@jbrowse/plugin-bed 5.0.0-beta.11 → 5.0.0-beta.13
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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@@ -10,13 +10,6 @@ import { openLocation } from '@jbrowse/core/util/io';
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const MAX_EXACT_NAMES = 50;
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11
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const MAX_PREFIX_NAMES = 50;
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12
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const MAX_TRIX_HITS = 500;
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13
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function isSet(location) {
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14
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return 'uri' in location
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15
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? !!location.uri
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: 'localPath' in location
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? !!location.localPath
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: true;
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}
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// the column that matched is the name the hit goes by: a gene symbol for a
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// search by symbol, the accession for a search by accession
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function hitFor({ refName, start, end, rest = '', }, word) {
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@@ -69,7 +62,7 @@ export default class BigBedTextSearchAdapter extends BaseAdapter {
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});
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const ix = this.getConf('ixFilePath');
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const ixx = this.getConf('ixxFilePath');
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if (
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65
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if (ix && ixx) {
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this.trix = new Trix(openLocation(ixx, pluginManager), openLocation(ix, pluginManager), MAX_TRIX_HITS);
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}
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}
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@@ -31,14 +31,10 @@ declare const BigBedTextSearchAdapter: import("@jbrowse/core/configuration/confi
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defaultValue: unknown;
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};
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readonly ixFilePath: {
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type: "
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} & {
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defaultValue: unknown;
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34
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type: "maybeFileLocation";
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};
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readonly ixxFilePath: {
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type: "
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} & {
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defaultValue: unknown;
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type: "maybeFileLocation";
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};
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readonly assemblyNames: {
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type: "stringArray";
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@@ -34,16 +34,14 @@ const BigBedTextSearchAdapter = ConfigurationSchema('BigBedTextSearchAdapter', {
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* indexes hold. Unset, a search matches a name exactly as typed
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*/
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ixFilePath: {
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type: '
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38
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defaultValue: { uri: '', locationType: 'UriLocation' },
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37
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type: 'maybeFileLocation',
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},
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/**
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* #slot
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* the `.ixx` beside `ixFilePath`
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*/
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ixxFilePath: {
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type: '
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defaultValue: { uri: '', locationType: 'UriLocation' },
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type: 'maybeFileLocation',
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},
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/**
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* #slot
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package/package.json
CHANGED
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@@ -1,6 +1,6 @@
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{
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"name": "@jbrowse/plugin-bed",
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"version": "5.0.0-beta.
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"version": "5.0.0-beta.13",
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"type": "module",
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"description": "JBrowse 2 bed adapters, tracks, etc.",
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"keywords": [
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@@ -26,9 +26,9 @@
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"@gmod/tabix": "^3.9.1",
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"@gmod/trix": "^3.0.22",
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"@jbrowse/mobx-state-tree": "^6.7.0",
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"mobx": "^7.0.
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"mobx": "^7.0.6",
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"rxjs": "^7.8.2",
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31
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"@jbrowse/core": "^5.0.0-beta.
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"@jbrowse/core": "^5.0.0-beta.13"
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},
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"peerDependencies": {
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"react": ">=19.0.0",
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