@sjcrh/proteinpaint-client 2.63.0 → 2.63.2

package/dist/{termInfo-96285f4a.js → termInfo-4c759483.js}

@@ -1 +1 @@
-import{aB as t,aS as e}from"./app-f91922b4.js";const i={isVisible:false,term:null};class s{constructor(t){this.vocabApi=t.vocabApi||t.app&&t.app.vocabApi;this.state=Object.assign({},i,t.state?t.state:{});this.api=this;l(this);n(this);this.initUI(t)}async main(t={}){e(this.state,t);this.dom.content_holder.style("display",this.state.isVisible?"block":"none");this.dom.icon_holder.style("background-color",this.state.isVisible?"darkgray":"transparent").style("color",this.state.isVisible?"white":"#797a7a");if(!this.state.isVisible)return;const i=await this.vocabApi.getTermInfo(this.state.term.id);this.render(i)}}const o=t(s);function n(t){t.initUI=function(e){t.dom={content_holder:e.content_holder.style("margin-left","25px").attr("class","term_info_div").style("display",t.state.isVisible?"block":"none").style("white-space","normal").style("padding-bottom","20px"),details:e.content_holder.append("div"),tbody:e.content_holder.append("table").append("tbody"),icon_holder:e.icon_holder.style("margin","1px 0px 1px 5px").style("padding","2px 5px").style("font-family","Times New Roman").style("font-size","14px").style("font-weight","bold").style("cursor","pointer").style("background-color","transparent").style("color","#797a7a").style("align-items","center").style("justify-content","center").style("border","none").style("border-radius","3px").attr("title","Term Information").html("&#9432;").on("mouseenter",(()=>{if(t.state.isVisible==true)return;t.dom.icon_holder.style("color","blue")})).on("mouseleave",(()=>{if(t.state.isVisible==true)return;t.dom.icon_holder.style("color","#797a7a")})).on("click",t.toggleDescription)}};t.render=function(e){t.dom.tbody.selectAll("*").remove();if(e.terminfo.src){for(let i of e.terminfo.src){const e=t.dom.tbody.append("tr").append("td").style("padding","5px 0");e.append("div").style("font-weight","bold").text("Source");e.append("div").style("margin-left","20px").text(i.pub);e.append("div").style("margin-left","20px").html(i.title+":&nbsp;<i>"+i.section+"</i>")}}if(e.terminfo.rubric){const i=t.dom.tbody.append("tr").append("td").style("padding","5px 0").append("div").style("font-weight","bold").text("Grading Rubric").append("ol").style("margin","0px");for(let t of e.terminfo.rubric){i.append("li").style("font-weight","normal").text(t)}}t.dom.details.selectAll("*").remove();if(e.terminfo.description){t.dom.details.append("div").style("padding-top","20px").style("padding-bottom","10px").style("font-weight","bold").text("Description");for(const i of e.terminfo.description){t.renderDetail(i,t.dom.details.append("div").style("padding-bottom","3px"))}}};t.renderDetail=function(e,i){if(Array.isArray(e.value)){i.append("span").html("<i>"+e.label+"</i>");const s=i.append("div").style("padding-left","20px");for(const i of e.value){i.label="- "+i.label;t.renderDetail(i,s.append("div"))}}else{i.html("<i>"+e.label+":"+"</i>"+"&nbsp;"+e.value)}}}function l(t){t.toggleDescription=function(){t.state.isVisible=!t.state.isVisible;t.main({isVisible:t.state.isVisible})}}export{o as termInfoInit};
+import{aB as t,aS as e}from"./app-71453429.js";const i={isVisible:false,term:null};class s{constructor(t){this.vocabApi=t.vocabApi||t.app&&t.app.vocabApi;this.state=Object.assign({},i,t.state?t.state:{});this.api=this;l(this);n(this);this.initUI(t)}async main(t={}){e(this.state,t);this.dom.content_holder.style("display",this.state.isVisible?"block":"none");this.dom.icon_holder.style("background-color",this.state.isVisible?"darkgray":"transparent").style("color",this.state.isVisible?"white":"#797a7a");if(!this.state.isVisible)return;const i=await this.vocabApi.getTermInfo(this.state.term.id);this.render(i)}}const o=t(s);function n(t){t.initUI=function(e){t.dom={content_holder:e.content_holder.style("margin-left","25px").attr("class","term_info_div").style("display",t.state.isVisible?"block":"none").style("white-space","normal").style("padding-bottom","20px"),details:e.content_holder.append("div"),tbody:e.content_holder.append("table").append("tbody"),icon_holder:e.icon_holder.style("margin","1px 0px 1px 5px").style("padding","2px 5px").style("font-family","Times New Roman").style("font-size","14px").style("font-weight","bold").style("cursor","pointer").style("background-color","transparent").style("color","#797a7a").style("align-items","center").style("justify-content","center").style("border","none").style("border-radius","3px").attr("title","Term Information").html("&#9432;").on("mouseenter",(()=>{if(t.state.isVisible==true)return;t.dom.icon_holder.style("color","blue")})).on("mouseleave",(()=>{if(t.state.isVisible==true)return;t.dom.icon_holder.style("color","#797a7a")})).on("click",t.toggleDescription)}};t.render=function(e){t.dom.tbody.selectAll("*").remove();if(e.terminfo.src){for(let i of e.terminfo.src){const e=t.dom.tbody.append("tr").append("td").style("padding","5px 0");e.append("div").style("font-weight","bold").text("Source");e.append("div").style("margin-left","20px").text(i.pub);e.append("div").style("margin-left","20px").html(i.title+":&nbsp;<i>"+i.section+"</i>")}}if(e.terminfo.rubric){const i=t.dom.tbody.append("tr").append("td").style("padding","5px 0").append("div").style("font-weight","bold").text("Grading