Release 0.3.0

What's Changed

• add workflow run status count api by @raylrui in #558
• Update Python service skel by @reisingerf in #557
• Feat (metadata-manager): Update model by @williamputraintan in #535
• fix(filemanager): swap docker hub images for AWS public ECR by @mmalenic in #565
• Feat (MM): Custom CSV Importer for MM by @williamputraintan in #566
• refactor(filemanager): match AWS behaviour for delete markers by @mmalenic in #568
• Bug fixes for 0.2.1 by @alexiswl in #573
• Feat (MM): State Change Event by @williamputraintan in #569
• Fix orcabus_id filter (w/ prefixes) by @williamputraintan in #582
• Feat(MM): API Serializer Expansion by @williamputraintan in #583
• Fix error when checking source uris have been transferred by @alexiswl in #588
• Add OrcaBus ID by @reisingerf in #579
• feat(filemanager): ingest_id tagging and object move tracking by @mmalenic in #585
• fix(filemanager): version_id for S3 API calls by @mmalenic in #587
• Add RESOLVED state as supported WorkflowRun state by @reisingerf in #594
• feat(filemanager): accept multiple keys in API by @mmalenic in #596
• Friday changes: by @alexiswl in #589
• Fix: Drop incomplete record before metadata processing by @williamputraintan in #598
• feat(filemanager): docker caching and current state default by @mmalenic in #601
• Feature/analysis journey by @reisingerf in #599
• Feat (MM): History API for Models by @williamputraintan in #606
• wfm update for ui fix by @raylrui in #608
• cttsov2 job checker requires permissions to list executions by @alexiswl in #603
• Add fastqc / sequali stats to fastq list row events for first 1 million reads by @alexiswl in #602
• Pieriandx needs 'SUCCEEDED' status as positive terminal status not 'COMPLETE' by @alexiswl in #604
• Handle orcabus_id with prefix when saving model objects by @reisingerf in #612
• feat: filemanager partitions by @mmalenic in #615
• fix(filemanager): resetting current state should include old verisons by @mmalenic in #616
• wfr/ feat-comments-resolved-status-mutation-module by @raylrui in #613
• Oncoanalyser / Sash stack and glue services by @alexiswl in #610
• Feat: Add Authoriser Based on User Pool Group by @williamputraintan in #617
• Bumped dependencies by @victorskl in #620
• Remove unused stacky tables by @alexiswl in #619
• feat(event-source): ignore cache directories by @mmalenic in #621
• Updated json paths for portal run id and workflow run name by @alexiswl in #623
• feat(event-source): add archive bucket as event source by @mmalenic in #625
• Fix library lookup with prefixed orcabusId by @reisingerf in #626
• Fixed roket get-individual-id step by @alexiswl in #630
• Retry lambdas with delay of 60 seconds by @alexiswl in #631
• Allow samplesheet overwrite by @alexiswl in #632
• Need to collect camelCase orcabus Id when retrieving object from metadata manager by @alexiswl in #635
• Feat(MM): Add Sync Metadata Endpoint by @williamputraintan in #627
• Feat/analysis run api update by @raylrui in #628
• Delete partial files before retrying copy job by @alexiswl in #636
• Added ora file decompression fastq pair component by @alexiswl in #624
• Upgrade memory for pieriandx glue lambdas by @alexiswl in #634
• CodeBuild doesn't support git-lfs by @alexiswl in #642
• [skip ci]: Added ora pipeline and reference path to staging and production envs by @alexiswl in #639
• Only save payload if present by @reisingerf in #646
• Add analysis size option per microservice by @alexiswl in #638
• Manually transfer files that are smaller than 8 MiB or dont have an etag by @alexiswl in #643
• Need to set 'keep_flowcell_layout' to true for wrapica collection of runinfo xml by @alexiswl in #648
• Fix (MM): Allow nullable description for sync by @williamputraintan in #649
• Fix WRSC not having a payload by @reisingerf in #650
• Set cttsov2 icav2 storage configuration to LARGE by @alexiswl in #652
• Pull the snomed databases from github if they're not on the local system by @alexiswl in #654
• fix-ora-compression-manager by @alexiswl in #656
• Prevent the ntc samples running through cttsov2 by @alexiswl in #658
• PierianDx Production Fixes by @alexiswl in #659
• HotFix(authorization-manager): Sanitize Authorization Header by @williamputraintan in #661
• Update dragen somatic pipeline id by @alexiswl in #665
• feat(fmannotator): add DLQ for fmannotator function by @mmalenic in #664
• Fixed oncoanalyser Batch trigger initial status SUBMITTED by @victorskl in #667
• Wrong typescript boolean logic which meant there was no event rule by @alexiswl in #671
• Fix literal placeholders in nf step functions by @alexiswl in #674
