placeholder","Search "+this.state.termTypeGroup);this.clear();this.dom.holder.style("display",this.state.isVisible?"block":"none")}async doSearch(e){if(!e||e.length<3){this.clear();this.bus.emit("postSearch",[]);return}const t=await this.app.vocabApi.findTerm(e,this.state.cohortStr,this.state.usecase,this.state.termTypeGroup);this.currData=t;if(!t.lst||t.lst.length==0){this.noResult()}else{this.showTerms(t)}this.bus.emit("postSearch",t)}}const X=e(J);function Z(e){e.initUI=t=>{e.dom.holder.style("display",e.search&&e.search.isVisible==false?"none":"block");const s=e.dom.holder.append("div").style("text-align","left");e.dom.input=s.append("input").attr("type","search").attr("class","tree_search").style("width","250px").style("margin","10px").style("display","inline-block").on("input",a.debounce(e.onInput,300)).on("keyup",e.onKeyup);e.dom.resultCntDiv=s.append("div").style("display","none");if(e.opts.focus!="off")e.dom.input.node().focus();e.dom.resultDiv=(e.opts.resultsHolder||e.dom.holder).append("div").attr("class","sjpp_show_scrollbar").style("max-height","35vh").style("display","none").style("grid-template-columns","auto auto");const i=e.dom.resultDiv.append("div");const r=e.dom.resultDiv.append("div");e.dom.resultDiv_genes=i.append("div").style("border-left","solid 1px rgb(133,182,225)").style("margin","0px 0px 10px 10px").style("padding-left","5px");e.dom.resultDiv_terms=r.append("div").style("border-left",e.opts.resultsHolder?"":"solid 1px rgb(133,182,225)").style("margin","0px 0px 10px 10px").style("padding-left","5px")};e.getPrompt=e=>{const t=e.allowedTermTypes.includes("geneVariant")&&v({type:"geneVariant"},e.usecase).has("plot");if(t)return" variables or genes";if(e.isGeneSetTermdb)return" gene sets";return" variables"};e.noResult=()=>{e.clear();e.dom.resultDiv.style("display","inline-grid");e.dom.resultDiv_terms.append("div").style("padding","3px 3px 3px 0px").style("opacity",.5).text("No match"+(e.app.vocabApi.termdbConfig?.queries?.snvindel?.allowSNPs?". Press ENTER to search SNP":""))};e.showTerms=t=>{if(e.opts.disable_terms){t.lst.forEach((t=>{if(t.disabled)e.opts.disable_terms.push(t)}))}e.clear();e.dom.resultDiv.style("display","inline-grid");const s=[],i=[];for(const e of t.lst){if(e.type=="geneVariant"){s.push(e)}else{i.push(e)}}if(s.length){e.dom.resultDiv_genes.append("table").selectAll().data(s).enter().append("tr").each(e.showTerm)}if(i.length){e.dom.resultDiv_terms.append("table").selectAll().data(i).enter().append("tr").each(e.showTerm)}if(t.lst.length>1)e.dom.resultCntDiv.style("display","inline-block").text(`${t.lst.length} results`);e.focusableResults=[...e.dom.resultDiv.node().querySelectorAll(".sja_tree_click_term, .sja_menuoption")]};e.showTerm=function(t){const i=s(this);const r=i.append("td").text(t.name);const a=v(t,e.state.usecase,e.app.vocabApi.termdbConfig);if((e.opts.click_term||e.app.opts?.tree?.click_term_wrapper)&&a.has("plot")){if(t&&e.opts.disable_terms?.find((e=>f(t,e)))){r.attr("class","sja_tree_click_term_disabled").style("display","block").style("padding","5px 8px").style("margin","1px 0px").style("opacity",.4)}else{r.attr("class","ts_pill sja_filter_tag_btn sja_tree_click_term").attr("tabindex",0).style("display","block").style("color","black").style("padding","5px 8px").style("border-radius","6px").style("background-color",t.type=="geneVariant"?"rgba(251,171,96,0.5)":"#cfe2f3").style("margin","1px 0px").style("cursor","default").on("click",(()=>{if(e.opts.click_term){e.opts.click_term(t)}else{e.app.opts.tree.click_term_wrapper(t)}e.clear();e.dom.input.property("value","")})).on("keyup",e.navInputValueByKeyboard)}if(t.samplecount!==undefined){i.append("td").append("div").style("font-size",".8em").style("display","inline-block").style("margin-left","5px").style("color",t.samplecount?"