Rubric").append("ol").style("margin","0px");for(let t of e.terminfo.rubric){i.append("li").style("font-weight","normal").text(t)}}t.dom.details.selectAll("*").remove();if(e.terminfo.description){t.dom.details.append("div").style("padding-top","20px").style("padding-bottom","10px").style("font-weight","bold").text("Description");for(const i of e.terminfo.description){t.renderDetail(i,t.dom.details.append("div").style("padding-bottom","3px"))}}};t.renderDetail=function(e,i){if(Array.isArray(e.value)){i.append("span").html("<i>"+e.label+"</i>");const s=i.append("div").style("padding-left","20px");for(const i of e.value){i.label="- "+i.label;t.renderDetail(i,s.append("div"))}}else{i.html("<i>"+e.label+":"+"</i>"+"&nbsp;"+e.value)}}}function l(t){t.toggleDescription=function(){t.state.isVisible=!t.state.isVisible;t.main({isVisible:t.state.isVisible})}}export{o as termInfoInit};

package/dist/{termsetting-9a7511e6.js → termsetting-636d2271.js}

@@ -1 +1 @@
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continue");c++}}if(i){this.debug("\n>>> no match, partial?",t,c,e,p);if(c===o)return true}return false}var h;if(typeof l==="string"){h=d===l;this.debug("string match",l,d,h)}else{h=d.match(l);this.debug("pattern match",l,d,h)}if(!h)return false}if(r===o&&s===a){return true}else if(r===o){return i}else if(s===a){return r===o-1&&t[r]===""}throw new Error("wtf?")};function tt(t){return t.replace(/\\(.)/g,"$1")}function et(t){return t.replace(/[-[\]{}()*+?.,\\^$|#\s]/g,"\\$&")}function it(t){switch(t){case"./handlers/categorical.ts":return import("./categorical-bc309399.js");case"./handlers/condition.ts":return import("./condition-f0eb2343.js");case"./handlers/density.ts":return import("./density-7c3f91eb.js");case"./handlers/geneExpression.ts":return import("./geneExpression-be9b5da2.js");case"./handlers/geneVariant.ts":return import("./geneVariant-3d674865.js");case"./handlers/groupsetting.ts":return import("./groupsetting-4901d033.js");case"./handlers/metaboliteIntensity.ts":return import("./metaboliteIntensity-512257f3.js");case"./handlers/numeric.binary.ts":return import("./numeric.binary-0a3b17d2.js");case"./handlers/numeric.continuous.ts":return import("./numeric.continuous-f77038de.js");case"./handlers/numeric.discrete.ts":return import("./numeric.discrete-b977e88f.js");case"./handlers/numeric.spline.ts":return import("./numeric.spline-d64b1abe.js");case"./handlers/numeric.toggle.ts":return import("./numeric.toggle-5316211b.js");case"./handlers/numeric.ts":return import("./numeric-2eb8c25b.js");case"./handlers/samplelst.ts":return import("./samplelst-821ec148.js");case"./handlers/snplocus.ts":return import("./snplocus-fe6f4ba1.js");case"./handlers/snplst.sampleSum.ts":return import("./snplst.sampleSum-e47d05f0.js");case"./handlers/snplst.ts":return import("./snplst-751cea95.js");case"./handlers/survival.ts":return import("./survival-6a4c4f12.js");default:return new Promise((function(e,i){(typeof queueMicrotask==="function"?queueMicrotask:setTimeout)(i.bind(null,new Error("Unknown variable dynamic import: "+t)))}))}}function nt(t){switch(t){case"./handlers/categorical.ts":return import("./categorical-bc309399.js");case"./handlers/condition.ts":return import("./condition-f0eb2343.js");case"./handlers/density.ts":return import("./density-7c3f91eb.js");case"./handlers/geneExpression.ts":return import("./geneExpression-be9b5da2.js");case"./handlers/geneVariant.ts":return import("./geneVariant-3d674865.js");case"./handlers/groupsetting.ts":return import("./groupsetting-4901d033.js");case"./handlers/metaboliteIntensity.ts":return import("./metaboliteIntensity-512257f3.js");case"./handlers/numeric.binary.ts":return import("./numeric.binary-0a3b17d2.js");case"./handlers/numeric.continuous.ts":return import("./numeric.continuous-f77038de.js");case"./handlers/numeric.discrete.ts":return import("./numeric.discrete-b977e88f.js");case"./handlers/numeric.spline.ts":return import("./numeric.spline-d64b1abe.js");case"./handlers/numeric.toggle.ts":return import("./numeric.toggle-5316211b.js");case"./handlers/numeric.ts":return import("./numeric-2eb8c25b.js");case"./handlers/samplelst.ts":return import("./samplelst-821ec148.js");case"./handlers/snplocus.ts":return import("./snplocus-fe6f4ba1.js");case"./handlers/snplst.sampleSum.ts":return import("./snplst.sampleSum-e47d05f0.js");case"./handlers/snplst.ts":return import("./snplst-751cea95.js");case"./handlers/survival.ts":return import("./survival-6a4c4f12.js");default:return new Promise((function(e,i){(typeof queueMicrotask==="function"?queueMicrotask:setTimeout)(i.bind(null,new Error("Unknown variable dynamic import: "+t)))}))}}const rt=`_ts_${(+new Date).toString().slice(-8)}`;let st=0;function ot(e){return t(this,void 0,void 0,(function*(){if(!e)return`${st++}${rt}`;delete e.$id;return yield lt(JSON.stringify(e))}))}const at=new TextEncoder;function lt(e){return t(this,void 0,void 0,(function*(){const t=at.encode(e);const i=yield crypto.subtle.digest("SHA-1",t);const n=Array.from(new Uint8Array(i));const r=n.map((t=>t.toString(16).padStart(2,"0"))).join("");return dt(r).replace("=","-")}))}function dt(t){return btoa([...t].reduce(((e,i,n)=>e+=!