@genome-spy/app 0.28.0 → 0.28.1

package/LICENSE

@@ -0,0 +1,24 @@
+BSD 2-Clause License
+
+Copyright (c) 2018-2022 Kari Lavikka
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice, this
+   list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+   this list of conditions and the following disclaimer in the documentation
+   and/or other materials provided with the distribution.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

package/dist/index.js

@@ -1343,7 +1343,7 @@ void main() {
  * All rights reserved.
  *
  * BSD-3-Clause License: https://github.com/vega/vega-lite/blob/master/LICENSE
- */const FM="locus",zM="index";var RM=5;function jM(t){const e=t.type;return!t.bins&&(e===Ir||e===ji||e===Ui)}function Bg(t){return Re(t)&&![pt,zM,FM].includes(t)}function Og(t){return t||{warn:(e,...n)=>console.warn(e,...n)}}var UM=sa(["set","modified","clear","type","scheme","schemeExtent","schemeCount","domain","domainMin","domainMid","domainMax","domainRaw","domainImplicit","nice","zero","bins","range","rangeStep","round","reverse","interpolate","interpolateGamma","zoom","fp64","name"]);function Pg(t,e,n){n=Og(n);for(const r in t)if(!UM[r]){if(r==="padding"&&Bg(e.type))continue;ke(e[r])?e[r](t[r]):n.warn("Unsupported scale property: "+r)}XM(e,t,WM(e,t,VM(e,t,n)))}function HM(t,e){const n=GM(t),r=X(n);if(!r)throw new Error("Unknown scale type: "+n);const i=r();return Pg(t,i,e),i}function GM(t){var e=t.type,n="",r;return e===pt?pt+"-"+Ir:(QM(t)&&(r=t.rawDomain?t.rawDomain.length:t.domain?t.domain.length+ +(t.domainMid!=null):0,n=r===2?pt+"-":r===3?kr+"-":""),(n+e||Ir).toLowerCase())}function QM(t){const e=t.type;return Re(e)&&e!==$0&&e!==ep&&(t.scheme||t.range&&t.range.length&&t.range.every(ne))}function VM(t,e,n){if(!t.domain)return 0;n=Og(n);var r=YM(t,e.domainRaw,n);if(r>-1)return r;var i=e.domain,o=t.type,a=e.zero||e.zero===void 0&&jM(t),s,c;return i?(Bg(o)&&e.padding&&i[0]!==nt(i)&&(i=_M(o,i,e.range,e.padding,e.exponent,e.constant)),(a||e.domainMin!=null||e.domainMax!=null||e.domainMid!=null)&&(s=(i=i.slice()).length-1||1,a&&(i[0]>0&&(i[0]=0),i[s]<0&&(i[s]=0)),e.domainMin!=null&&(i[0]=e.domainMin),e.domainMax!=null&&(i[s]=e.domainMax),e.domainMid!=null&&(c=e.domainMid,(c<i[0]||c>i[s])&&n.warn("Scale domainMid exceeds domain min or max.",c),i.splice(s,0,c))),t.domain(Fg(o,i,n)),o===Lu&&t.unknown(e.domainImplicit?$c:void 0),e.nice&&t.nice&&t.nice(e.nice!==!0&&Ng(t,e.nice)||null),i.length):0}function YM(t,e,n){return e?(t.domain(Fg(t.type,e,n)),e.length):-1}function _M(t,e,n,r,i,o){var a=Math.abs(nt(n)-n[0]),s=a/(a-2*r),c=t===rn?Hd(e,null,s):t===Ui?yc(e,null,s,.5):t===ji?yc(e,null,s,i||1):t===Pa?tb(e,null,s,o||1):gc(e,null,s);return e=e.slice(),e[0]=c[0],e[e.length-1]=c[1],e}function Fg(t,e,n){if(sp(t)){var r=Math.abs(e.reduce(function(i,o){return i+(o<0?-1:o>0?1:0)},0));r!==e.length&&n.warn("Log scale domain includes zero: "+aa(e))}return e}function WM(t,e,n){let r=e.bins;if(r&&!We(r)){const i=(r.start==null||r.stop==null)&&t.domain(),o=r.start==null?i[0]:r.start,a=r.stop==null?nt(i):r.stop,s=r.step;s||ae("Scale bins parameter missing step property."),r=Xt(o,a+s,s)}return r?t.bins=r:t.bins&&delete t.bins,t.type===Ou&&(r?!e.domain&&!e.domainRaw&&(t.domain(r),n=r.length):t.bins=t.domain()),n}function XM(t,e,n){var r=t.type,i=e.round||!1,o=e.range;if(e.rangeStep!=null)o=ZM(r,e,n);else if(e.scheme&&(o=qM(r,e,n),ke(o))){if(t.interpolator)return t.interpolator(o);ae(`Scale type ${r} does not support interpolating color schemes.`)}if(o&&za(r))return t.interpolator(Ra(Pl(o,e.reverse),e.interpolate,e.interpolateGamma));o&&e.interpolate&&t.interpolate?t.interpolate(cp(e.interpolate,e.interpolateGamma)):ke(t.round)?t.round(i):ke(t.rangeRound)&&t.interpolate(i?zi:tn),o&&t.range(Pl(o,e.reverse))}function ZM(t,e,n){t!==rp&&t!==Bu&&ae("Only band and point scales support rangeStep.");var r=(e.paddingOuter!=null?e.paddingOuter:e.padding)||0,i=t===Bu?1:(e.paddingInner!=null?e.paddingInner:e.padding)||0;return[0,e.rangeStep*ku(n,i,r)]}function qM(t,e,n){var r=e.schemeExtent,i,o;return We(e.scheme)?o=Ra(e.scheme,e.interpolate,e.interpolateGamma):(i=e.scheme.toLowerCase(),o=Fu(i),o||ae(`Unrecognized scheme name: ${e.scheme}`)),n=t===np?n+1:t===Ou?n-1:t===Nu||t===tp?+e.schemeCount||RM:n,za(t)?zg(o,r,e.reverse):ke(o)?n4(zg(o,r),n):t===Lu?o:o.slice(0,n)}function zg(t,e,n){return ke(t)&&(e||n)?t4(t,Pl(e||[0,1],n)):t}function Pl(t,e){return e?t.slice().reverse():t}const Fl=de(",d");function KM(t){return t.chrom+":"+Fl(Math.floor(t.pos+1))}function JM(t,e){return t.chrom+":"+Fl(Math.floor(t.pos+1))+"-"+(t.chrom!=e.chrom?e.chrom+":":"")+Fl(Math.ceil(e.pos))}const $M="https://genomespy.app/data/genomes/";class e8{constructor(e){if(this.config=e,!this.config.contigs&&typeof this.config.name!="string")throw new Error("No name has been defined for the genome assembly!");this.chromosomes=[],this.cumulativeChromPositions=new Map,this.chromosomesByName=new Map,this.startByIndex=[],this.totalSize=0,this.config.contigs&&this.setChromSizes(this.config.contigs)}get name(){return this.config.name}async load(e){if(!this.config.contigs){this.config.baseUrl?this.baseUrl=/^http(s)?/.test(this.config.baseUrl)?this.config.baseUrl:e+"/"+this.config.baseUrl:this.baseUrl=$M;try{this.setChromSizes(t8(await Bi({baseURL:this.baseUrl}).load(`${this.config.name}/${this.name}.chrom.sizes`)))}catch(n){throw new Error(`Could not load chrom sizes: ${n.message}`)}}}setChromSizes(e){let n=0;this.startByIndex=[0];for(let r=0;r<e.length;r++){this.startByIndex.push(n);const i=e[r].size,o={...e[r],continuousStart:n,continuousEnd:n+i,continuousInterval:[n,n+i],index:r,number:r+1,odd:!(r&1)};this.chromosomes.push(o);const a=o.name.replace(/^chr/i,"");for(const s of["chr"+a,"CHR"+a,"Chr"+a,o.number,""+o.number,a,o.name])this.cumulativeChromPositions.set(s,n),this.chromosomesByName.set(s,o);n+=o.size}this.totalSize=n}getExtent(){return[0,this.totalSize]}toContinuous(e,n){let r=this.cumulativeChromPositions.get(e);if(r===void 0)throw new Error("Unknown chromosome/contig: "+e);return r+ +n}toChromosome(e){if(e>=this.totalSize)return;e=Math.floor(e);const n=Tn(this.startByIndex,e)-1;if(n>0&&n<=this.chromosomes.length)return this.chromosomes[n-1]}toChromosomal(e){const n=this.toChromosome(e);if(!!n)return{chrom:n.name,pos:Math.floor(e)-n.continuousStart}}getChromosome(e){return this.chromosomesByName.get(e)}formatInterval(e){return JM(...this.toChromosomalInterval(e))}toChromosomalInterval(e){const n=this.toChromosomal(e[0]+.5),r=this.toChromosomal(e[1]-.5);return r.pos+=1,[n,r]}toContinuousInterval(e){var i,o,a;let[n,r]=e;return r||(r=n),[this.toContinuous(n.chrom,(i=n.pos)!=null?i:0),this.toContinuous(r.chrom,(a=r.pos)!=null?a:(o=this.chromosomesByName.get(r.chrom))==null?void 0:o.size)]}parseInterval(e){const n=e.match(/^(chr[0-9A-Z]+)(?::([0-9,]+)(?:-(?:(chr[0-9A-Z]+):)?([0-9,]+))?)?$/);if(n){const r=n[1];if(n.slice(2).every(s=>s===void 0)){const s=this.getChromosome(r);return s?[s.continuousStart,s.continuousEnd]:void 0}const i=n[3]||r,o=parseInt(n[2].replace(/,/g,"")),a=n[4]!==void 0?parseInt(n[4].replace(/,/g,"")):o;return[this.toContinuous(r,o-1),this.toContinuous(i,a)]}}}function t8(t){return Ab(t).filter(e=>/^chr[0-9A-Z]+$/.test(e[0])).map(([e,n])=>({name:e,size:parseInt(n)}))}function Rg(t){return ze(t)&&"chrom"in t}function n8(t){return t.every(Rg)}class xo extends Array{constructor(){super(),this.type=void 0}extend(e){return this}extendAll(e){if(e instanceof xo&&e.type!=this.type)throw new Error(`Cannot combine different types of domains: ${this.type} and ${e.type}`);for(const n of e)this.extend(n);return this}extendAllWithAccessor(e,n){for(const r of e)this.extend(n(r));return this}}class zl extends xo{constructor(){super(),this.type="quantitative"}extend(e){return e==null||Number.isNaN(e)?this:(e=+e,this.length?e<this[0]?this[0]=e:e>this[1]&&(this[1]=e):(this.push(e),this.push(e)),this)}}class jg extends xo{constructor(){super(),this.type="ordinal",this.uniqueValues=new Set}extend(e){return e==null||Number.isNaN(e)?this:(this.uniqueValues.has(e)||(this.uniqueValues.add(e),this.push(e)),this)}}class Ug extends jg{constructor(){super(),this.type="nominal"}}class r8 extends xo{constructor(e){super();let n=0;for(let r=1;r<e.length;r++)n+=Math.sign(e[r]-e[r-1]);if(Math.abs(n)!=e.length-1)throw new Error("Piecewise domain must be strictly increasing or decreasing: "+JSON.stringify(e));e.forEach(r=>this.push(r))}extend(e){if(this.includes(e))return this;throw new Error("Piecewise domains are immutable and cannot be unioned!")}}const Hg={quantitative:zl,index:zl,locus:zl,nominal:Ug,ordinal:jg};function Gg(t,e){if(t=="quantitative"&&i8(e)){const n=new r8(e);return n.type=t,n}else if(Hg[t]){const n=new Hg[t];return n.type=t,e&&n.extendAll(e),n}throw new Error("Unknown type: "+t)}function i8(t){return t&&t.length>0&&t.length!=2&&t.every(e=>typeof e=="number")}function Qg(t){return((t*=2)<=1?t*t:--t*(2-t)+1)/2}function o8(t){return--t*t*t+1}function a8(t){return(Math.pow(2,-10*t)-.0009765625)*1.0009775171065494}function s8(t){return 1-a8(t)}const Vg="quantitative",Rl="ordinal",jl="nominal",Yg="locus",c8="index";class u8{constructor(e){this.channel=e,this.members=[],this.type=null,this._zoomExtent=void 0,this._domainListeners=new Set,this.name=void 0,this._scale=void 0}addEventListener(e,n){if(e!="domain")throw new Error("Unsupported event type: "+e);this._domainListeners.add(n)}removeEventListener(e,n){if(e!="domain")throw new Error("Unsupported event type: "+e);this._domainListeners.delete(n)}_notifyDomainListeners(){for(const e of this._domainListeners.values())e({type:"domain",scaleResolution:this})}pushUnitView(e,n){var a;const r=Xu(e,n),i=r.type,o=(a=r==null?void 0:r.scale)==null?void 0:a.name;if(o){if(this.name!==void 0&&o!=this.name)throw new Error(`Shared scales have conflicting names: "${o}" vs. "${this.name}"!`);this.name=o}if(!this.type)this.type=i;else if(i!==this.type&&!oo(n))throw new Error(`Can not use shared scale for different data types: ${this.type} vs. ${i}. Use "resolve: independent" for channel ${this.channel}`);this.members.push({view:e,channel:n})}isExplicitDomain(){return!!this.getConfiguredDomain()}_getMergedScaleProps(){return _r(this,"mergedScaleProps",()=>{const e=this.members.map(n=>Xu(n.view,n.channel).scale).filter(n=>n!==void 0);return bs(e,"scale",["domain"])})}getScaleProps(){return _r(this,"scaleProps",()=>{var i,o;const e=this._getMergedScaleProps();if(e===null||e.type=="null")return{type:"null"};const n={...this._getDefaultScaleProperties(this.type),...e};n.type||(n.type=l8(this.channel,this.type));const r=this.getInitialDomain();return r&&r.length>0?n.domain=r:on(n.type)&&(n.domain=new Ug),!n.domain&&n.domainMid!==void 0&&(n.domain=[(i=n.domainMin)!=null?i:0,(o=n.domainMax)!=null?o:1]),this.channel=="y"&&on(n.type)&&n.reverse==null&&(n.reverse=!0),n.range&&n.scheme&&delete n.scheme,!("zoom"in n)&&["index","locus"].includes(n.type)&&(n.zoom=!0),f8(n,this.channel),n})}getInitialDomain(){var e;return(e=this.getConfiguredDomain())!