Revision 885b932ac79cef0e0c4f927ffaf95d648761b65d authored by Emma O'Neill on 28 June 2019, 17:06:19 UTC, committed by Emma O'Neill on 28 June 2019, 17:06:19 UTC
1 parent 07a689d
CHANGES.rst
Changes
=======
v86.0 (released) snovault 1.0.31
--------------------------------
1. ENCD-4676 add-nagios-role-deployment (#2796)
2. ENCD-4666 update-snovault-1.0.31 (#2790)
3. ENCD-4657 add-s3-uri-to-metadata (#2786)
4. ENCD-4639 Organize demo cloud yaml (#2773)
5. ENCD-4634 Add database to file_format (#2770)
6. ENCD-4541 Add multiple facets to cart view pages (#2780)
7. ENCD-4633 Update saucelabs connect version 4.5.3 (#2788)
8. ENCD-4609 Exclude fccs institutional certification (#2764)
9. ENCD-4631 add new qc object for gencode categories (#2787)
10. ENCD-4492 audit-to-chk-fq-non-fq-pair (#2776)
11. ENCD-4084 date selector facet (#2759)
12. ENCD-4600 Add MIME type for ab1 attachment (#2774)
13. SNO-93 user-count-does-not-match (#2758)
14. ENCD-4647 Display QC metric properties with multitype (#2783)
15. SNO-90 added-advanced-search (#2729)
16. ENCD-4648 always-show-cloud-metadata (#2777)
17. ENCD-4642 Stop home banner truncation (#2781)
18. ENCD-4599 fix audit detail typo (#2765)
19. ENCD-4400 added-creative-commons-logo (#2750)
20. ENCD-4611 update 2 polyA assay_titles (#2761)
v85.2 (unreleased) snovault 1.0.30
--------------------------------
1. ENCD-4650 update-snovault-1.0.30 (#2778)
2. ENCD-4620 indexing-failures (#2775)
v85.1 (released)
--------------------------------
1. ENCD-4628 Add a mechanism for a home page banner (#2768)
v85.0 (released) snovault 1.0.29
--------------------------------
1. ENCD-4625 Fix target upgrade for chromatin remodeler (#2755)
2. ENCD-4624 update-snovault-1.0.29 (#2754)
3. ENCD-4392 update-to-java-11 (#2726)
4. SNO-91 update-java-ref (#2753)
5. SNO-87 fix-profile-trailing-slash (#2710)
6. ENCD-4619 Add experiment classification to data insert (#2752)
7. ENCD-4361 validate-schema-set-status (#2748)
8. ENCD-4558 add 2 new FCC assays
9. ENCD-4563 shorten 3 assay titles
10. ENCD-4579 update to EFO3 and update ontology.json and docs
11. ENCD-4536 long read RNA audit (#2735)
12. ENCD-4535 long rna qc (#2673)
13. SNO-86 escape-search-text (#2709)
14. ENCD-3642 fix-file-format-download (#2746)
15. ENCD-4602 Update link on home page button (#2744)
16. ENCD-4606 Add error correction step type (#2747)
17. ENCD-4493 Limit RIN audit to certain assays (#2743)
18. ENCD-4593 add histone and control chip-seq titles (#2741)
19. ENCD-4504 miRNA audits (#2736)
20. ENCD-4503 micro RNA qc (#2679)
21. ENCD-4570 Add M21 V29 V30 genome annotations (#2745)
22. ENCD-4544 deleted the file atacseq qm json file (#2738)
23. ENCD-3108 Add new target categories (#2742)
24. SNO-88 fix-user-search-count (#2722)
25. ENCD-4589 Add an experimental audit for biosample characterization. (#2739)
26. ENCD-4316 Make generic matrix-rendering component. (#2728)
27. ENCD-4575 software-column-used-by (#2737)
28. ENCD-4545 Update visualization browser list (#2730)
29. ENCD-4597 show-all-datasets (#2733)
84.0 (released) snovault 1.0.28
-------------------------------
1. ENCD-4591 add-title-column-back (#2723)
2. ENCD-4590 fix-facet-num-line (#2725)
3. ENCD-4592 Update to Java 9 in travis (#2724)
4. ENCD-4585 Update to snovault 1.0.28 (#2721)
5. SNO-89 Fix backoff error key in indexer (#2720)
6. ENCD-4559 x-limit-zero-results (#2711)
7. ENCD-4349 restrict gm reagents (#2672)
