Mercurial > repos > fubar > jbrowse2dev
comparison jbrowse2/clienttest.jbrowse @ 6:88b9b105c09b draft
Uploaded
author | fubar |
---|---|
date | Fri, 05 Jan 2024 01:58:02 +0000 |
parents | |
children |
comparison
equal
deleted
inserted
replaced
5:42ca8804cd93 | 6:88b9b105c09b |
---|---|
1 { | |
2 "configuration": { | |
3 "rpc": { | |
4 "defaultDriver": "WebWorkerRpcDriver", | |
5 "drivers": { | |
6 "MainThreadRpcDriver": {}, | |
7 "WebWorkerRpcDriver": {} | |
8 } | |
9 }, | |
10 "logoPath": { | |
11 "locationType": "UriLocation", | |
12 "uri": "" | |
13 } | |
14 }, | |
15 "plugins": [], | |
16 "assemblies": [ | |
17 { | |
18 "name": "Merlin", | |
19 "sequence": { | |
20 "type": "ReferenceSequenceTrack", | |
21 "trackId": "Merlin-1704349310829", | |
22 "adapter": { | |
23 "type": "IndexedFastaAdapter", | |
24 "fastaLocation": { | |
25 "locationType": "LocalPathLocation", | |
26 "localPath": "/home/ross/rossgit/tools-iuc/tools/jbrowse2/test-data/merlin.fa" | |
27 }, | |
28 "faiLocation": { | |
29 "locationType": "LocalPathLocation", | |
30 "localPath": "/tmp/complete/Merlin.fasta.fai" | |
31 }, | |
32 "metadataLocation": { | |
33 "locationType": "UriLocation", | |
34 "uri": "/path/to/fa.metadata.yaml" | |
35 } | |
36 }, | |
37 "displays": [ | |
38 { | |
39 "type": "LinearReferenceSequenceDisplay", | |
40 "displayId": "Merlin-1704349310829-LinearReferenceSequenceDisplay" | |
41 }, | |
42 { | |
43 "type": "LinearGCContentDisplay", | |
44 "displayId": "Merlin-1704349310829-LinearGCContentDisplay" | |
45 } | |
46 ] | |
47 } | |
48 } | |
49 ], | |
50 "tracks": [ | |
51 { | |
52 "type": "FeatureTrack", | |
53 "trackId": "3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz-1704349390805", | |
54 "name": "3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz", | |
55 "assemblyNames": [ | |
56 "Merlin" | |
57 ], | |
58 "adapter": { | |
59 "type": "BedTabixAdapter", | |
60 "bedGzLocation": { | |
61 "locationType": "LocalPathLocation", | |
62 "localPath": "/tmp/complete/3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz" | |
63 }, | |
64 "index": { | |
65 "location": { | |
66 "locationType": "LocalPathLocation", | |
67 "localPath": "/tmp/complete/3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz.tbi" | |
68 } | |
69 } | |
70 }, | |
71 "displays": [ | |
72 { | |
73 "type": "LinearBasicDisplay", | |
74 "displayId": "3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz-1704349390805-LinearBasicDisplay" | |
75 }, | |
76 { | |
77 "type": "LinearArcDisplay", | |
78 "displayId": "3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz-1704349390805-LinearArcDisplay" | |
79 } | |
80 ] | |
81 }, | |
82 { | |
83 "type": "VariantTrack", | |
84 "trackId": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277", | |
85 "name": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz", | |
86 "assemblyNames": [ | |
87 "Merlin" | |
88 ], | |
89 "adapter": { | |
90 "type": "VcfTabixAdapter", | |
91 "vcfGzLocation": { | |
92 "locationType": "LocalPathLocation", | |
93 "localPath": "/tmp/complete/8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz" | |
94 }, | |
95 "index": { | |
96 "location": { | |
97 "locationType": "LocalPathLocation", | |
98 "localPath": "/tmp/complete/8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz.tbi" | |
99 } | |
100 } | |
101 }, | |
102 "textSearching": { | |
103 "textSearchAdapter": { | |
104 "type": "TrixTextSearchAdapter", | |
105 "textSearchAdapterId": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-index", | |
106 "ixFilePath": { | |
107 "locationType": "LocalPathLocation", | |
108 "localPath": "/home/ross/.config/@jbrowse/desktop/autosaved/trix/8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-index.ix" | |
109 }, | |
110 "ixxFilePath": { | |
111 "locationType": "LocalPathLocation", | |
