Release 2024.10

Summary

In this release, we switched from using the legacy schema to using the Berkeley schema.

What's Changed

• Switch to "Berkeley schema" and eliminate broken references preventing application startup by @eecavanna in #579
• berkeley: Merge main into berkeley (to trigger GHA workflow) by @eecavanna in #584
• berkeley: Merge main into berkeley (July 17) by @eecavanna in #599
• berkeley: Update test_endpoints.py to fix some failing tests by @aclum in #596
• berkeley: Update minter to use first typecode when pattern contains multiple typecodes by @eecavanna in #597
• Merge main into berkeley (routine; merged August 9, 2024) by @eecavanna in #625
• Document expectations regarding merging main into berkeley over time by @eecavanna in #634
• Get ORCID base URL (production vs. sandbox) from environment variable by @eecavanna in #637
• Use ORCID environment-specific JWKS values and clean up existing comments by @eecavanna in #639
• Fix Failing Tests in Berkeley Branch by @aclum in #621
• 593 update workflow endpoints by @PeopleMakeCulture in #624
• Merge main into berkeley (routine, August 23, 2024) by @eecavanna in #648
• berkeley: Update nmdc-schema to 11.0.0rc20 and sync transitive dependencies by @eecavanna in #650
• berkeley: Complete conversion of SubmissionPortalTranslator by @pkalita-lbl in #657
• Merge main into berkeley (routine, August 29, 2024) by @aclum in #661
• Update API endpoints to search PlannedProcess-containing collections by @dwinston in #666
• Migration of submission portal translator to be conformant with berkeley schema by @sujaypatil96 in #662
• Update GOLD translator to work with Berkeley schema by @sujaypatil96 in #656
• Fix 3 failing tests, skip others, and bump nmdc-schema to v11.0.0rc22 by @aclum in #676
• Fix bugs in Berkeley migration notebook and update its nmdc-schema version by @eecavanna in #680
• Update Swagger tag descriptions to match Berkeley API GUI how-to guide by @eecavanna in #682
• Restore hyperlinks to "Metadata" section and modernize Runtime description by @eecavanna in #686
• berkeley: Unskip test_submit_workflow_activities test and make it work with Berkeley schema by @aclum in #684
• berkeley: Restore tests that were being skipped by mistake (oops) by @eecavanna in #688
• Quick fixes for GOLD API client tests in tests/test_ops/test_gold_api_ops.py by @sujaypatil96 in #692
• Merge main into berkeley (routine, September 19, 2024) by @eecavanna in #693
• 576 berkeley updates ref integrity notebook by @PeopleMakeCulture in #695
• berkeley: Determine class ancestry per-type value (within collection) instead of per-collection (when generating alldocs) by @eecavanna in #694
• Update field name to be consistent with Berkeley schema by @eecavanna in #697
• Configure pytest GHA workflow so developers can trigger it manually by @eecavanna in #705
• Merge main into berkeley (routine, September 27, 2024) by @eecavanna in #706
• Fix bug where one document in each collection is omitted from alldocs by @eecavanna in #709
• Migrate NEON translators to be conformant with berkeley schema by @sujaypatil96 in #701
• berkeley: Test function that generates alldocs collection by @eecavanna in #715
• Unskip and fix 3 tests that were being skipped in test_metadata.py by @aclum in #716
• Update Runtime to work with Berkeley schema (i.e. nmdc-schema version v11.0.0) by @eecavanna in #718
• Update nmdc-schema package to 11.0.1 and synchronize transitive dependencies by @eecavanna in #722
• NCBI XML Export pipeline migration by @sujaypatil96 in #724
• Remove part_of still being asserted on NucleotideSequencing by @sujaypatil96 in #728

Full Changelog: v1.10.0...v2.0.0