8. ENCD-4578 Fix s3 to s3 allow flag in deployment (#2708)
9. ENCD-4243 Make dataset biosample boost values consistent (#2712)
10. ENCD-4527 walkme-production-snippet (#2690)
11. ENCD-4581 Temp install java 8 through aws (#2718)
12. ENCD-4577 Add documents on characterization page (#2716)
13. ENCD-4565 remove back slashes from search terms (#2714)
14. ENCD-4576 Change header links and add FAQ script (#2715)
15. ENCD-4556 Remove lane reqs for massspec characs (#2700)
16. ENCD-4311 href-column-is-blank (#2713)
17. SNO-85 facet-reappearing (#2676)
18. ENCD-4506 make fragmentation method a list (#2683)
19. ENCD-4542 Display biosample table on GM pages (#2699)
20. ENCD-4407 update the columns and facet titles
21. ENCD-4548 fix fallback images on collection pages (#2703)
22. ENCD-4560 update typeaheads after selections (#2702)
23. ENCD-4497 get rid of duplicate columns using titles
24. ENCD-4564 add target typeahead to AntibodyLot pages (#2707)
25. ENCD-4412 Add Clear Cart item to cart menu (#2695)
26. ENCD-4554 fix-annotation-url (#2697)
83.0 (released) / snovault 1.0.27
-----------------
1. ENCD-4569 Update snovault to 1.0.27 (#2704)
2. ENCD-4562 Setup s3tos3 copy on test (#2698)
3. ENCD-4555 Fix key errors in vis indexing (#2696)
4. ENCD-4543 fix-status-hierarchy (#2677)
5. ENCD-4550 Fix deploy console output (#2691)
6. ENCD-4170 exclude-restricted-files (#2670)
7. ENCD-4510 Fix human donor children calc prop (#2684)
8. ENCD-4513 add collections links to menu (#2681)
9. ENCD-3919 index-vis-blobs-on-deploy (#2685)
10. ENCD-4517 Add new property introduced_elements to user interface (#2671)
11. SNO-83 rotate jpg and tiff attachment based on EXIF (#2667)
12. ENCD-3952 add new assay category, mpra, update ontology.json
13. ENCD-4347 add efo derives from capability, remove unnecessary slimming
14. ENCD-4384 Update assay name ISO-seq to long read RNA-seq
15. ENCD-4489 add imputation annotation_type (#2654)
16. ENCD-4414 Allow users to add exp to carts from series (#2665)
17. ENCD-4507 Handle long cart operations (#2661)
18. ENCD-4494 remove-duplicate-embedding (#2659)
19. ENCD-4521 add-insert-user-meenakshi (#2653)
20. ENCD-4469 Add stimulation to treatment type (#2646)
21. ENCD-3422 datasets-table-publication (#2660)
22. ENCD-4524 update audit matrix (#2662)
23. ENCD-4526 Change date format for Pages (#2663)
24. ENCD-4477 added-changelogs (#2668)
25. ENCD-4530 Fix duplicate alternate accessions (#2669)
26. ENCD-4464 add GM category enums (#2634)
27. ENCD-4523 Fix ENSEMBL visualization (#2645)
82.0 (released) / snovault 1.0.26
-----------------
1. ENCD-4509 Add test back (#2640)
2. ENCD-4518 Fix javascript error for sorting dates (#2642)
3. ENCD-4481 Update to snovault 1.0.26 (#2639)
4. ENCD-4500 remove-uploading-private-status-list (#2636)
5. ENCD-3901 Support multiple carts per user (#2614)
6. ENCD-4487 reset-upload-bucket (#2635)
7. ENCD-4505 fix-file-bucket-audit (#2638)
8. ENCD-4482 adding lane to characterizations review (#2624)
9. ENCD-4483 Cleanup deploy output and short aws name(#2626)
10. ENCD-4353 Refactor-out-matrix-and-result (#2539)
11. SNO-80 Typeahead for facets (#2632)
12. ENCD-3877 annotation-download-btn
13. ENCD-4474 model restriction map (#2617)
14. ENCD-4473 add-MPRA-assay (#2623)
15. ENCD-4418 Add ontology dbxrefs to biosample page (#2637)
16. ENCD-4305 Turn Superseded by into links on exp file pages (#2633)
17. ENCD-4457 organoid age (#2631)
