@datagrok/helm 3.0.1 → 3.0.3

package/dist/94.js

@@ -1,2 +0,0 @@
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Set),selectionLayer:Z(t,i,r)}}(t,{theme:this._currentTheme(),selectedAtomIds:e.atoms,highlightedAtomIds:this._editorHighlights()});this._spliceLayer("hw-highlights",i.highlightLayer),this._spliceLayer("hw-selections",i.selectionLayer)}_spliceLayer(t,e){let i=this._svgRoot.querySelector(`.${t}`);if(null===i||null===i.parentNode)return;let r=this._doc.createElementNS("http://www.w3.org/2000/svg","svg");r.innerHTML=e;let l=r.querySelector(`.${t}`);null!==l&&i.parentNode.replaceChild(l,i)}_editorHighlights(){let t=this._editor;return"function"==typeof t._currentHighlights?t._currentHighlights():new Set}_currentTheme(){let t=this._editor;return"function"==typeof t._currentTheme?t._currentTheme():this._editor.getService().theme}_applyResize(t,e){this._width=t,this._height=e,this._pinnedBbox=null,this._renderFresh()}_applyViewport(t){let e=this._svgRoot.querySelector(".hw-content");if(null===e)return;let i=`translate(${t.offset.x} ${t.offset.y}) scale(${t.scale})`,r=""===this._baseTransform?i:`${i} ${this._baseTransform}`;e.setAttribute("transform",r)}_showTooltip(t,e,i){let r=this._tooltip;if(null===r)return;let l=""===t.symbol?"?":t.symbol,s=t.monomer?.name??"",o=t.bio.positionInChain,n=""===t.bio.chainId?"?":t.bio.chainId,a=""!==s&&s!==l?`${s} @ ${n}:${o}`:`${l} @ ${n}:${o}`,h=this._renderRdkitTooltipSvg(t);rt(this._doc,r,{symbol:l,name:a,rdkitSvg:h,rdkitTestid:"atom-tooltip-rdkit-svg"});let d=""!==s&&s!==l?`${l} — ${s}  @ ${n}:${o}`:`${l}  @ ${n}:${o}`,u=this._doc.createElement("div");u.setAttribute("class","hw-atom-tooltip__text"),u.style.display="none",u.appendChild(this._doc.createTextNode(d)),r.appendChild(u),lt(r,e,i)}_renderRdkitTooltipSvg(e){let i=this._editor.getService().options.rdkitModule;if(null==i)return null;let r=e.monomer;if(null===r)return null;let l=r.smiles;if(void 0===l||""===l)return null;let s=`${r.polymerType}:${r.symbol}`;if(this._rdkitSvgCache.has(s))return this._rdkitSvgCache.get(s)??null;let o=et(i,l,220,140);if(this._rdkitSvgCache.size>=t._RDKIT_CACHE_LIMIT){let t=this._rdkitSvgCache.keys().next().value;void 0!==t&&this._rdkitSvgCache.delete(t)}return this._rdkitSvgCache.set(s,o),o}_hideTooltip(){st(this._tooltip)}_showBondTooltip(t,e,i){let r=this._bondTooltip;if(null===r)return;let l=at(t.r1),s=at(t.r2),o=`${t.a1.symbol}@${t.a1.bio.chainId}:${t.a1.bio.positionInChain}`,n=`${t.a2.symbol}@${t.a2.bio.chainId}:${t.a2.bio.positionInChain}`;rt(this._doc,r,{symbol:`${l}-${s} (${t.kind})`,name:`${o} ↔ ${n}`}),lt(r,e,i)}_hideBondTooltip(){st(this._bondTooltip)}_paintBondPreview(t,e,i){let r=this._svgRoot.querySelector(".hw-content");if(null===r)return;let l=r.querySelector(".hw-bond-preview");null===l&&(l=this._doc.createElementNS("http://www.w3.org/2000/svg","line"),l.setAttribute("class","hw-bond-preview"),l.setAttribute("data-testid","bond-preview"),l.setAttribute("stroke-dasharray","6 4"),l.setAttribute("stroke-width","2"),l.setAttribute("fill","none"),l.setAttribute("pointer-events","none"),r.appendChild(l)),l.setAttribute("x1",String(t.x)),l.setAttribute("y1",String(t.y)),l.setAttribute("x2",String(e.x)),l.setAttribute("y2",String(e.y)),l.setAttribute("stroke",i?"#1f5fcd":"#999999")}_clearBondPreview(){let t=this._svgRoot.querySelector(".hw-bond-preview");null!==t&&null!==t.parentNode&&t.parentNode.removeChild(t)}_paintSelectionRect(t,e){let i=Math.min(t.x,e.x),r=Math.min(t.y,e.y),l=Math.abs(t.x-e.x),s=Math.abs(t.y-e.y);this._paintSelectionRectAt(i,r,l,s)}_paintSelectionRectFromRect(t){this._paintSelectionRectAt(t.x,t.y,t.width,t.height)}_paintSelectionRectAt(t,e,i,r){let l=this._svgRoot.querySelector(".hw-content");if(null===l)return;let s=l.querySelector(".hw-selection-rect");null===s&&(s=this._doc.createElementNS("http://www.w3.org/2000/svg","rect"),s.setAttribute("class","hw-selection-rect"),s.setAttribute("data-testid","selection-rect"),s.setAttribute("fill","rgba(31, 95, 205, 0.08)"),s.setAttribute("stroke","#1f5fcd"),s.setAttribute("stroke-width","1"),s.setAttribute("stroke-dasharray","4 3"),s.setAttribute("pointer-events","none"),l.appendChild(s)),s.setAttribute("x",String(t)),s.setAttribute("y",String(e)),s.setAttribute("width",String(i)),s.setAttribute("height",String(r))}_clearSelectionRect(){let t=this._svgRoot.querySelector(".hw-selection-rect");null!==t&&null!