112 "localPath": "/home/ross/.config/@jbrowse/desktop/autosaved/trix/8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-index.ixx" | |
113 }, | |
114 "metaFilePath": { | |
115 "locationType": "LocalPathLocation", | |
116 "localPath": "/home/ross/.config/@jbrowse/desktop/autosaved/trix/8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-index.json" | |
117 }, | |
118 "tracks": [ | |
119 "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277" | |
120 ], | |
121 "assemblyNames": [ | |
122 "Merlin" | |
123 ] | |
124 } | |
125 }, | |
126 "displays": [ | |
127 { | |
128 "type": "LinearVariantDisplay", | |
129 "displayId": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-LinearVariantDisplay" | |
130 }, | |
131 { | |
132 "type": "ChordVariantDisplay", | |
133 "displayId": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-ChordVariantDisplay" | |
134 }, | |
135 { | |
136 "type": "LinearPairedArcDisplay", | |
137 "displayId": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-LinearPairedArcDisplay" | |
138 } | |
139 ] | |
140 }, | |
141 { | |
142 "type": "AlignmentsTrack", | |
143 "trackId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556", | |
144 "name": "859509e7a79c8f48992e130a2a79b36e_0.bam", | |
145 "assemblyNames": [ | |
146 "Merlin" | |
147 ], | |
148 "adapter": { | |
149 "type": "BamAdapter", | |
150 "bamLocation": { | |
151 "locationType": "LocalPathLocation", | |
152 "localPath": "/tmp/complete/859509e7a79c8f48992e130a2a79b36e_0.bam" | |
153 }, | |
154 "index": { | |
155 "location": { | |
156 "locationType": "LocalPathLocation", | |
157 "localPath": "/tmp/complete/859509e7a79c8f48992e130a2a79b36e_0.bam.bai" | |
158 } | |
159 }, | |
160 "sequenceAdapter": { | |
161 "type": "IndexedFastaAdapter", | |
162 "fastaLocation": { | |
163 "locationType": "LocalPathLocation", | |
164 "localPath": "/home/ross/rossgit/tools-iuc/tools/jbrowse2/test-data/merlin.fa" | |
165 }, | |
166 "faiLocation": { | |
167 "locationType": "LocalPathLocation", | |
168 "localPath": "/tmp/complete/Merlin.fasta.fai" | |
169 }, | |
170 "metadataLocation": { | |
171 "locationType": "UriLocation", | |
172 "uri": "/path/to/fa.metadata.yaml" | |
173 } | |
174 } | |
175 }, | |
176 "displays": [ | |
177 { | |
178 "type": "LinearAlignmentsDisplay", | |
179 "displayId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearAlignmentsDisplay" | |
180 }, | |
181 { | |
182 "type": "LinearPileupDisplay", | |
183 "displayId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearPileupDisplay" | |
184 }, | |
185 { | |
186 "type": "LinearSNPCoverageDisplay", | |
187 "displayId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearSNPCoverageDisplay" | |
188 }, | |
189 { | |
190 "type": "LinearReadArcsDisplay", | |
191 "displayId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearReadArcsDisplay" | |
192 }, | |
193 { | |
194 "type": "LinearReadCloudDisplay", | |
195 "displayId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearReadCloudDisplay" | |
196 } | |
197 ] | |
198 }, | |
199 { | |
200 "type": "FeatureTrack", | |
201 "trackId": "1838188642fecd9922f419a0e735e755_0.gff3.gz-1704349668492", | |
202 "name": "1838188642fecd9922f419a0e735e755_0.gff3.gz", | |
203 "assemblyNames": [ | |
204 "Merlin" | |
205 ], | |
206 "adapter": { | |
207 "type": "Gff3TabixAdapter", | |
208 "gffGzLocation": { | |
209 "locationType": "LocalPathLocation", | |
210 "localPath": "/tmp/complete/1838188642fecd9922f419a0e735e755_0.gff3.gz" | |
211 }, | |
212 "index": { | |
213 "location": { | |
214 "locationType": "LocalPathLocation", | |
215 "localPath": "/tmp/complete/1838188642fecd9922f419a0e735e755_0.gff3.gz.tbi" | |
216 } | |
217 } | |
218 }, | |
219 "displays": [ | |
220 { | |
221 "type": "LinearBasicDisplay", | |
222 "displayId": "1838188642fecd9922f419a0e735e755_0.gff3.gz-1704349668492-LinearBasicDisplay" | |
223 }, | |
224 { | |
225 "type": "LinearArcDisplay", | |
