Release 0.1.0

What's Changed

• Update build script by @williamputraintan in #1
• Pre commit hook Added by @williamputraintan in #3
• Improve project setup by @victorskl in #10
• Refactor setup schemaregistry by @reisingerf in #18
• Implemented externalise config constants pass-down as props pattern by @victorskl in #19
• Bumped dependencies and fixed lints by @victorskl in #20
• Refactored project setup on initial structure by @victorskl in #13
• Reinforced DevSecOps setup with scanners TruffleHog & GGShield by @victorskl in #21
• Serverless MySQL by @williamputraintan in #22
• Refactored OrcaBus Stateless component with MicroService by @victorskl in #23
• Init CDK-Pipeline by @williamputraintan in #24
• Updated pipeline to use UMCCR AWS accounts by @victorskl in #25
• Improved Django template skel profile by @victorskl in #26
• Updated SequenceRunStateChange Event schema with proper envelope by @victorskl in #29
• Implemented Sequence Run Manager microservice app by @victorskl in #28
• FileManager microservice Rust skel by @brainstorm in #27
• Improved SequenceRunStateChange Event schema by @victorskl in #30
• Improved Django Skel by removing base setting as default by @victorskl in #31
• Rust skel fixups by @brainstorm in #33
• Improved GHA CI build and local dev DX by @victorskl in #32
• Implemented Sequence Run Manager BSSH event processing by @victorskl in #36
• Bumped baseline toolchain Python and Node dependencies by @victorskl in #41
• Init Metadata Manager by @williamputraintan in #35
• Initial dev for the Metadata Manager by @williamputraintan in #42
• Bump webpki from 0.22.0 to 0.22.1 in /skel/rust-api by @dependabot in #43
• Bump webpki from 0.22.1 to 0.22.2 in /skel/rust-api by @dependabot in #44
• Filemanager: S3 events persistence by @brainstorm in #37
• Bump django from 4.2.3 to 4.2.7 in /skel/django-api/src by @dependabot in #51
• Bump werkzeug from 2.3.6 to 3.0.1 in /skel/django-api/src by @dependabot in #48
• Bump axios from 1.4.0 to 1.6.1 in /lib/workload/stateless/metadata_manager/src by @dependabot in #52
• Bump django from 4.2.3 to 4.2.7 in /lib/workload/stateless/sequence_run_manager/src by @dependabot in #50
• Bump @babel/traverse from 7.21.4 to 7.23.2 by @dependabot in #46
• Bump django from 4.2.3 to 4.2.7 in /skel/django-proc/src by @dependabot in #49
• Bump @babel/traverse from 7.22.8 to 7.23.2 in /lib/workload/stateless/metadata_manager/src by @dependabot in #45
• Bump werkzeug from 2.3.6 to 2.3.8 in /lib/workload/stateless/sequence_run_manager/src by @dependabot in #55
• Rust skel bump by @brainstorm in #56
• Refresh and fix some AWS Rust SDK API changes by @brainstorm in #58
• Remove _deprecated by @brainstorm in #59
• Fix SQS events, update localstack, speed up compilte/test cycle w/ sc… by @brainstorm in #61
• Fix sqs events upgrade localstack by @brainstorm in #62
• Bump rustix from 0.38.13 to 0.38.21 in /lib/workload/stateful/filemanager by @dependabot in #60
• [doc] Add Rust SCCACHE to speed up local builds by @brainstorm in #63
• Simplify local development and debugging setup by @brainstorm in #65
• More idempotent scripts by @brainstorm in #66
• Bump openssl from 0.10.59 to 0.10.60 in /skel/rust-api by @dependabot in #64
• Init for MetadataManager by @williamputraintan in #67
• Filemanager: fix ingestion/deployment by @brainstorm in #74
• filemanager: setup testing by @mmalenic in #75
• Remove the lock and bump up the toml by @brainstorm in #78
• filemanager: deploy changes and fixes by @mmalenic in #79
• Added Swagger UI and Dependencies Bumped by @williamputraintan in #83
• Gitpod by @andrewpatto in #80
• Project setup refactor by @victorskl in #87
• Metadata Manager Restructuring by @williamputraintan in #89
