jbrowse2: x/static/js/7013.5240d550.chunk.js.map comparison

comparison x/static/js/7013.5240d550.chunk.js.map @ 125:49f3d3878413 draft

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

author	fubar
date	Sat, 05 Oct 2024 23:58:05 +0000
parents
children

comparison

equal deleted inserted replaced

124:137e08517410	125:49f3d3878413
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b.get('start'))\n }\n\n return features\n}\n\nexport default class FromConfigAdapter extends BaseFeatureDataAdapter {\n protected features: Map<string, Feature[]>\n\n constructor(\n conf: AnyConfigurationModel,\n getSubAdapter?: getSubAdapterType,\n pluginManager?: PluginManager,\n ) {\n super(conf, getSubAdapter, pluginManager)\n const feats = readConfObject(conf, 'features') as SimpleFeatureSerialized[]\n this.features = makeFeatures(feats)\n }\n\n async getRefNames() {\n return [...this.features.keys()]\n }\n\n async getRefNameAliases() {\n return [...this.features.values()].map(featureArray => ({\n refName: featureArray[0]!.get('refName'),\n aliases: featureArray[0]!.get('aliases'),\n }))\n }\n\n getFeatures(region: NoAssemblyRegion) {\n const { refName, start, end } = region\n\n return ObservableCreate<Feature>(async observer => {\n const features = this.features.get(refName) \|\| []\n for (const f of features) {\n if (f.get('end') > start && f.get('start') < end) {\n observer.next(f)\n }\n }\n observer.complete()\n })\n }\n\n freeResources(/* { region } /): void {}\n}\n","import SimpleFeature, { Feature } from '@jbrowse/core/util/simpleFeature'\nimport { ObservableCreate } from '@jbrowse/core/util/rxjs'\nimport { NoAssemblyRegion } from '@jbrowse/core/util/types'\nimport { toArray } from 'rxjs/operators'\nimport { RegionsAdapter } from '@jbrowse/core/data_adapters/BaseAdapter'\n\n// locals\nimport FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter'\nimport { firstValueFrom } from 'rxjs'\n\nexport default class FromConfigSequenceAdapter\n extends FromConfigAdapter\n implements RegionsAdapter\n{\n /\n Fetch features for a certain region\n * @param region - Region\n * @returns Observable of Feature objects in the region\n /\n getFeatures(region: NoAssemblyRegion) {\n return ObservableCreate<Feature>(async observer => {\n const feats = await firstValueFrom(\n super.getFeatures(region).pipe(toArray()),\n )\n const feat = feats[0]!\n observer.next(\n new SimpleFeature({\n ...feat.toJSON(),\n uniqueId: `${feat.id()}:${region.start}-${region.end}`,\n end: region.end,\n start: region.start,\n seq: feat\n .get('seq')\n .slice(\n Math.max(region.start - feat.get('start'), 0),\n Math.max(region.end - feat.get('start'), 0),\n ),\n }),\n )\n\n observer.complete()\n })\n }\n\n /\n Get refName, start, and end for all features after collapsing any overlaps\n /\n async getRegions() {\n const regions = []\n\n // recall: features are stored in this object sorted by start coordinate\n for (const [refName, features] of this.features) {\n let currentRegion:\n \| { start: number; end: number; refName: string }\n \| undefined\n for (const feature of features) {\n if (\n currentRegion &&\n currentRegion.end >= feature.get('start') &&\n currentRegion.start <= feature.get('end')\n ) {\n currentRegion.end = feature.get('end')\n } else {\n if (currentRegion) {\n regions.push(currentRegion)\n }\n currentRegion = {\n refName,\n start: feature.get('start'),\n end: feature.get('end'),\n }\n }\n }\n if (currentRegion) {\n regions.push(currentRegion)\n }\n }\n\n return regions\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 freeResources(/ { region } */): void {}\n}\n"],"names":["makeFeatures","fdata","features","Map","entry","f","SimpleFeature","refName","get","bucket","set","push","refFeatures","values","sort","a","b","FromConfigAdapter","BaseFeatureDataAdapter","constructor","conf","getSubAdapter","pluginManager","super","feats","readConfObject","this","getRefNames","keys","getRefNameAliases","map","featureArray","aliases","getFeatures","region","start","end","ObservableCreate","async","observer","next","complete","freeResources","FromConfigSequenceAdapter","feat","firstValueFrom","pipe","toArray","toJSON","uniqueId","id","seq","slice","Math","max","getRegions","regions","currentRegion","feature"],"sourceRoot":""}