(n-1&1)?String.fromCharCode(parseInt(t.substring(n-1,n+1),16)):""),""))}const ct={menuOptions:"edit",menuLayout:"vertical"};class pt{constructor(t){this.opts=this.validateOpts(t);this.vocabApi=t.vocabApi;this.activeCohort=t.activeCohort;this.placeholder=t.placeholder;this.durations={exit:0};this.disable_terms=t.disable_terms;this.usecase=t.usecase;this.abbrCutoff=t.abbrCutoff;this.numqByTermIdModeType={};this.dom={holder:t.holder,tip:t.tip||new i({padding:"0px",parent_menu:this.opts.holder&&this.opts.holder.node()&&this.opts.holder.node().closest(".sja_menu_div")})};this.dom.tip2=new i({padding:"0px",parent_menu:this.dom.tip.d.node()});ft(this);ht(this);this.initUI();const e=vt(this);this.handlerByType={default:e};this.handler=e;this.hasError=false;this.api={main:this.main.bind(this),runCallback:this.runCallback.bind(this),showTree:this.showTree,showMenu:this.showMenu.bind(this),showGeneSearch:this.showGeneSearch,hasError:()=>this.hasError,validateQ:t=>{if(!this.handler||!this.handler.validateQ)return;try{this.handler.validateQ(t)}catch(t){this.hasError=true;throw t}}}}runCallback(t=null){var e,i;const s=this.term?{term:this.term,q:this.q,isAtomic:true}:{};if("$id"in this)s.$id=this.$id;if(((e=s.q)===null||e===void 0?void 0:e.reuseId)&&s.q.reuseId===((i=this.data.q)===null||i===void 0?void 0:i.reuseId)){if(!n(s.q,this.data.q)){delete s.q.reuseId;delete s.q.name}}const o=t?JSON.parse(JSON.stringify(t)):{};if(this.opts.callback)this.opts.callback(t?r(JSON.stringify(s),o):s)}validateOpts(t){const e=Object.assign({},ct,t);if(!e.holder&&e.renderAs!="none")throw".holder missing";if(typeof e.callback!="function")throw".callback() is not a function";if(!e.vocabApi)throw".vocabApi missing";if(typeof e.vocabApi!="object");if("placeholder"in e&&!e.placeholder&&"placeholderIcon"in e&&!e.placeholderIcon)throw"must specify a non-empty opts.placeholder and/or .placeholderIcon";if(!("placeholder"in e))e.placeholder="Select term&nbsp;";if(!("placeholderIcon"in e))e.placeholderIcon="+";if(!Number.isInteger(e.abbrCutoff))e.abbrCutoff=18;this.validateMenuOptions(e);if(!e.numericEditMenuVersion)e.numericEditMenuVersion=["discrete"];this.mayValidate_noTermPromptOptions(e);return e}main(e={}){return t(this,void 0,void 0,(function*(){try{if(this.doNotHideTipInMain){delete this.doNotHideTipInMain}else{this.dom.tip.hide()}this.hasError=false;delete this.error;this.validateMainData(e);this.data=e;this.term=e.term;this.q=JSON.parse(JSON.stringify(e.q));if("$id"in e)this.$id=e.$id;if("disable_terms"in e)this.disable_terms=e.disable_terms;if("filter"in e)this.filter=e.filter;if("activeCohort"in e)this.activeCohort=e.activeCohort;if("sampleCounts"in e)this.sampleCounts=e.sampleCounts;if("menuOptions"in e)this.opts.menuOptions=e.menuOptions;yield this.setHandler(this.term?this.term.type:null);if(e.term&&this.handler&&this.handler.validateQ)this.handler.validateQ(e);if(this.handler.postMain)yield this.handler.postMain();if(this.opts.renderAs!="none")this.updateUI()}catch(t){this.hasError=true;throw t}}))}validateMainData(t){if(t.term){if(!t.term.type)throw"data.term.type missing";if(a(t.term.type)){if(!t.term.id&&t.term.type!=l.SAMPLELST)throw"data.term.id missing";if(!t.term.name)throw"data.term.name missing"}}if(!t.q)t.q={};if(typeof t.q!="object")throw"data.q{} is not object";if(t.disable_terms){if(!Array.isArray(t.disable_terms))throw"data.disable_terms[] is not array"}this.mayValidate_noTermPromptOptions(t)}validateMenuOptions(t){if(!t.menuOptions)t.menuOptions=ct.menuOptions;if(t.menuOptions=="all")t.menuOptions="*";for(const e of["edit","replace","remove"]){if(M(e,t.menuOptions))return}throw`no matches found for termsetting opts.menuOptions='${t.menuOptions}'`}mayValidate_noTermPromptOptions(t){if(!t.noTermPromptOptions)return;if(!Array.isArray(t.noTermPromptOptions))throw"noTermPromptOptions[] is not array";for(const e of t.noTermPromptOptions){if(e.isDictionary);else{if(!e.termtype)throw"element of noTermPromptOptions[] missing both isDictionary=true and .termtype"}if(!e.text&&!e.html)throw"element of noTermPromptOptions[] missing both .text and .html";if(e.q&&typeof e.q!="object")throw"type.q{} is not object"}this.noTermPromptOptions=t.noTermPromptOptions}setHandler(e){return t(this,void 0,void 0,(function*(){if(!e){this.handler=this.handlerByType.default;return}const t=e=="integer"||e=="float"?"numeric":e;if(!this.handlerByType[t]){try{const e=yield nt(`./handlers/${t}.ts`);this.handlerByType[t]=yield e.getHandler(this)}catch(e){throw`error with handler='./handlers/${t}.ts': ${e}`}}this.handler=this.handlerByType[t]}))}}const ut=e(pt);function ht(e){e.initUI=()=>{if(e.opts.$id){e.dom.tip.d.attr("id",e.opts.$id+"-ts-tip")}if(!e.dom.holder)return;e.dom.nopilldiv=e.dom.holder.append("div").style("cursor","pointer").on("click",e.clickNoPillDiv).on(`keyup.sjpp-termdb`,(t=>{if(t.key=="Enter")e.showTree(t)}));e.dom.pilldiv=e.dom.holder.append("div");if(e.opts.placeholder){e.dom.nopilldiv.append("div").html(e.placeholder).attr("class","sja_clbtext2").style("padding","3px 6px 3px 6px").style("display","inline-block")}if(e.opts.placeholderIcon){e.dom.nopilldiv.append("div").attr("class","sja_filter_tag_btn add_term_btn").style("padding","3px 6px 3px 6px").style("display","inline-block").style("border-radius","6px").style("background-color","#4888BF").text(e.opts.placeholderIcon)}e.dom.btnDiv=e.dom.holder.append("div")};e.updateUI=()=>t(this,void 0,void 