18. ENCD-4485 bug report camel case (#2629)
19. ENCD-4467 Numerical facets sorted by value not frequency (#2628)
20. ENCD-3877 annotation-download-btn
21. ENCD-4449 use top level class files property for Annotation
22. ENCD-4401 remove-approvalrequired (#2616)
23. ENCD-4217 Rendering error series objects (#2627)
24. ENCD-4484 Allow deployment set ssh id file (#2625)
25. ENCD-4348 Restrict ontologies for in vitro diff cells (#2620)
26. ENCD-4476 add-spaces-schema (#2615)
27. SNO-73 Add uuid queue module
28. ENCD-4456 Override update objs in vis reg indexers
29. ENCD-4450 add two sources to alias namespace (#2618)
30. ENCD-4475 Fix pub priv bucket variables (#2613)
81.0 (released) / snovault 1.0.25
-----------------
1. ENCD-4462 fixing the AB characterization view bug (#2606)
2. ENCD-4463 embed BiosampleType in antibody characterization (#2603)
3. ENCD-4460 Update AnalysisStep changelog (#2605)
4. ENCD-4461 Revert libraries for exp type matrix (#2602)
5. ENCD-4429 Lower audit severity for missing reagents in GM (#2601)
6. ENCD-4458 Update snovault 1.0.25 (#2600)
7. ENCD-4240 Allow review characterizations (#2591)
8. ENCD-4425 Update audits exp and genetic mod targets (#2598)
9. ENCD-4445 Handle login for related files in file tables. (#2597)
10. ENCD-4455 Notify indexer for file update bucket (#2599)
11. ENCD-4453 Add idx file format (#2594)
12. ENCD-4427 file-bucket-audit (#2580)
13. ENCD-4298 Ontology update colon and PLAC-seq (#2590)
14. ENCD-4251 Combine reorganize technical replicates (#2567)
15. ENCD-4431 Change report file download name (#2571)
16. ENCD-4444 Highlight selected facet terms numbers (#2587)
17. ENCD-4408 mobile menu readability (#2593)
18. ENCD-4420 Remove biosample type name id props (#2585)
19. ENCD-4014 library restriction enzyme audit (#2537)
20. ENCD-4419 use biosample ontology for audit (#2589)
21. ENCD-4435 Add ENCv5 ccre internal_tags to datasets (#2588)
22. ENCD-4406 exclude fly RNAi from reagents audit (#2570)
23. ENCD-4227 add-PLAC-seq-to-assays (#2584)
24. ENCD-4405 Add enrichment to analysis step types enum (#2582)
25. ENCD-4416 Revise audit_inherit list of AntibodyLots (#2583)
26. ENCD-4402 Add Jennifer Z to submitters (#2572)
27. ENCD-4397 introducing GM in metadata tsv (#2557)
28. ENCD-4439 add PLAC-seq in generate-ontology (also #2590)
80.0 (released) / snovault 1.0.24
-----------------
1. ENCD-4423 Update dalliance to version 1.0 (#2566)
2. ENCD-4417 Update to snovault 1.0.24 (#2563)
3. ENCD-3971 Update node npm to version 10 (#2553)
4. ENCD-4359 Fix recursive is_part_of audit function (#2552)
5. ENCD-4325 Juicebox browser (#2554)
6. ENCD-4360 connect biosample type (#2560)
7. ENCD-4396 Citation note (#2555)
8. ENCD-4388 excluding not relevant experiments form RE audits (#2551)
9. ENCD-4355 add introduced gene link (#2559)
10. ENCD-4375 Restore SRA dbxrefs linkouts (#2558)
11. ENCD-4393 add-gene-alignments (#2556)
12. ENCD-4369 Install redis server (#2543)
13. ENCD-4377 Add Ubiquitination to target mod enum (#2550)
14. ENCD-4399 fix-linux-travis-option (#2547)
79.0 (released) / snovault 1.0.22-23
-----------------
1. ENCD-4340 get-or-create-carts-with-types (#2541)
2. ENCD-4372 Update to snovault 1.0.23 (#2546)
3. ENCD-4367 Update simple for queue module (#2542)
4. ENCD-4371 Update to snovault 1.0.22 (#2544)
5. ENCD-4335 Remove npm shrinkwrap again (#2540)
6. ENCD-4312 genetic modification audit (#2528)