#777":"#ddd").text("n="+t.samplecount)}}else{r.attr("class","sja_menuoption").attr("tabindex",0).on("click",(()=>{e.clear();e.dom.input.property("value","");const s=[A];if(t.type=="geneVariant"&&e.opts.handleGeneVariant){e.opts.handleGeneVariant(t)}else if(y(t.type)){e.app.dispatch({type:"app_refresh",state:{selectedTerms:[...e.state.selectedTerms,t]}})}else{if(t.__ancestors){s.push(...t.__ancestors)}if(!e.app.vocabApi.graphable(t))s.push(t.id);e.app.dispatch({type:"app_refresh",state:{tree:{expandedTermIds:s}}})}})).on("keyup",e.navInputValueByKeyboard)}i.append("td").text(t.type=="geneVariant"?"gene variant":(t.__ancestorNames||[]).join(" > ")).style("opacity",.5).style("font-size",".7em")};e.clear=()=>{e.dom.resultDiv_genes.selectAll("*").remove();e.dom.resultDiv_terms.selectAll("*").remove();e.dom.resultDiv.style("display","none");e.dom.resultCntDiv.style("display","none")}}function Q(e){e.onKeyup=t=>{if(t.key=="ArrowDown"&&e.currData?.lst?.length){e.dom.resultDiv.select(".sja_tree_click_term, .sja_menuoption").node().focus();return}if(!o(t))return;e.onInput(t)};e.onInput=async t=>{const s=e.dom.input.property("value");try{await e.doSearch(s)}catch(t){e.clear();e.dom.resultDiv.style("display","inline-grid");l(e.dom.resultDiv_terms,"Error: "+(t.message||t));if(t.stack)console.log(t.stack)}};e.navInputValueByKeyboard=t=>{if(t.key=="Enter")t.target.click();else if(t.key.startsWith("Arrow")){const s=e.focusableResults.findIndex((e=>e===t.target));if(t.key=="ArrowDown"){if(s<e.focusableResults.length-1)e.focusableResults[s+1].focus();else e.focusableResults[0].focus()}else if(t.key=="ArrowUp"){if(s!=0)e.focusableResults[s-1].focus();else e.focusableResults[e.focusableResults.length-1].focus()}}}}class ee{constructor(e){this.type="app";if(!e.holder)s("body").append("div");const t=e.holder.append("div").style("display",e.tree?.submit_lst?"":"none").style("text-align","center").style("margin","10px 5px");const i=t.append("button").property("disabled",true).text(this.noSelectionPrompt).on("click",(()=>this.opts.tree?.submit_lst(this.state.selectedTerms)));const r=e.holder.append("div");const a=r.append("div").style("display","inline-block");const o=r.append("div").style("display","inline-block").style("vertical-align","top");this.dom={topbar:r,holder:e.holder,termTypeSearchDiv:a,searchDiv:o.append("div"),treeDiv:o.append("div"),customTermDiv:o.append("div").style("margin","10px"),submitDiv:t,submitBtn:i,filterDiv:r.append("div").style("display","none"),errdiv:e.holder.append("div"),tip:new p({padding:"5px"})}}validateOpts(e){if(e.vocabApi);else if(e.state&&e.state.vocab){if(typeof e.state.vocab!="object")throw"opts.state.vocab{} is not an object"}else if(e.state&&e.state.genome){const t=e.state;if(!t.vocab)t.vocab={};t.vocab.genome=t.genome;delete t.genome;if(t.dslabel){t.vocab.dslabel=t.dslabel;delete t.dslabel}}else{throw"neither state.vocab{} or opts.vocabApi provided"}if(e.tree){if(e.tree.disable_terms&&!e.tree.click_term&&!e.tree.click_term2select_tvs&&(!e.barchart||!e.barchart.bar_click_override)){throw`opts.tree.disable_terms is used only when opts.tree.click_term, opts.tree.click_term2select_tvs, or opts.barchart.bar_click_override is set`}if(!e.search)e.search={};if(e.tree.click_term2select_tvs){e.search.click_term=e=>this.api.dispatch({type:"submenu_set",submenu:{term:e,type:"tvs"}})}if(e.tree.click_term){e.tree.click_term_wrapper=async t=>{if(this.state.termdbConfig.termMatch2geneSet){const e=await d("termdb",{body:{genome:this.state.vocab.genome,dslabel:this.state.vocab.dslabel,genesetByTermId:t.id}});t._geneset=e}e.tree.click_term(t)}}if(e.tree.disable_terms)e.search.disable_terms=e.tree.disable_terms}return e}async preApiFreeze(e){try{if(this.opts.vocabApi){e.vocabApi=this.opts.vocabApi}else{const t={vocab:this.opts.state.vocab||{genome:this.opts.state.genome,dslabel:this.opts.state.dslabel}};e.vocabApi=await x({app:this.api,state:t,fetchOpts:this.opts.fetchOpts})}e.appInit=te}catch(e){console.log(e);throw e}}async init(){try{this.store=await Y({app:this.api,state:this.opts.state});this.state=await this.store.copyState();await this.setComponents();await this.api.dispatch()}catch(e){this.printError(e)}}async setComponents(){try{const e=this.state.nav?.header_mode;const t={search:X({app:this.api,holder:this.dom.searchDiv,isVisible:e!