=null?e:this.type==Yg?this.getGenome().getExtent():this.getDataDomain()}getConfiguredDomain(){return this._reduceDomains(e=>oo(e.channel)?void 0:e.view.getConfiguredDomain(e.channel))}getDataDomain(){return this._reduceDomains(e=>oo(e.channel)?void 0:e.view.extractDataDomain(e.channel))}reconfigure(){if(this._scale&&this._scale.type!="null"){mg(this,"scaleProps");const e=this.getScaleProps();Pg(e,this._scale),Re(this._scale.type)&&(this._zoomExtent=this._getZoomExtent())}}getScale(){if(this._scale)return this._scale;const e=this.getScaleProps(),n=HM(e);return this._scale=n,Qx(n)&&n.genome(this.getGenome()),Re(n.type)&&(this._zoomExtent=this._getZoomExtent()),n}getDomain(){return this.getScale().domain()}getComplexDomain(){var e,n;return(n=(e=this.getGenome())==null?void 0:e.toChromosomalInterval(this.getDomain()))!=null?n:this.getDomain()}isZoomed(){return this.isZoomable()&&Ip(this.getInitialDomain(),this.getDomain())}isZoomable(){if(!Vp(this.channel))return!1;const e=this.getScale().type;return["linear","locus","index","log","pow","sqrt"].includes(e)?!!this.getScaleProps().zoom:!1}zoom(e,n,r){if(!this.isZoomable())return!1;const i=this.getScale(),o=i.domain();let a=[...o],s=i.invert(n);switch(this.getScaleProps().reverse&&(r=-r),"align"in i&&(s+=i.align()),i.type){case"linear":case"index":case"locus":a=J2(a,r||0),a=gc(a,s,e);break;case"log":a=$2(a,r||0),a=Hd(a,s,e);break;case"pow":case"sqrt":{const c=i;a=eb(a,r||0,c.exponent()),a=yc(a,s,e,c.exponent());break}default:throw new Error("Zooming is not implemented for: "+i.type)}return this._zoomExtent&&(a=nb(a,this._zoomExtent[0],this._zoomExtent[1])),[0,1].some(c=>a[c]!=o[c])?(i.domain(a),this._notifyDomainListeners(),!0):!1}async zoomTo(e,n=!1){var s;if(ia(n)&&(n=n?700:0),!this.isZoomable())throw new Error("Not a zoomable scale!");const r=this.fromComplexInterval(e),i=(s=this.members[0])==null?void 0:s.view.context.animator,o=this.getScale(),a=o.domain();if(n>0&&a.length==2){const c=a[1]-a[0],u=a[0]+c/2,f=r[1]-r[0],l=r[0]+f/2,d=I0([u,0,c],[l,0,f]).rho(.7);await i.transition({duration:n/1e3*d.duration,easingFunction:Qg,onUpdate:h=>{const[p,,m]=d(h);o.domain([p-m/2,p+m/2]),this._notifyDomainListeners()}}),o.domain(r),this._notifyDomainListeners()}else o.domain(r),i==null||i.requestRender(),this._notifyDomainListeners()}resetZoom(){if(!this.isZoomable())throw new Error("Not a zoomable scale!");const e=this.getDomain(),n=this.getInitialDomain();return[0,1].some(r=>n[r]!=e[r])?(this._scale.domain(n),this._notifyDomainListeners(),!0):!1}getZoomLevel(){return this.isZoomable()?oa(this._zoomExtent)/oa(this.getScale().domain()):1}_getZoomExtent(){const e=this.getScaleProps(),n=e.zoom;if(d8(n)&&We(n.extent))return this.fromComplexInterval(n.extent);if(n)return e.type=="locus"?this.getGenome().getExtent():this._scale.domain()}_getDefaultScaleProperties(e){const n=this.channel,r={};return this.isExplicitDomain()&&(r.zero=!1),io(n)?r.nice=!this.isExplicitDomain():qn(n)?r.scheme=e==jl?"tableau10":e==Rl?"blues":"viridis":_a(n)?r.range=_p(n):n=="size"?r.range=[0,400]:n=="angle"&&(r.range=[0,360]),r}getGenome(){var n;if(this.type!=="locus")return;const e=(n=this.members[0].view.context.genomeStore)==null?void 0:n.getGenome();if(!e)throw new Error("No genome has been defined!");return e}invertToComplex(e){const n=this.getScale();if("invert"in n){const r=n.invert(e);return this.toComplex(r)}else throw new Error("The scale does not support inverting!")}toComplex(e){const n=this.getGenome();return n?n.toChromosomal(e):e}fromComplex(e){return Rg(e)?this.getGenome().toContinuous(e.chrom,e.pos):e}fromComplexInterval(e){return this.type==="locus"&&n8(e)?this.getGenome().toContinuousInterval(e):e}_getViewPaths(){return this.members.map(e=>e.view.getPathString()).join(", ")}_reduceDomains(e){const n=this.members.map(e).filter(r=>!!r);if(n.length)return n.reduce((r,i)=>r.extendAll(i))}}function l8(t,e){if(e==c8||e==Yg){if(Vp(t))return e;throw new Error(`${t} does not support ${e} data type. Only positional channels do.`)}const n={x:["band","band","linear"],y:["band","band","linear"],size:[void 0,"point","linear"],opacity:[void 0,"point","linear"],fillOpacity:[void 0,"point","linear"],strokeOpacity:[void 0,"point","linear"],color:["ordinal","ordinal","linear"],fill:["ordinal","ordinal","linear"],stroke:["ordinal","ordinal","linear"],strokeWidth:[void 0,void 0,"linear"],shape:["ordinal","ordinal",void 0],dx:[void 0,void 0,"null"],dy:[void 0,void 0,"null"],angle:[void 0,void 0,"linear"]},i=["uniqueId","facetIndex","semanticScore","search","text","sample"].includes(t)?"null":n[t]?n[t][[jl,Rl,Vg].indexOf(e)]:e==Vg?"linear":"ordinal";if(i===void 0)throw new Error(`Channel "${t}" is not compatible with "${e}" data type. Use of a proper scale may be needed.`);return i}function f8(t,e){io(e)&&t.type!=="ordinal"&&(t.range=[0,1]),e=="opacity"&&Re(t.type)&&(t.clamp=!0)}function d8(t){return ze(t)}function Ul(...t){for(const e of t)if(e!==void 0)return e}class h8{constructor(e){this.channel=e,this.members=[]}get scaleResolution(){var e;return(e=je(this.members))==null?void 0:e.view.getScaleResolution(this.channel)}pushUnitView(e,n){const r=e.getScaleResolution(this.channel);if(!r)throw new Error("Cannot find a scale resolution!");if(this.scaleResolution&&r!==this.scaleResolution)throw new Error("Shared axes must have a shared scale!");this.members.push({view:e,channel:n})}getAxisProps(){return _r(this,"axisProps",()=>{const e=this.members.map(n=>{const r=n.view.mark.encoding[n.channel];return"axis"in r&&r.axis});return e.length>0&&e.some(n=>n===null)?null:bs(e.filter(n=>n!==void 0),"axis",["title"])})}getTitle(){const e=o=>{var s;const a=Xu(o.view,o.channel);if(!at(a))return{member:o,explicitTitle:Ul((s=a.axis)==null?void 0:s.title,a.title),implicitTitle:Ul(Zn(a)?a.field:void 0,Zu(a)?a.expr:void 0)}},n=this.members.map(e),r=n.filter(o=>{var a;if(oo(o.member.channel)&&!o.explicitTitle){const s=Pr(o.member.channel);return((a=n.find(c=>c.member.view==o.member.view&&c.member.channel==s))==null?void 0:a.explicitTitle)===void 0}return!0}),i=new Set(r.map(o=>Ul(o.explicitTitle,o.implicitTitle)).filter(ne));return i.size?[...i].join(", "):null}}class _g extends Ig{constructor(e,n,r,i){super(e,n,r,i),this.spec=e}}class Pt extends rr{constructor(e,n,r,i){super(e,n,r,i),this.spec=e,this.children=(e.layer||[]).map((o,a)=>{if(Yl(o)||Vl(o))return n.createView(o,this,"layer"+a);throw new Error("LayerView accepts only unit or layer specs as children!")})}*[Symbol.iterator](){for(const e of this.children)yield e}render(e,n,r={}){if(!!this.isVisible()){e.pushView(this,n);for(const i of this.children)i.render(e,n,r);e.popView(this)}}propagateInteractionEvent(e){this.handleInteractionEvent(void 0,e,!0),this.children.length&&this.children.at(-1).propagateInteractionEvent(e),!e.stopped&&this.handleInteractionEvent(void 0,e,!1)}}class Wg{constructor(e,n){this.n=e,this.maxCols=n!=null?n:1/0}get nRows(){return this.maxCols==1/0?1:Math.ceil(this.n/this.maxCols)}get nCols(){return Math.min(this.n,this.maxCols)}get rowIndices(){const e=[],n=this.nCols,r=this.nRows;for(let i=0;i<r;i++){const o=[];e.push(o);for(let a=0;a<n;a++){const s=i*n+a;s<this.n&&o.push(s)}}return e}get colIndices(){const e=[],n=this.nCols,r=this.nRows;for(let i=0;i<n;i++){const o=[];e.push(o);for(let a=0;a<r;a++){const s=a*n+i;s<this.n&&o.push(s)}}return e}getCellIndex(e,n){let r=0;if(this.maxCols==1/0)r=n==0?e:void 0;else{if(e>=this.maxCols)return;r=n*this.nCols+e}return r<this.n?r:void 0}getCellCoords(e){if(!(e<0||e>=this.n))return[e%this.nCols,Math.floor(e/this.nCols)]}}function Ft(t){return()=>t}const 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s=or(this.axisProps.orient),c=this.getScaleResolution(s).getGenome();this.findChildByName(Kg).getDynamicDataSource=()=>new qg(()=>c.chromosomes)}this.blockEncodingInheritance=!0}getOrient(){return this.axisProps.orient}getSize(){const e={px:this.getPerpendicularSize()},n={grow:1};return $g[this.axisProps.orient]=="x"?new tr(n,e):new tr(e,n)}getPerpendicularSize(){return Ql(this.axisProps)}getDynamicDataSource(){return this.tickSource}_updateAxisData(){const e=or(this.axisProps.orient),n=this.getScaleResolution(e).getScale(),r=n.domain();if(Ip(r,this.previousScaleDomain)&&!this.axisUpdateRequested)return;this.previousScaleDomain=r;const i=this.ticks,o=b8(this.axisProps,n,this.axisLength,i);o!==i&&(this.ticks=o,this.tickSource.loadSynchronously()),this.axisUpdateRequested=!1}onBeforeRender(){super.onBeforeRender(),this._updateAxisData()}render(e,n,r={}){!this.isVisible()||(this.axisLength=n[Jg[or(this.getOrient())]],super.render(e,n,r))}isPickingSupported(){return!1}}function Ql(t){const 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d={name:"ticks_and_labels",encoding:{[n]:{field:"value",type:"quantitative"}},layer:[]};return e.ticks&&d.layer.push(c()),e.labels&&d.layer.push(s()),d},l={[Jg[Hl(or(e.orient))]]:e.extent,data:{dynamicCallbackSource:!0},layer:[]};return e.domain&&l.layer.push(a()),(e.ticks||e.labels)&&l.layer.push(f()),e.title&&l.layer.push(u()),l}const x8={...t1,chromTicks:!0,chromTickSize:18,chromTickWidth:1,chromTickColor:"#989898",chromTickDash:[4,2],chromTickDashOffset:1,chromLabels:!0,chromLabelFontSize:13,chromLabelFontWeight:"normal",chromLabelFontStyle:"normal",chromLabelColor:"black",chromLabelAlign:"left",chromLabelPadding:7};function w8(t){const e={...t,extent:Ql(t)},n=or(e.orient),r=Hl(n),i=e.orient=="bottom"||e.orient=="left"?1:0,o=()=>({name:"chromosome_ticks",mark:{type:"rule",strokeDash:t.chromTickDash,strokeDashOffset:t.chromTickDashOffset,[r]:i,[r+"2"]:i-e.chromTickSize/e.extent*(i?1:-1),color:t.chromTickColor,size:e.chromTickWidth}}),a=()=>{let u;switch(e.orient){case"top":u={y:0,angle:0,paddingX:4,dy:-e.chromLabelPadding,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"bottom":u={y:1,angle:0,paddingX:4,dy:e.chromLabelPadding+e.chromLabelFontSize*.73,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"left":u={x:1,angle:-90,paddingY:4,dy:-e.chromLabelPadding,viewportEdgeFadeWidthBottom:20,viewportEdgeFadeWidthTop:20,viewportEdgeFadeDistanceBottom:-20,viewportEdgeFadeDistanceTop:-10};break;case"right":u={x:0,angle:90,align:"right",paddingY:4,dy:-e.chromLabelPadding};break;default:u={}}return{name:"chromosome_labels",mark:{type:"text",size:e.chromLabelFontSize,font:e.chromLabelFont,fontWeight:e.chromLabelFontWeight,fontStyle:e.chromLabelFontStyle,color:e.chromLabelColor,align:t.chromLabelAlign,baseline:"alphabetic",clip:!1,...u},encoding:{[n+"2"]:{field:"continuousEnd",type:"locus"},text:{field:"name"}}}};let s;switch(e.orient){case"bottom":case"top":s={};break;case"left":s={labelAngle:-90,labelAlign:"center",labelPadding:6};break;case"right":s={labelAngle:90,labelAlign:"center",labelPadding:6};break;default:s={}}const c=n1({...t,...s});if(t.chromTicks||t.chromLabels){const u={name:Kg,data:{dynamicCallbackSource:!0},encoding:{[n]:{field:"continuousStart",type:"locus",band:0}},layer:[]};if(t.chromTicks&&u.layer.push(o()),t.chromLabels){u.layer.push(a());let f;c.layer.filter(l=>l.name=="ticks_and_labels").forEach(l=>l.layer.filter(d=>d.name=="labels").forEach(d=>{f=d.mark})),f&&(e.orient=="top"||e.orient=="bottom"?