7. ENCD-3665 add file format dependency (#2523)
8. ENCD-4333 Add release candidate options to deploy (#2503)
9. ENCD-4323 Promote released objects (#2535)
10. ENCD-4346 Added new output type for HiC files (#2531)
11. ENCD-4334 Added status facet to Matrix view on y axis (#2520)
12. ENCD-4299 Fix anti body lot target_organisms (#2529)
13. ENCD-4358 add cell-free sample BiosampleType (#2536)
14. ENCD-4306 remove-improper-styling (#2524)
15. ENCD-4338 Allow repo to be specified on deploy (#2509)
16. ENCD-4327 changed audit level for missing step run (#2513)
17. ENCD-4201 Add Jen to test data insert (#2518)
18. ENCD-4328 disable-btn-unavail-files (#2521)
19. ENCD-4218 fix biodalliance visualize multiple datasets (#2522)
20. ENCD-4315 cleanup-mutated-gene (#2526)
21. ENCD-4273 Inconsistent antibody handling (#2530)
22. ENCD-4319 improve BiosampleType (#2516)
23. ENCD-4308 fix-audit-clear-filter (#2499)
24. ENCD-4324 Added-min-width-to-y-axis-label (#2506)
25. ENCD-4265 matrix-audit-text-update (#2507)
26. ENCD-4250 Make target synthetic organism as tag (#2510)
27. ENCD-4272 no-add-treatments (#2514)
28. ENCD-4326 Fix HTML entities for quotes (#2511)
29. ENCD-4297 Fix back button behavior and page jumping (#2515)
30. ENCD-3855 Filter ReEpig by assay facet by title (#2517)
78.0 (released) / snovault 1.0.21
-----------------
1. ENCD-4332 Update to snovault 1.0.21 (#2502)
2. ENCD-4301 Refactor index UUID server (#2485)
3. ENCD-4263 Only show released quality metrics (#2450)
4. ENCD-4195 Update ontology with mintchip slims (#2500)
5. ENCD-4321 Fix import of ExperimentTable (#2498)
6. ENCD-4317 Update snovault to 1.0.20 (#2494)
7. ENCD-4205 biosample type (#2442)
8. ENCD-4245 skip-restricted-acl (#2490)
9. ENCD-4279 Biosample preservation (#2493)
10. ENCD-4033 Search page type-specific header (Req SNO-66) (#2492)
11. ENCD-4281 fix-audit-text-message (#2465)
12. ENCD-4223 Make internal_tags badges clickable to search pages (#2467)
13. ENCD-4289 Update genetic modification tags metadata (#2491)
14. ENCD-4244 audit-error-page (#2461)
15. ENCD-4271 fix-treatment-tem-id-regex (#2475)
16. ENCD-4231 matched set controls (#2474)
17. ENCD-4295 fix target title in JSON (#2486)
18. ENCD-4291 changed modification_type to category in gm schema (#2478)
19. ENCD-4252 disable-download-restricted-files-admin (#2481)
20. ENCD-4300 Remove checkfiles folder (#2484)
21. ENCD-4288 Update requests to 2.20.0 (#2483)
22. ENCD-4195 ontology update sept18 (#2489)
23. ENCD-4267 Remove redirect from apache config (#2459)
24. ENCD-4142 Update calc prop assembly on dataset (#2437)
25. ENCD-4255 fix-biosample-audit-bug (#2470)
26. ENCD-4282 Add PGP internal_tags badge (#2468)
27. ENCD-4256 Fix region search back button functionality (#2463)
28. ENCD-4280 Remove table margin (#2462)
29. ENCD-4239 Add biosample to query string on matrix (#2460)
30. ENCD-4199 Ignore npm shrinkwrap (#2477)
77.1 (released) / 3998 Bug Fix
-----------------
1. ENCD-3998 Target upgrade to return gene uuid (#2466)
77.0 (released) / snovault 1.0.19
-----------------
1. ENCD-4237 bdd-test-for-search (#2435)
2. ENCD-4274 Update to snovault 1.0.19 (#2446)
3. ENCD-3159 Initial shopping cart (#2430)
4. ENCD-4209 Add index flags to indexers and fix logs (#2402)
5. ENCD-4000 represent histone modification in Target (#2416)
6. ENCD-3998 Link target to gene and link gene from targets. (#2416)
7. ENCD-4229 Fix no story news news crash (#2445)
