Release 1.0.0

Milestone

• https://github.com/umccr/data-portal-apis/milestone/9?closed=1

What's Changed

• Added GPL Report query to Subject view by @victorskl in #455
• Add more filter in fastq endpoint by @williamputraintan in #456
• Feature/somalier extract and check by @alexiswl in #459
• Improved Somalier Holmes pipeline integration by @victorskl in #460
• Add run level skip list support by @reisingerf in #461
• Added Subject analysis results query from GDSFile by @victorskl in #462
• Bumped dependencies MySQL-8, Django 4.0.4, SLS by @victorskl in #463
• Fixed serverless to allow botocore servicediscovery service by @victorskl in #464
• Improved Holmes integration by @victorskl in #465
• Fixed AWS CLI Lambda Python datetime object marshalling serde by @victorskl in #466
• Release 1.0.0 by @victorskl in #467
• Updated user guide and OpenAPI doc by @victorskl in #468
• Added Bash script example for data discovery then get signed URLs by @victorskl in #469
• Fixed orchestrator next step upon workflow succeeded by @victorskl in #471
• Release 1.0.0 Backporting by @victorskl in #472

Full Changelog: 0.9.4...1.0.0

Release 0.9.4

Milestone

• https://github.com/umccr/data-portal-apis/milestone/13?closed=1

What's Changed

• Fixed pandas deprecated frame append (#434) by @victorskl in #449
• Bump django from 4.0.3 to 4.0.4 by @dependabot in #451
• Remove minimum adapter overlap setting for 10X samples by @alexiswl in #453
• Release 0.9.4 by @victorskl in #454

Full Changelog: 0.9.3...0.9.4

Release 0.9.3

Milestone

• https://github.com/umccr/data-portal-apis/milestone/12?closed=1

What's Changed

• Drop adapters from 10X samples by @alexiswl in #443
• Updated to address S3 event processing performance issue (#143) by @victorskl in #445
• Release 0.9.3 by @victorskl in #446
• Reinstated S3 delete event processing (#143) by @victorskl in #448

Full Changelog: 0.9.2...0.9.3

Release 0.9.2

Milestone

• https://github.com/umccr/data-portal-apis/milestone/11?closed=1

What's Changed

• Set minimum adapter overlap to three for all bclconvert samplesheets by @alexiswl in #439
• Bumped serverless and dev dependencies by @victorskl in #441
• Release 0.9.2 by @victorskl in #442

Full Changelog: 0.9.1...0.9.2

Release 0.9.1

Milestone

• https://github.com/umccr/data-portal-apis/milestone/10?closed=1

What's Changed

• Updated umccrise path to be subdirectory of umccrise output directory by @alexiswl in #436
• Release 0.9.1 by @victorskl in #437

Full Changelog: 0.9.0...0.9.1

Release 0.9.0

Milestone

• https://github.com/umccr/data-portal-apis/milestone/6?closed=1

What's Changed

• Pipeline SOP and Cleanup Ops by @victorskl in #414
• Update cleanup documentation by @reisingerf in #416
• Initialise RNAsum automation by @skanwal in #399
• Removed squashed migrations by @victorskl in #419
• Added SequenceStatus Aborted status by @victorskl in #420
• Added manops by @victorskl in #418
• Fixed RNAsum step skip unittest by @victorskl in #421
• Added examples for Portal APIs using IAM authz by @victorskl in #422
• Bumped libica 2.0.0 by @victorskl in #423
• Added arriba directory changes to RNASum workflow by @alexiswl in #424
• Fixed rnasum Lambda unittest for arriba directory input by @victorskl in #425
• Added more integration test case for rnasum step by @victorskl in #426
• Release 0.9.0 by @victorskl in #427
• DevSecOps: Migrated to pre-commit and detect-secret hook by @victorskl in #428
• Increased Lambda timeout on LabMetadata and LIMS sheets sync by @victorskl in #429
• Improved doco by @victorskl in #430
• Changed RNAsum auto step by @victorskl in #432
• Release 0.9.0 Backporting by @victorskl in #433