0,(function*(){if(!e.term){e.dom.nopilldiv.style("display","block");e.dom.pilldiv.style("display","none");e.dom.btnDiv.style("display","none");return}if(e.term.hashtmldetail){if(e.opts.buttons&&!e.opts.buttons.includes("info"))e.opts.buttons.unshift("info");else e.opts.buttons=["info"]}if(e.opts.buttons){e.dom.btnDiv.selectAll("div").data(e.opts.buttons).enter().append("div").style("display","inline-block").style("padding","0px 5px").style("cursor","pointer").style("color","#999").style("font-size",".8em").html((t=>t.toUpperCase())).on("click",((t,i)=>{if(i=="delete")e.removeTerm();else if(i=="replace"){e.showTree(t.target)}else throw"unknown button"}));if(e.term.hashtmldetail){const t=e.dom.btnDiv.selectAll("div").filter((function(){return s(this).text()==="INFO"}));const i=s(e.dom.holder.node().parentNode).append("div");const n=yield import("./termInfo-96285f4a.js");n.termInfoInit({vocabApi:e.opts.vocabApi,icon_holder:t,content_holder:i,id:e.term.id,state:{term:e.term}})}}e.dom.nopilldiv.style("display","none");e.dom.pilldiv.style("display",e.opts.buttons?"inline-block":"block");e.dom.btnDiv.style("display",e.opts.buttons?"inline-block":"none");const t=e.dom.pilldiv.selectAll(".ts_pill").data([e.term],(t=>t.id));t.exit().each(e.exitPill);t.transition().duration(200).each(e.updatePill);t.enter().append("div").attr("class","ts_pill").style("display","grid").style("grid-template-columns","auto").style("grid-template-areas",'"left right"').style("cursor","pointer").style("margin","2px").on("click",e.showMenu).transition().duration(200).each(e.enterPill)}));e.enterPill=function(){return t(this,void 0,void 0,(function*(){const t=s(this);e.dom.pill_termname=t.append("div").attr("class","term_name_btn  sja_filter_tag_btn").attr("tabindex",0).style("display","flex").style("grid-area","left").style("position","relative").style("align-items","center").style("padding","3px 6px 3px 6px").style("border-radius","6px").html(e.handler.getPillName).on(`keyup.sjpp-termdb`,(t=>{if(t.key=="Enter")t.target.click()}));e.updatePill.call(this)}))};e.updatePill=function(){return t(this,void 0,void 0,(function*(){const t=s(this);const i=e.handler.getPillStatus()||{};e.dom.pill_termname.style("border-radius",i.text?"6px 0 0 6px":"6px").html(e.handler.getPillName);const n=t.selectAll(".ts_summary_btn").data(i.text?[{txt:i.text}]:[],(t=>t.txt));n.exit().remove();const r=n.enter().append("div").attr("class","ts_summary_btn sja_filter_tag_btn").style("display","flex").style("grid-area","right").style("position","relative").style("align-items","center").style("padding","3px 6px 3px 6px").style("border-radius","0 6px 6px 0").style("font-style","italic").html((t=>t.txt)).style("opacity",0).transition().duration(200).style("opacity",1);if(i.bgcolor){r.transition().duration(200).style("background-color",i.bgcolor)}}))};e.exitPill=function(){s(this).style("opacity",1).transition().duration(e.durations.exit).style("opacity",0).remove()}}function ft(e){e.removeTerm=()=>{e.opts.callback(null)};e.cancelGroupsetting=()=>{e.opts.callback({id:e.term.id,term:e.term,q:{mode:"discrete",type:"values",isAtomic:true,groupsetting:{inuse:false}}})};e.clickNoPillDiv=()=>t(this,void 0,void 0,(function*(){if(!e.noTermPromptOptions||e.noTermPromptOptions.length==0){yield e.showTree(e.dom.nopilldiv.node());return}e.dom.tip.clear().showunder(e.dom.nopilldiv.node());for(const i of e.noTermPromptOptions){const n=e.dom.tip.d.append("div").attr("class","sja_menuoption sja_sharp_border").on("click",(()=>t(this,void 0,void 0,(function*(){e.dom.tip.clear();if(i.isDictionary){yield e.showTree(e.dom.tip.d.node())}else if(i.termtype){if(i.q)e.q=structuredClone(i.q);yield e.setHandler(i.termtype);e.handler.showEditMenu(e.dom.tip.d)}else{throw"termtype missing"}}))));if(i.text)n.text(i.text);else if(i.html)n.html(i.html)}}));e.showTree=function(i,n){return t(this,void 0,void 0,(function*(){e.dom.tip.clear();if(i)e.dom.tip.showunder(i instanceof Element?i:this instanceof Element?this:e.dom.holder.node());else e.dom.tip.show(n.clientX,n.clientY);if(!e.usecase)e.usecase={target:"default"};const r=yield import("./app-bfce9bf5.js");r.appInit({holder:e.dom.tip.d,vocabApi:e.vocabApi,state:{activeCohort:e.activeCohort,tree:{usecase:e.usecase}},tree:{disable_terms:e.disable_terms,click_term:i=>t(this,void 0,void 0,(function*(){e.dom.tip.hide();let t;if(i.term)t=i;else{const e=i;t={term:e,q:{isAtomic:true},isAtomic:true}}if(e.opts.customFillTw)e.opts.customFillTw(t);yield wt(t,e.vocabApi,e.opts.defaultQ4fillTW);e.opts.callback(t)}))}})}))};e.showMenu=(t,i=null,n=null)=>{var r,o,a,l;const d=e.dom.tip;d.clear();if(e.opts.renderAs=="none"&&i)e.dom.holder=s(i);if(e.dom.holder){const i=(r=e.dom.holder)===null||r===void 0?void 0:r.node();if(i)d.showunder(i);else d.show(t.clientX,t.clientY)}const c=[];if(((o=e.q.groupsetting)===null||o===void 0?void 0:o.inuse)&&e.q.mode!="binary"){c.push({label:"Cancel grouping",callback:e.cancelGroupsetting})}if(e.q&&!