• hotfix(filemanager): add permissions that allow API/inventory functions to access pipeline-*-cache buckets by @mmalenic in #670
• Sanitise subject id for oncoanalyser / sash / nf workflows by @alexiswl in #680
• Update v2 samplesheet maker version by @alexiswl in #678
• Fix status for non-terminal by @alexiswl in #682
• Fix Rnasum dataset input parameter by @alexiswl in #684
• Setup to rearrange the outputs for the ora compression manager by @alexiswl in #666
• Chore(mm): Miscellaneous Update by @williamputraintan in #686
• Update rnasum pipeline version to 1.1.5 by @alexiswl in #685
• fix(filemanager): longer presigned URLs by @mmalenic in #688
• Fix(mm): Broken Comparison on Update by @williamputraintan in #691
• Added lambda layer for workflows API endpoint + RNASum Lambda by @alexiswl in #692
• Fix rnasum rerun lambda by @alexiswl in #702
• feat(filemanager): add fastq bucket to ingester event source by @mmalenic in #700
• add distinct to remove duplicate results by @raylrui in #706
• Add holmes glue by @alexiswl in #708
• Allow validation only for ora decompression by @alexiswl in #703
• Retry 5 mins when capacity is limited by @alexiswl in #712
• Feat(wfm): rnasum rerun api by @williamputraintan in #713
• Few lambda fixes by @alexiswl in #715
• Feat(pipeline): Disable Dev Automatic Deployment by @williamputraintan in #714
• Fix(MM): Add reason on history for add in m2m relationship by @williamputraintan in #716
• Rate limit ora compression workflow by @alexiswl in #720
• feat: dump postgres records by @mmalenic in #709
• Feat(mm): Allow Library Filtered by Project by @williamputraintan in #723
• feat(data-migrate): data mover task by @mmalenic in #726
• Don't extend portal run id to sequencer run, by @alexiswl in #731
• Set sample type to ctDNA for cttsov2 triggers by @alexiswl in #730
• Sleep command should then loop to list-executions by @alexiswl in #733
• fix(data-migrate): set arch as ARM64 by @mmalenic in #735
• ORA Compression fixes for too large sfns, single indexed libraries by @alexiswl in #736
• Use hash for cache uri by @alexiswl in #737
• Bugfix, fix compression outputs for single indexed samples by @alexiswl in #738
• Set list tasks to 1 more than rate limit command by @alexiswl in #739
• Swap max items for max results by @alexiswl in #740
• Max results can't be more than 100 by @alexiswl in #742
• Run a partition over the rgid first and then run merge fastq list csv by @alexiswl in #743
• Update holmes glue wrappers to match new input syntax by @alexiswl in #741
• Bugfix, add extact arn to map step by @alexiswl in #744
• Fix map output size limit by @alexiswl in #746
• Catch the Ecs Rate Exceeded exception by @alexiswl in #747
• fix(data-migrate): fix stdout capture and failed step functions by @mmalenic in #749
• Add result path to holmes map by @alexiswl in #750
• Feat(SRM) models refatcor by @raylrui in #753
• fix(data-migrate): add structured output to step functions by @mmalenic in #754
• Fix(SRM) SRM api issue by @raylrui in #755
• Fix/add delete for api allow methods by @raylrui in #756
• Feat (wfm): add workflow stats viewsets by @raylrui in #725
• Add ora reference for tn workflows by @alexiswl in #761
• Add ora compression to cttsov2 workflow by @alexiswl in #763
• feat(htsget): add htsget support by @mmalenic in #759
• feat: filemanager multiple same-key queries by @mmalenic in #762
• Updated aurora automated backup retention by @victorskl in #767
• Feat(MM): Additional MM Endpoint and Library Filter by @williamputraintan in #765
• Added readme for launching the tumor normal pipeline by @alexiswl in #769
• Implemented OrcaBus database tier-2 backup retention by @victorskl in #768
• build(fmannotator): update deps by @mmalenic in #771
• Feat(wfr) api add "DEPRECATED" state by @raylrui in #770
• Decompress ora files prior to running if gzip files are also present by @alexiswl in #774
• Fix validationOnly json path, should be constant 'false' by @alexiswl in #776
• Resolve division by zero error by @alexiswl in #777
• fix(pg-dd): python version and environment variables by @mmalenic in #783
• Chore: Refactor Django orcabus_id by @williamputraintan in #784
• Remove null inputs from inputs payload by @alexiswl in #778
• Fix step functions where next attribute for Merge Boolean Skipped new step by @alexiswl in #787
• fix(filemanager): add permissions for analysis and fastq archive buckets by @mmalenic in #791
• feat(filemanager): update ingest id by @mmalenic in #793
• Bumped dependencies by @victorskl in #794

Full Changelog: 0.2.3...0.3.0