(f.viewportEdgeFadeWidthLeft=30,f.viewportEdgeFadeDistanceLeft=40):(f.viewportEdgeFadeWidthBottom=30,f.viewportEdgeFadeDistanceBottom=40))}c.layer.push(u)}return c}const r1={anchor:"middle",frame:"group",offset:10,orient:"top",align:void 0,angle:0,baseline:"alphabetic",dx:0,dy:0,color:void 0,font:void 0,fontSize:12,fontStyle:"normal",fontWeight:"normal"},C8={orient:"left",anchor:"middle",align:"right",baseline:"middle",angle:0,fontSize:12},S8={orient:"top",anchor:"start",align:"left",baseline:"top",offset:-10,dx:10,fontSize:12},E8={start:0,middle:.5,end:1},D8={start:"left",middle:"center",end:"right"};function M8(t){var u,f,l;if(!t)return;const e=ne(t)?{text:t}:t;if(!e.text||e.orient=="none")return;const n=(u={"track-title":C8,overlay:S8}[e.style])!=null?u:{},r={...r1,...n,...e};let i={},o={x:0,y:0};const a=E8[(f=r.anchor)!=null?f:"middle"];switch(r.orient){case"top":o={x:a,y:1},i={baseline:"alphabetic",angle:0};break;case"right":o={x:1,y:1-a},i={baseline:"alphabetic",angle:90};break;case"bottom":o={x:a,y:0},i={baseline:"top",angle:0};break;case"left":o={x:0,y:a},i={baseline:"alphabetic",angle:-90};break}const s={...r1,...i,...n,...e},c={xOffset:0,yOffset:0};switch(r.orient){case"top":c.yOffset=-s.offset;break;case"right":c.xOffset=s.offset;break;case"bottom":c.yOffset=s.offset;break;case"left":c.xOffset=-s.offset;break}return{configurableVisibility:!1,data:{values:[{}]},mark:{type:"text",tooltip:null,clip:!1,...o,...c,text:s.text,align:(l=s.align)!=null?l:D8[s.anchor],angle:s.angle,baseline:s.baseline,dx:s.dx,dy:s.dy,color:s.color,font:s.font,size:s.fontSize,fontStyle:s.fontStyle,fontWeight:s.fontWeight}}}function i1(t,e,n,r){if(t.type=="wheel"){t.uiEvent.preventDefault();const i=t.uiEvent,o=i.deltaMode?120:1;let{x:a,y:s}=t.point;if(r){const c=r.mark.encoders;c.x&&!c.x2&&(a=+c.x(r.datum)*e.width+e.x),c.y&&!c.y2&&(s=(1-+c.y(r.datum))*e.height+e.y)}Math.abs(i.deltaX)<Math.abs(i.deltaY)?n({x:a,y:s,xDelta:0,yDelta:0,zDelta:i.deltaY*o/300}):n({x:a,y:s,xDelta:-i.deltaX*o,yDelta:0,zDelta:0})}else if(t.type=="mousedown"&&t.uiEvent.button===0){const i=t.uiEvent;i.preventDefault();let o=i;const 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Cannot create a view!");return n.length==1}}function Vl(t){return"mark"in t&&(ne(t.mark)||ze(t.mark))}function Yl(t){return"layer"in t&&ze(t.layer)}function a1(t){return t&&(Vl(t)||Yl(t))&&"aggregateSamples"in t}function L8(t){return"import"in t}function _l(t){return"vconcat"in t&&We(t.vconcat)}function B8(t){return"hconcat"in t&&We(t.hconcat)}function Wl(t){return"concat"in t&&We(t.concat)}const O8={point:oM,rect:$D,rule:cM,link:dM,text:vM};class be extends rr{constructor(e,n,r,i){super(e,n,r,i),this.spec=e;const o=O8[this.getMarkType()];if(o)this.mark=new o(this);else throw new Error(`No such mark: ${this.getMarkType()}`);this.sampleAggregateViews=[],this._initializeAggregateViews(),this.coords=void 0}*[Symbol.iterator](){for(const e of this.sampleAggregateViews)yield e}replaceChild(e,n){const r=this.sampleAggregateViews.indexOf(e);if(r>=0)this.sampleAggregateViews[r]=n;else throw new Error("Not my child view!")}render(e,n,r={}){!this.isVisible()||(this.coords=n,e.pushView(this,n),e.renderMark(this.mark,r),e.popView(this))}getMarkType(){return typeof this.spec.mark=="object"?this.spec.mark.type:this.spec.mark}resolve(e){var r;const n=this.mark.encoding;for(const[i,o]of Object.entries(n)){if(!Ke(o))continue;let a=Pr((r=o.resolutionChannel)!=null?r:i);if(e=="axis"&&!io(a))continue;let s=this;for(;s.parent instanceof rr&&["shared","excluded"].includes(s.parent.getConfiguredOrDefaultResolution(a,e))&&s.getConfiguredOrDefaultResolution(a,e)!="excluded";)s=s.parent;s.resolutions[e][a]||(s.resolutions[e][a]=e=="scale"?new u8(a):new h8(a)),io(i)?s.resolutions[e][a].pushUnitView(this,i):e=="scale"&&s.resolutions[e][a].pushUnitView(this,i)}}getAccessor(e){return this._cache("accessor/"+e,()=>{const n=this.mark.encoding;if(n&&n[e])return this.context.accessorFactory.createAccessor(n[e])})}getFacetAccessor(e){const n=this.getAccessor("sample");return n||super.getFacetAccessor(this)}getCollector(){return this.context.dataFlow.findCollectorByKey(this)}_validateDomainQuery(e){if(oo(e))throw new Error(`getDomain(${e}), must only be called for primary channels!`);const n=this.mark.encoding[e];if(!Ke(n))throw new Error("The channel has no scale, cannot get domain!");return n}getConfiguredDomain(e){var i,o;const n=this._validateDomainQuery(e),r=n&&n.scale&&n.scale.domain;if(r){const a=this.getScaleResolution((i=n.resolutionChannel)!=null?i:e);return Gg((o=n.type)!=null?o:"nominal",a.fromComplexInterval(r))}}extractDataDomain(e){var s;const r=(s=this._validateDomainQuery(e).type)!=null?s:"nominal",i=c=>{let u;const f=this.mark.encoding[c];if(f){const l=this.context.accessorFactory.createAccessor(f);if(l)if(u=Gg(r),l.constant)u.extend(l({}));else{const d=this.getCollector();d!=null&&d.completed&&d.visitData(h=>u.extend(l(h)))}}return u};let o=i(e);const a=qu[e];if(a){const c=i(a);c&&o.extendAll(c)}return o}getZoomLevel(){const e=n=>{var r,i;return(i=(r=this.getScaleResolution(n))==null?void 0:r.getZoomLevel())!=null?i:1};return ro.map(e).reduce((n,r)=>n*r,1)}_initializeAggregateViews(){var e,n;if(a1(this.spec))for(const r of this.spec.aggregateSamples){const i=(e=r.transform)!=null?e:[];i.length&&je(i).type!="collect"&&i.push({type:"collect"}),i.push({type:"mergeFacets"}),r.transform=i,r.encoding={...(n=r.encoding)!=null?n:{},sample:null};const o=this.context.createView(r,this,"summaryView");o.getFacetFields=a=>{},this.sampleAggregateViews.push(o)}}propagateInteractionEvent(e){e.target=this}getDefaultResolution(e,n){return e=="x"?"shared":"independent"}}function*Xl(t,e=[]){for(const[n,r]of t.entries())if(r instanceof Map)for(const i of Xl(r,[...e,n]))yield i;else yield[[...e,n],r]}class Zr extends ue{constructor(e){super(),this.params=e!=null?e:{type:"collect"},this.observers=[],this.facetBatches=void 0,this._init()}_init(){this._data=[],this.facetBatches=new In([],JSON.stringify),this.facetBatches.set(void 0,this._data)}reset(){super.reset(),this._init()}handle(e){this._data.push(e)}beginBatch(e){rM(e)&&(this._data=[],this.facetBatches.set(qe(e.facetId),this._data))}complete(){var i,o;const e=(i=this.params)==null?void 0:i.sort,n=e?Gd(e.field,e.order):void 0,r=a=>{n&&a.sort(n)};if((o=this.params.groupby)!=null&&o.length){if(this.facetBatches.size>1)throw new Error("TODO: Support faceted data!");const a=this.params.groupby.map(c=>q(c)),s=gi(this._data,...a);this.facetBatches.clear();for(const[c,u]of Xl(s))this.facetBatches.set(c,u)}for(const a of this.facetBatches.values())r(a);if(this.children.length)for(const[a,s]of this.facetBatches.entries()){if(a){const c={type:"facet",facetId:a};for(const u of this.children)u.beginBatch(c)}for(const c of s)this._propagate(c)}super.complete();for(const a of this.observers)a(this)}getData(){switch(this._checkStatus(),this.facetBatches.size){case 0:return[];case 1:return[...this.facetBatches.values()][0];default:{const e=this.facetBatches;return{[Symbol.iterator]:function*(){for(const r of e.values())for(let i=0;i<r.length;i++)yield r[i]}}}}}visitData(e){this._checkStatus();for(const n of this.facetBatches.values())for(let r=0;r<n.length;r++)e(n[r])}getItemCount(){let e=0;for(const n of this.facetBatches.values())e+=n.length;return e}_checkStatus(){if(!this.completed)throw new Error("Data propagation is not completed! No data are available.")}}class wo{constructor(){this.ids=[],this.values=[],this.length=0}clear(){this.length=0}push(e,n){let r=this.length++;for(;r>0;){const i=r-1>>1,o=this.values[i];if(n>=o)break;this.ids[r]=this.ids[i],this.values[r]=o,r=i}this.ids[r]=e,this.values[r]=n}pop(){if(this.length===0)return;const e=this.ids[0];if(this.length--,this.length>0){const n=this.ids[0]=this.ids[this.length],r=this.values[0]=this.values[this.length],i=this.length>>1;let o=0;for(;o<i;){let a=(o<<1)+1;const s=a+1;let c=this.ids[a],u=this.values[a];const f=this.values[s];if(s<this.length&&f<u&&(a=s,c=this.ids[s],u=f),u>=r)break;this.ids[o]=c,this.values[o]=u,o=a}this.ids[o]=n,this.values[o]=r}return e}peek(){if(this.length!==0)return this.ids[0]}peekValue(){if(this.length!==0)return this.values[0]}shrink(){this.ids.length=this.values.length=this.length}}class P8 extends ue{get behavior(){return Ot}constructor(e){super(),this.params=e,this.startAccessor=q(e.start),this.endAccessor=q(e.end),this.chromAccessor=e.chrom?q(e.chrom):n=>{},this.weightAccessor=e.weight?q(e.weight):n=>1,this.as={coverage:e.as||"coverage",start:e.asStart||e.start,end:e.asEnd||e.end,chrom:e.asChrom||e.chrom},this.createSegment=new Function("start","end","coverage","chrom","return {"+Object.entries(this.as).filter(([n,r])=>r).map(([n,r])=>`${JSON.stringify(r)}: ${n}`).join(", ")+"};"),this.ends=new wo}reset(){super.reset(),this.initialize()}initialize(){const e=this.as.coverage,n=this.as.end,r=this.as.chrom,i=this.startAccessor,o=this.endAccessor,a=this.chromAccessor,s=this.weightAccessor;let c,u,f,l=0,d;const h=this.ends;h.clear();const p=(g,y,A)=>{if(g==y)return;let x=!1;c&&(c[e]===A?(c[n]=y,x=!0):c[e]!=0&&this._propagate(c)),x||(c=this.createSegment(g,y,A,f))},m=()=>{let g;for(;(g=h.peekValue())!==void 0;)p(d,g,l),d=g,l-=h.pop();d=void 0,c&&(this._propagate(c),c=void 0)};this.handle=g=>{const y=i(g);let A;for(;(A=h.peekValue())!==void 0&&A<y;)p(d,A,l),d=A,l-=h.pop();if(r){let w=a(g);w!==u&&(m(),f=w,u=f)}d!==void 0&&p(d,y,l),d=y;const x=s(g);l+=x,h.push(x,o(g))},this.complete=()=>{m(),super.complete()}}}function F8(t,e,n=0,r=t.length){const i=new wo,o=r-n;let a;for(a=0;a<e&&a<o;a++)i.push(a,t[n+a]);for(;a<o;a++){const u=t[n+a];u>=i.peekValue()&&(i.push(a,u),i.pop())}const s=[];let c;for(;(c=i.pop())!==void 0;)s.push(n+c);return s.reverse()}class z8{constructor(e,n=-1/0,r=1/0){this.maxSize=e,this.lowerLimit=n,this.upperLimit=r;const i=this.maxSize*2+1;this.lowerLimits=new Float64Array(i),this.upperLimits=new Float64Array(i),this.lowerChildren=new Int32Array(i),this.upperChildren=new Int32Array(i),this.reset()}reset(){this.lowerLimits.fill(0),this.upperLimits.fill(0),this.lowerChildren.fill(0),this.upperChildren.fill(0),this.n=1,this.lowerLimits[0]=this.lowerLimit,this.upperLimits[0]=this.upperLimit}_findSlot(e,n,r=0){if(e>=this.lowerLimits[r]&&n<=this.upperLimits[r]){const i=this.lowerChildren[r];if(i){const o=this._findSlot(e,n,i);return o>=0?o:this._findSlot(e,n,this.upperChildren[r])}else return r}else return-1}reserve(e,n){if(n-e<=0)throw new Error("Cannot reserve an empty or negative-size slot!");if(this.n+1>this.lowerLimits.length)return!1;const r=this._findSlot(e,n);if(r<0)return!1;const i=this.n++,o=this.n++;return this.lowerLimits[i]=this.lowerLimits[r],this.upperLimits[i]=e,this.lowerLimits[o]=n,this.upperLimits[o]=this.upperLimits[r],this.lowerChildren[r]=i,this.upperChildren[r]=o,!0}}class R8 extends ue{constructor(e,n){var i,o;if(super(),this.params=e,this._data=[],this.channel=(i=e.channel)!