((a=e.q.groupsetting)===null||a===void 0?void 0:a.disabled)&&M("edit",e.opts.menuOptions)){c.push({label:"Edit",callback:e.handler.showEditMenu})}if(M("replace",e.opts.menuOptions)){c.push({label:"Replace",callback:e.showTree})}if(M("remove",e.opts.menuOptions)){c.push({label:"Remove",callback:e.removeTerm})}if(e.opts.customMenuOptions)c.push(...e.opts.customMenuOptions);e.openMenu=n||d.d;e.openMenu.selectAll("div").data(c).enter().append("div").attr("class","sja_menuoption sja_sharp_border").attr("tabindex",((t,e)=>e+1)).style("display",e.opts.menuLayout=="horizontal"?"inline-block":"block").text((t=>t.label)).on("click",((t,i)=>{e.dom.tip.clear();i.callback(e.dom.tip.d)})).on("keyup",(t=>{if(t.key=="Enter")t.target.click()}));(l=e.openMenu.select(".sja_menuoption").node())===null||l===void 0?void 0:l.focus()};e.showReuseMenu=function(i){return t(this,void 0,void 0,(function*(){const n=i.append("div");n.style("display","block").style("padding","10px").append("span").style("color","#aaa").html("Save current setting as ");const r=e.vocabApi.getCustomTermQLst(e.term);const o=n.append("input").attr("type","text").attr("placeholder",r.nextReuseId).attr("value",e.q.reuseId||r.nextReuseId);n.append("button").style("margin-left","5px").html("Save").on("click",(()=>{const t=o.property("value").trim()||r.nextReuseId;e.q.reuseId=t;e.vocabApi.cacheTermQ(e.term,e.q);e.runCallback();e.dom.tip.hide()}));const a=i.append("div").style("margin","10px");const l={term:e.term,q:{}};yield xt(l,e.vocabApi);l.q.reuseId="Default";r.push(l.q);if(r.length>1){a.append("div").style("color","#aaa").html("Previously saved settings")}a.append("table").selectAll("tr").data(r).enter().append("tr").style("margin","2px 5px").each((function(i){const n=s(this);const r=mt(e.q,i);const o=i.name||i.reuseId;n.append("td").style("min-width","180px").style("text-align","center").html(o);const a=n.append("td").style("text-align","center");if(r){a.html(`In use <span style='color:#5a5;font-weight:600'>&check;</span>`)}else{a.append("button").style("min-width","80px").html("Use").on("click",(()=>{if(i.reuseId==="Default"){delete i.reuseId;delete i.name}e.q=i;e.dom.tip.hide();e.runCallback()}))}const l=n.append("td").style("text-align","center");if(!r&&i.reuseId!="Default"){l.append("button").style("min-width","80px").html("Delete").on("click",(()=>t(this,void 0,void 0,(function*(){yield e.vocabApi.uncacheTermQ(e.term,i);e.dom.tip.hide();e.runCallback()}))))}}));i.append("div").style("margin","20px 5px 5px 5px").style("padding","5px").style("font-size","0.8em").style("color","#aaa").html(`Saving the setting will allow it to be reused at another chart.<br/>`+`The setting will be reusable in your current or saved session.`)}))};e.showGeneSearch=function(i,n){e.dom.tip.clear();if(i)e.dom.tip.showunder(i instanceof Element?i:this instanceof Element?this:e.dom.holder.node());else e.dom.tip.show(n.clientX,n.clientY);const r=new Set;const s=e.dom.tip.d.append("div").style("padding","5px");const o=s.append("label");o.append("span").text("Search: ");const a=o.append("input").attr("type","text").on("input",(()=>t(this,void 0,void 0,(function*(){const t=a.property("value");try{const i=!t?{lst:[]}:yield e.vocabApi.findTerm(t,e.activeCohort,e.usecase,"gene");l.selectAll("*").remove();l.selectAll("div").data(i.lst.filter((t=>!r.has(t)))).enter().append("div").attr("class","ts_pill sja_filter_tag_btn sja_tree_click_term").style("display","block").style("margin","2px 3px").style("width","fit-content").text((t=>t.name)).on("click",(t=>{e.dom.tip.hide();e.runCallback({term:{name:t.name,type:"geneVariant"},q:{exclude:[]}})}))}catch(t){alert("Search error: "+t)}}))));const l=e.dom.tip.d.append("div").style("margin","5px").style("padding-left","5px").style("border-left","2px solid #ccc")}}function mt(t,e){const i=[t,e].map((t=>JSON.parse(JSON.stringify(t))));for(const t of i){delete t.binLabelFormatter;if(t.reuseId==="Default")delete t.reuseId;if(t.mode==="continuous")delete t.mode;if(t.mode==="discrete"&&t.type=="custom-bin"&&t.lst){for(const e of t.lst){delete e.range}}}return n(...i)}function vt(t){return{showEditMenu(){},getPillStatus(){},getPillName(e){return bt(t,e)}}}function bt(t,e){if(!t.opts.abbrCutoff)return e.name;return e.name.length<=t.opts.abbrCutoff+2?e.name:'<label title="'+e.name+'">'+e.name.substring(0,t.opts.abbrCutoff)+"..."+"</label>"}function yt(e,i,n){return t(this,void 0,void 0,(function*(){yield gt(e,i);const t=[];for(const r of e){t.push(xt(r,i,n))}yield Promise.all(t)}))}function gt(e,i){return t(this,void 0,void 0,(function*(){const t=[];for(const i of e){if(i.term)continue;if(i.id===undefined||i.id==="")throw".id is required";t.push(i.id)}const n=t.length?yield i.getTerms(t):{};for(const i of t){if(!n[i])throw`missing dictionary term for id=${i}`;for(const t of e){if(t.id in n)t.term=n[t.id]}}}))}function xt(e,i,n){return t(this,void 0,void 0,(function*(){e.isAtomic=true;if(!e.term&&e.id){yield gt([e],i)}delete e.id;if(!e.q)e.q={};if(!e.$id)e.$id=yield ot(i.getTwMinCopy(e));e.q.isAtomic=true;yield wt(e,i,n);jt(e);return e}))}function wt(e,i,n){return t(this,void 0,void 0,(function*(){if(!e.$id)e.$id=yield ot(i.getTwMinCopy(e));const t=e.term.type;const r=t=="float"||t=="integer"?"numeric":t;let s;if(e.term.type){try{s=yield it(`./handlers/${r}.ts`)}catch(t){throw`Type ${r} does not exist`}}else throw`Type not defined 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t=at.encode(e);const i=yield crypto.subtle.digest("SHA-1",t);const n=Array.from(new Uint8Array(i));const r=n.map((t=>t.toString(16).padStart(2,"0"))).join("");return dt(r).replace("=","-")}))}function dt(t){return btoa([...t].reduce(((e,i,n)=>e+=!