226 "displayId": "1838188642fecd9922f419a0e735e755_0.gff3.gz-1704349668492-LinearArcDisplay" | |
227 } | |
228 ] | |
229 }, | |
230 { | |
231 "type": "QuantitativeTrack", | |
232 "trackId": "merlin.bw-1704349777260", | |
233 "name": "merlin.bw", | |
234 "assemblyNames": [ | |
235 "Merlin" | |
236 ], | |
237 "adapter": { | |
238 "type": "BigWigAdapter", | |
239 "bigWigLocation": { | |
240 "locationType": "LocalPathLocation", | |
241 "localPath": "/home/ross/rossgit/tools-iuc/tools/jbrowse2/test-data/bw/merlin.bw" | |
242 } | |
243 }, | |
244 "displays": [ | |
245 { | |
246 "type": "LinearWiggleDisplay", | |
247 "displayId": "merlin.bw-1704349777260-LinearWiggleDisplay" | |
248 } | |
249 ] | |
250 } | |
251 ], | |
252 "internetAccounts": [ | |
253 { | |
254 "type": "DropboxOAuthInternetAccount", | |
255 "internetAccountId": "dropboxOAuth", | |
256 "name": "Dropbox", | |
257 "description": "Account to access Dropbox files", | |
258 "clientId": "ykjqg1kr23pl1i7" | |
259 }, | |
260 { | |
261 "type": "GoogleDriveOAuthInternetAccount", | |
262 "internetAccountId": "googleOAuth", | |
263 "name": "Google Drive", | |
264 "description": "Account to access Google Drive files", | |
265 "clientId": "109518325434-m86s8a5og8ijc5m6n7n8dk7e9586bg9i.apps.googleusercontent.com" | |
266 } | |
267 ], | |
268 "aggregateTextSearchAdapters": [], | |
269 "connections": [], | |
270 "defaultSession": { | |
271 "connectionInstances": [], | |
272 "drawerPosition": "right", | |
273 "drawerWidth": 384, | |
274 "widgets": { | |
275 "GridBookmark": { | |
276 "id": "GridBookmark", | |
277 "type": "GridBookmarkWidget" | |
278 }, | |
279 "addTrackWidget": { | |
280 "id": "addTrackWidget", | |
281 "type": "AddTrackWidget", | |
282 "view": "oATIzuZAL61OxOyGsWP1l" | |
283 }, | |
284 "JobsList": { | |
285 "id": "JobsList", | |
286 "type": "JobsListWidget", | |
287 "jobs": [], | |
288 "finished": [ | |
289 { | |
290 "name": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-index", | |
291 "statusMessage": "done", | |
292 "progressPct": 100 | |
293 } | |
294 ], | |
295 "queued": [], | |
296 "aborted": [] | |
297 }, | |
298 "configEditor": { | |
299 "id": "configEditor", | |
300 "type": "ConfigurationEditorWidget", | |
301 "target": "1838188642fecd9922f419a0e735e755_0.gff3.gz-1704349668492" | |
302 }, | |
303 "hierarchicalTrackSelector": { | |
304 "id": "hierarchicalTrackSelector", | |
305 "type": "HierarchicalTrackSelectorWidget", | |
306 "initialized": true, | |
307 "collapsed": {}, | |
308 "view": "oATIzuZAL61OxOyGsWP1l", | |
309 "faceted": { | |
310 "filterText": "", | |
311 "showSparse": false, | |
312 "showFilters": true, | |
313 "showOptions": false, | |
314 "panelWidth": 400 | |
315 } | |
316 } | |
317 }, | |
318 "activeWidgets": { | |
319 "hierarchicalTrackSelector": "hierarchicalTrackSelector" | |
320 }, | |
321 "minimized": false, | |
322 "id": "0RCNRFfuiied_MUxKv21r", | |
323 "name": "New Session 1/4/2024, 5:21:50 PM", | |
324 "margin": 0, | |
325 "views": [ | |
326 { | |
327 "id": "oATIzuZAL61OxOyGsWP1l", | |
328 "minimized": false, | |
329 "type": "LinearGenomeView", | |
330 "offsetPx": 0, | |
331 "bpPerPx": 113.22935779816514, | |
332 "displayedRegions": [ | |
333 { | |
334 "refName": "Merlin", | |
335 "start": 0, | |
336 "end": 172788, | |
337 "reversed": false, | |
338 "assemblyName": "Merlin" | |
339 } | |
340 ], | |
341 "tracks": [ | |
342 { | |
343 "id": "6q8cZDkFnpribnYm8CCn5", | |
344 "type": "FeatureTrack", | |
345 "configuration": "3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz-1704349390805", | |
346 "minimized": false, | |
347 "displays": [ | |
348 { | |
349 "id": "5lTYaGmlQD_RJMDpG-Mol", | |
350 "type": "LinearBasicDisplay", | |
351 "configuration": "3eeb95fa8dd6e9d46ac3cd1f3a4b3f4b_0.bed.gz-1704349390805-LinearBasicDisplay" | |
352 } | |
353 ] | |
354 }, | |
355 { | |
356 "id": "O9bSW2YKphod5uuN1za6E", | |
357 "type": "VariantTrack", | |