• feat: de-duplicate events at the database level by @mmalenic in #88
• Update RDS Construct by @williamputraintan in #91
• build(deps): bump h2 from 0.3.21 to 0.3.24 in /lib/workload/stateful/filemanager by @dependabot in #84
• Initiate CDK Pipeline by @williamputraintan in #92
• feat(filemanager): move SQS and DLQ to stateful stack by @mmalenic in #101
• feat(filemanager): ensure events are ingested in the correct order by @mmalenic in #93
• refactor: filemanager deployment code and Makefile by @mmalenic in #98
• build(deps): bump django from 4.2.7 to 4.2.10 in /skel/django-proc/src by @dependabot in #95
• build(deps): bump django from 4.2.7 to 4.2.10 in /lib/workload/stateless/sequence_run_manager by @dependabot in #96
• build(deps): bump django from 4.2.7 to 4.2.10 in /skel/django-api/src by @dependabot in #97
• build(deps): bump undici from 5.25.2 to 5.28.3 in /lib/workload/stateless/metadata_manager by @dependabot in #105
• build(deps): bump ip from 2.0.0 to 2.0.1 by @dependabot in #107
• build(deps): bump ip from 2.0.0 to 2.0.1 in /lib/workload/stateless/metadata_manager by @dependabot in #108
• fix: event source name rule should be an array by @mmalenic in #112
• fix: queue service name and secret name by @mmalenic in #118
• fix(filemanager): deserialize event bridge messages by @mmalenic in #121
• fix(filemanager): correctly deal with null version_id by @mmalenic in #125
• postgres-manager: Initiate postgres-manager by @williamputraintan in #126
• fix(postgres-manager): failing unit test from cdk-nag by @williamputraintan in #128
• fix(filemanager): re-run sqlx prepare with all targets by @mmalenic in #124
• fix(filemanager): sqlx queries by @mmalenic in #134
• Fix: Codebuild UnitTest by @williamputraintan in #132
• codepipeline notication by @williamputraintan in #130
• fix(filemanager): ingest constraints by @mmalenic in #136
• fix(filemanager): query files by @mmalenic in #142
• Postgres Manager Enhancement by @williamputraintan in #149
• Added sequence_run_manager database config by @victorskl in #151
• refactor: swap rust function by @mmalenic in #152
• fix(pipeline): install Rust for unit tests by @mmalenic in #154
• fix: pipeline error caused by filemanager containerized build by @mmalenic in #156
• Implemented SequenceRunManager app deployment by @victorskl in #155
• Fixed SequenceRunManager architecture to ARM64 by @victorskl in #163
• Update Readme and Refactor Pipeline Code by @williamputraintan in #157
• Trimmed down the sequence_run_manager by @victorskl in #171
• Fixed deployment by removing sequence_run_manager HttpStage by @victorskl in #172
• build(deps): bump postgres versions to match RDS instance by @mmalenic in #173
• fix: filemanager uuids by @mmalenic in #161
• Improved sequence_run_manager API Gateway setup by @victorskl in #175
• Fixed sequence_run_manager endpoint unit test by @victorskl in #181
• refactor: filemanager stack by @mmalenic in #180
• fix(filemanager): let docker decide on container names by @mmalenic in #183
• fix(filemanager): use docker run to get unique containers by @mmalenic in #184
• fix(filemanager): silence Makefile output and trim lines by @mmalenic in #187
• fix(filemanager): add uuid to target directory to avoid concurrency errors by @mmalenic in #189
• Update Stateless Pipeline Test by @williamputraintan in #194
• feat(filemanager): iam rds credentials by @mmalenic in #196
• build(deps): bump h2 from 0.3.25 to 0.3.26 in /lib/workload/stateless/filemanager by @dependabot in #198
• fix(filemanager): ssm parameter in tests by @mmalenic in #200
• Metadata Manager Depoyment by @williamputraintan in #199
• Implemented TokenService stack as stateful deployable artefact by @victorskl in #197