(n-1&1)?String.fromCharCode(parseInt(t.substring(n-1,n+1),16)):""),""))}const ct={menuOptions:"edit",menuLayout:"vertical"};class pt{constructor(t){this.opts=this.validateOpts(t);this.vocabApi=t.vocabApi;this.activeCohort=t.activeCohort;this.placeholder=t.placeholder;this.durations={exit:0};this.disable_terms=t.disable_terms;this.usecase=t.usecase;this.abbrCutoff=t.abbrCutoff;this.numqByTermIdModeType={};this.dom={holder:t.holder,tip:t.tip||new i({padding:"0px",parent_menu:this.opts.holder&&this.opts.holder.node()&&this.opts.holder.node().closest(".sja_menu_div")})};this.dom.tip2=new i({padding:"0px",parent_menu:this.dom.tip.d.node()});ft(this);ht(this);this.initUI();const e=vt(this);this.handlerByType={default:e};this.handler=e;this.hasError=false;this.api={main:this.main.bind(this),runCallback:this.runCallback.bind(this),showTree:this.showTree,showMenu:this.showMenu.bind(this),showGeneSearch:this.showGeneSearch,hasError:()=>this.hasError,validateQ:t=>{if(!this.handler||!this.handler.validateQ)return;try{this.handler.validateQ(t)}catch(t){this.hasError=true;throw t}}}}runCallback(t=null){var e,i;const s=this.term?{term:this.term,q:this.q,isAtomic:true}:{};if("$id"in this)s.$id=this.$id;if(((e=s.q)===null||e===void 0?void 0:e.reuseId)&&s.q.reuseId===((i=this.data.q)===null||i===void 0?void 0:i.reuseId)){if(!n(s.q,this.data.q)){delete s.q.reuseId;delete s.q.name}}const o=t?JSON.parse(JSON.stringify(t)):{};if(this.opts.callback)this.opts.callback(t?r(JSON.stringify(s),o):s)}validateOpts(t){const e=Object.assign({},ct,t);if(!e.holder&&e.renderAs!="none")throw".holder missing";if(typeof e.callback!="function")throw".callback() is not a function";if(!e.vocabApi)throw".vocabApi missing";if(typeof e.vocabApi!="object");if("placeholder"in e&&!e.placeholder&&"placeholderIcon"in e&&!e.placeholderIcon)throw"must specify a non-empty opts.placeholder and/or .placeholderIcon";if(!("placeholder"in e))e.placeholder="Select term&nbsp;";if(!("placeholderIcon"in e))e.placeholderIcon="+";if(!Number.isInteger(e.abbrCutoff))e.abbrCutoff=18;this.validateMenuOptions(e);if(!e.numericEditMenuVersion)e.numericEditMenuVersion=["discrete"];this.mayValidate_noTermPromptOptions(e);return e}main(e={}){return t(this,void 0,void 0,(function*(){try{if(this.doNotHideTipInMain){delete this.doNotHideTipInMain}else{this.dom.tip.hide()}this.hasError=false;delete this.error;this.validateMainData(e);this.data=e;this.term=e.term;this.q=JSON.parse(JSON.stringify(e.q));if("$id"in e)this.$id=e.$id;if("disable_terms"in e)this.disable_terms=e.disable_terms;if("filter"in e)this.filter=e.filter;if("activeCohort"in e)this.activeCohort=e.activeCohort;if("sampleCounts"in e)this.sampleCounts=e.sampleCounts;if("menuOptions"in e)this.opts.menuOptions=e.menuOptions;yield this.setHandler(this.term?this.term.type:null);if(e.term&&this.handler&&this.handler.validateQ)this.handler.validateQ(e);if(this.handler.postMain)yield this.handler.postMain();if(this.opts.renderAs!="none")this.updateUI()}catch(t){this.hasError=true;throw t}}))}validateMainData(t){if(t.term){if(!t.term.type)throw"data.term.type missing";if(a(t.term.type)){if(!t.term.id&&t.term.type!=l.SAMPLELST)throw"data.term.id missing";if(!t.term.name)throw"data.term.name missing"}}if(!t.q)t.q={};if(typeof t.q!="object")throw"data.q{} is not object";if(t.disable_terms){if(!Array.isArray(t.disable_terms))throw"data.disable_terms[] is not array"}this.mayValidate_noTermPromptOptions(t)}validateMenuOptions(t){if(!t.menuOptions)t.menuOptions=ct.menuOptions;if(t.menuOptions=="all")t.menuOptions="*";for(const e of["edit","replace","remove"]){if(M(e,t.menuOptions))return}throw`no matches found for termsetting opts.menuOptions='${t.menuOptions}'`}mayValidate_noTermPromptOptions(t){if(!t.noTermPromptOptions)return;if(!Array.isArray(t.noTermPromptOptions))throw"noTermPromptOptions[] is not array";for(const e of t.noTermPromptOptions){if(e.isDictionary);else{if(!e.termtype)throw"element of noTermPromptOptions[] missing both isDictionary=true and .termtype"}if(!e.text&&!e.html)throw"element of noTermPromptOptions[] missing both .text and .html";if(e.q&&typeof e.q!="object")throw"type.q{} is not object"}this.noTermPromptOptions=t.noTermPromptOptions}setHandler(e){return t(this,void 0,void 0,(function*(){if(!e){this.handler=this.handlerByType.default;return}const t=e=="integer"||e=="float"?"numeric":e;if(!this.handlerByType[t]){try{const e=yield nt(`./handlers/${t}.ts`);this.handlerByType[t]=yield e.getHandler(this)}catch(e){throw`error with handler='./handlers/${t}.ts': ${e}`}}this.handler=this.handlerByType[t]}))}}const ut=e(pt);function ht(e){e.initUI=()=>{if(e.opts.$id){e.dom.tip.d.attr("id",e.opts.