==t.parentNode&&t.parentNode.removeChild(t)}};nt._RDKIT_CACHE_LIMIT=256;function at(t){switch(t.kind){case"numeric":return`R${t.r}`;case"unspecified":return"?";case"wildcard":return"*";case"pair":return"pair";case"positional":return`${t.position}pos:R${t.r}`}}var ht=class t{constructor(t,e){this._onClose=null,this._primaryAction=null,this._host=t,this._doc=e.documentImpl??Q(t);let i=this._doc,r={class:"hw-modal-backdrop",role:"presentation"};void 0!==e.testId&&(r["data-testid"]=`dialog-${e.testId}`);let l=tt(i,"div",r),s={class:"hw-modal",role:"dialog","aria-modal":"true","aria-label":e.title};void 0!==e.testId&&(s["data-testid"]=`dialog-${e.testId}-frame`);let o=tt(i,"div",s),n=tt(i,"div",{class:"hw-modal__header"},[e.title]),a=tt(i,"div",{class:"hw-modal__body"});o.appendChild(n),o.appendChild(a),l.appendChild(o);let h=t=>{t.stopPropagation()};for(let t of["mousedown","mousemove","mouseup","mouseover","mouseenter","mouseleave","wheel","contextmenu","dblclick","keydown","keyup","keypress"])l.addEventListener(t,h);o.addEventListener("keydown",t=>{let e=t;if("Enter"!==e.key||"TEXTAREA"===e.target?.tagName)return;let i=this._primaryAction;null!==i&&(e.preventDefault?.(),e.stopImmediatePropagation?.(),i())}),l.addEventListener("click",t=>{t.target!==l?t.stopPropagation():this.close()}),this.root=l,this.body=a}static anyOpen(){return t._openStack.length>0}static closeTopmost(){let e=t._openStack[t._openStack.length-1];return void 0!==e&&(e.close(),!0)}open(e){this._onClose=e??null,null===this.root.parentNode&&this._host.appendChild(this.root),t._openStack.includes(this)||t._openStack.push(this),ot(this._doc)}close(){let e=t._openStack.indexOf(this);e>=0&&t._openStack.splice(e,1),null!==this.root.parentNode&&this.root.parentNode.removeChild(this.root);let i=this._onClose;this._onClose=null,null!==i&&i()}setPrimaryAction(t){this._primaryAction=t}get isOpen(){return null!==this.root.parentNode}};ht._openStack=[];Object.freeze(new Set);function dt(t){return t.startsWith("[")&&t.endsWith("]")||1===t.length&&/^[A-Za-z]$/.test(t)?t:`[${t}]`}function ut(t,e,i){return`${dt(t)}(${dt(e)})${dt(i)}`}var pt="http://www.w3.org/2000/svg",ct={sugar:r.SUGAR,base:r.BASE,linker:r.LINKER},_t={sugar:["r","R"],base:["A"],linker:["p","P"]},bt={x:70,y:60},ft={x:140,y:60},vt={x:70,y:130},gt=class t{constructor(t,e,i){this.onValueSet=new s,this.onPickModeChange=new s,this._slots=new Map,this._favStar=null,this._pickMode=null,this._destroyed=!1,this._builderRdkitCache=new Map,this._editor=e,this._doc=i?.documentImpl??Q(t),this._hooks=i?.paletteHooks??null,this._favHooks=i?.favoriteHooks??null,this.element=tt(this._doc,"div",{class:"hw-rna-builder","data-testid":"rna-builder"});let r=tt(this._doc,"div",{class:"hw-rna-builder__header"});if(r.appendChild(tt(this._doc,"div",{class:"hw-rna-builder__title"},["RNA builder"])),null!==this._favHooks){let t=tt(this._doc,"span",{class:"hw-rna-builder__fav hw-rna-builder__fav--disabled",role:"button",tabindex:"0","data-testid":"rna-builder-fav-star",title:"Favorite this triplet","aria-pressed":"false","aria-disabled":"true"},["☆"]),e=t=>{t.stopPropagation();let e=this.getSelection();""===e.preview||null===this._favHooks||this._favHooks.toggleFavoriteTriplet(e.sugar,e.base,e.linker)};t.addEventListener("click",e),t.addEventListener("keydown",t=>{let i=t;("Enter"===i.key||" "===i.key)&&e(t)}),this._favStar=t,r.appendChild(t)}this.element.appendChild(r),this._hintEl=tt(this._doc,"div",{class:"hw-rna-builder__hint","data-testid":"rna-builder-hint",hidden:!0}),this.element.appendChild(this._hintEl);let l=this._buildSvg();this.element.appendChild(l),this._preview=tt(this._doc,"div",{class:"hw-rna-builder__preview","data-testid":"rna-builder-preview"}),this.element.appendChild(this._preview),this._addBtn=tt(this._doc,"button",{class:"hw-rna-builder__add",type:"button","data-testid":"rna-builder-add-btn"},["Add triplet"]),this._addBtn.addEventListener("click",()=>this._onAddClicked()),this.element.appendChild(this._addBtn),t.appendChild(this.element);let o=e.getService().monomerLib.onChanged.subscribe(()=>{this._destroyed||this.refresh()}),n=e.on("theme:change",()=>{this._destroyed||this._repaintSlotColors()});this._libUnsub=()=>{try{o()}catch{}try{n()}catch{}},this._populateDefaults(),this._updatePreview(),this._repaintSlotColors()}refresh(){this._populateDefaults(),this._updatePreview(),this._repaintSlotColors()}getSelection(){let t=this._slots.get("sugar")?.value??"",e=this._slots.get("base")?.value??"",i=this._slots.get("linker")?.value??"";return{sugar:t,base:e,linker:i,preview:""!==t&&""!==e&&""!==i?ut(t,e,i):""}}setField(t,e){let i=this._slots.get(t);void 0!==i&&(i.value=e,this._setLabelText(i.labelEl,e),this._repaintSlot(i),this._updatePreview(),this.onValueSet.next({field:t,symbol:e}))}startPickMode(t){this._pickMode!