• Feature/ica event pipe by @reisingerf in #193
• Added Token Service policy construct by @victorskl in #203
• Fixed Token Service policy syntax by @victorskl in #205
• Fix SNS ARN format by @reisingerf in #206
• Fixed Token Service policy for Lambda VPC by @victorskl in #207
• Fixed Token Service Python import arrangement by @victorskl in #210
• Fixed Token Service initial value json parsing by @victorskl in #211
• Rotatable Db Secret Manager by @williamputraintan in #209
• Fix Stateful Test by @williamputraintan in #212
• feat: provider construct and filemanager migration by @mmalenic in #213
• build(deps): bump tar from 6.2.0 to 6.2.1 by @dependabot in #215
• Finalised Token Service fixes and improvement by @victorskl in #214
• chore: Split Stateful Single Stack to Multi Stack by @williamputraintan in #216
• fix: test-stateful by @williamputraintan in #220
• fix(filemanager) change i32 to i64 to support bigger sizes by @mmalenic in #218
• Fixed Token Service initial value json parsing by @victorskl in #227
• chore: remove parent (of µ-app) stack in cdk.Stage and Refactor by @williamputraintan in #221
• chore: splitting config file by @williamputraintan in #231
• fix: property naming by @williamputraintan in #232
• Updated Token Service documentation by @victorskl in #234
• Updated SequenceRunManager deployment by @victorskl in #235
• Update SQS policy to allow ICA to send notifications. by @reisingerf in #236
• Create TES Basespace Upload manager service by @alexiswl in #186
• build(deps): bump rustls from 0.21.10 to 0.21.11 in /lib/workload/stateless/stacks/filemanager by @dependabot in #239
• add universal events archiver function by @raylrui in #226
• feat(filemanager): add external id and attribute column by @mmalenic in #228
• Fix docker options for filemanager by @alexiswl in #242
• Added feature icav2 copy batch state machine by @alexiswl in #143
• Fixed ARM architecture for bs-upload & icav2-batch-copy stacks by @victorskl in #246
• Fix event duplication And Remove Server access logs when archiving to bucket by @raylrui in #247
• Fixed cdk-nag for bs-upload & icav2-batch-copy stacks by @victorskl in #248
• feature: Custom Resourcing PSQL commands by @williamputraintan in #249
• fix: postgres manager test by @williamputraintan in #251
• fix(PostgresManager): 2nd attempt fix dependencies issue by @williamputraintan in #252
• fix(PostgresManager): yarn.lock update by @williamputraintan in #253
• Disable Postgres Manager Test by @williamputraintan in #255
• Objects apigw API by @brainstorm in #115
• build(deps): bump django from 4.2.10 to 4.2.11 in /skel/django-api/src by @dependabot in #164
• build(deps): bump django from 4.2.10 to 4.2.11 in /skel/django-proc/src by @dependabot in #165
• event archive bucket policy modification according different env by @raylrui in #250
• custom event bus archiver props and stateful unit testing fixing by @raylrui in #256
• build(deps): bump idna from 3.6 to 3.7 in /lib/workload/stateless/stacks/bs-runs-upload-manager/layers by @dependabot in #240
• build(deps): bump idna from 3.6 to 3.7 in /lib/workload/stateless/stacks/icav2-copy-batch-utility/layers by @dependabot in #243
• build(deps): bump django from 5.0.0 to 5.0.3 in /lib/workload/stateless/stacks/metadata-manager/deps by @dependabot in #230
• chore: Pipeline Refactor by @williamputraintan in #254
• (hotfix): filemanager stack static name, otherwise goes 'OrcaBusAPI-u… by @brainstorm in #261
• Feature/bssh icav2 fastq copy manager by @alexiswl in #144
• build(deps): bump idna from 3.6 to 3.7 in /lib/workload/stateless/stacks/bssh-icav2-fastq-copy-manager/layers by @dependabot in #262