=null?i:"x",!["x","y"].includes(this.channel))throw new Error("Invalid channel: 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0:a[this.channel=="x"?"width":"height"];if(!n)return;for(const s of this.reservationMaps.values())s.reset();const r=e.domain(),i=70,o=F8(this._scores,i,this.posBisector.left(this._data,r[0]),this.posBisector.right(this._data,r[1]));for(const s of o){const c=this._data[s],u=e(this.posAccessor(c))*n,f=this.widthAccessor(c)/2+this.padding;this.reservationMaps.get(this.laneAccessor(c)).reserve(u-f,u+f)&&this._propagate(c)}super.complete()}reset(){super.reset(),this._data=[],this.groups=new Map}handle(e){this._data.push(e)}}class j8 extends ue{constructor(e){super(),this.params=e,this.predicate=void 0}initialize(){this.predicate=Wu(this.params.expr,this.getGlobalObject())}handle(e){this.predicate(e)&&this._propagate(e)}}const U8="0".charCodeAt(0);function*H8(t,e=","){const n=e.charCodeAt(0);let r=0;for(let i=0;i<t.length;i++){const o=t.charCodeAt(i);o==n?(yield r,r=0):r=r*10+o-U8}yield r}class G8 extends ue{get behavior(){return Ot}constructor(e){var a,s;super();const n=q((a=e.exons)!=null?a:"exons"),r=q((s=e.start)!=null?s:"start"),[i,o]=e.as||["exonStart","exonEnd"];this.handle=c=>{let u=r(c),f=u,l=!0;const d=n(c);for(const h of H8(d)){if(l)f=u+h;else{u=f+h;const p=Object.assign({},c);p[i]=f,p[o]=u,this._propagate(p)}l=!l}}}}class Q8 extends ue{get behavior(){return Ot}constructor(e){super();const n=qe(e.field).map(o=>q(o)),r=qe(e.separator),i=qe(e.as||e.field);if(n.length!==r.length||n.length!==i.length)throw new Error(`Lengths of "separator" (${r.length}), "fields" (${n.length}), and "as" (${i.length}) do not match!`);this.handle=o=>{if(n.some(c=>!c(o)))return;const a=n.map((c,u)=>c(o).split(r[u]));V8(a,o);const s=a[0].length;for(let c=0;c<s;c++){const u=Object.assign({},o);for(let f=0;f<n.length;f++)u[i[f]]=a[f][c];this._propagate(u)}}}}function V8(t,e){const n=t.map(r=>r.length);if(!n.every(r=>r==n[0]))throw new Error("Mismatching number of elements in the fields to be split: "+JSON.stringify(e))}class Y8 extends ue{get behavior(){return hn}constructor(e){super(),this.params=e,this.as=e.as,this.fn=void 0}initialize(){this.fn=Wu(this.params.expr,this.getGlobalObject())}handle(e){e[this.as]=this.fn(e),this._propagate(e)}}class s1 extends ue{get behavior(){return hn}constructor(e,n){var p;super();const r=(p=e.channel)!=null?p:"x";if(!["x","y"].includes(r))throw new Error("Invalid channel: "+r);const i=n.getScaleResolution(r).getGenome();if(!i)throw new Error("LinearizeGenomicCoordinate transform requires a locus scale!");const o=q(e.chrom),a=qe(e.pos).map(m=>q(m)),s=qe(e.as);if(a.length!=s.length)throw new Error('The number of "pos" and "as" elements must be equal!');const c=qe(e.offset);let u;if(c.length==0)u=new Array(a.length).fill(0);else if(c.length==1)u=new Array(a.length).fill(c[0]);else if(c.length==a.length)u=c;else throw new Error(`Invalid "offset" parameter: ${JSON.stringify(e.offset)}!`);const f=new Function("datum","chromOffset","posAccessors",s.map((m,g)=>`datum[${JSON.stringify(m)}] = chromOffset + +posAccessors[${g}](datum) - ${u[g]};`).join(`
+ */const FM="locus",zM="index";var RM=5;function jM(t){const e=t.type;return!t.bins&&(e===Ir||e===ji||e===Ui)}function Bg(t){return Re(t)&&![pt,zM,FM].includes(t)}function Og(t){return t||{warn:(e,...n)=>console.warn(e,...n)}}var UM=sa(["set","modified","clear","type","scheme","schemeExtent","schemeCount","domain","domainMin","domainMid","domainMax","domainRaw","domainImplicit","nice","zero","bins","range","rangeStep","round","reverse","interpolate","interpolateGamma","zoom","fp64","name"]);function Pg(t,e,n){n=Og(n);for(const r in t)if(!UM[r]){if(r==="padding"&&Bg(e.type))continue;ke(e[r])?e[r](t[r]):n.warn("Unsupported scale property: "+r)}XM(e,t,WM(e,t,VM(e,t,n)))}function HM(t,e){const n=GM(t),r=X(n);if(!r)throw new Error("Unknown scale type: "+n);const i=r();return Pg(t,i,e),i}function GM(t){var e=t.type,n="",r;return e===pt?pt+"-"+Ir:(QM(t)&&(r=t.rawDomain?t.rawDomain.length:t.domain?t.domain.length+ +(t.domainMid!=null):0,n=r===2?pt+"-":r===3?kr+"-":""),(n+e||Ir).toLowerCase())}function QM(t){const e=t.type;return Re(e)&&e!==$0&&e!==ep&&(t.scheme||t.range&&t.range.length&&t.range.every(ne))}function VM(t,e,n){if(!t.domain)return 0;n=Og(n);var r=YM(t,e.domainRaw,n);if(r>-1)return r;var i=e.domain,o=t.type,a=e.zero||e.zero===void 0&&jM(t),s,c;return i?(Bg(o)&&e.padding&&i[0]!==nt(i)&&(i=_M(o,i,e.range,e.padding,e.exponent,e.constant)),(a||e.domainMin!=null||e.domainMax!=null||e.domainMid!=null)&&(s=(i=i.slice()).length-1||1,a&&(i[0]>0&&(i[0]=0),i[s]<0&&(i[s]=0)),e.domainMin!=null&&(i[0]=e.domainMin),e.domainMax!=null&&(i[s]=e.domainMax),e.domainMid!=null&&(c=e.domainMid,(c<i[0]||c>i[s])&&n.warn("Scale domainMid exceeds domain min or max.",c),i.splice(s,0,c))),t.domain(Fg(o,i,n)),o===Lu&&t.unknown(e.domainImplicit?$c:void 0),e.nice&&t.nice&&t.nice(e.nice!==!0&&Ng(t,e.nice)||null),i.length):0}function YM(t,e,n){return e?(t.domain(Fg(t.type,e,n)),e.length):-1}function _M(t,e,n,r,i,o){var a=Math.abs(nt(n)-n[0]),s=a/(a-2*r),c=t===rn?Hd(e,null,s):t===Ui?yc(e,null,s,.5):t===ji?yc(e,null,s,i||1):t===Pa?tb(e,null,s,o||1):gc(e,null,s);return e=e.slice(),e[0]=c[0],e[e.length-1]=c[1],e}function Fg(t,e,n){if(sp(t)){var r=Math.abs(e.reduce(function(i,o){return i+(o<0?-1:o>0?1:0)},0));r!==e.length&&n.warn("Log scale domain includes zero: "+aa(e))}return e}function WM(t,e,n){let r=e.bins;if(r&&!We(r)){const i=(r.start==null||r.stop==null)&&t.domain(),o=r.start==null?i[0]:r.start,a=r.stop==null?nt(i):r.stop,s=r.step;s||ae("Scale bins parameter missing step property."),r=Xt(o,a+s,s)}return r?t.bins=r:t.bins&&delete t.bins,t.type===Ou&&(r?!e.domain&&!e.domainRaw&&(t.domain(r),n=r.length):t.bins=t.domain()),n}function XM(t,e,n){var r=t.type,i=e.round||!1,o=e.range;if(e.rangeStep!=null)o=ZM(r,e,n);else if(e.scheme&&(o=qM(r,e,n),ke(o))){if(t.interpolator)return t.interpolator(o);ae(`Scale type ${r} does not support interpolating color schemes.`)}if(o&&za(r))return t.interpolator(Ra(Pl(o,e.reverse),e.interpolate,e.interpolateGamma));o&&e.interpolate&&t.interpolate?t.interpolate(cp(e.interpolate,e.interpolateGamma)):ke(t.round)?t.round(i):ke(t.rangeRound)&&t.interpolate(i?zi:tn),o&&t.range(Pl(o,e.reverse))}function ZM(t,e,n){t!==rp&&t!==Bu&&ae("Only band and point scales support rangeStep.");var r=(e.paddingOuter!=null?e.paddingOuter:e.padding)||0,i=t===Bu?1:(e.paddingInner!=null?e.paddingInner:e.padding)||0;return[0,e.rangeStep*ku(n,i,r)]}function qM(t,e,n){var r=e.schemeExtent,i,o;return We(e.scheme)?o=Ra(e.scheme,e.interpolate,e.interpolateGamma):(i=e.scheme.toLowerCase(),o=Fu(i),o||ae(`Unrecognized scheme name: ${e.scheme}`)),n=t===np?n+1:t===Ou?n-1:t===Nu||t===tp?+e.schemeCount||RM:n,za(t)?zg(o,r,e.reverse):ke(o)?n4(zg(o,r),n):t===Lu?o:o.slice(0,n)}function zg(t,e,n){return ke(t)&&(e||n)?t4(t,Pl(e||[0,1],n)):t}function Pl(t,e){return e?t.slice().reverse():t}const Fl=de(",d");function KM(t){return t.chrom+":"+Fl(Math.floor(t.pos+1))}function JM(t,e){return t.chrom+":"+Fl(Math.floor(t.pos+1))+"-"+(t.chrom!=e.chrom?e.chrom+":":"")+Fl(Math.ceil(e.pos))}const $M="https://genomespy.app/data/genomes/";class e8{constructor(e){if(this.config=e,!this.config.contigs&&typeof this.config.name!="string")throw new Error("No name has been defined for the genome assembly!");this.chromosomes=[],this.cumulativeChromPositions=new Map,this.chromosomesByName=new Map,this.startByIndex=[],this.totalSize=0,this.config.contigs&&this.setChromSizes(this.config.contigs)}get name(){return this.config.name}async load(e){if(!this.config.contigs){this.config.baseUrl?this.baseUrl=/^http(s)?/.test(this.config.baseUrl)?this.config.baseUrl:e+"/"+this.config.baseUrl:this.baseUrl=$M;try{this.setChromSizes(t8(await Bi({baseURL:this.baseUrl}).load(`${this.config.name}/${this.name}.chrom.sizes`)))}catch(n){throw new Error(`Could not load chrom sizes: ${n.message}`)}}}setChromSizes(e){let n=0;this.startByIndex=[0];for(let r=0;r<e.length;r++){this.startByIndex.push(n);const i=e[r].size,o={...e[r],continuousStart:n,continuousEnd:n+i,continuousInterval:[n,n+i],index:r,number:r+1,odd:!(r&1)};this.chromosomes.push(o);const a=o.name.replace(/^chr/i,"");for(const s of["chr"+a,"CHR"+a,"Chr"+a,o.number,""+o.number,a,o.name])this.cumulativeChromPositions.set(s,n),this.chromosomesByName.set(s,o);n+=o.size}this.totalSize=n}getExtent(){return[0,this.totalSize]}toContinuous(e,n){let r=this.cumulativeChromPositions.get(e);if(r===void 0)throw new Error("Unknown chromosome/contig: "+e);return r+ +n}toChromosome(e){if(e>=this.totalSize)return;e=Math.floor(e);const n=Tn(this.startByIndex,e)-1;if(n>0&&n<=this.chromosomes.length)return this.chromosomes[n-1]}toChromosomal(e){const n=this.toChromosome(e);if(!!n)return{chrom:n.name,pos:Math.floor(e)-n.continuousStart}}getChromosome(e){return this.chromosomesByName.get(e)}formatInterval(e){return JM(...this.toChromosomalInterval(e))}toChromosomalInterval(e){const n=this.toChromosomal(e[0]+.5),r=this.toChromosomal(e[1]-.5);return r.pos+=1,[n,r]}toContinuousInterval(e){var i,o,a;let[n,r]=e;return r||(r=n),[this.toContinuous(n.chrom,(i=n.pos)!=null?i:0),this.toContinuous(r.chrom,(a=r.pos)!=null?a:(o=this.chromosomesByName.get(r.chrom))==null?void 0:o.size)]}parseInterval(e){const n=e.match(/^(chr[0-9A-Z]+)(?::([0-9,]+)(?:-(?:(chr[0-9A-Z]+):)?([0-9,]+))?)?$/);if(n){const r=n[1];if(n.slice(2).every(s=>s===void 0)){const s=this.getChromosome(r);return s?[s.continuousStart,s.continuousEnd]:void 0}const i=n[3]||r,o=parseInt(n[2].replace(/,/g,"")),a=n[4]!==void 0?parseInt(n[4].replace(/,/g,"")):o;return[this.toContinuous(r,o-1),this.toContinuous(i,a)]}}}function t8(t){return Ab(t).filter(e=>/^chr[0-9A-Z]+$/.test(e[0])).map(([e,n])=>({name:e,size:parseInt(n)}))}function Rg(t){return ze(t)&&"chrom"in t}function n8(t){return t.every(Rg)}class xo extends Array{constructor(){super(),this.type=void 0}extend(e){return this}extendAll(e){if(e instanceof xo&&e.type!=this.type)throw new Error(`Cannot combine different types of domains: ${this.type} and ${e.type}`);for(const n of e)this.extend(n);return this}extendAllWithAccessor(e,n){for(const r of e)this.extend(n(r));return this}}class zl extends xo{constructor(){super(),this.type="quantitative"}extend(e){return e==null||Number.isNaN(e)?this:(e=+e,this.length?e<this[0]?this[0]=e:e>this[1]&&(this[1]=e):(this.push(e),this.push(e)),this)}}class jg extends xo{constructor(){super(),this.type="ordinal",this.uniqueValues=new Set}extend(e){return e==null||Number.isNaN(e)?this:(this.uniqueValues.has(e)||(this.uniqueValues.add(e),this.push(e)),this)}}class Ug extends jg{constructor(){super(),this.type="nominal"}}class r8 extends xo{constructor(e){super();let n=0;for(let r=1;r<e.length;r++)n+=Math.sign(e[r]-e[r-1]);if(Math.abs(n)!