=="hide_search"}),termTypeSearch:z({app:this.api,holder:this.dom.termTypeSearchDiv,topbar:this.dom.topbar,genome:this.opts.vocabApi?.app?.opts?.genome,click_term:this.opts.tree?.click_term,submit_lst:this.opts.tree?.submit_lst,submitDiv:this.dom.submitDiv}),tree:P({app:this.api,holder:this.dom.treeDiv,headerDiv:this.dom.headerDiv,expandAll:e=="hide_search"})};if(this.opts.tree&&this.opts.tree.click_term2select_tvs){t.submenu=W({app:this.api,holder:this.dom.holder.append("div").style("display","none")})}this.components=await c(t)}catch(e){throw e}}async main(){this.api.vocabApi.main();const e=this.state.selectedTerms.length;this.dom.submitBtn.property("disabled",!e).text(!e?"Search or click term(s)":`Submit ${e} term${e>1?"s":""}`);await this.mayShowCustomTerms();this.dom.holder.selectAll("search, .termbtn, button").attr("tabindex",0);this.dom.holder.selectAll(".termbtn").on("keyup",(e=>{if(e.key=="Enter")e.target.click()}))}printError(e){l(this.dom.errdiv,"Error: "+(e.message||e));if(e.stack)console.log(e.stack)}async mayShowCustomTerms(){if(Object.keys(this.state.submenu).length)return this.dom.customTermDiv.style("display","none");const e=await this.api.vocabApi.getCustomTerms();if(!Array.isArray(e)||e.length==0)return this.dom.customTermDiv.style("display","none");const t=[];for(const s of e){const e=v(s.term,this.state.tree.usecase,this.state.termdbConfig);if(e.has("plot"))t.push(s)}if(t.length==0)return this.dom.customTermDiv.style("display","none");this.dom.customTermDiv.selectAll("*").remove();this.dom.customTermDiv.append("div").text("CUSTOM VARIABLES").style("font-size",".7em");for(const e of t){this.dom.customTermDiv.append("div").style("margin-bottom","3px").append("div").text(e.term.name).attr("class","sja_filter_tag_btn").style("padding","3px 6px").style("border-radius","6px").on("click",(()=>{if(!this.opts.tree)return;if(this.opts.tree.click_term){this.opts.tree.click_term(e);return}if(this.opts.tree.click_term2select_tvs){this.api.dispatch({type:"submenu_set",submenu:{term:e.term,type:"tvs"}});return}}))}}}const te=n(ee);export{te as appInit};

package/dist/app-649f8357.js

@@ -0,0 +1 @@
+import{h as t,d as e,M as s,o as r,n as o,y as i}from"./app-b369b169.js";import{r as a,s as n}from"./recover-49e09de0.js";import{v as p}from"./FilterRxComp-701a1480.js";import{n as c}from"./sampleScatter-2d0ed680.js";import{summaryInit as l}from"./summary-5ec455d3.js";import"./termsetting-33ea66f1.js";import"./tslib.es6-c3c2d88f.js";import"path";import"./FilterStateless-54c0b763.js";import"./app-3320ab6f.js";import"./termInfo-bf99a37e.js";import"./toggleButtons-dbdbad01.js";import"./table-29d5a973.js";import"./genesearch-a4e19f0d.js";import"./checkbox-96437f4d.js";import"./rehydrateFilter-12d118cb.js";import"./partjson.esm-b3f1fc21.js";import"./termdb.bins-8b656cc3.js";import"./controls-287e6efa.js";import"./controls.btns-79b805dd.js";import"./controls.config-28d6d6a8.js";import"./zoom-25dce8b9.js";import"./pointer-c7475677.js";import"./nodrag-16ad4b03.js";import"./lasso-f767f634.js";import"./drag-7b30ba17.js";import"./downloadTextfile-5723af95.js";import"./sampleView-484ab133.js";import"./select2Terms-b21e184a.js";import"./svg.download-35926549.js";import"./sampleScatter.rendererThree-0b12ac61.js";import"./axis-747c801e.js";import"./line-264f8f9e.js";import"./constant-426a1483.js";import"./violin-2ba509eb.js";import"./violin.renderer-ce024265.js";import"./brush-aa175142.js";import"./basis-3870f5ba.js";import"./log-99af3443.js";import"./html.legend-a3f4ebfe.js";import"./violin.interactivity-4da6d7a9.js";import"./niceNumLabels-238aabce.js";import"./barchart-8277ed43.js";import"./bars.settings-64bb4642.js";import"./bars.renderer-dcfdd59b.js";import"./svg.legend-8d490df2.js";import"./barchart.events-da29c90d.js";function