$id+"-ts-tip")}if(!e.dom.holder)return;e.dom.nopilldiv=e.dom.holder.append("div").style("cursor","pointer").on("click",e.clickNoPillDiv).on(`keyup.sjpp-termdb`,(t=>{if(t.key=="Enter")e.showTree(t)}));e.dom.pilldiv=e.dom.holder.append("div");if(e.opts.placeholder){e.dom.nopilldiv.append("div").html(e.placeholder).attr("class","sja_clbtext2").style("padding","3px 6px 3px 6px").style("display","inline-block")}if(e.opts.placeholderIcon){e.dom.nopilldiv.append("div").attr("class","sja_filter_tag_btn add_term_btn").style("padding","3px 6px 3px 6px").style("display","inline-block").style("border-radius","6px").style("background-color","#4888BF").text(e.opts.placeholderIcon)}e.dom.btnDiv=e.dom.holder.append("div")};e.updateUI=()=>t(this,void 0,void 0,(function*(){if(!e.term){e.dom.nopilldiv.style("display","block");e.dom.pilldiv.style("display","none");e.dom.btnDiv.style("display","none");return}if(e.term.hashtmldetail){if(e.opts.buttons&&!e.opts.buttons.includes("info"))e.opts.buttons.unshift("info");else e.opts.buttons=["info"]}if(e.opts.buttons){e.dom.btnDiv.selectAll("div").data(e.opts.buttons).enter().append("div").style("display","inline-block").style("padding","0px 5px").style("cursor","pointer").style("color","#999").style("font-size",".8em").html((t=>t.toUpperCase())).on("click",((t,i)=>{if(i=="delete")e.removeTerm();else if(i=="replace"){e.showTree(t.target)}else throw"unknown button"}));if(e.term.hashtmldetail){const t=e.dom.btnDiv.selectAll("div").filter((function(){return s(this).text()==="INFO"}));const i=s(e.dom.holder.node().parentNode).append("div");const n=yield import("./termInfo-4c759483.js");n.termInfoInit({vocabApi:e.opts.vocabApi,icon_holder:t,content_holder:i,id:e.term.id,state:{term:e.term}})}}e.dom.nopilldiv.style("display","none");e.dom.pilldiv.style("display",e.opts.buttons?"inline-block":"block");e.dom.btnDiv.style("display",e.opts.buttons?"inline-block":"none");const t=e.dom.pilldiv.selectAll(".ts_pill").data([e.term],(t=>t.id));t.exit().each(e.exitPill);t.transition().duration(200).each(e.updatePill);t.enter().append("div").attr("class","ts_pill").style("display","grid").style("grid-template-columns","auto").style("grid-template-areas",'"left right"').style("cursor","pointer").style("margin","2px").on("click",e.showMenu).transition().duration(200).each(e.enterPill)}));e.enterPill=function(){return t(this,void 0,void 0,(function*(){const t=s(this);e.dom.pill_termname=t.append("div").attr("class","term_name_btn  sja_filter_tag_btn").attr("tabindex",0).style("display","flex").style("grid-area","left").style("position","relative").style("align-items","center").style("padding","3px 6px 3px 6px").style("border-radius","6px").html(e.handler.getPillName).on(`keyup.sjpp-termdb`,(t=>{if(t.key=="Enter")t.target.click()}));e.updatePill.call(this)}))};e.updatePill=function(){return t(this,void 0,void 0,(function*(){const t=s(this);const i=e.handler.getPillStatus()||{};e.dom.pill_termname.style("border-radius",i.text?"6px 0 0 6px":"6px").html(e.handler.getPillName);const n=t.selectAll(".ts_summary_btn").data(i.text?[{txt:i.text}]:[],(t=>t.txt));n.exit().remove();const r=n.enter().append("div").attr("class","ts_summary_btn sja_filter_tag_btn").style("display","flex").style("grid-area","right").style("position","relative").style("align-items","center").style("padding","3px 6px 3px 6px").style("border-radius","0 6px 6px 0").style("font-style","italic").html((t=>t.txt)).style("opacity",0).transition().duration(200).style("opacity",1);if(i.bgcolor){r.transition().duration(200).style("background-color",i.bgcolor)}}))};e.exitPill=function(){s(this).style("opacity",1).transition().duration(e.durations.exit).style("opacity",0).remove()}}function ft(e){e.removeTerm=()=>{e.opts.callback(null)};e.cancelGroupsetting=()=>{e.opts.callback({id:e.term.id,term:e.term,q:{mode:"discrete",type:"values",isAtomic:true,groupsetting:{inuse:false}}})};e.clickNoPillDiv=()=>t(this,void 0,void 0,(function*(){if(!e.noTermPromptOptions||e.noTermPromptOptions.length==0){yield e.showTree(e.dom.nopilldiv.node());return}e.dom.tip.clear().showunder(e.dom.nopilldiv.node());for(const i of e.noTermPromptOptions){const n=e.dom.tip.d.append("div").attr("class","sja_menuoption sja_sharp_border").on("click",(()=>t(this,void 0,void 0,(function*(){e.dom.tip.clear();if(i.isDictionary){yield e.showTree(e.dom.tip.d.node())}else if(i.termtype){if(i.q)e.q=structuredClone(i.q);yield e.setHandler(i.termtype);e.handler.showEditMenu(e.dom.tip.d)}else{throw"termtype missing"}}))));if(i.text)n.text(i.text);else if(i.html)n.html(i.html)}}));e.showTree=function(i,n){return t(this,void 0,void 0,(function*(){e.dom.tip.clear();if(i)e.dom.tip.showunder(i instanceof Element?i:this instanceof Element?this:e.dom.holder.node());else e.dom.tip.show(n.clientX,n.clientY);if(!e.usecase)e.usecase={target:"default"};const r=yield import("./app-fb676934.js");r.appInit({holder:e.dom.tip.d,vocabApi:e.vocabApi,state:{activeCohort:e.activeCohort,tree:{usecase:e.usecase}},tree:{disable_terms:e.disable_terms,click_term:i=>t(this,void 0,void 0,(function*(){e.dom.tip.hide();let t;if(i.term)t=i;else{const e=i;t={term:e,q:{isAtomic:true},isAtomic:true}}if(e.opts.customFillTw)e.opts.customFillTw(t);yield wt(t,e.vocabApi,e.opts.defaultQ4fillTW);e.opts.callback(t)}))}})}))};e.showMenu=(t,i=null,n=null)=>{var r,o,a,l;const d=e.dom.tip;d.clear();if(e.opts.renderAs=="none"&&i)e.dom.holder=s(i);if(e.dom.holder){const i=(r=e.dom.holder)===null||r===void 0?void 0:r.node();if(i)d.showunder(i);else d.show(t.clientX,t.clientY)}const c=[];if(((o=e.q.groupsetting)===null||o===void 0?void 0:o.inuse)&&e.q.mode!="binary"){c.push({label:"Cancel grouping",callback:e.cancelGroupsetting})}if(e.q&&!