Full Changelog: 0.8.1...0.9.0

Release 0.8.1

Milestone

• https://github.com/umccr/data-portal-apis/milestone/8?closed=1

What's Changed

• Improved LIMS update process with no delay to show up in Portal by @victorskl in #398
• Improved metadata parser on handling CRLF in cell by @victorskl in #396
• Bumped dependencies by @victorskl in #400
• Release 0.8.1 by @victorskl in #401
• Fixed unit test in PROD for step skip list using mockito spy by @victorskl in #402
• Fixed unit test in PROD for step skip list using mockito spy by @victorskl in #403
• Fixed LIMSRow update if there are existing record by @victorskl in #406
• Fixed LIMSRow update if there are existing record by @victorskl in #407
• Fixed BatchRule succeeded library run to be within Batch scope by @victorskl in #408
• Bump follow-redirects from 1.14.7 to 1.14.8 by @dependabot in #412
• Import 2019 LabMetadata by default too by @victorskl in #411
• Added LabMetadata Sync API endpoint by @victorskl in #409
• Make stringent LabMetadataRule check for workflow run by @victorskl in #410
• Release 0.8.1 Backporting by @victorskl in #413

Full Changelog: 0.8.0...0.8.1

Release 0.8.0

Milestone

• https://github.com/umccr/data-portal-apis/milestone/5?closed=1

What's Changed

• Initial commit for umccrise automation by @alexiswl in #381
• Bump follow-redirects from 1.14.3 to 1.14.7 by @dependabot in #385
• Bump django from 3.2.9 to 3.2.11 by @dependabot in #386
• Support IAM access to APIs by @andrewpatto in #378
• Improved domain rule mechanism implementation by @victorskl in #387
• Added ICA pipeline emergency stop and configurable steps by @victorskl in #388
• Bumped Django4 and all dependencies by @victorskl in #389
• Fixed build issue with sls domain manager by @victorskl in #390
• Fixed pipeline emergency stop upon PendingAnalysis by @victorskl in #391
• Added SQS event handler for umccrise queue and Lambda by @victorskl in #392
• Updated umccrise Slack notification Sample display by @victorskl in #393
• Release 0.8.0 by @victorskl in #394

New Contributors

• @andrewpatto made their first contribution in #378

Full Changelog: 0.7.1...0.8.0

Release 0.7.1

Milestone

• https://github.com/umccr/data-portal-apis/milestone/7?closed=1

What's Changed

• Updated docs and R-xamples by @victorskl in #372
• Added succeeded runs filter to dragen_tso_ctdna_step by @victorskl in #373
• Fixed LibraryRun related workflows fetching query by @victorskl in #374
• Fixed LibraryRun related workflows query unit tests by @victorskl in #375
• Holiday patch by @victorskl in #376
• Added support for lab metadata sheet 2022 by @victorskl in #379
• Restore ICA Pipeline to normal Ops by @victorskl in #380
• Release 0.7.1 by @victorskl in #384

Full Changelog: 0.7.0...0.7.1

Release 0.7.0

Milestone

• https://github.com/umccr/data-portal-apis/milestone/4?closed=1

What's Changed

• Implement workflow libraryrun api by @williamputraintan in #331
• Updated doc on API usage and examples by @victorskl in #334
• Updated API doc presign endpoint for GDS files by @victorskl in #335
• link BCL_CONVERT with libraryRun by @williamputraintan in #336
• Implement workflow libraryrun api by @williamputraintan in #337
• Implement workflow libraryrun api by @williamputraintan in #339
• Repopulate tables by @williamputraintan in #338
• Refactor models by @williamputraintan in #340
• Refactor Viewsets by @williamputraintan in #345
• Fixed migration order refactor side effect by @victorskl in #350
• Start adding source/type filters to look for FFPE/FF by @brainstorm in #349
• Restructure gds output and intermediate paths by @alexiswl in #352
• Fix LibraryRun when lane does not exist by @reisingerf in #355
• Merged LibraryRun SampleSheet no lane fix from main to dev by @victorskl in #357
• Bumped serverless dev dependencies by @victorskl in #358
• Populate LibraryRun upon SequenceRun status PendingAnalysis (#356) by @victorskl in #360
• Renamed service module by @victorskl in #361
• Added libraryrun lambda by @victorskl in #362
• Handled gracefully for report JSON data having NaN (#347) by @victorskl in #363
• Refactor HTTP Query Params by @williamputraintan in #351
• Added Subject result summary from GDS (#359) by @victorskl in #364
• Deprecated utils package (#353) by @victorskl in #366
• Bumped dependencies by @victorskl in #367
• Squashed migrations 0001 to 0037 (#342) by @victorskl in #368
• Fixed bcl_convert notification display name by @victorskl in #369
• Improved library run linking impl by @victorskl in #370
• Release 0.7.0 by @victorskl in #371

Full Changelog: 0.6.0...0.7.0