358 "configuration": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277", | |
359 "minimized": false, | |
360 "displays": [ | |
361 { | |
362 "id": "31Hdn7-9Dnr0L6PSxiDmf", | |
363 "type": "LinearVariantDisplay", | |
364 "configuration": "8c3f9b71345db675abafdf2f8e33a6cd_0.vcf.gz-1704349461277-LinearVariantDisplay" | |
365 } | |
366 ] | |
367 }, | |
368 { | |
369 "id": "IcnRsR2AjMxQq6wiOT9Vi", | |
370 "type": "AlignmentsTrack", | |
371 "configuration": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556", | |
372 "minimized": false, | |
373 "displays": [ | |
374 { | |
375 "id": "Dvu0sQCwrUmkze6Zua8JY", | |
376 "type": "LinearAlignmentsDisplay", | |
377 "PileupDisplay": { | |
378 "id": "ulHQgd0Omh3VttUCKyvPi", | |
379 "type": "LinearPileupDisplay", | |
380 "heightPreConfig": 205, | |
381 "configuration": { | |
382 "type": "LinearPileupDisplay", | |
383 "displayId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearAlignmentsDisplay_LinearPileupDisplay_xyz" | |
384 }, | |
385 "filterBy": { | |
386 "flagInclude": 0, | |
387 "flagExclude": 1540 | |
388 }, | |
389 "jexlFilters": [], | |
390 "showSoftClipping": false | |
391 }, | |
392 "SNPCoverageDisplay": { | |
393 "id": "z_mkwAGHGZCZpvqG0AEMg", | |
394 "type": "LinearSNPCoverageDisplay", | |
395 "heightPreConfig": 45, | |
396 "configuration": { | |
397 "type": "LinearSNPCoverageDisplay", | |
398 "displayId": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearAlignmentsDisplay_snpcoverage_xyz" | |
399 }, | |
400 "selectedRendering": "", | |
401 "resolution": 1, | |
402 "constraints": {}, | |
403 "filterBy": { | |
404 "flagInclude": 0, | |
405 "flagExclude": 1540 | |
406 }, | |
407 "jexlFilters": [] | |
408 }, | |
409 "snpCovHeight": 45, | |
410 "configuration": "859509e7a79c8f48992e130a2a79b36e_0.bam-1704349533556-LinearAlignmentsDisplay", | |
411 "lowerPanelType": "LinearPileupDisplay" | |
412 } | |
413 ] | |
414 }, | |
415 { | |
416 "id": "sqXxD9i7mkIgJX9bStLFp", | |
417 "type": "FeatureTrack", | |
418 "configuration": "1838188642fecd9922f419a0e735e755_0.gff3.gz-1704349668492", | |
419 "minimized": false, | |
420 "displays": [ | |
421 { | |
422 "id": "ot2hxRedj7L-2eOtTfj47", | |
423 "type": "LinearBasicDisplay", | |
424 "configuration": "1838188642fecd9922f419a0e735e755_0.gff3.gz-1704349668492-LinearBasicDisplay" | |
425 } | |
426 ] | |
427 }, | |
428 { | |
429 "id": "w8XYtNAPQ77lYiJ4yfTc_", | |
430 "type": "QuantitativeTrack", | |
431 "configuration": "merlin.bw-1704349777260", | |
432 "minimized": false, | |
433 "displays": [ | |
434 { | |
435 "id": "R7aBFiHHKrly_WAFzxdcN", | |
436 "type": "LinearWiggleDisplay", | |
437 "configuration": "merlin.bw-1704349777260-LinearWiggleDisplay", | |
438 "selectedRendering": "", | |
439 "resolution": 1, | |
440 "constraints": {} | |
441 } | |
442 ] | |
443 }, | |
444 { | |
445 "id": "vCT2YxTb4kbBwbjU7y0Nw", | |
446 "type": "ReferenceSequenceTrack", | |
447 "configuration": "Merlin-1704349310829", | |
448 "minimized": false, | |
449 "displays": [ | |
450 { | |
451 "id": "1hj13cpwWU1pHF9KyXyYA", | |
452 "type": "LinearReferenceSequenceDisplay", | |
453 "heightPreConfig": 50, | |
454 "configuration": "Merlin-1704349310829-LinearReferenceSequenceDisplay", | |
455 "showForward": true, | |
456 "showReverse": true, | |
457 "showTranslation": true | |
458 } | |
459 ] | |
460 } | |
461 ], | |
462 "hideHeader": false, | |
463 "hideHeaderOverview": false, | |
464 "hideNoTracksActive": false, | |
465 "trackSelectorType": "hierarchical", | |
466 "showCenterLine": false, | |
467 "showCytobandsSetting": true, | |
468 "trackLabels": "", | |
469 "showGridlines": true, | |
470 "showBookmarkHighlights": true, | |
471 "showBookmarkLabels": true | |
472 } | |
473 ], | |
474 "sessionAssemblies": [], | |
475 "temporaryAssemblies": [], | |
476 "focusedViewId": "oATIzuZAL61OxOyGsWP1l" | |
477 } | |
478 } |