8. ENCD-3701 Update events from search page text box (#2428)
9. ENCD-4185 s3-public-url (#2425)
10. ENCD-4257 Revert copy to deepcopy for matrix factory(#2439)
11. ENCD-4220 Remove references to release ready status (#2436)
12. ENCD-4176 fix BDSC links (#2434)
13. ENCD-4254 Raise file validation error audit level in exp (#2433)
76.0 (released) / snovault 1.0.18
-----------------
1. ENCD-3926 Refactor search related views (#2422) (#2424)
2. ENCD-4202 fixing missing control audit (#2398)
3. ENCD-4197 Red audit for missing step_run (#2397)
4. ENCD-4221 Fix button styles (#2414)
5. ENCD-4207 Added emma to user file (#2403)
6. ENCD-4177 Adding btn to convert page to JSON (#2411)
7. ENCD-3830 Make text area fields in forms (#2405)
8. ENCD-4206 calc prop rebased (#2418)
9. ENCD-4190 no-hypen-on-experiment-values (#2399)
10. ENCD-4200 show-facebook-share-btn (#2401)
11. ENCD-4196 Reduce cloud init size (#2392)
12. ENCD-4208 Add png addition to qc mime types (#2400)
13. ENCD-4216 Add RefSeq to dbxrefs in gene schema (#2410)
14. ENCD-4173 Add Paul to test user inserts (#2404)
15. ENCD-4171 Reset default audit inherit (#2393)
75.1 (released)
-----------------
1. ENCD-4214 Update to snovault 1.0.17 (#2406)
75.0 (released)
-----------------
1. ENCD-4204 Update to snovault 1.0.16 (#2394)
2. ENCD-4193 block-on-orange-audit (#2390)
3. ENCD-4153 alter-select-distinct-values (#2389)
4. ENCD-4135 integrity-num (#2375)
5. ENCD-4188 add khine to testdata (#2391)
6. ENCD-4187 fix ENSEMBL links for mouse. (#2380)
7. ENCD-4160 Added Casey, Jason, and Zack to users (#2371)
8. ENCD-4159 adjusting GM characterization audit (#2366)
9. ENCD-4038 Adding matrix bdd tests (#2335)
10. ENCD-4182 Patch dbxref pattern in Gene. (#23
11. ENCD-4166 RIN internal action audit (#2365)
74.0 (released)
-----------------
1. ENCD-4169 Update to snovault 1.0.15
2. ENCD-4131 set-status-endpoint (#2363)
3. ENCD-4168 add-embed-cache-to-ini (#2367)
4. ENCD-4167 Explicitly set availability zone in deploy script (#2361)
5. ENCD-4163 Update to snovault 1.0.14 (#2360)
6. ENCD-3997 Create Gene object (#2307)
7. ENCD-4083 Allow aws s3 to s3 file transfer (#2358)
8. ENCD-4162 update snovault 1.0.13 (#2359)
9. ENCD-4136 Add dry run arg for deployment (#2357)
10. ENCD-4123 audit chip (#2343)
11. ENCD-4154 Remove unused search type arg (#2355)
12. ENCD-4141 Add alias namespaces (#2344)
13. ENCD-4152 Make organism scientific_name required (#2354)
14. ENCD-4107 Added experiment_class to experiment schema (#2330)
15. ENCD-4134 add RIN number property to Library (#2348)
16. ENCD-3732 replicate-sorting (#2329)
17. ENCD-4146 Restore FileDownloadButton constructor (#2352)
18. ENCD-4149 Allow bin test log arg for workbook loading (#2351)
19. ENCD-4144 Fix failing impersonation test button size (#2350)
20. ENCD-4118 set minimum value to 0 for ch coordinates in GM (#2347)
21. ENCD-4143 Add asserts to status trigger tests
73.0 (released)
-----------------
1. ENCD-4129 update-to-snovault-1.0.12 (#2336)
2. ENCD-4064 release-endpoint (#2281)
3. ENCD-4017 Fulfill ECP requests for home page additions. (#2326)
4. ENCD-4105 Add DGGR dbxref processing (#2325)
5. ENCD-4108 audit matched (#2324)
6. ENCD-4089 Deactivated-rep-num-in-annot-table (#2315)
7. ENCD-4074 toolip-overlay (#2313)
8. ENCD-4102 changed audit from WARNING to ERROR (#2327)
9. ENCD-3903 add documentation for schema page (#2332)