d(t){switch(t){case"../plots/DEanalysis.js":return import("./DEanalysis-95bad59a.js");case"../plots/Disco.js":return import("./Disco-a6e921a0.js");case"../plots/DziViewer.js":return import("./DziViewer-354a790d.js");case"../plots/WSIViewer.js":return import("./WSIViewer-dc7f8eb0.js");case"../plots/barchart.data.js":return import("./FilterRxComp-701a1480.js").then((function(t){return t.j}));case"../plots/barchart.events.js":return import("./barchart.events-da29c90d.js");case"../plots/barchart.js":return import("./barchart-8277ed43.js");case"../plots/bars.renderer.js":return import("./bars.renderer-dcfdd59b.js");case"../plots/bars.settings.js":return import("./bars.settings-64bb4642.js");case"../plots/boxplot.js":return import("./boxplot-e17a17b7.js");case"../plots/brainImaging.js":return import("./brainImaging-bf2ceee9.js");case"../plots/controls.btns.js":return import("./controls.btns-79b805dd.js");case"../plots/controls.config.js":return import("./controls.config-28d6d6a8.js");case"../plots/controls.js":return import("./controls-287e6efa.js");case"../plots/cuminc.js":return import("./cuminc-9e275854.js");case"../plots/dataDownload.js":return import("./dataDownload-3a3d4f33.js");case"../plots/dictionary.js":return import("./dictionary-c5a19d90.js");case"../plots/facet.js":return import("./facet-a9b44ef3.js");case"../plots/geneExpression.js":return import("./geneExpression-589f485b.js");case"../plots/geneORA.js":return import("./geneORA-903a780f.js");case"../plots/geneset.js":return import("./geneset-108a39d2.js");case"../plots/genomeBrowser.controls.js":return import("./genomeBrowser.controls-d5067811.js");case"../plots/genomeBrowser.js":return import("./genomeBrowser-12f86a36.js");case"../plots/gsea.js":return import("./gsea-543dab25.js");case"../plots/hierCluster.config.js":return import("./hierCluster.config-98e82dff.js");case"../plots/hierCluster.interactivity.js":return import("./hierCluster.interactivity-e56f6542.js").then((function(t){return t.i}));case"../plots/hierCluster.js":return import("./hierCluster-26e14090.js");case"../plots/hierCluster.renderers.js":return import("./hierCluster.renderers-74a64cf5.js").then((function(t){return t.r}));case"../plots/imagePlot.js":return import("./imagePlot-b9eae4ae.js");case"../plots/matrix.cells.js":return import("./matrix.cells-914dd0c6.js");case"../plots/matrix.cluster.js":return import("./matrix.cluster-783ceab0.js");case"../plots/matrix.config.js":return import("./matrix.config-6ce74dfe.js");case"../plots/matrix.controls.js":return import("./matrix.controls-7b2a6f95.js");case"../plots/matrix.data.js":return import("./matrix.data-dac4f1b7.js").then((function(t){return t.m}));case"../plots/matrix.dom.js":return import("./matrix.dom-4e10bbe9.js");case"../plots/matrix.groups.js":return import("./matrix.groups-b9fca14a.js").then((function(t){return t.m}));case"../plots/matrix.interactivity.js":return import("./matrix.interactivity-84169b43.js");case"../plots/matrix.js":return import("./matrix-00bb50ff.js");case"../plots/matrix.layout.js":return import("./matrix.layout-dd5a44fd.js").then((function(t){return t.m}));case"../plots/matrix.legend.js":return import("./matrix.legend-ac6d45e6.js").then((function(t){return t.m}));case"../plots/matrix.renderers.js":return import("./matrix.renderers-78010275.js");case"../plots/matrix.serieses.js":return import("./matrix.serieses-9b4fd744.js").then((function(t){return t.m}));case"../plots/matrix.sort.js":return