=e.length-1)throw new Error("Piecewise domain must be strictly increasing or decreasing: "+JSON.stringify(e));e.forEach(r=>this.push(r))}extend(e){if(this.includes(e))return this;throw new Error("Piecewise domains are immutable and cannot be unioned!")}}const Hg={quantitative:zl,index:zl,locus:zl,nominal:Ug,ordinal:jg};function Gg(t,e){if(t=="quantitative"&&i8(e)){const n=new r8(e);return n.type=t,n}else if(Hg[t]){const n=new Hg[t];return n.type=t,e&&n.extendAll(e),n}throw new Error("Unknown type: "+t)}function i8(t){return t&&t.length>0&&t.length!=2&&t.every(e=>typeof e=="number")}function Qg(t){return((t*=2)<=1?t*t:--t*(2-t)+1)/2}function o8(t){return--t*t*t+1}function a8(t){return(Math.pow(2,-10*t)-.0009765625)*1.0009775171065494}function s8(t){return 1-a8(t)}const Vg="quantitative",Rl="ordinal",jl="nominal",Yg="locus",c8="index";class u8{constructor(e){this.channel=e,this.members=[],this.type=null,this._zoomExtent=void 0,this._domainListeners=new Set,this.name=void 0,this._scale=void 0}addEventListener(e,n){if(e!="domain")throw new Error("Unsupported event type: "+e);this._domainListeners.add(n)}removeEventListener(e,n){if(e!="domain")throw new Error("Unsupported event type: "+e);this._domainListeners.delete(n)}_notifyDomainListeners(){for(const e of this._domainListeners.values())e({type:"domain",scaleResolution:this})}pushUnitView(e,n){var a;const r=Xu(e,n),i=r.type,o=(a=r==null?void 0:r.scale)==null?void 0:a.name;if(o){if(this.name!==void 0&&o!=this.name)throw new Error(`Shared scales have conflicting names: "${o}" vs. "${this.name}"!`);this.name=o}if(!this.type)this.type=i;else if(i!==this.type&&!oo(n))throw new Error(`Can not use shared scale for different data types: ${this.type} vs. ${i}. Use "resolve: independent" for channel ${this.channel}`);this.members.push({view:e,channel:n})}isExplicitDomain(){return!!this.getConfiguredDomain()}_getMergedScaleProps(){return _r(this,"mergedScaleProps",()=>{const e=this.members.map(n=>Xu(n.view,n.channel).scale).filter(n=>n!==void 0);return bs(e,"scale",["domain"])})}getScaleProps(){return _r(this,"scaleProps",()=>{var i,o;const e=this._getMergedScaleProps();if(e===null||e.type=="null")return{type:"null"};const n={...this._getDefaultScaleProperties(this.type),...e};n.type||(n.type=l8(this.channel,this.type));const r=this.getInitialDomain();return r&&r.length>0?n.domain=r:on(n.type)&&(n.domain=new Ug),!n.domain&&n.domainMid!==void 0&&(n.domain=[(i=n.domainMin)!=null?i:0,(o=n.domainMax)!=null?o:1]),this.channel=="y"&&on(n.type)&&n.reverse==null&&(n.reverse=!0),n.range&&n.scheme&&delete n.scheme,!("zoom"in n)&&["index","locus"].includes(n.type)&&(n.zoom=!0),f8(n,this.channel),n})}getInitialDomain(){var e;return(e=this.getConfiguredDomain())!=null?e:this.type==Yg?this.getGenome().getExtent():this.getDataDomain()}getConfiguredDomain(){return this._reduceDomains(e=>oo(e.channel)?void 0:e.view.getConfiguredDomain(e.channel))}getDataDomain(){return this._reduceDomains(e=>oo(e.channel)?void 0:e.view.extractDataDomain(e.channel))}reconfigure(){if(this._scale&&this._scale.type!="null"){mg(this,"scaleProps");const e=this.getScaleProps();Pg(e,this._scale),Re(this._scale.type)&&(this._zoomExtent=this._getZoomExtent())}}getScale(){if(this._scale)return this._scale;const e=this.getScaleProps(),n=HM(e);return this._scale=n,Qx(n)&&n.genome(this.getGenome()),Re(n.type)&&(this._zoomExtent=this._getZoomExtent()),n}getDomain(){return this.getScale().domain()}getComplexDomain(){var e,n;return(n=(e=this.getGenome())==null?void 0:e.toChromosomalInterval(this.getDomain()))!=null?n:this.getDomain()}isZoomed(){return this.isZoomable()&&Ip(this.getInitialDomain(),this.getDomain())}isZoomable(){if(!Vp(this.channel))return!1;const e=this.getScale().type;return["linear","locus","index","log","pow","sqrt"].includes(e)?!!this.getScaleProps().zoom:!1}zoom(e,n,r){if(!this.isZoomable())return!1;const i=this.getScale(),o=i.domain();let a=[...o],s=i.invert(n);switch(this.getScaleProps().reverse&&(r=-r),"align"in i&&(s+=i.align()),i.type){case"linear":case"index":case"locus":a=J2(a,r||0),a=gc(a,s,e);break;case"log":a=$2(a,r||0),a=Hd(a,s,e);break;case"pow":case"sqrt":{const c=i;a=eb(a,r||0,c.exponent()),a=yc(a,s,e,c.exponent());break}default:throw new Error("Zooming is not implemented for: "+i.type)}return this._zoomExtent&&(a=nb(a,this._zoomExtent[0],this._zoomExtent[1])),[0,1].some(c=>a[c]!=o[c])?(i.domain(a),this._notifyDomainListeners(),!0):!1}async zoomTo(e,n=!1){var s;if(ia(n)&&(n=n?700:0),!this.isZoomable())throw new Error("Not a zoomable scale!");const r=this.fromComplexInterval(e),i=(s=this.members[0])==null?void 0:s.view.context.animator,o=this.getScale(),a=o.domain();if(n>0&&a.length==2){const c=a[1]-a[0],u=a[0]+c/2,f=r[1]-r[0],l=r[0]+f/2,d=I0([u,0,c],[l,0,f]).rho(.7);await i.transition({duration:n/1e3*d.duration,easingFunction:Qg,onUpdate:h=>{const[p,,m]=d(h);o.domain([p-m/2,p+m/2]),this._notifyDomainListeners()}}),o.domain(r),this._notifyDomainListeners()}else o.domain(r),i==null||i.requestRender(),this._notifyDomainListeners()}resetZoom(){if(!this.isZoomable())throw new Error("Not a zoomable scale!");const e=this.getDomain(),n=this.getInitialDomain();return[0,1].some(r=>n[r]!=e[r])?(this._scale.domain(n),this._notifyDomainListeners(),!0):!1}getZoomLevel(){return this.isZoomable()?oa(this._zoomExtent)/oa(this.getScale().domain()):1}_getZoomExtent(){const e=this.getScaleProps(),n=e.zoom;if(d8(n)&&We(n.extent))return this.fromComplexInterval(n.extent);if(n)return e.type=="locus"?this.getGenome().getExtent():this._scale.domain()}_getDefaultScaleProperties(e){const n=this.channel,r={};return this.isExplicitDomain()&&(r.zero=!1),io(n)?r.nice=!this.isExplicitDomain():qn(n)?r.scheme=e==jl?"tableau10":e==Rl?"blues":"viridis":_a(n)?r.range=_p(n):n=="size"?r.range=[0,400]:n=="angle"&&(r.range=[0,360]),r}getGenome(){var n;if(this.type!=="locus")return;const e=(n=this.members[0].view.context.genomeStore)==null?void 0:n.getGenome();if(!e)throw new Error("No genome has been defined!");return e}invertToComplex(e){const n=this.getScale();if("invert"in n){const r=n.invert(e);return this.toComplex(r)}else throw new Error("The scale does not support inverting!")}toComplex(e){const n=this.getGenome();return n?n.toChromosomal(e):e}fromComplex(e){return Rg(e)?this.getGenome().toContinuous(e.chrom,e.pos):e}fromComplexInterval(e){return this.type==="locus"&&n8(e)?this.getGenome().toContinuousInterval(e):e}_getViewPaths(){return this.members.map(e=>e.view.getPathString()).join(", ")}_reduceDomains(e){const n=this.members.map(e).filter(r=>!!r);if(n.length)return n.reduce((r,i)=>r.extendAll(i))}}function l8(t,e){if(e==c8||e==Yg){if(Vp(t))return e;throw new Error(`${t} does not support ${e} data type. Only positional channels do.`)}const n={x:["band","band","linear"],y:["band","band","linear"],size:[void 0,"point","linear"],opacity:[void 0,"point","linear"],fillOpacity:[void 0,"point","linear"],strokeOpacity:[void 0,"point","linear"],color:["ordinal","ordinal","linear"],fill:["ordinal","ordinal","linear"],stroke:["ordinal","ordinal","linear"],strokeWidth:[void 0,void 0,"linear"],shape:["ordinal","ordinal",void 0],dx:[void 0,void 0,"null"],dy:[void 0,void 0,"null"],angle:[void 0,void 0,"linear"]},i=["uniqueId","facetIndex","semanticScore","search","text","sample"].includes(t)?"null":n[t]?n[t][[jl,Rl,Vg].indexOf(e)]:e==Vg?"linear":"ordinal";if(i===void 0)throw new Error(`Channel "${t}" is not compatible with "${e}" data type. Use of a proper scale may be needed.`);return i}function f8(t,e){io(e)&&t.type!=="ordinal"&&(t.range=[0,1]),e=="opacity"&&Re(t.type)&&(t.clamp=!0)}function d8(t){return ze(t)}function Ul(...t){for(const e of t)if(e!==void 0)return e}class h8{constructor(e){this.channel=e,this.members=[]}get scaleResolution(){var e;return(e=je(this.members))==null?void 0:e.view.getScaleResolution(this.channel)}pushUnitView(e,n){const r=e.getScaleResolution(this.channel);if(!r)throw new Error("Cannot find a scale resolution!");if(this.scaleResolution&&r!==this.scaleResolution)throw new Error("Shared axes must have a shared scale!");this.members.push({view:e,channel:n})}getAxisProps(){return _r(this,"axisProps",()=>{const e=this.members.map(n=>{const r=n.view.mark.encoding[n.channel];return"axis"in r&&r.axis});return e.length>0&&e.some(n=>n===null)?null:bs(e.filter(n=>n!==void 0),"axis",["title"])})}getTitle(){const e=o=>{var s;const a=Xu(o.view,o.channel);if(!at(a))return{member:o,explicitTitle:Ul((s=a.axis)==null?void 0:s.title,a.title),implicitTitle:Ul(Zn(a)?a.field:void 0,Zu(a)?a.expr:void 0)}},n=this.members.map(e),r=n.filter(o=>{var a;if(oo(o.member.channel)&&!o.explicitTitle){const s=Pr(o.member.channel);return((a=n.find(c=>c.member.view==o.member.view&&c.member.channel==s))==null?void 0:a.explicitTitle)===void 0}return!0}),i=new Set(r.map(o=>Ul(o.explicitTitle,o.implicitTitle)).filter(ne));return i.size?[...i].join(", "):null}}class _g extends Ig{constructor(e,n,r,i){super(e,n,r,i),this.spec=e}}class Pt extends rr{constructor(e,n,r,i){super(e,n,r,i),this.spec=e,this.children=(e.layer||[]).map((o,a)=>{if(Yl(o)||Vl(o))return n.createView(o,this,"layer"+a);throw new Error("LayerView accepts only unit or layer specs as children!")})}*[Symbol.iterator](){for(const e of this.children)yield e}render(e,n,r={}){if(!!this.isVisible()){e.pushView(this,n);for(const i of this.children)i.render(e,n,r);e.popView(this)}}propagateInteractionEvent(e){this.handleInteractionEvent(void 0,e,!0),this.children.length&&this.children.at(-1).propagateInteractionEvent(e),!e.stopped&&this.handleInteractionEvent(void 0,e,!1)}}class Wg{constructor(e,n){this.n=e,this.maxCols=n!=null?n:1/0}get nRows(){return this.maxCols==1/0?1:Math.ceil(this.n/this.maxCols)}get nCols(){return Math.min(this.n,this.maxCols)}get rowIndices(){const e=[],n=this.nCols,r=this.nRows;for(let i=0;i<r;i++){const o=[];e.push(o);for(let a=0;a<n;a++){const s=i*n+a;s<this.n&&o.push(s)}}return e}get colIndices(){const e=[],n=this.nCols,r=this.nRows;for(let i=0;i<n;i++){const o=[];e.push(o);for(let a=0;a<r;a++){const s=a*n+i;s<this.n&&o.push(s)}}return e}getCellIndex(e,n){let r=0;if(this.maxCols==1/0)r=n==0?e:void 0;else{if(e>=this.maxCols)return;r=n*this.nCols+e}return r<this.n?r:void 0}getCellCoords(e){if(!