10. ENCD-3563 updated sc replication audit (#2322)
11. ENCD-4087 fixed-flybase-search (#2312)
12. ENCD-4051 Change schemas to set minimum int values (#2309)
72.0 (released)
-----------------
1. ENCD-4103 Fix tests broken by SNO-41 (#2317)
2. ENCD-4098 Update to snovault 1.0.11 (#2314)
3. ENCD-4072 Remove es master from deployment (#2302)
4. ENCD-4086 Analysis-Step schema (#2305)
5. ENCD-4048 rep-num-in-pub-n-exp (#2311)
6. ENCD-4093 Fix initial region indexing failure (#2308)
7. ENCD-3728 Fix build error (#2306)
8. ENCD-4020 Allowing specification of Sets as controls (#2296)
9. ENCD-4055 removed-some-styling-on-raw-data (#2277)
10. ENCD-4057 properly-format-data-on-biosample-page (#2276)
11. ENCD-4088 Remove extra code added in ENCD-3306 (#2310)
12. ENCD-4040 vis index replicate conditional (#2294)
13. ENCD-3718 return-404-when-file-not-found (#2278)
14. ENCD-4073 Revert accidental blocked dataset status expansion (#2291)
15. ENCD-4077 Fix deploy volume size type (#2304)
16. ENCD-3776 move-to-standard-status (#2295)
17. ENCD-4078 Remove unused statuses (#2293)
18. ENCD-4058 expanding-matrix-creates-unaligned-header (#2280)
19. ENCD-4085 Add weiwei as a submitter (#2298)
20. ENCD-4081 Add Yunhai as a submitter in local test. (#2288)
71.0 (released)
-----------------
01. ENCD-4046 update to snovault 1.0.10, add CHANGES (#2275)
02. ENCD-3306-fix-line-in-table (#2271)
03. ENCD-4045 gdpr auth0 (#2274)
04. ENCD-3695-upgrade-to-boto3 (#2272)
05. ENCD-3883-add-pmi-data (#2263)
06. ENCD-3727 added hypen for long words (#2270)
07. Add zoldello (Phil) as an authorized submitter for the test environments. ENCD-4049
08. ENCD-4019 adding readname_details field to the file.json (#2260)
09. ENCD-4042 Update genetic mods for functional characterization experiments (#2262)
10. ENCD-3629 Refactor and redesign status displays. (#2246)
11. ENCD-4034 SVG tooltip and minor JS clean up (#2255)
12. ENCD-3911 Added a break above document box (#2256)
13. ENCD-3364 fixed text and link button misalignment (#2257)
70.0 (released)
-----------------
01. ENCD-4037 Update snovault 1.0.9 (#2258)
02. ENCD-4029 Update to snovault 1.0.8 (#2254)
03. ENCD-3889 supersedes refepi (#2247)
04. ENCD-3871-target-standard-status (#2252)
05. ENCD-4011 Fix wrong vars in buildout candidate config file (#2241)
06. ENCD-3867 Display proper replicate_type string (#2249)
07. ENCD-4015 adding an audit for read_count and test for it (#2242)
08. ENCD-4010 fixing a typo in the samtools flagstat quality metric (#2238)
09. ENCD-3995 Update file output_type (#2239)
10. ENCD-4016 adding community to users (#2243)
11. ENCD-3957 Add biosample accession to report columns (#2250)
12. ENCD-3970 Add encore badge (#2251)
13. ENCD-4008-fix-source-title (#2253)
14. ENCD-4007-nginx-proxy-header (#2244)
15. ENCD-3981 remove histone modification (#2240)
16. ENCD-3963 Remove antibody accession column (#2233)
17. ENCD-3974 Update biosample organoid (#2234)
18. ENCD-3641 fix navigate to file download URI (#2237)
69.0 (released)
-----------------
01. REG-9 Fix vis button for region search (#2210)
02. ENCD-3986 Update to snovault 1.0.7 (#2229)
03. ENCD-3950 Require date_submitted in submitted experiments (#2224)
04. ENCD-3923 Allow es to deploy separately from encoded
05. ENCD-3620 Update deploy options for region search
06. ENCD-3621 Refactor deploy script
07. ENCD-3980 Organize ini files and vars
08. ENCD-3216 Hide antibody characterizations via user access level (#2225)