import("./matrix.sort-014d798d.js");case"../plots/matrix.sorterUi.js":return import("./matrix.sorterUi-9bf7e6f9.js");case"../plots/plot.app.js":return import("./plot.app-30c4b8e5.js");case"../plots/plot.brainImaging.js":return import("./plot.brainImaging-2ceb6023.js");case"../plots/plot.disco.js":return import("./plot.disco-6011f87f.js");case"../plots/plot.ssgq.js":return import("./plot.ssgq-5581dc56.js");case"../plots/profileBarchart.js":return import("./profileBarchart-0476f1f8.js");case"../plots/profilePlot.js":return import("./profilePlot-c7e099e8.js");case"../plots/profilePolar.js":return import("./profilePolar-6b981e63.js");case"../plots/profileRadar.js":return import("./profileRadar-bca1cc03.js");case"../plots/profileRadarFacility.js":return import("./profileRadarFacility-bbb1ecd8.js");case"../plots/profileSummary.js":return import("./profileSummary-b114204f.js");case"../plots/regression.inputs.js":return import("./regression.inputs-a761f40d.js").then((function(t){return t.b}));case"../plots/regression.inputs.term.js":return import("./regression.inputs-a761f40d.js").then((function(t){return t.a}));case"../plots/regression.inputs.values.table.js":return import("./regression.inputs.values.table-5929d25a.js");case"../plots/regression.js":return import("./regression.inputs-a761f40d.js").then((function(t){return t.r}));case"../plots/regression.results.js":return import("./regression.results-69bc42d0.js").then((function(t){return t.r}));case"../plots/sampleScatter.interactivity.js":return import("./sampleScatter-2d0ed680.js").then((function(t){return t.a}));case"../plots/sampleScatter.js":return import("./sampleScatter-2d0ed680.js").then((function(t){return t.b}));case"../plots/sampleScatter.renderer.js":return import("./sampleScatter-2d0ed680.js").then((function(t){return t.s}));case"../plots/sampleScatter.rendererThree.js":return import("./sampleScatter.rendererThree-0b12ac61.js").then((function(t){return t.c}));case"../plots/sampleView.js":return import("./sampleView-484ab133.js");case"../plots/scatter.js":return import("./scatter-205e013f.js");case"../plots/singleCellPlot.js":return import("./singleCellPlot-73b2738f.js");case"../plots/stattable.js":return import("./stattable-7c5ecc2f.js");case"../plots/summary.js":return import("./summary-5ec455d3.js");case"../plots/survival.js":return import("./survival-92250664.js");case"../plots/table.js":return import("./table-ad744310.js");case"../plots/variantBrowser.js":return import("./variantBrowser-7c540224.js");case"../plots/violin.interactivity.js":return import("./violin.interactivity-4da6d7a9.js");case"../plots/violin.js":return import("./violin-2ba509eb.js");case"../plots/violin.renderer.js":return import("./violin.renderer-ce024265.js");default:return new Promise((function(e,s){(typeof queueMicrotask==="function"?queueMicrotask:setTimeout)(s.bind(null,new Error("Unknown variable dynamic import: "+t)))}))}}class m{constructor(t){this.type="plot";u(this);this.initUi(t)}reactsTo(t){if(t.type.includes("cache_termq"))return true;if(t.type.endsWith("_group"))return true;if(t.type.startsWith("plot_"))return t.id===this.id;if(t.type.startsWith("filter"))return true;if(t.type.startsWith("cohort"))return true;if(t.type=="app_refresh")return true;if(t.type.endsWith("customTerm"))return true}getState(t){const e=t.plots.find((t=>t.id===this.id));if(!e){throw`No plot with id='${this.id}' found. Did you set this.id before this.api = getComponentApi(this)?`}return{config:e,groups:t.groups,_scope_:t._scope_}}async main(){this.dom.errdiv.style("display","none");if(!this.components)await this.setComponents(this.opts)}async setComponents(t){this.components={recover:await a({app:this.app,holder:this.dom.localRecoverDiv,getState:t=>this.getState(t),reactsTo:t=>t.id==this.id&&(t.type=="plot_edit"||t.type=="plot_nestedEdits")&&t._track_!