==t?(null!==this._pickMode&&this._setSlotPressed(this._pickMode,!1),this._pickMode=t,this._setSlotPressed(t,!0),this._setHintActive(t),this.onPickModeChange.next({field:t}),null!==this._hooks&&this._hooks.beginBiotypeFilter(ct[t],e=>{this.setField(t,e),this._exitPickMode()},()=>{this._exitPickMode()})):this.cancelPickMode()}cancelPickMode(){null!==this._pickMode&&(null!==this._hooks&&this._hooks.endBiotypeFilter(),this._exitPickMode())}getPickMode(){return this._pickMode}triggerAdd(){this._onAddClicked()}destroy(){this._destroyed||(this._destroyed=!0,null!==this._pickMode&&null!==this._hooks&&this._hooks.endBiotypeFilter(),this._libUnsub(),this.onValueSet.complete(),this.onPickModeChange.complete(),null!==this.element.parentNode&&this.element.parentNode.removeChild(this.element))}_buildSvg(){let t=this._doc.createElementNS(pt,"svg");t.setAttribute("class","hw-rna-builder__triplet"),t.setAttribute("viewBox","0 0 200 180"),t.setAttribute("data-testid","rna-builder-triplet-svg"),t.setAttribute("role","group"),t.setAttribute("aria-label","Triplet preview");let e=this._doc.createElementNS(pt,"line");e.setAttribute("class","hw-rna-builder__bond"),e.setAttribute("x1",String(bt.x+18)),e.setAttribute("y1",String(bt.y)),e.setAttribute("x2",String(ft.x-18)),e.setAttribute("y2",String(ft.y)),t.appendChild(e);let i=this._doc.createElementNS(pt,"line");i.setAttribute("class","hw-rna-builder__bond"),i.setAttribute("x1",String(bt.x)),i.setAttribute("y1",String(bt.y+18)),i.setAttribute("x2",String(vt.x)),i.setAttribute("y2",String(vt.y-22)),t.appendChild(i);let r=this._doc.createElementNS(pt,"rect");r.setAttribute("class","hw-rna-builder__slot-shape"),r.setAttribute("x",String(-18)),r.setAttribute("y",String(-18)),r.setAttribute("width",String(36)),r.setAttribute("height",String(36)),r.setAttribute("rx","8"),r.setAttribute("ry","8");let l=this._buildSlot("sugar","Pick sugar (backbone)",bt,r),s=this._doc.createElementNS(pt,"circle");s.setAttribute("class","hw-rna-builder__slot-shape"),s.setAttribute("cx","0"),s.setAttribute("cy","0"),s.setAttribute("r",String(18));let o=this._buildSlot("linker","Pick linker",ft,s),n=this._doc.createElementNS(pt,"path");n.setAttribute("class","hw-rna-builder__slot-shape"),n.setAttribute("d","M -22 0 L 0 -22 L 22 0 L 0 22 Z");let a=this._buildSlot("base","Pick base",vt,n);return t.appendChild(o.groupEl),t.appendChild(l.groupEl),t.appendChild(a.groupEl),this._slots.set("sugar",l),this._slots.set("linker",o),this._slots.set("base",a),t}_buildSlot(t,e,i,r){let l=this._doc.createElementNS(pt,"g");l.setAttribute("class","hw-rna-builder__slot"),l.setAttribute("data-slot",t),l.setAttribute("data-testid",`rna-builder-slot-${t}`),l.setAttribute("role","button"),l.setAttribute("tabindex","0"),l.setAttribute("aria-label",e),l.setAttribute("aria-pressed","false"),l.setAttribute("transform",`translate(${i.x} ${i.y})`),l.appendChild(r);let s=this._doc.createElementNS(pt,"text");s.setAttribute("class","hw-rna-builder__slot-label"),s.setAttribute("data-testid",`rna-builder-${t}-value`),s.setAttribute("x","0"),s.setAttribute("y","0"),s.setAttribute("text-anchor","middle"),s.setAttribute("dominant-baseline","central"),l.appendChild(s);let o=e=>{e.stopPropagation(),this.startPickMode(t)};return l.addEventListener("click",o),l.addEventListener("keydown",t=>{let e=t;("Enter"===e.key||" "===e.key)&&o(t)}),l.addEventListener("mouseenter",e=>this._showSlotTooltip(t,e)),l.addEventListener("mouseleave",()=>this._hideSlotTooltip()),l.addEventListener("focus",()=>this._showSlotTooltip(t,null)),l.addEventListener("blur",()=>this._hideSlotTooltip()),{id:t,biotype:ct[t],groupEl:l,shapeEl:r,labelEl:s,value:""}}_setLabelText(t,e){let i=[];for(let e=t.firstChild;null!==e;e=e.nextSibling)"title"===e.nodeName||"TITLE"===e.nodeName||i.push(e);for(let e of i)t.removeChild(e);let r=function(t){let e=t.length;return e<=2?16:e<=4?11:e<=7?8:e<=10?6:5}(e);t.setAttribute("font-size",String(r)),t.setAttribute("text-anchor","middle"),t.setAttribute("dominant-baseline","central");let l=e.length>10?`${e.slice(0,9)}…`:e;t.appendChild(this._doc.createTextNode(l));let s=t.parentNode;if(null!==s){let t=null;for(let e=s.firstChild;null!==e;e=e.nextSibling)if("title"===e.nodeName||"TITLE"===e.nodeName){t=e;break}for(null===t&&(t=this._doc.createElementNS(pt,"title"),s.insertBefore(t,s.firstChild));null!