view x/static/js/7489.b8a76d29.chunk.js.map @ 125:49f3d3878413 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 5ea1f9c1eef1de76232e69aa6d34cda77d90d566

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null\n      : openLocation(loc, this.pluginManager).readFile('utf8')\n  }\n\n  public async setup() {\n    if (!this.setupP) {\n      this.setupP = this.setupPre().catch((e: unknown) => {\n        this.setupP = undefined\n        throw e\n      })\n    }\n    return this.setupP\n  }\n\n  public getFeatures(region: NoAssemblyRegion, opts?: BaseOptions) {\n    const { refName, start, end } = region\n    return ObservableCreate<Feature>(async observer => {\n      const { fasta } = await this.setup()\n      const size = await fasta.getSequenceSize(refName, opts)\n      const regionEnd = Math.min(size, end)\n      const chunks = []\n      const chunkSize = 128000\n\n      const s = start - (start % chunkSize)\n      const e = end + (chunkSize - (end % chunkSize))\n      for (let chunkStart = s; chunkStart < e; chunkStart += chunkSize) {\n        const r = {\n          refName,\n          start: chunkStart,\n          end: chunkStart + chunkSize,\n        }\n        chunks.push(\n          this.seqCache.get(JSON.stringify(r), { ...r, fasta }, opts?.signal),\n        )\n      }\n      const seq = (await Promise.all(chunks))\n        .join('')\n        .slice(start - s)\n        .slice(0, end - start)\n      if (seq) {\n        observer.next(\n          new SimpleFeature({\n            id: `${refName} ${start}-${regionEnd}`,\n            data: { refName, start, end: regionEnd, seq },\n          }),\n        )\n      }\n      observer.complete()\n    })\n  }\n\n  /**\n   * called to provide a hint that data tied to a certain region\n   * will not be needed for the foreseeable future and can be purged\n   * from caches, etc\n   */\n  public freeResources(/* { region } */): void {}\n}\n"],"names":["IndexedFastaAdapter","BaseSequenceAdapter","seqCache","AbortablePromiseCache","cache","QuickLRU","maxSize","fill","async","args","signal","refName","start","end","fasta","getSequence","getRefNames","opts","this","setup","getSequenceNames","getRegions","seqSizes","getSequenceSizes","Object","keys","map","setupPre","fastaLocation","getConf","faiLocation","IndexedFasta","openLocation","pluginManager","fai","getHeader","loc","uri","readFile","setupP","catch","e","undefined","getFeatures","region","ObservableCreate","size","getSequenceSize","regionEnd","Math","min","chunks","chunkSize","s","chunkStart","r","push","get","JSON","stringify","seq","Promise","all","join","slice","observer","next","SimpleFeature","id","data","complete","freeResources"],"sourceRoot":""}