• Deprecated initial POC event schemas by @victorskl in #258
• Fixed basespace runs upload input field typo run_volume_name by @victorskl in #263
• Fix: PG-Manager Build Install by @williamputraintan in #264
• Refactored and deployed event schema stack by @victorskl in #266
• Fixed stateful unittest constants schemaRegistryName by @victorskl in #267
• fix(metadata-manager): Fix API GW && Custom Resource for Migration Lambda by @williamputraintan in #268
• Fix(MetadataManager): Deployment Test Supression by @williamputraintan in #269
• Fix(metadata-manager): Custom Resource Deployment by @williamputraintan in #271
• Implemented WorkflowRunStateChange schema by @victorskl in #272
• Feature/cttso icav2 step function branch by @alexiswl in #145
• Use 'currentVersion' for lambda object to resolve the cdk nag issue by @alexiswl in #281
• build(deps-dev): bump idna from 3.6 to 3.7 in /lib/workload/stateless/stacks/cttso-v2-pipeline-manager/layers by @dependabot in #280
• build(deps): bump werkzeug from 2.3.8 to 3.0.3 in /lib/workload/stateless/stacks/sequence-run-manager/deps by @dependabot in #273
• Bumped SequenceRunManager dependencies by @victorskl in #278
• build(deps): bump werkzeug from 3.0.1 to 3.0.3 in /skel/django-api/src by @dependabot in #275
• build(deps): bump werkzeug from 2.3.8 to 3.0.3 in /lib/workload/stateless/stacks/metadata-manager/deps by @dependabot in #274
• Remove cdk.out assets to prevent synth output by @alexiswl in #286
• Updated Basespace Runs Upload Manager to align with SequenceRunStateChange schema by @victorskl in #279
• Updated SequenceRunManager service to align with SequenceRunStateChange by @victorskl in #277
• Updated django-api skel profile by @victorskl in #288
• Revert "Remove cdk.out assets to prevent synth output" by @alexiswl in #287
• Fixed WorkflowRunStateChange schema required field by @victorskl in #291
• feat: Refine Testing Configuration by @williamputraintan in #290
• icav2 event translator by @raylrui in #204
• Fix ica event translator build issue by @raylrui in #292
• Feat: Limit PR Testing by @williamputraintan in #296
• Refined WorkflowManager database models by @victorskl in #306
• feat: filemanager inventory by @mmalenic in #304
• Updated SequenceRunStateChange schema by @victorskl in #309
• feat(filemanager): add Parquet and Orc support to inventory by @mmalenic in #310
• Updated WorkflowRunStateChange schema by @victorskl in #308
• Added documentation on Event Schema and Namespace guide by @victorskl in #307
• Feature/data schema by @reisingerf in #311
• Deprecated skel profile DJANGO_PROC by @victorskl in #318
• Added data schema registry and data schema deployment stack by @victorskl in #320
• fix: filemanager delete marker by @mmalenic in #321
• Add request for workflow manager database by @reisingerf in #324
• Feature/workflow manager by @reisingerf in #325
• Update libumccr version to 0.4.0rc3 by @reisingerf in #327
• update translator service to bclconvert manager by @alexiswl in #328
• Fix workflow manager issues when handling WRSC events by @reisingerf in #329
• Refactored schemas to JSON Schema by @victorskl in #330
• update translator service to bclconvert manager by @raylrui in #299
• update the dynamodb table name for conflict by @raylrui in #334
• update docs for bcl convert manger data by @raylrui in #335
• fix bugs for non-succeed event and update unit by @raylrui in #336
• Bugfix, workflow run statechange omitted workflowRunName from workflowmanager event by @alexiswl in #333
• Move from trial project to dev project for umccr-development account by @alexiswl in #340
• Stacky Glue / BCLConvert InteropQC / cttsoV2 Fixes / Deprecate ICAv2 Copy Batch Utility by @alexiswl in #337