==t.firstChild;)t.removeChild(t.firstChild);t.appendChild(this._doc.createTextNode(e))}}_repaintSlotColors(){for(let t of this._slots.values())this._repaintSlot(t)}_repaintSlot(t){let e=this._editor.getService().monomerLib,i=this._theme(),r=""===t.value?null:function(t,e,i){return t.getMonomerSet(e).get(i)??null}(e,t.biotype,t.value),l=M(r,t.biotype,i.colorTheme);t.shapeEl.style.fill=l.background,t.shapeEl.style.stroke=l.line,t.labelEl.style.fill=l.text}_populateDefaults(){let t=this._editor.getService().monomerLib;for(let[e,i]of this._slots.entries()){let r=yt(t,i.biotype),l=wt(r,_t[e]),s=""!==i.value&&r.some(t=>t.symbol===i.value)?i.value:l??r[0]?.symbol??"";i.value=s,this._setLabelText(i.labelEl,s)}}_updatePreview(){let t=this.getSelection();for(;null!==this._preview.firstChild;)this._preview.removeChild(this._preview.firstChild);this._preview.appendChild(this._doc.createTextNode(""===t.preview?"-":t.preview)),this._updateFavStar(t)}_updateFavStar(t){if(null===this._favStar||null===this._favHooks)return;let e=""!==t.preview,i=e&&this._favHooks.isFavoriteTriplet(t.sugar,t.base,t.linker);for(;null!==this._favStar.firstChild;)this._favStar.removeChild(this._favStar.firstChild);this._favStar.appendChild(this._doc.createTextNode(i?"★":"☆")),this._favStar.setAttribute("aria-pressed",i?"true":"false"),e?this._favStar.removeAttribute("aria-disabled"):this._favStar.setAttribute("aria-disabled","true");let r="hw-rna-builder__fav"+(i?" hw-rna-builder__fav--active":"")+(e?"":" hw-rna-builder__fav--disabled");this._favStar.setAttribute("class",r)}_onAddClicked(){let t=this.getSelection();""!==t.preview&&this._editor.placeRnaTriplet(t.sugar,t.base,t.linker)}_exitPickMode(){if(null===this._pickMode)return;let t=this._pickMode;this._setSlotPressed(t,!1),this._pickMode=null,this._setHintActive(null),this.onPickModeChange.next({field:null})}_setHintActive(t){let e=this._hintEl;for(;null!==e.firstChild;)e.removeChild(e.firstChild);if(null===t)return void e.setAttribute("hidden","");e.removeAttribute("hidden");let i="sugar"===t?"sugar":"base"===t?"base":"linker";e.appendChild(this._doc.createTextNode(`Pick ${i} from palette`))}_setSlotPressed(t,e){let i=this._slots.get(t);if(void 0===i)return;i.groupEl.setAttribute("aria-pressed",e?"true":"false");let r=(i.groupEl.getAttribute("class")??"").split(/\s+/).filter(t=>"hw-rna-builder__slot--active"!==t).join(" ");i.groupEl.setAttribute("class",e?`${r} hw-rna-builder__slot--active`:r)}_theme(){let t=this._editor;return"function"==typeof t._currentTheme?t._currentTheme():this._editor.getService().theme}_rdkit(){let t=this._editor.getService().options?.rdkitModule;return t??null}_builderRdkitSvgFor(e){if(null===e)return null;let i=e.smiles;if(void 0===i||""===i)return null;let r=this._rdkit();if(null===r)return null;let l=`${e.polymerType}:${e.symbol}`;if(this._builderRdkitCache.has(l))return this._builderRdkitCache.get(l)??null;let s=et(r,i,220,140);if(this._builderRdkitCache.size>=t._BUILDER_RDKIT_CACHE_LIMIT){let t=this._builderRdkitCache.keys().next().value;void 0!==t&&this._builderRdkitCache.delete(t)}return this._builderRdkitCache.set(l,s),s}_slotHint(t){switch(t){case"sugar":return"Click to choose a different sugar";case"base":return"Click to choose a different base";case"linker":return"Click to choose a different linker"}}_slotTitle(t,e){let i=""===e?"?":e;switch(t){case"sugar":return`Sugar: ${i}`;case"base":return`Base: ${i}`;case"linker":return`Linker: ${i}`}}_showSlotTooltip(t,e){let i=this._slots.get(t);if(void 0===i)return;let r=this._editor.getService().monomerLib.getMonomerSet(i.biotype),l=""===i.value?null:r.get(i.value)??null,s=it(this._doc,"builder-tooltip","hw-builder-tooltip");rt(this._doc,s,{symbol:this._slotTitle(t,i.value),name:l?.name??"",rdkitSvg:this._builderRdkitSvgFor(l),rdkitTestid:"builder-tooltip-rdkit-svg",hint:this._slotHint(t)});let o=e;if(null!==o&&"number"==typeof o.clientX&&"number"==typeof o.clientY)lt(s,o.clientX,o.clientY);else{let t=i.groupEl,e="function"==typeof t.getBoundingClientRect?t.getBoundingClientRect():null;null!