09. ENCD-3726 adding platform to library (#2223)
10. ENCD-3959 Add int and bool to displayed QC types (#2212)
11. ENCD-3973 Redo how GM characterization documents get displayed (#2219)
12. ENCD-3979 Fix zc buildout for pypi update (#2221)
13. ENCD-3961 eslint AirBnB npm package updates (#2214)
68.0 (released)
-----------------
01. ENCD-3965 Update to snovault 1.0.6 (#2209)
02. ENCD-3934 fix plate location in library (#2208)
03. ENCD-3944 Add organ slim shims & update ontology.json (#2201)
04. ENCD-3934 Update to original 3934 commit (#2207)
05. ENCD-3739 rewriting chip control read depth audit (#2188)
06. ENCD-3775-started-to-in-progress (#2202)
07. ENCD-3451 Summary page (#2200)
08. ENCD-2992 Remove unused status (#2206)
09. ENCD-3960 Fix batch download lookup column test (#2205)
10. ENCD-3935 adding new biosample type "single cell" (#2193)
11. ENCD-3898 adding an audit flagging "tagging" GM without characterization (#2187)
12. ENCD-3886 Update deploy machine instance types (#2181)
13. ENCD-3863 Eliminate repeated values in report TSV (#2136)
14. ENCD-3938 Adding new Series type "AggregateSeries" (#2190)
15. ENCD-3934 adding "barcode_details" to library schema (#2197)
16. ENCD-3189 Traverse root using external_accession key from files (#2178)
17. ENCD-3645 & ENCD-3716 Strip white spaces from values (#2194)
18. ENCD-3716 Strip white spaces from values (#2194)
19. ENCD-3773-pipeline-status (#2189)
20. ENCD-3870-publication-status-mixin (#2191)
21. ENCD-3780-remove-ready-for-review (#2192)
22. ENCD-3772-remove-virtual (#2195)
23. ENCD-1 Add treatments amount, duration to metadata.tsv
24. ENCD-2845 Quick fix for biosamples with both the sexes
25. ENCD-3868 - Adding unit tests for batch_download helpers
26. ENCD-3823 & ENCD-3864 - Filter out restricted files and refactor batch_download
27. ENCD-3864 - Filter out restricted files and refactor batch_download
67.1 (released)
---------------
1. ENCD-3916 Fix for broken metadata queries (#2179)
67.0 (released)
-----------------
01. ENCD-3915 Remove chromedriver lock from Travis (#2174)
02. ENCD-3892 Update to snovault 1.0.5 (#2173)
03. ENCD-3809 Add run_types for pacbio and oxford nanopore (#2172)
04. ENCD-3839 Remove schemas for the deleted objects (#2167)
05. ENCD-3891 Fix file test for duplicates in derived_from (#2162)
06. ENCD-3908 Update indexer doc for march 2018 update
07. ENCD-3913 Update regionsearch MAX_CLAUSES request_timeout
08. ENCD-3900 Increase demo volume size
09. ENCD-3756 Remove scorefilter in dnase visuals
10. ENCD-3907 Adopting UCSC bigNarrowPeak type
11. ENCD-3260 Refactor visualization
12. ENCD-3602 Migrate indexers to region and secondary
13. ENCD-3894 Move NIH cert audit to experiment (#2166)
14. ENCD-3840 Add link to linkFrom linkTo schema properties (#2168)
15. ENCD-3899 Fix exp audit trigger on non-encode pipelines (#2170)
16. ENCD-3604 Update boost to include GM accessions (#2171)
17. ENCD-3848 Remove immortalize from cell line (#2164)
18. ENCD-3854 Fix report description column sort error (#2150)
19. ENCD-3893 Add NIH cert to biosample facets (#2165)
20. ENCD-3828 Update redacted alignments (#2163)
21. ENCD-3841 Add collapsing sections on schema pages (#2154)
22. ENCD-3880 Add Alembic documentation (#2152)
23. ENCD-3821 Show biosample characterization doc links (#2145)
24. ENCD-3882 Update DOI preferred resolver url (#2135)
25. ENCD-3879 Pin Alembic version (#2151)