="none",plot_id:this.id,maxHistoryLen:10})};const s=await d(`../plots/${t.chartType}.js`);this.components.chart=await s.componentInit({app:this.app,holder:this.dom.viz,header:this.dom.paneTitleDiv,id:this.id,plotDiv:e(this.dom.holder.app_div.node().parentNode)})}destroy(){this.dom.holder.app_div.selectAll("*").remove();this.dom.holder.app_div.remove();for(const t in this.dom){delete this.dom[t]}}}const j=t(m);function u(t){t.initUi=function(e){const r=e.holder;r.header.style("padding",0);try{t.dom={tip:new s({padding:"0px"}),holder:r,paneTitleDiv:r.header.append("div").style("display","inline-block").style("color","#555").style("padding-left","7px").style("vertical-align","sub"),localRecoverDiv:r.header.append("div").style("display","inline-block"),body:r.body.style("white-space","nowrap").style("overflow-x","auto"),errdiv:r.body.append("div").style("display","none").style("padding","5px").style("background-color","rgba(255,100,100,0.2)"),viz:r.body.append("div")}}catch(e){t.dom.errdiv.style("display","none").text(e)}}}class h{constructor(t){if(t.addLoginCallback){t.addLoginCallback((()=>this.api.dispatch({type:"app_refresh"})))}this.type="app";this.dom={holder:t.holder,topbar:t.holder.append("div"),errdiv:t.holder.append("div"),plotDiv:t.holder.append("div")};this.plotIdToSandboxId={}}validateOpts(t={}){if(!t.holder)throw`missing opts.holder in the MassApp constructor argument`;if(!t.callbacks)t.callbacks={};if(!t.state.vocab)t.state.vocab={};if(typeof t.state.vocab!="object")throw"opts.state.vocab{} is not an object";if(t.state.genome){t.state.vocab.genome=t.state.genome;delete t.state.genome}if(t.state.dslabel){t.state.vocab.dslabel=t.state.dslabel;delete t.state.dslabel}return t}async preApiFreeze(t){try{t.tip=new s({padding:"5px"});t.tip.d.on("keyup",(e=>{if(e.key=="Escape")t.tip.hide()}));t.printError=t=>this.printError(t);const e=this.opts.state.vocab;t.vocabApi=await p({app:t,state:{vocab:this.opts.state.vocab},fetchOpts:this.opts.fetchOpts,getDatasetAccessToken:this.opts.getDatasetAccessToken});t.hasWebGL=function(){try{var t=document.createElement("canvas");return!!(window.WebGLRenderingContext&&(t.getContext("webgl")||t.getContext("experimental-webgl")))}catch(t){return false}};this.opts.state.vocab=t.vocabApi.vocab}catch(t){throw t}}async init(){try{const t="debounceInterval"in this.opts?this.opts.debounceInterval:0;if(this.opts.embeddedSessionState){Object.assign(this.opts.state,this.opts.embeddedSessionState)}this.store=await n({app:this.api,state:this.opts.state,debounceInterval:t});this.state=await this.store.copyState();this.components={};if(this.state.nav.header_mode!="hidden"){this.components.nav=await c({app:this.api,holder:this.dom.topbar,header_mode:this.state&&this.state.nav&&this.state.nav.header_mode,vocab:this.state.vocab,massSessionDuration:this.state.termdbConfig.massSessionDuration})}this.components.plots={};await this.api.dispatch()}catch(t){this.printError(t);throw t}}async main(){await this.api.vocabApi.main();const t={};let e;for(const s of this.state.plots){if(this.components.plots&&!(s.id in this.components.plots)){e=o(this.dom.plotDiv,{close:()=>{this.api.dispatch({type:"plot_delete",id:s.id})},plotId:s.id,beforePlotId:s.insertBefore||null,style:{width:"98.5%"}});if(s.chartType=="summary")t[s.id]=l(Object.assign({app:this.api,holder:e},s));else t[s.id]=j(Object.assign({app:this.api,holder:e},s))}}const s=Object.keys(t).length;if(s){await Promise.all(Object.values(t));for(const e in t){this.components.plots[e]=await t[e]}}for(const t in this.components.plots){if(!this.state.plots.find((e=>e.id===t))){this.components.plots[t].destroy();delete this.components.plots[t]}}}printError(t){i(this.dom.errdiv||this.opts.holder,"Error: "+(t.message||t));if(t.stack)console.log(t.stack);this.bus.emit("error")}}const b=r(h);export{b as appInit};