((a=e.q.groupsetting)===null||a===void 0?void 0:a.disabled)&&M("edit",e.opts.menuOptions)){c.push({label:"Edit",callback:e.handler.showEditMenu})}if(M("replace",e.opts.menuOptions)){c.push({label:"Replace",callback:e.showTree})}if(M("remove",e.opts.menuOptions)){c.push({label:"Remove",callback:e.removeTerm})}if(e.opts.customMenuOptions)c.push(...e.opts.customMenuOptions);e.openMenu=n||d.d;e.openMenu.selectAll("div").data(c).enter().append("div").attr("class","sja_menuoption sja_sharp_border").attr("tabindex",((t,e)=>e+1)).style("display",e.opts.menuLayout=="horizontal"?"inline-block":"block").text((t=>t.label)).on("click",((t,i)=>{e.dom.tip.clear();i.callback(e.dom.tip.d)})).on("keyup",(t=>{if(t.key=="Enter")t.target.click()}));(l=e.openMenu.select(".sja_menuoption").node())===null||l===void 0?void 0:l.focus()};e.showReuseMenu=function(i){return t(this,void 0,void 0,(function*(){const n=i.append("div");n.style("display","block").style("padding","10px").append("span").style("color","#aaa").html("Save current setting as ");const r=e.vocabApi.getCustomTermQLst(e.term);const o=n.append("input").attr("type","text").attr("placeholder",r.nextReuseId).attr("value",e.q.reuseId||r.nextReuseId);n.append("button").style("margin-left","5px").html("Save").on("click",(()=>{const t=o.property("value").trim()||r.nextReuseId;e.q.reuseId=t;e.vocabApi.cacheTermQ(e.term,e.q);e.runCallback();e.dom.tip.hide()}));const a=i.append("div").style("margin","10px");const l={term:e.term,q:{}};yield xt(l,e.vocabApi);l.q.reuseId="Default";r.push(l.q);if(r.length>1){a.append("div").style("color","#aaa").html("Previously saved settings")}a.append("table").selectAll("tr").data(r).enter().append("tr").style("margin","2px 5px").each((function(i){const n=s(this);const r=mt(e.q,i);const o=i.name||i.reuseId;n.append("td").style("min-width","180px").style("text-align","center").html(o);const a=n.append("td").style("text-align","center");if(r){a.html(`In use <span style='color:#5a5;font-weight:600'>&check;</span>`)}else{a.append("button").style("min-width","80px").html("Use").on("click",(()=>{if(i.reuseId==="Default"){delete i.reuseId;delete i.name}e.q=i;e.dom.tip.hide();e.runCallback()}))}const l=n.append("td").style("text-align","center");if(!r&&i.reuseId!="Default"){l.append("button").style("min-width","80px").html("Delete").on("click",(()=>t(this,void 0,void 0,(function*(){yield e.vocabApi.uncacheTermQ(e.term,i);e.dom.tip.hide();e.runCallback()}))))}}));i.append("div").style("margin","20px 5px 5px 5px").style("padding","5px").style("font-size","0.8em").style("color","#aaa").html(`Saving the setting will allow it to be reused at another chart.<br/>`+`The setting will be reusable in your current or saved session.`)}))};e.showGeneSearch=function(i,n){e.dom.tip.clear();if(i)e.dom.tip.showunder(i instanceof Element?i:this instanceof Element?this:e.dom.holder.node());else e.dom.tip.show(n.clientX,n.clientY);const r=new Set;const s=e.dom.tip.d.append("div").style("padding","5px");const o=s.append("label");o.append("span").text("Search: ");const a=o.append("input").attr("type","text").on("input",(()=>t(this,void 0,void 0,(function*(){const t=a.property("value");try{const i=!t?{lst:[]}:yield e.vocabApi.findTerm(t,e.activeCohort,e.usecase,"gene");l.selectAll("*").remove();l.selectAll("div").data(i.lst.filter((t=>!r.has(t)))).enter().append("div").attr("class","ts_pill sja_filter_tag_btn sja_tree_click_term").style("display","block").style("margin","2px 3px").style("width","fit-content").text((t=>t.name)).on("click",(t=>{e.dom.tip.hide();e.runCallback({term:{name:t.name,type:"geneVariant"},q:{exclude:[]}})}))}catch(t){alert("Search error: "+t)}}))));const l=e.dom.tip.d.append("div").style("margin","5px").style("padding-left","5px").style("border-left","2px solid #ccc")}}function mt(t,e){const i=[t,e].map((t=>JSON.parse(JSON.stringify(t))));for(const t of i){delete t.binLabelFormatter;if(t.reuseId==="Default")delete t.reuseId;if(t.mode==="continuous")delete t.mode;if(t.mode==="discrete"&&t.type=="custom-bin"&&t.lst){for(const e of t.lst){delete e.range}}}return n(...i)}function vt(t){return{showEditMenu(){},getPillStatus(){},getPillName(e){return yt(t,e)}}}function yt(t,e){if(!t.opts.abbrCutoff)return e.name;return e.name.length<=t.opts.abbrCutoff+2?e.name:'<label title="'+e.name+'">'+e.name.substring(0,t.opts.abbrCutoff)+"..."+"</label>"}function gt(e,i,n){return t(this,void 0,void 0,(function*(){yield bt(e,i);const t=[];for(const r of e){t.push(xt(r,i,n))}yield Promise.all(t)}))}function bt(e,i){return t(this,void 0,void 0,(function*(){const t=[];for(const i of e){if(i.term)continue;if(i.id===undefined||i.id==="")throw".id is required";t.push(i.id)}const n=t.length?yield i.getTerms(t):{};for(const i of t){if(!n[i])throw`missing dictionary term for id=${i}`;for(const t of e){if(t.id in n)t.term=n[t.id]}}}))}function xt(e,i,n){return t(this,void 0,void 0,(function*(){e.isAtomic=true;if(!e.term&&e.id){yield bt([e],i)}delete e.id;if(!e.q)e.q={};if(!e.$id)e.$id=yield ot(i.getTwMinCopy(e));e.q.isAtomic=true;yield wt(e,i,n);jt(e);return e}))}function wt(e,i,n){return t(this,void 0,void 0,(function*(){if(!e.$id)e.$id=yield ot(i.getTwMinCopy(e));const t=e.term.type;const r=t=="float"||t=="integer"?"numeric":t;let s;if(e.term.type){try{s=yield it(`./handlers/${r}.ts`)}catch(t){throw`Type ${r} does not exist`}}else throw`Type not defined for ${JSON.stringify(e)}`;yield s.fillTW(e,i,n?n[r]:null)}))}function jt(t){if(!("mode"in t.q)){return}if(typeof t.q.mode!="string")throw"q.mode not string"}function kt(t,e){if(!t.hiddenValues){t.hiddenValues={};if(e.values){for(const i in e.values){if(e.values[i].uncomputable)t.hiddenValues[i]=1}}}}export{gt as a,yt as b,xt as f,ot as g,kt as s,ut as t};