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b.get('start'))\n }\n\n return features\n}\n\nexport default class FromConfigAdapter extends BaseFeatureDataAdapter {\n protected features: Map<string, Feature[]>\n\n constructor(\n conf: AnyConfigurationModel,\n getSubAdapter?: getSubAdapterType,\n pluginManager?: PluginManager,\n ) {\n super(conf, getSubAdapter, pluginManager)\n const feats = readConfObject(conf, 'features') as SimpleFeatureSerialized[]\n this.features = makeFeatures(feats)\n }\n\n async getRefNames() {\n return [...this.features.keys()]\n }\n\n async getRefNameAliases() {\n return [...this.features.values()].map(featureArray => ({\n refName: featureArray[0]!.get('refName'),\n aliases: featureArray[0]!.get('aliases'),\n }))\n }\n\n getFeatures(region: NoAssemblyRegion) {\n const { refName, start, end } = region\n\n return ObservableCreate<Feature>(async observer => {\n const features = this.features.get(refName) || []\n for (const f of features) {\n if (f.get('end') > start && f.get('start') < end) {\n observer.next(f)\n }\n }\n observer.complete()\n })\n }\n\n freeResources(/* { region } */): void {}\n}\n","import SimpleFeature, { Feature } from '@jbrowse/core/util/simpleFeature'\nimport { ObservableCreate } from '@jbrowse/core/util/rxjs'\nimport { NoAssemblyRegion } from '@jbrowse/core/util/types'\nimport { toArray } from 'rxjs/operators'\nimport { RegionsAdapter } from '@jbrowse/core/data_adapters/BaseAdapter'\n\n// locals\nimport FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter'\nimport { firstValueFrom } from 'rxjs'\n\nexport default class FromConfigSequenceAdapter\n extends FromConfigAdapter\n implements RegionsAdapter\n{\n /**\n * Fetch features for a certain region\n * @param region - Region\n * @returns Observable of Feature objects in the region\n */\n getFeatures(region: NoAssemblyRegion) {\n return ObservableCreate<Feature>(async observer => {\n const feats = await firstValueFrom(\n super.getFeatures(region).pipe(toArray()),\n )\n const feat = feats[0]!\n observer.next(\n new SimpleFeature({\n ...feat.toJSON(),\n uniqueId: `${feat.id()}:${region.start}-${region.end}`,\n end: region.end,\n start: region.start,\n seq: feat\n .get('seq')\n .slice(\n Math.max(region.start - feat.get('start'), 0),\n Math.max(region.end - feat.get('start'), 0),\n ),\n }),\n )\n\n observer.complete()\n })\n }\n\n /**\n * Get refName, start, and end for all features after collapsing any overlaps\n */\n async getRegions() {\n const regions = []\n\n // recall: features are stored in this object sorted by start coordinate\n for (const [refName, features] of this.features) {\n let currentRegion:\n | { start: number; end: number; refName: string }\n | undefined\n for (const feature of features) {\n if (\n currentRegion &&\n currentRegion.end >= feature.get('start') &&\n currentRegion.start <= feature.get('end')\n ) {\n currentRegion.end = feature.get('end')\n } else {\n if (currentRegion) {\n regions.push(currentRegion)\n }\n currentRegion = {\n refName,\n start: feature.get('start'),\n end: feature.get('end'),\n }\n }\n }\n if (currentRegion) {\n regions.push(currentRegion)\n }\n }\n\n return regions\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 freeResources(/* { region } */): void {}\n}\n"],"names":["makeFeatures","fdata","features","Map","entry","f","SimpleFeature","refName","get","bucket","set","push","refFeatures","values","sort","a","b","FromConfigAdapter","BaseFeatureDataAdapter","constructor","conf","getSubAdapter","pluginManager","super","feats","readConfObject","this","getRefNames","keys","getRefNameAliases","map","featureArray","aliases","getFeatures","region","start","end","ObservableCreate","async","observer","next","complete","freeResources","FromConfigSequenceAdapter","feat","firstValueFrom","pipe","toArray","toJSON","uniqueId","id","seq","slice","Math","max","getRegions","regions","currentRegion","feature"],"sourceRoot":""}

Mercurial > repos > fubar > jbrowse2

comparison x/static/js/7013.5240d550.chunk.js.map @ 125:49f3d3878413 draft