==e?lt(s,e.left+e.width/2,e.top+e.height/2):lt(s,0,0)}}_hideSlotTooltip(){st(this._doc.body.querySelector('[data-testid="builder-tooltip"]'))}};gt._BUILDER_RDKIT_CACHE_LIMIT=256;var mt=gt;function yt(t,e){let i=t.getMonomerSet(e),r=[];for(let t of i.values())r.push(t);return r.sort((t,e)=>t.symbol.localeCompare(e.symbol)),r}function wt(t,e){let i=new Set;for(let e of t)i.add(e.symbol);for(let t of e)if(i.has(t))return t;return null}var kt="Favorites",At={[kt]:"★ Favorites",[l.PEPTIDE]:"Peptides",[l.RNA]:"RNA",[l.CHEM]:"CHEM",[l.BLOB]:"BLOB",G:"G"},St=[kt,l.PEPTIDE,l.RNA,l.CHEM,l.BLOB,"G"],Ct="hwe:palette:favorites",Tt="hwe:palette:active-tab";function Et(t){return`${t.sugar}|${t.base}|${t.linker}`}var xt=class t{constructor(t,e,i){this.favoritesChanged=new s,this._nextAddUnsub=()=>{},this._favorites=new Set,this._favoriteTriplets=[],this._pendingRnaSelection=null,this._visibleTabs=[kt],this._activeTab=kt,this._searchInput=null,this._filter="",this._destroyed=!1,this._rnaBuilder=null,this._activeBiotypeFilter=null,this._pickResolver=null,this._pickCanceller=null,this._pickEscapeListener=null,this._pickOutsideClickListener=null,this._paletteRdkitCache=new Map,this._editor=e,this._doc=i?.documentImpl??Q(t),this._opts={documentImpl:this._doc,groupByNaturalAnalog:i?.groupByNaturalAnalog??!0,allowFavorites:i?.allowFavorites??!0},this._loadFavorites(),this._activeTab=this._resolveInitialTab(i?.initialTab),this.element=tt(this._doc,"div",{class:"hw-palette","data-testid":"palette"}),t.appendChild(this.element),this._render(),this._libUnsub=e.getService().monomerLib.onChanged.subscribe(()=>{this._destroyed||this.refresh()}),this._themeUnsub=e.on("theme:change",()=>{this._destroyed||this.refresh()}),this._nextAddUnsub=e.on("option:change",t=>{this._destroyed||"nextAdd"===t.key&&this._updatePrimedClasses()})}refresh(){this._render()}setFilter(t){this._filter=t.trim().toLowerCase(),null!==this._searchInput&&this._searchInput.value!==t&&(this._searchInput.value=t),this._applyFilter()}setActiveTab(t){this._visibleTabs.includes(t)&&(this._activeTab=t,this._persistActiveTab(),this._applyActiveTabClasses(),this._applyFilter())}getActiveTab(){return this._activeTab}getFavorites(){let t=this._editor.getService().monomerLib,e=[];for(let i of this._favorites)null!==this._findMonomer(t,i)&&e.push(i);return e}setFavorite(t,e){e!==this._favorites.has(t)&&(e?this._favorites.add(t):this._favorites.delete(t),this._saveFavorites(),this._hidePaletteTooltips(),this._render(),this._emitFavoritesChanged())}clearFavorites(){0===this._favorites.size&&0===this._favoriteTriplets.length||(this._favorites.clear(),this._favoriteTriplets.length=0,this._saveFavorites(),this._render(),this._emitFavoritesChanged())}getFavoriteTriplets(){return this._favoriteTriplets.map(t=>({...t}))}isFavoriteTriplet(t,e,i){let r=Et({sugar:t,base:e,linker:i});return this._favoriteTriplets.some(t=>Et(t)===r)}setFavoriteTriplet(t,e,i,r){let l=Et({sugar:t,base:e,linker:i}),s=this._favoriteTriplets.findIndex(t=>Et(t)===l);r!==s>=0&&(r?this._favoriteTriplets.push({sugar:t,base:e,linker:i}):this._favoriteTriplets.splice(s,1),this._saveFavorites(),this._hidePaletteTooltips(),this._render(),this._emitFavoritesChanged())}_hidePaletteTooltips(){let t=this._doc.body;st(t.querySelector('[data-testid="palette-tooltip"]')),st(t.querySelector('[data-testid="palette-triplet-tooltip"]'))}_emitFavoritesChanged(){this.favoritesChanged.next({favorites:this.getFavorites(),triplets:this.getFavoriteTriplets()})}destroy(){this._destroyed||(this._destroyed=!0,null!==this._rnaBuilder&&(this._rnaBuilder.destroy(),this._rnaBuilder=null),this._libUnsub(),this._themeUnsub(),this._nextAddUnsub(),null!==this.element.parentNode&&this.element.parentNode.removeChild(this.element))}getRnaBuilder(){return this._rnaBuilder}hasActiveBiotypeFilter(){return null!==this._activeBiotypeFilter}getActiveBiotypeFilter(){return this._activeBiotypeFilter}cancelBiotypeFilter(){if(null===this._activeBiotypeFilter)return;let t=this._pickCanceller;this._teardownPickMode(),t?.()}_buildPaletteFilterHooks(){return{beginBiotypeFilter:(t,e,i)=>{null!==this._activeBiotypeFilter&&this._teardownPickMode(),this._activeBiotypeFilter=t,this._pickResolver=e,this._pickCanceller=i,this._applyFilter();let r=t=>{"Escape"===t.key&&this.cancelBiotypeFilter()};this._pickEscapeListener=r,this._doc.defaultView?.addEventListener("keydown",r);let l=t=>{if(null===this._activeBiotypeFilter)return;let e=t.target;if(null==e)return;let i=this._activeBiotypeFilter,r=e;for(;null!==r;){let t=void 0===r.getAttribute?null:r.getAttribute("class");if(null!==t){let e=t.split(/\s+/);if(e.includes("hw-palette__tile")){if((r.getAttribute("data-biotype")??"")===i)return;break}if(e.includes("hw-rna-builder__slot")){if(this._isInsideOwnPalette(r))return;break}}r=r.parentElement}this.cancelBiotypeFilter()};this._pickOutsideClickListener=l,this._doc.addEventListener("mousedown",l,!0)},endBiotypeFilter:()=>this._teardownPickMode()}}_scrollActivePaneToTop(){let t=this.element.querySelector(`.hw-palette__pane[data-tab="${this._activeTab}"]`);if(null===t)return;let e=t;try{if("function"==typeof e.scrollTo)return void e.scrollTo({top:0,behavior:"smooth"})}catch{}"number"==typeof e.scrollTop&&(e.scrollTop=0)}_isInsideOwnPalette(t){let e=t;for(;null!