(e<0||e>=this.n))return[e%this.nCols,Math.floor(e/this.nCols)]}}function Ft(t){return()=>t}const _t=class{static create(e,n,r,i){return new _t(Ft(e),Ft(n),Ft(r),Ft(i))}_offset(e,n){const r=this["_"+e];if(n===0)return r;switch(typeof n){case"number":return()=>r()+n;case"function":return()=>r()+n();default:throw new Error("Not a number of function")}}_passThrough(e){return this._offset(e,0)}constructor(e,n,r,i){this._x=e,this._y=n,this._width=r,this._height=i}get x(){return this._x()}get y(){return this._y()}get width(){return this._width()}get height(){return this._height()}get x2(){return this._x()+this._width()}get y2(){return this._y()+this._height()}equals(e){return e?this===e||this.x===e.x&&this.y===e.y&&this.width===e.width&&this.height===e.height:!1}modify(e){if(!Object.keys(e).length)return this;const n=r=>{const i=e[r];return typeof i=="number"?Ft(i):typeof i=="function"?i:this._passThrough(r)};return new _t(n("x"),n("y"),n("width"),n("height"))}translate(e,n){return e===0&&n===0?this:new 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d={name:"ticks_and_labels",encoding:{[n]:{field:"value",type:"quantitative"}},layer:[]};return e.ticks&&d.layer.push(c()),e.labels&&d.layer.push(s()),d},l={[Jg[Hl(or(e.orient))]]:e.extent,data:{dynamicCallbackSource:!0},layer:[]};return e.domain&&l.layer.push(a()),(e.ticks||e.labels)&&l.layer.push(f()),e.title&&l.layer.push(u()),l}const x8={...t1,chromTicks:!0,chromTickSize:18,chromTickWidth:1,chromTickColor:"#989898",chromTickDash:[4,2],chromTickDashOffset:1,chromLabels:!0,chromLabelFontSize:13,chromLabelFontWeight:"normal",chromLabelFontStyle:"normal",chromLabelColor:"black",chromLabelAlign:"left",chromLabelPadding:7};function w8(t){const e={...t,extent:Ql(t)},n=or(e.orient),r=Hl(n),i=e.orient=="bottom"||e.orient=="left"?1:0,o=()=>({name:"chromosome_ticks",mark:{type:"rule",strokeDash:t.chromTickDash,strokeDashOffset:t.chromTickDashOffset,[r]:i,[r+"2"]:i-e.chromTickSize/e.extent*(i?1:-1),color:t.chromTickColor,size:e.chromTickWidth}}),a=()=>{let u;switch(e.orient){case"top":u={y:0,angle:0,paddingX:4,dy:-e.chromLabelPadding,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"bottom":u={y:1,angle:0,paddingX:4,dy:e.chromLabelPadding+e.chromLabelFontSize*.73,viewportEdgeFadeWidthLeft:20,viewportEdgeFadeWidthRight:20,viewportEdgeFadeDistanceRight:-10,viewportEdgeFadeDistanceLeft:-20};break;case"left":u={x:1,angle:-90,paddingY:4,dy:-e.chromLabelPadding,viewportEdgeFadeWidthBottom:20,viewportEdgeFadeWidthTop:20,viewportEdgeFadeDistanceBottom:-20,viewportEdgeFadeDistanceTop:-10};break;case"right":u={x:0,angle:90,align:"right",paddingY:4,dy:-e.chromLabelPadding};break;default:u={}}return{name:"chromosome_labels",mark:{type:"text",size:e.chromLabelFontSize,font:e.chromLabelFont,fontWeight:e.chromLabelFontWeight,fontStyle:e.chromLabelFontStyle,color:e.chromLabelColor,align:t.chromLabelAlign,baseline:"alphabetic",clip:!1,...u},encoding:{[n+"2"]:{field:"continuousEnd",type:"locus"},text:{field:"name"}}}};let s;switch(e.orient){case"bottom":case"top":s={};break;case"left":s={labelAngle:-90,labelAlign:"center",labelPadding:6};break;case"right":s={labelAngle:90,labelAlign:"center",labelPadding:6};break;default:s={}}const c=n1({...t,...s});if(t.chromTicks||t.chromLabels){const u={name:Kg,data:{dynamicCallbackSource:!0},encoding:{[n]:{field:"continuousStart",type:"locus",band:0}},layer:[]};if(t.chromTicks&&u.layer.push(o()),t.chromLabels){u.layer.push(a());let f;c.layer.filter(l=>l.name=="ticks_and_labels").forEach(l=>l.layer.filter(d=>d.name=="labels").forEach(d=>{f=d.mark})),f&&(e.orient=="top"||e.orient=="bottom"?(f.viewportEdgeFadeWidthLeft=30,f.viewportEdgeFadeDistanceLeft=40):(f.viewportEdgeFadeWidthBottom=30,f.viewportEdgeFadeDistanceBottom=40))}c.layer.push(u)}return c}const r1={anchor:"middle",frame:"group",offset:10,orient:"top",align:void 0,angle:0,baseline:"alphabetic",dx:0,dy:0,color:void 0,font:void 0,fontSize:12,fontStyle:"normal",fontWeight:"normal"},C8={orient:"left",anchor:"middle",align:"right",baseline:"middle",angle:0,fontSize:12},S8={orient:"top",anchor:"start",align:"left",baseline:"top",offset:-10,dx:10,fontSize:12},E8={start:0,middle:.5,end:1},D8={start:"left",middle:"center",end:"right"};function M8(t){var u,f,l;if(!t)return;const e=ne(t)?{text:t}:t;if(!e.text||e.orient=="none")return;const n=(u={"track-title":C8,overlay:S8}[e.style])!=null?u:{},r={...r1,...n,...e};let i={},o={x:0,y:0};const a=E8[(f=r.anchor)!=null?f:"middle"];switch(r.orient){case"top":o={x:a,y:1},i={baseline:"alphabetic",angle:0};break;case"right":o={x:1,y:1-a},i={baseline:"alphabetic",angle:90};break;case"bottom":o={x:a,y:0},i={baseline:"top",angle:0};break;case"left":o={x:0,y:a},i={baseline:"alphabetic",angle:-90};break}const s={...r1,...i,...n,...e},c={xOffset:0,yOffset:0};switch(r.orient){case"top":c.yOffset=-s.offset;break;case"right":c.xOffset=s.offset;break;case"bottom":c.yOffset=s.offset;break;case"left":c.xOffset=-s.offset;break}return{configurableVisibility:!1,data:{values:[{}]},mark:{type:"text",tooltip:null,clip:!1,...o,...c,text:s.text,align:(l=s.align)!=null?l:D8[s.anchor],angle:s.angle,baseline:s.baseline,dx:s.dx,dy:s.dy,color:s.color,font:s.font,size:s.fontSize,fontStyle:s.fontStyle,fontWeight:s.fontWeight}}}function i1(t,e,n,r){if(t.type=="wheel"){t.uiEvent.preventDefault();const i=t.uiEvent,o=i.deltaMode?120:1;let{x:a,y:s}=t.point;if(r){const c=r.mark.encoders;c.x&&!c.x2&&(a=+c.x(r.datum)*e.width+e.x),c.y&&!c.y2&&(s=(1-+c.y(r.datum))*e.height+e.y)}Math.abs(i.deltaX)<Math.abs(i.deltaY)?n({x:a,y:s,xDelta:0,yDelta:0,zDelta:i.deltaY*o/300}):n({x:a,y:s,xDelta:-i.deltaX*o,yDelta:0,zDelta:0})}else if(t.type=="mousedown"&&t.uiEvent.button===0){const i=t.uiEvent;i.preventDefault();let o=i;const 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r},Dt=new WeakSet,Sn=function(){return G(this,et).filter(n=>n.view.isVisible())},oc=new WeakSet,U2=function(){var n;return new Wg(G(this,Dt,Sn).length,(n=G(this,ui))!=null?n:1/0)},ac=new WeakSet,H2=function(){if(Object.keys(this.resolutions.axis).length)throw new Error("ConcatView does not (currently) support shared axes!");for(const n of G(this,et)){const{view:r,axes:i}=n,o=(a,s,c)=>{var f;const u=a.getAxisProps();if(u!==null){if(!u.orient){for(const l of Gl[s])if(!i[l]){u.orient=l;break}if(!u.orient)throw new Error("No slots available for an axis! 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Cannot create a view!");return n.length==1}}function Vl(t){return"mark"in t&&(ne(t.mark)||ze(t.mark))}function Yl(t){return"layer"in t&&ze(t.layer)}function a1(t){return t&&(Vl(t)||Yl(t))&&"aggregateSamples"in t}function L8(t){return"import"in t}function _l(t){return"vconcat"in t&&We(t.vconcat)}function B8(t){return"hconcat"in t&&We(t.hconcat)}function Wl(t){return"concat"in t&&We(t.concat)}const O8={point:oM,rect:$D,rule:cM,link:dM,text:vM};class be extends rr{constructor(e,n,r,i){super(e,n,r,i),this.spec=e;const o=O8[this.getMarkType()];if(o)this.mark=new o(this);else throw new Error(`No such mark: ${this.getMarkType()}`);this.sampleAggregateViews=[],this._initializeAggregateViews(),this.coords=void 0}*[Symbol.iterator](){for(const e of this.sampleAggregateViews)yield e}replaceChild(e,n){const r=this.sampleAggregateViews.indexOf(e);if(r>=0)this.sampleAggregateViews[r]=n;else throw new Error("Not my child view!")}render(e,n,r={}){!this.isVisible()||(this.coords=n,e.pushView(this,n),e.renderMark(this.mark,r),e.popView(this))}getMarkType(){return typeof this.spec.mark=="object"?this.spec.mark.type:this.spec.mark}resolve(e){var r;const n=this.mark.encoding;for(const[i,o]of Object.entries(n)){if(!Ke(o))continue;let a=Pr((r=o.resolutionChannel)!=null?r:i);if(e=="axis"&&!io(a))continue;let s=this;for(;s.parent instanceof rr&&["shared","excluded"].includes(s.parent.getConfiguredOrDefaultResolution(a,e))&&s.getConfiguredOrDefaultResolution(a,e)!="excluded";)s=s.parent;s.resolutions[e][a]||(s.resolutions[e][a]=e=="scale"?new u8(a):new h8(a)),io(i)?s.resolutions[e][a].pushUnitView(this,i):e=="scale"&&s.resolutions[e][a].pushUnitView(this,i)}}getAccessor(e){return this._cache("accessor/"+e,()=>{const n=this.mark.encoding;if(n&&n[e])return this.context.accessorFactory.createAccessor(n[e])})}getFacetAccessor(e){const n=this.getAccessor("sample");return n||super.getFacetAccessor(this)}getCollector(){return this.context.dataFlow.findCollectorByKey(this)}_validateDomainQuery(e){if(oo(e))throw new Error(`getDomain(${e}), must only be called for primary channels!`);const n=this.mark.encoding[e];if(!Ke(n))throw new Error("The channel has no scale, cannot get domain!");return n}getConfiguredDomain(e){var i,o;const n=this._validateDomainQuery(e),r=n&&n.scale&&n.scale.domain;if(r){const a=this.getScaleResolution((i=n.resolutionChannel)!=null?i:e);return Gg((o=n.type)!=null?o:"nominal",a.fromComplexInterval(r))}}extractDataDomain(e){var s;const r=(s=this._validateDomainQuery(e).type)!=null?s:"nominal",i=c=>{let u;const f=this.mark.encoding[c];if(f){const l=this.context.accessorFactory.createAccessor(f);if(l)if(u=Gg(r),l.constant)u.extend(l({}));else{const d=this.getCollector();d!=null&&d.completed&&d.visitData(h=>u.extend(l(h)))}}return u};let o=i(e);const a=qu[e];if(a){const c=i(a);c&&o.extendAll(c)}return o}getZoomLevel(){const e=n=>{var r,i;return(i=(r=this.getScaleResolution(n))==null?void 0:r.getZoomLevel())!=null?i:1};return ro.map(e).reduce((n,r)=>n*r,1)}_initializeAggregateViews(){var e,n;if(a1(this.spec))for(const r of this.spec.aggregateSamples){const i=(e=r.transform)!=null?e:[];i.length&&je(i).type!="collect"&&i.push({type:"collect"}),i.push({type:"mergeFacets"}),r.transform=i,r.encoding={...(n=r.encoding)!=null?n:{},sample:null};const o=this.context.createView(r,this,"summaryView");o.getFacetFields=a=>{},this.sampleAggregateViews.push(o)}}propagateInteractionEvent(e){e.target=this}getDefaultResolution(e,n){return e=="x"?"shared":"independent"}}function*Xl(t,e=[]){for(const[n,r]of t.entries())if(r instanceof Map)for(const i of Xl(r,[...e,n]))yield i;else yield[[...e,n],r]}class Zr extends ue{constructor(e){super(),this.params=e!=null?e:{type:"collect"},this.observers=[],this.facetBatches=void 0,this._init()}_init(){this._data=[],this.facetBatches=new In([],JSON.stringify),this.facetBatches.set(void 0,this._data)}reset(){super.reset(),this._init()}handle(e){this._data.push(e)}beginBatch(e){rM(e)&&(this._data=[],this.facetBatches.set(qe(e.facetId),this._data))}complete(){var i,o;const e=(i=this.params)==null?void 0:i.sort,n=e?Gd(e.field,e.order):void 0,r=a=>{n&&a.sort(n)};if((o=this.params.groupby)!=null&&o.length){if(this.facetBatches.size>1)throw new Error("TODO: Support faceted data!");const a=this.params.groupby.map(c=>q(c)),s=gi(this._data,...a);this.facetBatches.clear();for(const[c,u]of Xl(s))this.facetBatches.set(c,u)}for(const a of this.facetBatches.values())r(a);if(this.children.length)for(const[a,s]of this.facetBatches.entries()){if(a){const c={type:"facet",facetId:a};for(const u of this.children)u.beginBatch(c)}for(const c of s)this._propagate(c)}super.complete();for(const a of this.observers)a(this)}getData(){switch(this._checkStatus(),this.facetBatches.size){case 0:return[];case 1:return[...this.facetBatches.values()][0];default:{const e=this.facetBatches;return{[Symbol.iterator]:function*(){for(const r of e.values())for(let i=0;i<r.length;i++)yield r[i]}}}}}visitData(e){this._checkStatus();for(const n of this.facetBatches.values())for(let r=0;r<n.length;r++)e(n[r])}getItemCount(){let e=0;for(const n of this.facetBatches.values())e+=n.length;return e}_checkStatus(){if(!this.completed)throw new Error("Data propagation is not completed! No data are available.")