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103 Open 292 Closed
103 Open 292 Closed
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Issues list

berkeley: Fortify test that targets function that generates alldocs collection enhancement New feature or request X SMALL Less than 1 day
#713 opened Oct 2, 2024 by eecavanna
@sujaypatil96 @eecavanna
2
Migrations: Move migration notebooks out of the demo directory cleanup 🧹 Related to cleaning up code, documentation, etc. X SMALL Less than 1 day
#712 opened Oct 2, 2024 by eecavanna
@eecavanna
submission portal to mongo ETL code creating records with empty keys bug Something isn't working
#711 opened Oct 1, 2024 by aclum
@pkalita-lbl
Document or delete top-level docs_prev directory cleanup 🧹 Related to cleaning up code, documentation, etc. documentation Improvements or additions to documentation X SMALL Less than 1 day
#710 opened Sep 29, 2024 by eecavanna
1 task
@dwinston
berkeley: GHA workflow on berkeley branch checks out wrong Git commit bug Something isn't working unplanned-task not accounted for during sprint planning, but time sensitive X SMALL Less than 1 day
#700 opened Sep 25, 2024 by eecavanna
@eecavanna
3
The alldocs collection can become stale relative to its upstream collections bug Something isn't working decision needed tag issues that need to be unblocked by decisions
#699 opened Sep 25, 2024 by eecavanna
berkeley: :param name: annotations for API endpoint are visible on Swagger UI backlog Not assigned to a sprint or not completed during a planned sprint. Needs to be reprioritized. berkeley-rollout-post-mvp-eligible does not block rolling out the MVP, still targeted for Oct cleanup 🧹 Related to cleaning up code, documentation, etc. documentation Improvements or additions to documentation X SMALL Less than 1 day
#698 opened Sep 21, 2024 by eecavanna
Dagster and referential integrity notebook generate alldocs collection in different ways
#696 opened Sep 20, 2024 by eecavanna
Cleanup: Move Swagger tag descriptions out of main.py and into helper file cleanup 🧹 Related to cleaning up code, documentation, etc. X SMALL Less than 1 day
#681 opened Sep 18, 2024 by eecavanna
Migrations: Update notebook to omit Mongo credentials from commands when authentication disabled enhancement New feature or request
#672 opened Sep 11, 2024 by eecavanna
@eecavanna
2
pull biosample Identifiers from NMDC submissions to NCBI back onto nmdc mongo records
#669 opened Sep 9, 2024 by aclum
@sujaypatil96
API route: from dataobject id, return associated biosample ids enhancement New feature or request
#668 opened Sep 3, 2024 by kheal
API route: from biosample id, return associated dataobject ids enhancement New feature or request
#667 opened Sep 3, 2024 by kheal
Convert Swagger tag metadata (freeform blurbs) into parameter annotations cleanup 🧹 Related to cleaning up code, documentation, etc. documentation Improvements or additions to documentation
#665 opened Sep 2, 2024 by eecavanna
@eecavanna
7
Cleanup: Rename ensure_{thing} functions to ensure_{claim} cleanup 🧹 Related to cleaning up code, documentation, etc. X SMALL Less than 1 day
#663 opened Aug 31, 2024 by eecavanna
Retire the drs.microbiomedata.org subdomain (update Mongo data accordingly) backlog Not assigned to a sprint or not completed during a planned sprint. Needs to be reprioritized. cleanup 🧹 Related to cleaning up code, documentation, etc. help wanted Extra attention is needed
#652 opened Aug 25, 2024 by eecavanna
3 tasks
2
Document API endpoint parameters, so their descriptions and examples appear on Swagger UI documentation Improvements or additions to documentation enhancement New feature or request
#651 opened Aug 24, 2024 by eecavanna
2 tasks
berkeley: Update ETL code to handle projects with multiple sequencing runs berkeley-rollout-post-mvp-eligible does not block rolling out the MVP, still targeted for Oct
#647 opened Aug 23, 2024 by aclum
@sujaypatil96
3
Turn code for generic rollup into Dagster job
#642 opened Aug 15, 2024 by sujaypatil96
1
@sujaypatil96
Mongo aggregation pipeline approach to implement database rollup task a thing that can be done. may address multiple issues.
#641 opened Aug 14, 2024 by sujaypatil96
GHA: Separate container build and run steps to simplify reading workflow logs backlog Not assigned to a sprint or not completed during a planned sprint. Needs to be reprioritized. cleanup 🧹 Related to cleaning up code, documentation, etc. X SMALL Less than 1 day
#640 opened Aug 13, 2024 by eecavanna
berkeley: Replace designated_class with type (in ncbi_xml_utils.py script) berkeley-rollout-post-mvp-eligible does not block rolling out the MVP, still targeted for Oct
#630 opened Aug 9, 2024 by eecavanna
@sujaypatil96
4
Impossible to specify a bounding box filter query
#617 opened Aug 5, 2024 by cmungall
Minter: Using multiple minter instances and discarding their databases can result in ID collisions bug Something isn't working help wanted Extra attention is needed unplanned-task not accounted for during sprint planning, but time sensitive
#615 opened Jul 31, 2024 by eecavanna
3 tasks
@dwinston @PeopleMakeCulture
1
Refactor validate_json
#602 opened Jul 19, 2024 by PeopleMakeCulture
1
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