==e;){if(e===this.element)return!0;e=e.parentElement}return!1}_teardownPickMode(){null!==this._activeBiotypeFilter&&(this._activeBiotypeFilter=null,this._pickResolver=null,this._pickCanceller=null,null!==this._pickEscapeListener&&(this._doc.defaultView?.removeEventListener("keydown",this._pickEscapeListener),this._pickEscapeListener=null),null!==this._pickOutsideClickListener&&(this._doc.removeEventListener("mousedown",this._pickOutsideClickListener,!0),this._pickOutsideClickListener=null),this._applyFilter())}_render(){for(null!==this._rnaBuilder&&(this._pendingRnaSelection=this._rnaBuilder.getSelection(),this._rnaBuilder.destroy(),this._rnaBuilder=null);null!==this.element.firstChild;)this.element.removeChild(this.element.firstChild);let t=this._doc.createElement("input");t.setAttribute("type","search"),t.setAttribute("class","hw-palette__search"),t.setAttribute("placeholder","Search monomers..."),t.setAttribute("data-testid","palette-search"),""!==this._filter&&(t.value=this._filter),t.addEventListener("input",()=>this.setFilter(t.value)),this._searchInput=t,this.element.appendChild(t),this._visibleTabs=this._computeVisibleTabs(),this._visibleTabs.includes(this._activeTab)||(this._activeTab=kt);let e=tt(this._doc,"div",{class:"hw-palette__tabs",role:"tablist","data-testid":"palette-tabs"});for(let t of this._visibleTabs){let i=t===this._activeTab,r=tt(this._doc,"button",{class:"hw-palette__tab",type:"button",role:"tab","aria-controls":`hw-palette-pane-${t}`,"aria-selected":i?"true":"false","data-testid":`palette-tab-${t}`,"data-tab":t,title:At[t]},[At[t]]);r.addEventListener("click",()=>this.setActiveTab(t)),e.appendChild(r)}this.element.appendChild(e);let i=tt(this._doc,"div",{class:"hw-palette__panes"}),r=this._theme(),l=this._editor.getService().monomerLib;for(let t of this._visibleTabs){let e=t===this._activeTab,s=tt(this._doc,"div",{class:"hw-palette__pane",id:`hw-palette-pane-${t}`,role:"tabpanel","data-testid":`palette-pane-${t}`,"data-tab":t,hidden:!e});t===kt?this._buildFavoritesPane(s,l,r):this._buildPolymerPane(s,t,l,r),i.appendChild(s)}this.element.appendChild(i),this._applyFilter()}_computeVisibleTabs(){let t=this._editor.getService().monomerLib,e=new Set;for(let i of t.getPolymerTypes())e.add(i);let i=[];i.push(kt);for(let t of St)t!==kt&&e.has(t)&&i.push(t);return i}_buildFavoritesPane(t,e,i){let r=this._resolveFavoriteMonomers(e),l=this._favoriteTriplets;if(0===r.length&&0===l.length){let e=tt(this._doc,"div",{class:"hw-palette__placeholder","data-testid":"palette-favorites-empty"},["No favorites yet — click the ☆ on any tile to add one."]);return void t.appendChild(e)}for(let[e,i]of this._groupByPolymerAndType(r))t.appendChild(this._renderGroup(e,i));l.length>0&&t.appendChild(this._renderTripletGroup("RNA · Triplets",l,e))}_groupByPolymerAndType(t){let e=new Map;for(let i of t){let t=i.polymerType,r=i.monomerType??"Undefined",l=`${t}|${r}`,s=e.get(l);void 0===s&&(s={pt:t,mt:r,list:[]},e.set(l,s)),s.list.push(i)}let i=t=>{let e=St.indexOf(t);return e<0?99:e},r={Backbone:0,Branch:1,Terminal:2,Undefined:3};return Array.from(e.values()).sort((t,e)=>i(t.pt)-i(e.pt)||(r[t.mt]??9)-(r[e.mt]??9)||t.mt.localeCompare(e.mt)).map(t=>[`${this._polymerLabel(t.pt)} · ${t.mt}`,t.list])}_polymerLabel(t){return At[t]??t}_renderTripletGroup(t,e,i){let r=tt(this._doc,"div",{class:"hw-palette__group","data-natural-analog":t}),l=tt(this._doc,"div",{class:"hw-palette__group-header","data-testid":`palette-group-${t}`},[t]),s=tt(this._doc,"div",{class:"hw-triplet-chips","data-testid":"palette-triplet-favorites"});for(let t of e)s.appendChild(this._renderTripletChip(t,i));return r.appendChild(l),r.appendChild(s),r}_renderTripletChip(t,e){let i=ut(t.sugar,t.base,t.linker),l=e.getMonomerSet(r.BASE).get(t.base)??null,s=M(l,r.BASE,this._theme().colorTheme),o=this.isFavoriteTriplet(t.sugar,t.base,t.linker),n=void 0!==l?.name&&""!==l.name?`${i} — ${l.name}`:i,{root:a}=function(t,e){let i=!1!==e.showStar,r=tt(t,"span",{class:"hw-triplet-chip__star"},[e.favorite?"★":"☆"]),l=tt(t,"span",{class:"hw-triplet-chip__label"},[e.label]),s=["hw-triplet-chip"];e.favorite&&s.push("hw-triplet-chip--favorite");let o=i?