}}class wo{constructor(){this.ids=[],this.values=[],this.length=0}clear(){this.length=0}push(e,n){let r=this.length++;for(;r>0;){const i=r-1>>1,o=this.values[i];if(n>=o)break;this.ids[r]=this.ids[i],this.values[r]=o,r=i}this.ids[r]=e,this.values[r]=n}pop(){if(this.length===0)return;const e=this.ids[0];if(this.length--,this.length>0){const n=this.ids[0]=this.ids[this.length],r=this.values[0]=this.values[this.length],i=this.length>>1;let o=0;for(;o<i;){let a=(o<<1)+1;const s=a+1;let c=this.ids[a],u=this.values[a];const f=this.values[s];if(s<this.length&&f<u&&(a=s,c=this.ids[s],u=f),u>=r)break;this.ids[o]=c,this.values[o]=u,o=a}this.ids[o]=n,this.values[o]=r}return e}peek(){if(this.length!==0)return this.ids[0]}peekValue(){if(this.length!==0)return this.values[0]}shrink(){this.ids.length=this.values.length=this.length}}class P8 extends ue{get behavior(){return Ot}constructor(e){super(),this.params=e,this.startAccessor=q(e.start),this.endAccessor=q(e.end),this.chromAccessor=e.chrom?q(e.chrom):n=>{},this.weightAccessor=e.weight?q(e.weight):n=>1,this.as={coverage:e.as||"coverage",start:e.asStart||e.start,end:e.asEnd||e.end,chrom:e.asChrom||e.chrom},this.createSegment=new Function("start","end","coverage","chrom","return {"+Object.entries(this.as).filter(([n,r])=>r).map(([n,r])=>`${JSON.stringify(r)}: ${n}`).join(", ")+"};"),this.ends=new wo}reset(){super.reset(),this.initialize()}initialize(){const e=this.as.coverage,n=this.as.end,r=this.as.chrom,i=this.startAccessor,o=this.endAccessor,a=this.chromAccessor,s=this.weightAccessor;let c,u,f,l=0,d;const h=this.ends;h.clear();const p=(g,y,A)=>{if(g==y)return;let x=!1;c&&(c[e]===A?(c[n]=y,x=!0):c[e]!=0&&this._propagate(c)),x||(c=this.createSegment(g,y,A,f))},m=()=>{let g;for(;(g=h.peekValue())!==void 0;)p(d,g,l),d=g,l-=h.pop();d=void 0,c&&(this._propagate(c),c=void 0)};this.handle=g=>{const y=i(g);let A;for(;(A=h.peekValue())!==void 0&&A<y;)p(d,A,l),d=A,l-=h.pop();if(r){let w=a(g);w!==u&&(m(),f=w,u=f)}d!==void 0&&p(d,y,l),d=y;const x=s(g);l+=x,h.push(x,o(g))},this.complete=()=>{m(),super.complete()}}}function F8(t,e,n=0,r=t.length){const i=new wo,o=r-n;let a;for(a=0;a<e&&a<o;a++)i.push(a,t[n+a]);for(;a<o;a++){const u=t[n+a];u>=i.peekValue()&&(i.push(a,u),i.pop())}const s=[];let c;for(;(c=i.pop())!==void 0;)s.push(n+c);return s.reverse()}class z8{constructor(e,n=-1/0,r=1/0){this.maxSize=e,this.lowerLimit=n,this.upperLimit=r;const i=this.maxSize*2+1;this.lowerLimits=new Float64Array(i),this.upperLimits=new Float64Array(i),this.lowerChildren=new Int32Array(i),this.upperChildren=new Int32Array(i),this.reset()}reset(){this.lowerLimits.fill(0),this.upperLimits.fill(0),this.lowerChildren.fill(0),this.upperChildren.fill(0),this.n=1,this.lowerLimits[0]=this.lowerLimit,this.upperLimits[0]=this.upperLimit}_findSlot(e,n,r=0){if(e>=this.lowerLimits[r]&&n<=this.upperLimits[r]){const i=this.lowerChildren[r];if(i){const o=this._findSlot(e,n,i);return o>=0?o:this._findSlot(e,n,this.upperChildren[r])}else return r}else return-1}reserve(e,n){if(n-e<=0)throw new Error("Cannot reserve an empty or negative-size slot!");if(this.n+1>this.lowerLimits.length)return!1;const r=this._findSlot(e,n);if(r<0)return!1;const i=this.n++,o=this.n++;return this.lowerLimits[i]=this.lowerLimits[r],this.upperLimits[i]=e,this.lowerLimits[o]=n,this.upperLimits[o]=this.upperLimits[r],this.lowerChildren[r]=i,this.upperChildren[r]=o,!0}}class R8 extends ue{constructor(e,n){var i,o;if(super(),this.params=e,this._data=[],this.channel=(i=e.channel)!=null?i:"x",!["x","y"].includes(this.channel))throw new Error("Invalid channel: "+this.channel);this.posAccessor=q(this.params.pos),this.posBisector=ca(this.posAccessor),this.scoreAccessor=q(this.params.score),this.widthAccessor=q(this.params.width),this.laneAccessor=this.params.lane?q(this.params.lane):a=>0,this.padding=(o=this.params.padding)!=null?o:0,this.reservationMaps=new Map,this.resolution=n.getScaleResolution(this.channel);const r=()=>this._filterAndPropagate();this.schedule=()=>n.context.animator.requestTransition(r),this.resolution.addEventListener("domain",a=>this.schedule()),n._addBroadcastHandler("layoutComputed",()=>this.schedule())}complete(){const e=this.posAccessor;this._data.sort((n,r)=>e(n)-e(r)),this._scores=this._data.map(this.scoreAccessor);for(const n of new Set(this._data.map(this.laneAccessor)))this.reservationMaps.set(n,new z8(200));this.schedule(),super.complete()}_filterAndPropagate(){var a;super.reset();const e=this.resolution.getScale(),n=(a=this.resolution.members[0].view.coords)==null?void 0:a[this.channel=="x"?"width":"height"];if(!n)return;for(const s of this.reservationMaps.values())s.reset();const r=e.domain(),i=70,o=F8(this._scores,i,this.posBisector.left(this._data,r[0]),this.posBisector.right(this._data,r[1]));for(const s of o){const c=this._data[s],u=e(this.posAccessor(c))*n,f=this.widthAccessor(c)/2+this.padding;this.reservationMaps.get(this.laneAccessor(c)).reserve(u-f,u+f)&&this._propagate(c)}super.complete()}reset(){super.reset(),this._data=[],this.groups=new Map}handle(e){this._data.push(e)}}class j8 extends ue{constructor(e){super(),this.params=e,this.predicate=void 0}initialize(){this.predicate=Wu(this.params.expr,this.getGlobalObject())}handle(e){this.predicate(e)&&this._propagate(e)}}const U8="0".charCodeAt(0);function*H8(t,e=","){const n=e.charCodeAt(0);let r=0;for(let i=0;i<t.length;i++){const o=t.charCodeAt(i);o==n?(yield r,r=0):r=r*10+o-U8}yield r}class G8 extends ue{get behavior(){return Ot}constructor(e){var a,s;super();const n=q((a=e.exons)!=null?a:"exons"),r=q((s=e.start)!=null?s:"start"),[i,o]=e.as||["exonStart","exonEnd"];this.handle=c=>{let u=r(c),f=u,l=!0;const d=n(c);for(const h of H8(d)){if(l)f=u+h;else{u=f+h;const p=Object.assign({},c);p[i]=f,p[o]=u,this._propagate(p)}l=!l}}}}class Q8 extends ue{get behavior(){return Ot}constructor(e){super();const n=qe(e.field).map(o=>q(o)),r=qe(e.separator),i=qe(e.as||e.field);if(n.length!==r.length||n.length!==i.length)throw new Error(`Lengths of "separator" (${r.length}), "fields" (${n.length}), and "as" (${i.length}) do not match!`);this.handle=o=>{if(n.some(c=>!c(o)))return;const a=n.map((c,u)=>c(o).split(r[u]));V8(a,o);const s=a[0].length;for(let c=0;c<s;c++){const u=Object.assign({},o);for(let f=0;f<n.length;f++)u[i[f]]=a[f][c];this._propagate(u)}}}}function V8(t,e){const n=t.map(r=>r.length);if(!n.every(r=>r==n[0]))throw new Error("Mismatching number of elements in the fields to be split: "+JSON.stringify(e))}class Y8 extends ue{get behavior(){return hn}constructor(e){super(),this.params=e,this.as=e.as,this.fn=void 0}initialize(){this.fn=Wu(this.params.expr,this.getGlobalObject())}handle(e){e[this.as]=this.fn(e),this._propagate(e)}}class s1 extends ue{get behavior(){return hn}constructor(e,n){var p;super();const r=(p=e.channel)!=null?p:"x";if(!["x","y"].includes(r))throw new Error("Invalid channel: "+r);const i=n.getScaleResolution(r).getGenome();if(!i)throw new Error("LinearizeGenomicCoordinate transform requires a locus scale!");const o=q(e.chrom),a=qe(e.pos).map(m=>q(m)),s=qe(e.as);if(a.length!=s.length)throw new Error('The number of "pos" and "as" elements must be equal!');const c=qe(e.offset);let u;if(c.length==0)u=new Array(a.length).fill(0);else if(c.length==1)u=new Array(a.length).fill(c[0]);else if(c.length==a.length)u=c;else throw new Error(`Invalid "offset" parameter: ${JSON.stringify(e.offset)}!`);const f=new Function("datum","chromOffset","posAccessors",s.map((m,g)=>`datum[${JSON.stringify(m)}] = chromOffset + 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@@ -2163,7 +2163,7 @@ svg:not(:root).svg-inline--fa, svg:not(:host).svg-inline--fa {
  * @license
  * Copyright 2018 Google LLC
  * SPDX-License-Identifier: BSD-3-Clause
- */const qk={},Kk=ar(class extends Kr{constructor(){super(...arguments),this.ot=qk}render(t,e){return e()}update(t,[e,n]){if(Array.isArray(e)){if(Array.isArray(this.ot)&&this.ot.length===e.length&&e.every((r,i)=>r===this.ot[i]))return Ae}else if(this.ot===e)return Ae;return this.ot=Array.isArray(e)?Array.from(e):e,this.render(e,n)}});class Jk extends vt{constructor(){super(),this.inputRef=A2(),this.app=void 0,this.getDefaultValue=()=>"",this._keyListener=this._onKeyDown.bind(this),this._documentClickListener=e=>{var n;e.target!==this._inputField&&((n=this._inputField)==null||n.blur())},this._focused=!1}get genomeSpy(){return this.app.genomeSpy}get _inputField(){return this.inputRef.value}static get properties(){return{app:{type:Object}}}connectedCallback(){super.connectedCallback(),this._initializeGenome(),document.addEventListener("keydown",this._keyListener),document.addEventListener("click",this._documentClickListener)}disconnectedCallback(){super.disconnectedCallback(),document.removeEventListener("keydown",this._keyListener),document.removeEventListener("click",this._documentClickListener)}createRenderRoot(){return this}_onKeyDown(e){switch(e.code){case"KeyF":e.metaKey||e.altKey||e.ctrlKey||(e.preventDefault(),this.inputRef.value.focus());break}}_initializeGenome(){const e=w2(this.genomeSpy.viewRoot);e&&(this._genomeResolution=e,this._genome=this.genomeSpy.genomeStore.getGenome(),this.getDefaultValue=()=>this._genome.formatInterval(e.getDomain()),e.addEventListener("domain",ws(()=>this.requestUpdate(),60,!1)))}async searchViews(e){var r,i;const n=new Intl.Collator("en",{usage:"search",sensitivity:"base"});for(const o of this.genomeSpy.getSearchableViews()){const a=o.getAccessor("search"),s=o.getAccessor("x"),c=o.getAccessor("x2"),u=o.getScaleResolution("x");if(!(!s||!c||!(u!=null&&u.isZoomable()))){for(const f of(i=(r=o.getCollector())==null?void 0:r.getData())!=null?i:[])if(n.compare(a(f),e)===0){const l=gc([s(f),c(f)],null,1.2);return await u.zoomTo(l),!0}}}return!1}async search(e){await(async()=>{if(this._genomeResolution&&this._genome){const r=this._genome.parseInterval(e);if(r){this._genomeResolution.zoomTo(r);return}if(await this.searchViews(e))return;this.genomeSpy.viewRoot.visit(i=>{i instanceof a2&&i.handleVerboseCommand(e)})}})(),this._inputField.value=this.getDefaultValue(),this.requestUpdate()}_onSearchHelpClicked(e){const n=e.target;n.tagName=="LI"&&this._doExampleSearch(n.innerText)}_onSearchFocused(e){const n=e.target;switch(e.type){case"focus":this._focused=!0,n.select();break;case"blur":this._focused=!1;break}}_onSearchKeyDown(e){const n=e.target;e.code=="Enter"?(e.preventDefault(),this.search(n.value).then(()=>{n.focus(),n.select()}).catch(r=>{console.log(r),alert(r)})):e.code=="Escape"?n.blur():e.stopPropagation()}_doExampleSearch(e){$k(e,this._inputField).then(()=>{this._inputField.blur(),this.search(e)})}_getSearchHelp(){var i,o;const e=[];e.push(D`<p>Focus to a specific range. Examples:</p><ul><li>chr8</li><li>chr8:21,445,873</li><li>chr8:21,445,873-24,623,697</li><li>chr4:166,014,727-chr15:23,731,397</li></ul>`);for(const a of((i=this.genomeSpy)==null?void 0:i.getSearchableViews())||[]){const s=(o=a.getTitleText())!=null?o:a.spec.name,c=a.getAccessor("search"),u=c.fields.join(", "),f=Eg(3,a.getCollector().getData(),c);e.push(D`<p>Search <em>${s}</em> (${u}). Examples:</p><ul>${f.map(l=>D`<li>${l}</li>`)}</ul>`)}const n=this.app.getSampleView().attributePanel,r=n.getAttributeNames().map(a=>n.getAttributeInfo(a)).filter(a=>a.type=="nominal"||a.type=="ordinal").sort(()=>.5-Math.random()).map(a=>{var s,c;return[...