66.0 (released)
---------------
01. ENCD-3878 Update to snovault version 1.0.4 (#2148)
02. ENCD-3834 Add Alembic framework for Postgres migrations (#2142)
03. ENCD-3869 Downgrade chromedriver version 2.33 (#2143)
04. ENCD-3827 Fix ES5 version in README (#2141)
05. ENCD-3698 Add Institutional certifications to biosample (#2140)
06. ENCD-1934 Format schema displays (#2115)
07. ENCD-3865 Update to snovault version 1.0.3 (#2139)
08. ENCD-3836 Small heap single machine (#2137)
09. ENCD-3819 Add biosample preservation method (#2122)
10. ENCD-3835 Fix inconsistent platforms audit HiSeq2K 2.5K (#2133)
11. ENCD-3341 Add new output_types to file json (#2132)
12. ENCD-3853 Remove UCSC logos (#2134)
13. ENCD-3757 Adjust histone broad peak read depth audit (#2125)
14. ENCD-3831 Add exp audit to flag standards violations (#2124)
15. ENCD-3766 Add submitter comments to certain js pages (#2123)
16. ENCD-3820 Biosample: PMI property (#2120)
17. ENCD-3798 Ontology Update Jan2018 (#2119)
18. ENCD-3816 Update selenium version to 3.8.1 (#2118)
19. ENCD-3803 Allow fastq_sig to accept 3 in SRR headers (#2113)
20. ENCD-3456 Stringify array and object items in a cell (#2111)
21. ENCD-3762 Add RegulomeDB internal_tag and badge (#2110)
22. ENCD-3421 Properly link home chart to matrix (#2108)
23. ENCD-2567 New report page column selector modal (#2105)
65.3 (released)
----------------
* ENCD-3851 Add max clause es5 updates
65.2 (unreleased)
-----------------
* Update to snovault 1.0.2 (#2128) -> ENCD-3845
65.1 (unreleased)
-----------------
* ENCD-3813 Update to snovault 1.0.1 (#2116)
65.0 (unreleased)
-----------------
1. ENCD-3815 Fix tests for facet aggregation set to 200 (#2109)
2. ENCD-3795 Fix spelling in histone and idr qm jsons (#2104)
3. ENCD-3810 Set facet aggregation to 200 in search (#2107)
4. ENCD 3749 Update README for ES5 and dependency requirements (#2087)
5. ENCD-3741 Search for objects based on associated grant number (#2103)
6. ENCD-3792 Add histone_chip_quality_metric PIP-198 (#2101)
7. Update to snovault v1.0.0 -> ENCD-3788
8. ENCD-3745 Add platform to file and exp facets (#2088)
9. ENCD-3765 Set max_result_window for annotations index (#2083)
10. ENCD-2488 ES5 Update aka RM3910
11. ENCD-3546 Create 'save and add' button to add forms (#2100)
12. ENCD-3700 Remove unreplicated exp audit for genetic mod DNase (#2096)
13. ENCD-3781 Resolve WGBS lambda audit error (#2095)
14. ENCD 3759 Fix WGBS coverage audit (#2093)
15. ENCD-3743 Fix read depth audits for DNase and ChIP (#2091)
16. ENCD-3760 Remove the NTR assay audit (#2089)
17. ENCD-3724 Adjust facet term display check (#2086)
18. ENCD-3755 Remove schemas for RNAi and construct characterizations (#2085)
19. ENCD-3737 Add M14 gencode annotations to file enums (#2084)
20. ENCD-3708 Update publication states (#2077)
21. ENCD-3699 Remove mixed run type audit from DNase (#2065)
22. ENCD-3661 Update drawing file graphs and JS Tests (#2080)
23. ENCD-3764 Fix message typo in Assay audit (#2081)
24. ENCD-3473 Fix for unknown error in batch_download
25. ENCD-3579 Fix for batch download error
26. ENCD-3566 Fix JS FileInput add document (#2076)
27. ENCD-3597 Use obj picker for user impersonation (#2068)
28. ENCD-3721 Allow 'in vitro sample' to have biosample_term_name (#2067)
29. ENCD-3734 file audit escalation (#2066)
0.1 (unreleased)
----------------
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