[r,l]:[l];return{root:tt(t,"div",{class:s.join(" "),role:"button",tabindex:"0","aria-label":e.title,"data-sugar":e.sugar,"data-base":e.base,"data-linker":e.linker,"data-triplet":e.label,"data-testid":`palette-triplet-${e.label}`,title:e.title,style:`background:${e.background};color:${e.textColor};`},o),star:r}}(this._doc,{sugar:t.sugar,base:t.base,linker:t.linker,label:i,title:n,background:_(s.background),textColor:s.text,favorite:o,showStar:this._opts.allowFavorites});return this._wireTripletChip(a,t),a}_wireTripletChip(t,e){t.addEventListener("mouseenter",t=>{let i=t,r=it(this._doc,"palette-triplet-tooltip","hw-palette-tooltip hw-triplet-tooltip");(function(t,e,i){for(;null!==e.firstChild;)e.removeChild(e.firstChild);e.appendChild(tt(t,"div",{class:"hw-tooltip__symbol"},[i.title]));let r=tt(t,"div",{class:"hw-tooltip__triplet"});for(let e of i.parts){let l=tt(t,"div",{class:"hw-tooltip__triplet-part"});if(l.appendChild(tt(t,"div",{class:"hw-tooltip__triplet-role"},[`${e.role}: ${e.symbol}`])),void 0!==e.name&&""!==e.name&&e.name!==e.symbol&&l.appendChild(tt(t,"div",{class:"hw-tooltip__name"},[e.name])),void 0!==e.rdkitSvg&&null!==e.rdkitSvg&&""!==e.rdkitSvg){let r={class:"hw-tooltip__rdkit"};void 0!==i.rdkitTestid&&(r["data-testid"]=i.rdkitTestid);let s=tt(t,"div",r);s.innerHTML=e.rdkitSvg,l.appendChild(s)}r.appendChild(l)}e.appendChild(r),void 0!==i.hint&&""!==i.hint&&e.appendChild(tt(t,"div",{class:"hw-tooltip__hint"},[i.hint]))})(this._doc,r,{title:ut(e.sugar,e.base,e.linker),parts:this._tripletTooltipParts(e),hint:"Click to add this triplet",rdkitTestid:"palette-triplet-tooltip-rdkit-svg"}),lt(r,"number"==typeof i.clientX?i.clientX:0,"number"==typeof i.clientY?i.clientY:0)}),t.addEventListener("mouseleave",()=>{st(this._doc.body.querySelector('[data-testid="palette-triplet-tooltip"]'))}),t.addEventListener("click",t=>{let i=t.target;if(this._opts.allowFavorites&&!0===i?.classList?.contains("hw-triplet-chip__star"))return this.setFavoriteTriplet(e.sugar,e.base,e.linker,!this.isFavoriteTriplet(e.sugar,e.base,e.linker)),void t.stopPropagation();this._editor.placeRnaTriplet(e.sugar,e.base,e.linker)}),t.addEventListener("keydown",t=>{let i=t;("Enter"===i.key||" "===i.key)&&this._editor.placeRnaTriplet(e.sugar,e.base,e.linker)})}_buildRnaDefaultChips(e){let i=this._pickSymbol(e.getMonomerSet(r.SUGAR),["r","R"]),l=this._pickSymbol(e.getMonomerSet(r.LINKER),["p","P"]),s=e.getMonomerSet(r.BASE);if(null===i||null===l)return null;let o=t._DEFAULT_TRIPLET_BASES.filter(t=>s.has(t));if(0===o.length)return null;let n=tt(this._doc,"div",{class:"hw-triplet-chips hw-triplet-chips--defaults","data-testid":"rna-default-triplets"});for(let t of o)n.appendChild(this._renderTripletChip({sugar:i,base:t,linker:l},e));return n}_tripletTooltipParts(t){let e=this._editor.getService().monomerLib,i=(t,i,r)=>{let l=e.getMonomerSet(i).get(r)??null;return{role:t,symbol:r,...void 0!==l?.name?{name:l.name}:{},rdkitSvg:null===l?null:this._paletteRdkitSvg(l)}};return[i("Sugar",r.SUGAR,t.sugar),i("Base",r.BASE,t.base),i("Linker",r.LINKER,t.linker)]}_pickSymbol(t,e){for(let i of e)if(t.has(i))return i;let i=t.keys().next();return!0===i.done?null:i.value}_restoreRnaSelection(){let t=this._pendingRnaSelection;if(this._pendingRnaSelection=null,null===t||null===this._rnaBuilder)return;let e=this._editor.getService().monomerLib;""!==t.sugar&&e.getMonomerSet(r.SUGAR).has(t.sugar)&&this._rnaBuilder.setField("sugar",t.sugar),""!==t.base&&e.getMonomerSet(r.BASE).has(t.base)&&this._rnaBuilder.setField("base",t.base),""!==t.linker&&e.getMonomerSet(r.LINKER).has(t.linker)&&this._rnaBuilder.setField("linker",t.linker)}_resolveFavoriteMonomers(t){let e=[];for(let i of this._favorites){let r=this._findMonomer(t,i);null!==r&&e.push(r)}return e}_findMonomer(t,e){for(let i of t.getPolymerTypes()){let r=t.getMonomer(i,e);if(null!==r)return r}return null}_buildPolymerPane(t,e,i,r){let s=e,o=this._monomersForPolymer(s,i);if(0===o.length)return;if(s===l.RNA){this._rnaBuilder=new mt(t,this._editor,{documentImpl:this._doc,paletteHooks:this._buildPaletteFilterHooks(),favoriteHooks:this._opts.allowFavorites?{isFavoriteTriplet:(t,e,i)=>this.isFavoriteTriplet(t,e,i),toggleFavoriteTriplet:(t,e,i)=>this.setFavoriteTriplet(t,e,i,!this.isFavoriteTriplet(t,e,i))}:null}),this._restoreRnaSelection();let e=this._buildRnaDefaultChips(i);null!==e&&t.appendChild(e);let r=this._groupRna(o);for(let[e,i]of r)0!