Release 2024.10.1

Hotfix to remove site banner about Berkeley rollout downtime.

Fixes: #1424

Full Changelog: v1.0.0...v1.0.1

Release 2024.10

Summary

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

What's Changed

• Merge main into berkeley-schema-migration by @eecavanna in #1349
• Replace Omics with Data Generation by @naglepuff in #1336
• Update to berkeley schema by @naglepuff in #1368
• Upgrade to nmdc-submission-schema v11.0.0rc1 by @pkalita-lbl in #1374
• Fix Berkeley schema element usage in frontend code by @pkalita-lbl in #1375
• Guard against request errors for PI images by @marySalvi in #1262
• Bump express from 4.19.2 to 4.21.0 in /web by @dependabot in #1396
• Bump dompurify from 2.4.7 to 2.5.7 in /web by @dependabot in #1398
• Update submission report to include "Source Client" and "Status" by @eecavanna in #1401
• Replace stale list of Redirect URIs with link to latest list by @eecavanna in #1402
• Initial implementation of metadata suggestion endpoint by @pkalita-lbl in #1403
• Rename omics_processing endpoints to data_generation by @naglepuff in #1404
• Use correct slot for study protocols for Berkeley schema by @naglepuff in #1407
• Berkeley Merge Cleanup by @naglepuff in #1408
• Update Data and Submission Portals to work with/use NMDC Schema version v11.0.1 (Berkeley schema) by @naglepuff in #1321
• Create index on download/data object association by @naglepuff in #1411
• Add banner announcing upcoming maintenance events (October 15-16) by @eecavanna in #1413
• Migrate workflow_type values in data_object table by @pkalita-lbl in #1416

Full Changelog: v0.25.0...v1.0.0

Release 2024.9.1

Hotfix to add site banner about Berkeley rollout downtime.

Full Changelog: v0.25.0...v0.25.1

Release 2024.9

What's Changed

• Bump ipython from 7.31.1 to 8.10.0 by @dependabot in #856
• Bump authlib from 1.3.0 to 1.3.1 by @dependabot in #1274
• Bump elliptic from 6.5.4 to 6.5.7 in /web by @dependabot in #1356
• Bump requests from 2.28.1 to 2.32.2 by @dependabot in #1272
• Bump pydantic from 1.10.2 to 1.10.13 by @dependabot in #1244
• Bump axios from 0.24.0 to 0.28.0 in /web by @dependabot in #1245
• Add click functionality to numbers by @marySalvi in #1366
• Hotfix issue 1377 by @marySalvi in #1379
• Ingest COG terms, pathways and functions by @naglepuff in #1359
• Change down_revision of COG table migration by @naglepuff in #1387
• Ensure template props are synced on PATCH by @naglepuff in #1395
• Ingest PFAM entries and clans by @naglepuff in #1376

Full Changelog: v0.24.1...v0.24.2

Release 2024.8.1

• Hotfix for #1377

Full Changelog: v0.24.0...v0.24.1

Release 2024.8

What's Changed

• Update documentation and redirect by @JamesTessmer in #1319
• Replace types-pkg-resources with types-setuptools by @pkalita-lbl in #1325
• Bump minimatch from 3.0.4 to 3.1.2 in /web by @dependabot in #811
• Update httpx to 0.23.0 by @naglepuff in #1329
• Add funding source box to study form by @JamesTessmer in #1323
• Bump dnspython from 2.3.0 to 2.6.1 by @dependabot in #1240
• Bump tar from 6.1.11 to 6.2.1 in /web by @dependabot in #1241
• Bump ws from 6.2.2 to 6.2.3 in /web by @dependabot in #1282
• Bump follow-redirects from 1.14.8 to 1.15.6 in /web by @dependabot in #1242
• Bump express from 4.17.1 to 4.19.2 in /web by @dependabot in #1243
• Close code block by @marySalvi in #1339
• 884 sortable submissions list by @marySalvi in #1322
• Make ORCID Base URL configurable via environment variable by @eecavanna in #1348
• Replace double quotes with single quotes (to appease linter) by @eecavanna in #1351
• Update funding source entry text box and description by @JamesTessmer in #1345
• Bump nmdc-schema and nmdc-submission-schema from 10.7.0 to 10.8.0 by @aclum in #1355
• Implement endpoint that returns TSV file of submission summaries by @eecavanna in #1290
• 1303 add gold tooltip by @marySalvi in #1346
• Add schema version identifiers to /api/version response by @pkalita-lbl in #1358
• Add study id to partial search by @marySalvi in #1360
• Add "Data API" link to navbar ("Products" menu) by @eecavanna in #1364
• Show per-workflow and per-filetype sizes in bulk download by @naglepuff in #1352
• Support pathway search with multiple prefixes by @naglepuff in #1353

