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microbiomedata
/
nmdc-runtime
Runtime system for NMDC data management and orchestration
https://microbiomedata.github.io/nmdc-runtime/
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Endpoint `GET /users/me` responds with HTTP 500 instead of HTTP 401
#475
eecavanna
opened
4 months ago
0
Migrations: Address situations where migrator wants to report a problem
#474
eecavanna
closed
3 weeks ago
1
feat: pull request template
#473
dwinston
closed
5 months ago
1
`translate_metadata_submission_to_nmdc_schema_database()` Test failing with `DagsterInvalidConfigError`
#472
PeopleMakeCulture
opened
5 months ago
0
`tests/test_data/test_gold_translator.py::test_get_dataset()` is failing with `"ValueError: term must be supplied"`
#471
PeopleMakeCulture
opened
5 months ago
0
Missing attribute 'QualityControlReport' Causing multiple NEON tests to fail
#470
PeopleMakeCulture
opened
5 months ago
0
Multiple JSON Validator Tests Failing
#469
PeopleMakeCulture
opened
5 months ago
0
API Test Hangs and Blocks Subsequent Tests
#468
PeopleMakeCulture
opened
5 months ago
1
Multiple Minter Tests Failing
#467
PeopleMakeCulture
opened
5 months ago
0
logging API query write / delete requests including user
#466
shreddd
opened
5 months ago
2
Fix inaccurate comment in migration instructions
#465
eecavanna
closed
5 months ago
1
**DO NOT MERGE** 301 Test GH Action for automated testing
#464
PeopleMakeCulture
closed
5 months ago
2
301-part-1-skip-pytest-failures
#463
PeopleMakeCulture
closed
5 months ago
1
Inconsistent schema validation between `/v1/workflows/activities` and `/metadata/json:validate` API endpoints
#462
aclum
closed
3 months ago
5
Replace hardcoded usages of `Draft7Validator`
#461
pkalita-lbl
opened
5 months ago
4
extend aggregate query:run with paging
#460
PeopleMakeCulture
opened
5 months ago
0
Migrations: Notebook (`9.3.2` -> `10.0.0`) contains inaccurate comment about origin/transformer MongoDB servers
#459
eecavanna
closed
5 months ago
0
feat: get plaintext orcid jwt via cookie
#458
dwinston
closed
5 months ago
2
reinstate simple URL to get ORCiD JWT once authenticated
#457
dwinston
closed
5 months ago
0
CI/CD should include tests for endpoints used in example notebooks
#456
kheal
opened
5 months ago
12
437 co-locate API usage documentation on SwaggerUI
#455
PeopleMakeCulture
closed
5 months ago
5
create aggregate command for query:run endpoint
#454
PeopleMakeCulture
closed
5 months ago
1
DO NOT MERGE: Pin `nmdc-schema` to `7.8.0` for Napa Compliance squad's environment
#453
eecavanna
closed
4 months ago
3
Update NEON ETL for nmdc-schema 10.0.0
#452
aclum
opened
5 months ago
1
Update `nmdc-schema` from `v9.3.2` to `v10.0.0`
#451
eecavanna
closed
5 months ago
1
Update `nmdc-schema` to `v10.0.0`
#450
eecavanna
closed
5 months ago
0
Migrations: Design algorithm for dumping/restoring collections that supports creating/deleting/renaming them
#449
eecavanna
opened
5 months ago
0
NEON pipeline infrastructure refactoring
#448
sujaypatil96
closed
5 months ago
0
add aggregation commands to queries:run endpoint
#447
PeopleMakeCulture
closed
5 months ago
5
Rename env vars to ORCID_NMDC_CLIENT_{ID,SECRET}
#446
PeopleMakeCulture
closed
5 months ago
0
use `ORCID_NMDC_CLIENT_{ID,SECRET}` for ORCiD credentials
#445
dwinston
closed
5 months ago
2
Create notebook for `nmdc-schema` `9.3` -> `10.0` (a.k.a. `9.4`) migration
#444
eecavanna
closed
5 months ago
1
Update migration notebooks to use newly-structured `migrator` classes (from `nmdc-schema`)
#443
eecavanna
closed
5 months ago
1
Some Napa environment-specific URLs resolve to production environment (as of an 09/2023 commit)
#442
aclum
opened
5 months ago
5
cookie auth
#441
dwinston
closed
5 months ago
0
cookie auth
#440
dwinston
closed
5 months ago
0
lint-check and style-normalize Python files; commit and push restyled files
#439
dwinston
closed
5 months ago
0
linty code gets merged to main
#438
dwinston
closed
5 months ago
0
co-locate as much API usage documentation with OpenAPI spec and thus on Swagger display
#437
dwinston
closed
5 months ago
5
Replace `docker-compose` with `docker compose`
#436
turbomam
closed
5 months ago
1
replace all mentions of `docker-compose` with `docker compose`
#435
turbomam
closed
5 months ago
0
queries:run endpoint truncating results
#434
mbthornton-lbl
opened
5 months ago
0
Migrations: Implement bookkeeping so database tells us which schema it conforms to
#432
eecavanna
closed
3 months ago
3
Migration notebooks require documents to have `id` field (note: `functional_annotation_agg` documents lack one)
#431
eecavanna
closed
5 months ago
1
Pipeline to ingest data from NEON surface water data product
#430
sujaypatil96
closed
2 months ago
1
Identity Resolution for users with username/password AND ORCiD entity
#429
PeopleMakeCulture
opened
6 months ago
0
Add API documentation to help users with current auth flow(s)
#428
PeopleMakeCulture
closed
5 months ago
2
Prototype a MongoDB View that presents bidirectional relationships based upon unidirectional relationships
#427
eecavanna
opened
6 months ago
1
fix: GET /nmdcschema/functional_annotation_agg
#426
dwinston
closed
6 months ago
0
Update migration notebooks to accommodate upcoming `nmdc-schema` version (after `v9.3.2`)
#425
eecavanna
closed
4 months ago
0
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