==i.length&&t.appendChild(this._renderGroup(e,i));return}if(s===l.PEPTIDE&&this._opts.groupByNaturalAnalog){let e=this._groupByAnalog(o);for(let[i,r]of e){let e=""===i?"Other":i;t.appendChild(this._renderGroup(e,r))}return}let n=tt(this._doc,"div",{class:"hw-palette__group-tiles"}),a=this._editor.getNextAddSymbol(),h=this._sortByColor(o);for(let t of h){let e=this._biotype(t,s);n.appendChild(this._renderTile(t,e,a))}t.appendChild(n)}_renderGroup(t,e){let i=tt(this._doc,"div",{class:"hw-palette__group","data-natural-analog":t}),r=tt(this._doc,"div",{class:"hw-palette__group-header","data-testid":`palette-group-${t}`},[t]),l=tt(this._doc,"div",{class:"hw-palette__group-tiles"}),s=this._editor.getNextAddSymbol(),o=this._sortByColor(e);for(let t of o){let e=this._biotype(t,t.polymerType);l.appendChild(this._renderTile(t,e,s))}return i.appendChild(r),i.appendChild(l),i}_sortByColor(t){let e=this._theme(),i=t.map((t,i)=>{let r=function(t){let e=a(t);if(null===e)return{h:0,s:0,l:0};let[i,r,l]=u(e[0],e[1],e[2]);return{h:i,s:r,l}}(M(t,this._biotype(t,t.polymerType),e.colorTheme).background),l=0===r.s?1:0;return{m:t,idx:i,h:r.h,s:r.s,l:r.l,isGrey:l}});return i.sort((t,e)=>t.isGrey!==e.isGrey?t.isGrey-e.isGrey:t.h!==e.h?t.h-e.h:t.s!==e.s?t.s-e.s:t.l!==e.l?t.l-e.l:t.idx-e.idx),i.map(t=>t.m)}_monomersForPolymer(t,e){let i=e.getMonomerSymbolsByType(t),r=[];for(let l of i){let i=e.getMonomer(t,l);null!==i&&r.push(i)}return r.sort((t,e)=>t.symbol.localeCompare(e.symbol)),r}_groupByAnalog(t){let e=new Map;for(let i of t){let t=i.naturalAnalog??"",r=e.get(t);void 0===r&&(r=[],e.set(t,r)),r.push(i)}let i=[],r=Array.from(e.keys()).sort((t,e)=>""===t&&""!==e?1:""===e&&""!==t?-1:t.localeCompare(e));for(let t of r)i.push([t,e.get(t)]);return new Map(i)}_groupRna(t){let e=[],i=[],l=[],s=[];for(let o of t){let t=$(o);t===r.SUGAR?e.push(o):t===r.BASE?i.push(o):t===r.LINKER?l.push(o):s.push(o)}let o=new Map;return o.set("Backbones",e),o.set("Bases",i),o.set("Linkers",l),s.length>0&&o.set("Other",s),o}_renderTile(t,e,i){let r=this._favorites.has(t.symbol),l=null!==i&&i.symbol===t.symbol&&i.biotype===e,{root:s,star:o}=function(t,e){let i=M(e.monomer,e.biotype,e.theme.colorTheme),r=_(i.background),l=i.text,s=function(t,e){let i=b(t),r=b(e);return(Math.max(i,r)+.05)/(Math.min(i,r)+.05)}(l,r)<5,o=e.monomer.symbol,n=function(t){return t<=3?14:t<=6?11:t<=9?9:8}(o.length),a=`font-size:${n}px;${o.length>=10?"line-height:1.1;letter-spacing:-0.02em;":""}white-space:nowrap;overflow:hidden;text-overflow:ellipsis;max-width:80px;display:inline-block;`,h=tt(t,"span",{class:"hw-palette__star"},[e.favorite?"★":"☆"]),d=tt(t,"span",{class:"hw-palette__label",style:a},[o]),u=["hw-palette__tile"];e.primed&&u.push("hw-palette__tile--primed"),e.favorite&&u.push("hw-palette__tile--favorite"),s&&u.push("hw-palette__tile--low-contrast");let p=void 0!==e.monomer.name?`${o} — ${e.monomer.name}`:o,c=`background:${r};color:${l};width:100%;min-width:48px;padding:4px 6px;height:40px;box-sizing:border-box;overflow:hidden;text-overflow:ellipsis;`;return{root:tt(t,"div",{class:u.join(" "),draggable:"true",role:"button","aria-pressed":e.primed?"true":"false","aria-label":p,"data-symbol":o,"data-biotype":e.biotype,"data-bg":r,"data-raw-bg":i.background,"data-testid":`palette-tile-${o}`,title:p,style:c},[h,d]),star:h}}(this._doc,{monomer:t,biotype:e,theme:this._theme(),favorite:r,primed:l});return this._wireTile(s,o,t,e),s}_rdkit(){let t=this._editor.getService().options?.rdkitModule;return t??null}_paletteRdkitSvg(e){let i=e.smiles;if(void 0===i||""===i)return null;let r=this._rdkit();if(null===r)return null;let l=`${e.polymerType}:${e.symbol}`;if(this._paletteRdkitCache.has(l))return this._paletteRdkitCache.get(l)??null;let s=et(r,i,220,140);if(this._paletteRdkitCache.size>=t._PALETTE_RDKIT_CACHE_LIMIT){let t=this._paletteRdkitCache.keys().next().value;void 0!==t&&this._paletteRdkitCache.delete(t)}return this._paletteRdkitCache.set(l,s),s}_wireTile(t,e,i,r){t.addEventListener("mouseenter",t=>{let e=t,r=it(this._doc,"palette-tooltip","hw-palette-tooltip");rt(this._doc,r,{symbol:i.symbol,name:i.name??"",rdkitSvg:this._paletteRdkitSvg(i),rdkitTestid:"palette-tooltip-rdkit-svg"}),lt(r,"number"==typeof e.clientX?e.clientX:0,"number"==typeof e.clientY?e.clientY:0)}),t.addEventListener("mouseleave",()=>{st(this._doc.body.querySelector('[data-testid="palette-tooltip"]'))}),t.addEventListener("click",t=>{let e=t.target;if(this._opts.allowFavorites&&void 0!==e&&!0===e?.classList?.contains("hw-palette__star"))return this.setFavorite(i.symbol,!this._favorites.has(i.symbol)),void t.stopPropagation();if(null!==this._activeBiotypeFilter&&this._activeBiotypeFilter===r){let e=this._pickResolver;return this._teardownPickMode(),e?.(i.symbol),this._scrollActivePaneToTop(),void t.stopPropagation()}let l=this._editor.getSelection();if(l.atoms.size>0){let e=this._editor.getMol(),s=[];for(let t of l.atoms){let i=e.atoms.find(e=>e.id===t);void 0!==i&&s.push(i)}return 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