New Contributors

• @aclum made their first contribution in #1355

Full Changelog: v0.23.0...v0.24.0

Release 2024.7

What's Changed

• Change router to go to homepage instead of previous history index by @marySalvi in #1293
• Add user info page by @pkalita-lbl in #1294
• Add contact support panel by @marySalvi in #1292
• Add ability to track which client created a submission by @pkalita-lbl in #1300
• Add endpoint for explicitly requesting SubmissionMetadata lock by @pkalita-lbl in #1299
• Use more descriptive section name for envo terms by @naglepuff in #1296
• Pass correct string to showColumnsBySectionTitle when showing single section by @pkalita-lbl in #1308
• Bump decode-uri-component from 0.2.0 to 0.2.2 in /web by @dependabot in #809
• Remove unnecesary container by @marySalvi in #1309
• Fix DataHarmonizer help sidebar positioning by @pkalita-lbl in #1310
• Add Data Integration link to header menus by @pkalita-lbl in #1312
• Derive Excel worksheet names from schema annotations by @pkalita-lbl in #1311
• Update ingest and data model to account for Metatranscriptomics by @naglepuff in #1313
• Revalidate form when permission level changes by @naglepuff in #1317

Full Changelog: v0.22.0...v0.23.0

Release 2024.6

What's Changed

• Standardize sample verbage by @marySalvi in #1270
• Use Bearer tokens for authentication by @pkalita-lbl in #1257
• Show save progress by @marySalvi in #1269
• Fix DataHarmonizer scrolling issue by @pkalita-lbl in #1267
• Document current ORCID Redirect URIs by @shreddd in #1273
• Redirect users to submission portal if logging in from submission portal by @naglepuff in #1275
• Add source to gh issue creation by @JamesTessmer in #1278
• Add biosample columns to partial search by @marySalvi in #1276
• Upgrade to latest nmdc-schema and nmdc-submission-schema by @pkalita-lbl in #1284
• Rename expires to expires_in in TokenResponse by @pkalita-lbl in #1287
• Remove extraneous data update call when changing tabs by @pkalita-lbl in #1288

Full Changelog: v0.21.0...v0.22.0

Release 2024.5

What's Changed

• Fix for bug where studies would not scroll to return to the top of the page when revisited by @JamesTessmer in #1225
• Refrain from reporting "0 results" and "0 samples" while loading data by @eecavanna in #1212
• Update banner to indicate new re-ID-ing date by @eecavanna in #1233
• Only show AppBanner component on submission portal Home page by @pkalita-lbl in #1236
• Add nmdc-server CLI subcommand for loading local database with production data by @pkalita-lbl in #1229
• Bump moment from 2.29.2 to 2.29.4 in /web by @dependabot in #746
• Bump vuetify from 2.6.1 to 2.6.10 in /web by @dependabot in #789
• Bump vuetify and moment by @naglepuff in #1239
• Create github issue when user submits metadata by @JamesTessmer in #1208
• Filter out irrelevant omics_processing results by @naglepuff in #1213
• Remove limit reset for pagination when conditions change. by @marySalvi in #1247
• Make query conditions section sticky and max size to 50vh by @marySalvi in #1248
• Bump terser from 4.8.0 to 4.8.1 in /web by @dependabot in #751
• Bump ip from 1.1.5 to 1.1.9 in /web by @dependabot in #1246
• Add FAQs, Blog, and Media Materials links to header menu by @pkalita-lbl in #1252
• Allow Github issue creation to track all IDs by @JamesTessmer in #1253
• Change "Done" to "Submitted" by @JamesTessmer in #1255
• Upgrade nmdc-schema and nmdc-submission-schema to 10.3.0 by @pkalita-lbl in #1254
• Refrain from rendering any <AppBanner /> elements by @eecavanna in #1259

Full Changelog: v0.20.3...v0.21.0

Release 2024.4.3

• Only show AppBanner component on submission portal Home page #1236

Full Changelog: v0.20.2...v0.20.3