• Updated the sscheck api url from the ssm parameter by @alexiswl in #338
• Convert api-url to api-domain by @alexiswl in #341
• fix generate-db-uuid params issue by @raylrui in #342
• Fixed WorkflowManager allow WRSC Payload nullable by @victorskl in #343
• User reference will always start with 'umccr__automated__workflowName` by @alexiswl in #345
• refactor: filemanager ingest by @mmalenic in #346
• Updated BasespaceRunsUploadManager event rule with SequenceRunManager convention by @victorskl in #348
• Updated SequenceRunManager with latest convention change request by @victorskl in #347
• Added FileManager EventSource with ICAv2 BYOB pipeline cache buckets by @victorskl in #351
• build(deps-dev): bump requests from 2.31.0 to 2.32.2 in /lib/workload/stateless/stacks/cttso-v2-pipeline-manager/layers by @dependabot in #319
• build(deps): bump requests from 2.31.0 to 2.32.0 in /lib/workload/stateless/stacks/bs-runs-upload-manager/layers by @dependabot in #312
• Bump braces from 3.0.2 to 3.0.3 in /lib/workload/stateless/stacks/postgres-manager by @dependabot in #352
• Use hyphens over underscores when generating icav2 paths by @alexiswl in #350
• fix(filemanager): make HeadObject optional by @mmalenic in #355
• Bump urllib3 from 2.2.1 to 2.2.2 in /lib/workload/stateless/stacks/bs-runs-upload-manager/layers by @dependabot in #356
• Bump urllib3 from 2.2.1 to 2.2.2 in /lib/workload/stateless/stacks/bssh-icav2-fastq-copy-manager/layers by @dependabot in #358
• Upgraded yarn v4 and bumped dependencies by @victorskl in #360
• Bump urllib3 from 2.2.1 to 2.2.2 in /lib/workload/stateless/stacks/cttso-v2-pipeline-manager/layers by @dependabot in #363
• Feature(metadata-manager): Scheduled Sync from Metadata-Manager by @williamputraintan in #362
• Remove wrongly commented clean target by @brainstorm in #364
• Custom Domain for Microservice by @williamputraintan in #365
• Fixed BclConvertManager runtime requirement config by @victorskl in #368
• Fixed ICAv2 event handle StepFunction Payload schema by @victorskl in #370
• Fixed ICAv2 event rule prefix matching by @victorskl in #371
• Fixed ctTSOv2 workflowVersion to 2.5.0 by @victorskl in #369
• Fixed WorkflowManager WRSC event processing to handle optional Payload by @victorskl in #367
• Fixed Token Service JWT validation logic by @victorskl in #379
• feat: filemanager sea-orm entities by @mmalenic in #357
• Fix: add-CDK-context-for-role-assumption-across-accounts by @raylrui in #381
• Use instrument run id instead of run id for bclconvert interop qc pipeline by @alexiswl in #374
• Promotion for postgres-manager to the stateful stack group (from stateless) by @williamputraintan in #382
• Fix: STG Deployment by @williamputraintan in #383
• feat: basic filemanager query API by @mmalenic in #372
• fix(filemanager): avoid using to_url_lossy when loading database credentials by @mmalenic in #385
• Feat: Deploy Stateless to Gamma by @williamputraintan in #386
• Fixed WorkflowManager event rule syntax by @victorskl in #387
• feat: deploy filemanager API and add OpenAPI docs by @mmalenic in #388
• Released Stateful Pipeline to Production by @victorskl in #389
• Released Stateless Pipeline to Production by @victorskl in #390
• feat: filemanager pagination by @mmalenic in #392
• fix(filemanager): sequencer ordering by @mmalenic in #396
• fix: filemanager e_tag quoting by @mmalenic in #399
• Fixed ICAv2 JWT secret name production by @victorskl in #400

New Contributors

• @reisingerf made their first contribution in #18
• @brainstorm made their first contribution in #27
• @andrewpatto made their first contribution in #80
• @raylrui made their first contribution in #226

Full Changelog: poc...0.1.0