(c=(s=a.scale)==null?void 0:s.domain())!=null?c:[]].sort(()=>.5-Math.random())[0]}).filter(a=>a!==void 0).slice(0,3);return r.length&&e.push(D`<p>Filter samples by categorical attributes. Examples:</p><ul>${r.map(a=>D`<li>${a}</li>`)}</ul>`),D`<div class="search-help" @click="${this._onSearchHelpClicked}">${e}</div>`}updated(e){this._focused&&this._inputField.select()}render(){return D`<div class="search"><input type="text" class="search-input" .value="${this.getDefaultValue()}" @mousedown="${e=>{this._focused||(this._inputField.focus(),e.preventDefault(),e.stopPropagation())}}" @keydown="${this._onSearchKeyDown.bind(this)}" @focus="${this._onSearchFocused}" @blur="${this._onSearchFocused}" ${x2(this.inputRef)}> ${Kk([123],()=>this._getSearchHelp())}</div>`}}customElements.define("genome-spy-search-field",Jk);function $k(t,e){return new Promise(n=>{let r=0;const i=700/t.length+30;function o(){e.value=t.substring(0,r),r>=t.length?setTimeout(n,500):(r++,setTimeout(o,Math.random()*i*2))}o()})}function w2(t){let e;return t.visit(n=>{for(const r of["x","y"]){const i=n.resolutions.scale[r];if(i&&i.type=="locus"&&i.isZoomable())return e=i,nr}}),e}const C2="data:image/svg+xml;base64,PHN2ZyB2aWV3Qm94PSIwIDAgMzIgMzIiIHhtbG5zPSJodHRwOi8vd3d3LnczLm9yZy8yMDAwL3N2ZyIgZmlsbC1ydWxlPSJldmVub2RkIiBjbGlwLXJ1bGU9ImV2ZW5vZGQiIHN0cm9rZS1saW5lY2FwPSJyb3VuZCIgc3Ryb2tlLWxpbmVqb2luPSJyb3VuZCIgc3Ryb2tlLW1pdGVybGltaXQ9IjEuNSI+PHBhdGggZD0iTTQuNyAyMS4ycy40IDIuMyAxLjMgMy42QzcgMjYgOS44IDI4IDkuOCAyOHMzLjQtMi42IDYuNC04LjVjMCAwIDEgLjEgMS45LS40LjktLjYuOC0uNCAxLTEuMiAwIDAgMi45LjUgNi42IDAgMi4xLS4zIDQuMy0xIDYuMi0yLjUgMCAwLTEuMS0xLjctMi41LTUuMS0uNS0xLjMtMi0xLjgtNC42LTQuNmwtOC4yIDguNi0xMS45IDYuOXoiIGZpbGwtb3BhY2l0eT0iLjEiLz48cGF0aCBkPSJNMTIuNyAxNC44cy00LTEuOC0xMiAyLjdjMCAwIDEgMy43IDIuNSA1LjMgMS40IDEuNSAyLjMgMy42IDQuNiA0LjYgMCAwIDQuNy0zIDYuOS05LjJsMy0yczQuNyAyLjggMTIuNi0xLjZjMCAwLS42LTMuMy0zLTYtMi42LTMtMy44LTQuNy0zLjgtNC43cy00LjEgMi4zLTcuNSA5LjNsLTMuMyAxLjZ6IiBmaWxsPSIjN2ZiYmRkIi8+PHBhdGggZD0iTTEyLjQgMTUuNWMtLjctLjUtMi40LS44LTQuNC0uNC0yIC40LTQgMS4zLTQuOCAxLjgtLjUuMy0xLjIgMS0xLjIgMS40IDAgLjcuMyAxLjguOCAyLjQuMy4zLjcuNSAxLjQuNi44IDAgMi41LTEuNCAzLjUtMiAxLS42IDEuNi0uOCAyLjctMS4ybC0yLjkgMi40Yy0xLjMgMS4yLTIuMiAxLjUtMi40IDIuMyAwIC41IDAgMS40LjUgMS44LjQuNS42LjggMS42LjguNiAwIDEgMCAyLjYtMS41LjktLjkgMi4zLTMgMi43LTMuNy42LTEuMSAxLTIuMi43LTMtLjItMS0uNC0xLjQtLjgtMS43ek0xNy40IDE0LjJjLS4zLS41LS45LTEuMi0uMi0yLjVsMS45LTNjLjUtLjggMi0yLjMgMi42LTIuNi42LS40IDEuNS0uNiAyLS4yLjYuNCAxIDEgMS4zIDEuNS40LjYuNyAxLjMuMiAyLS43IDEtMS42LjktMi44IDEuNy0xLjIuOC0xLjkgMS4yLTIuNSAxLjlsMy44LTEuOGMxLjMtLjYgMi43LTEuMSAzLjQtLjcuOC41LjguNyAxIDEuNC4zIDEtLjIgMS45LS44IDIuNC0uNS42LTEuNS45LTIuNiAxLjItMS40LjQtNC41IDEtNS44LjUtMS4zLS41LTEuMy0xLjQtMS41LTEuOHoiIGZpbGw9IiNmZmYiLz48cGF0aCBkPSJNMTIuNyAxNC44cy00LTEuOC0xMiAyLjdjMCAwIDEgMy43IDIuNSA1LjMgMS40IDEuNSAyLjMgMy42IDQuNiA0LjYgMCAwIDQuNy0zIDYuOS05LjJsMy0yczQuNyAyLjggMTIuNi0xLjZjMCAwLS42LTMuMy0zLTYtMi42LTMtMy44LTQuNy0zLjgtNC43cy00LjEgMi4zLTcuNSA5LjNsLTMuMyAxLjZ6IiBmaWxsPSJub25lIiBzdHJva2U9IiMwMDAiIHN0cm9rZS13aWR0aD0iLjUiLz48cGF0aCBkPSJNMTIuNCAxNC45czIuMS0yIDMtMmMxLjEgMCAyLjMgMi43IDIuMyAzLjUgMCAuOC0yLjEgMi40LTMuMSAyLjMgMCAwIDAtMS4yLS43LTIuNi0uOC0xLjMtMS41LTEuMi0xLjUtMS4yeiIgZmlsbD0iIzdmYmJkZCIvPjxwYXRoIGQ9Ik0xMy44IDE1LjNjLjkuOC42IDIgMS40IDEuOCAxLS4yIDEuNC0uOCAxLjMtMS41IDAtLjcgMC0uOC0uNC0xLjYtLjMtLjctMS0xLjEtMi0uNS0uNy41LTEuNCAxLjMtMS40IDEuM3MuMi0uMyAxLjEuNXoiIGZpbGw9IiNmZmYiLz48cGF0aCBkPSJNMTIuNCAxNC45czIuMS0yIDMtMmMxLjEgMCAyLjMgMi43IDIuMyAzLjUgMCAuOC0yLjEgMi40LTMuMSAyLjMgMCAwIDAtMS4yLS43LTIuNi0uOC0xLjMtMS41LTEuMi0xLjUtMS4yeiIgZmlsbD0ibm9uZSIgc3Ryb2tlPSIjMDAwIiBzdHJva2Utd2lkdGg9Ii41Ii8+PC9zdmc+",S2={name:"@genome-spy/app",description:"GenomeSpy-based visualization tool for multiple patient samples",author:{name:"Kari Lavikka",email:"kari.lavikka@helsinki.fi"},contributors:[],license:"BSD-2-Clause",version:"0.28.0",main:"dist/index.js",files:["dist/"],repository:{type:"git",url:"github:genome-spy/genome-spy",directory:"packages/app"},scripts:{dev:"node dev-server.js",build:"vite build",prepublishOnly:"npm run build"},dependencies:{"@floating-ui/dom":"^0.5.0","@fortawesome/fontawesome-free":"^6.1.1","@fortawesome/fontawesome-svg-core":"^6.1.1","@fortawesome/free-solid-svg-icons":"^6.1.1","@genome-spy/core":"^0.28.0","@reduxjs/toolkit":"^1.8.4",idb:"^7.0.1",lit:"^2.4.0","lz-string":"^1.4.4",mapsort:"^1.0.5","redux-batched-actions":"^0.5.0","redux-undo":"^1.0.1",snarkdown:"^2.0.0"}};/**
+ */const qk={},Kk=ar(class extends Kr{constructor(){super(...arguments),this.ot=qk}render(t,e){return e()}update(t,[e,n]){if(Array.isArray(e)){if(Array.isArray(this.ot)&&this.ot.length===e.length&&e.every((r,i)=>r===this.ot[i]))return Ae}else if(this.ot===e)return Ae;return this.ot=Array.isArray(e)?Array.from(e):e,this.render(e,n)}});class Jk extends vt{constructor(){super(),this.inputRef=A2(),this.app=void 0,this.getDefaultValue=()=>"",this._keyListener=this._onKeyDown.bind(this),this._documentClickListener=e=>{var n;e.target!==this._inputField&&((n=this._inputField)==null||n.blur())},this._focused=!1}get genomeSpy(){return this.app.genomeSpy}get _inputField(){return this.inputRef.value}static get properties(){return{app:{type:Object}}}connectedCallback(){super.connectedCallback(),this._initializeGenome(),document.addEventListener("keydown",this._keyListener),document.addEventListener("click",this._documentClickListener)}disconnectedCallback(){super.disconnectedCallback(),document.removeEventListener("keydown",this._keyListener),document.removeEventListener("click",this._documentClickListener)}createRenderRoot(){return this}_onKeyDown(e){switch(e.code){case"KeyF":e.metaKey||e.altKey||e.ctrlKey||(e.preventDefault(),this.inputRef.value.focus());break}}_initializeGenome(){const e=w2(this.genomeSpy.viewRoot);e&&(this._genomeResolution=e,this._genome=this.genomeSpy.genomeStore.getGenome(),this.getDefaultValue=()=>this._genome.formatInterval(e.getDomain()),e.addEventListener("domain",ws(()=>this.requestUpdate(),60,!1)))}async searchViews(e){var r,i;const n=new Intl.Collator("en",{usage:"search",sensitivity:"base"});for(const o of this.genomeSpy.getSearchableViews()){const a=o.getAccessor("search"),s=o.getAccessor("x"),c=o.getAccessor("x2"),u=o.getScaleResolution("x");if(!(!s||!c||!(u!=null&&u.isZoomable()))){for(const f of(i=(r=o.getCollector())==null?void 0:r.getData())!=null?i:[])if(n.compare(a(f),e)===0){const l=gc([s(f),c(f)],null,1.2);return await u.zoomTo(l),!0}}}return!1}async search(e){await(async()=>{if(this._genomeResolution&&this._genome){const r=this._genome.parseInterval(e);if(r){this._genomeResolution.zoomTo(r);return}if(await this.searchViews(e))return;this.genomeSpy.viewRoot.visit(i=>{i instanceof a2&&i.handleVerboseCommand(e)})}})(),this._inputField.value=this.getDefaultValue(),this.requestUpdate()}_onSearchHelpClicked(e){const n=e.target;n.tagName=="LI"&&this._doExampleSearch(n.innerText)}_onSearchFocused(e){const n=e.target;switch(e.type){case"focus":this._focused=!0,n.select();break;case"blur":this._focused=!1;break}}_onSearchKeyDown(e){const n=e.target;e.code=="Enter"?(e.preventDefault(),this.search(n.value).then(()=>{n.focus(),n.select()}).catch(r=>{console.log(r),alert(r)})):e.code=="Escape"?n.blur():e.stopPropagation()}_doExampleSearch(e){$k(e,this._inputField).then(()=>{this._inputField.blur(),this.search(e)})}_getSearchHelp(){var i,o;const e=[];e.push(D`<p>Focus to a specific range. Examples:</p><ul><li>chr8</li><li>chr8:21,445,873</li><li>chr8:21,445,873-24,623,697</li><li>chr4:166,014,727-chr15:23,731,397</li></ul>`);for(const a of((i=this.genomeSpy)==null?void 0:i.getSearchableViews())||[]){const s=(o=a.getTitleText())!=null?o:a.spec.name,c=a.getAccessor("search"),u=c.fields.join(", "),f=Eg(3,a.getCollector().getData(),c);e.push(D`<p>Search <em>${s}</em> (${u}). Examples:</p><ul>${f.map(l=>D`<li>${l}</li>`)}</ul>`)}const n=this.app.getSampleView().attributePanel,r=n.getAttributeNames().map(a=>n.getAttributeInfo(a)).filter(a=>a.type=="nominal"||a.type=="ordinal").sort(()=>.5-Math.random()).map(a=>{var s,c;return[...(c=(s=a.scale)==null?void 0:s.domain())!=null?c:[]].sort(()=>.5-Math.random())[0]}).filter(a=>a!==void 0).slice(0,3);return r.length&&e.push(D`<p>Filter samples by categorical attributes. Examples:</p><ul>${r.map(a=>D`<li>${a}</li>`)}</ul>`),D`<div class="search-help" @click="${this._onSearchHelpClicked}">${e}</div>`}updated(e){this._focused&&this._inputField.select()}render(){return D`<div class="search"><input type="text" class="search-input" .value="${this.getDefaultValue()}" @mousedown="${e=>{this._focused||(this._inputField.focus(),e.preventDefault(),e.stopPropagation())}}" @keydown="${this._onSearchKeyDown.bind(this)}" @focus="${this._onSearchFocused}" @blur="${this._onSearchFocused}" ${x2(this.inputRef)}> ${Kk([123],()=>this._getSearchHelp())}</div>`}}customElements.define("genome-spy-search-field",Jk);function $k(t,e){return new Promise(n=>{let r=0;const i=700/t.length+30;function o(){e.value=t.substring(0,r),r>=t.length?setTimeout(n,500):(r++,setTimeout(o,Math.random()*i*2))}o()})}function w2(t){let e;return t.visit(n=>{for(const r of["x","y"]){const i=n.resolutions.scale[r];if(i&&i.type=="locus"&&i.isZoomable())return e=i,nr}}),e}const C2="data:image/svg+xml;base64,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",S2={name:"@genome-spy/app",description:"GenomeSpy-based visualization tool for multiple patient samples",author:{name:"Kari Lavikka",email:"kari.lavikka@helsinki.fi"},contributors:[],license:"BSD-2-Clause",version:"0.28.1",main:"dist/index.js",files:["dist/"],repository:{type:"git",url:"github:genome-spy/genome-spy",directory:"packages/app"},scripts:{dev:"node dev-server.js",build:"vite build",prepublishOnly:"npm run build"},dependencies:{"@floating-ui/dom":"^0.5.0","@fortawesome/fontawesome-free":"^6.1.1","@fortawesome/fontawesome-svg-core":"^6.1.1","@fortawesome/free-solid-svg-icons":"^6.1.1","@genome-spy/core":"^0.28.1","@reduxjs/toolkit":"^1.8.4",idb:"^7.0.1",lit:"^2.4.0","lz-string":"^1.4.4",mapsort:"^1.0.5","redux-batched-actions":"^0.5.0","redux-undo":"^1.0.1",snarkdown:"^2.0.0"},gitHead:"afa6f0dad1d3b205e95a6335fd474cf7984021b3"};/**
  * @license
  * Copyright 2020 Google LLC
  * SPDX-License-Identifier: BSD-3-Clause

package/package.json

@@ -7,7 +7,7 @@
   },
   "contributors": [],
   "license": "BSD-2-Clause",
-  "version": "0.28.0",
+  "version": "0.28.1",
   "main": "dist/index.js",
   "files": [
     "dist/"
@@ -27,7 +27,7 @@
     "@fortawesome/fontawesome-free": "^6.1.1",
     "@fortawesome/fontawesome-svg-core": "^6.1.1",
     "@fortawesome/free-solid-svg-icons": "^6.1.1",
-    "@genome-spy/core": "^0.28.0",
+    "@genome-spy/core": "^0.28.1",
     "@reduxjs/toolkit": "^1.8.4",
     "idb": "^7.0.1",
     "lit": "^2.4.0",
@@ -36,5 +36,6 @@
     "redux-batched-actions": "^0.5.0",
     "redux-undo": "^1.0.1",
     "snarkdown": "^2.0.0"
-  }
+  },
+  "gitHead": "afa6f0dad1d3b205e95a6335fd474cf7984021b3"
 }