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Releases: galaxyproject/galaxy

v23.1.2

29 Nov 18:22
3642185
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What's Changed

  • [23.1] Fix History item deletion/undeletion reactivity with filter and ToolForm input field by @ahmedhamidawan in #16889
  • [23.1] Fix unbound runner variable when there is an error in the job config by @mvdbeek in #16906
  • [23.1] Provide error message instead of internal server error by @mvdbeek in #16905
  • [23.1] Fix missing grep input in sort1 tool by @mvdbeek in #16910
  • [23.1] Improve invocation error reporting by @mvdbeek in #16917
  • [23.1] Fix library import from path linking files by @davelopez in #16919
  • [23.1] Test link data with extended metadata by @mvdbeek in #16921
  • [23.1] Skip change_datatype things if we're not actually changing the extension by @mvdbeek in #16931
  • [23.1] Skip state filtering in __MERGE_COLLECTION__ tool by @mvdbeek in #16937
  • [23.1] Add execute back to published workflows list by @dannon in #16934
  • [23.1] Include owner's annotation when exporting workflow by @dannon in #16930
  • [23.1] Fix discarded dataset ordering in Storage Dashboard by @davelopez in #16929
  • [23.1] Backport Fix select parameter doesn't show parameter name in UI by @mvdbeek in #16943
  • [23.1] Adds biii as supported xref reference type by @kostrykin in #16952
  • [23.1] Prevent Singular external auth users from disconnecting identity by @ahmedhamidawan in #16961
  • [23.1] Workaround issue in Routes by @nsoranzo in #16981
  • [23.1] Backport Fix maf_thread_for_species.py by @mvdbeek in #16989
  • [23.1] Empty page render fix - backport by @dannon in #16992
  • [23.1] Client publication by @dannon in #16999
  • [23.1] Don't store job in JobIO instance attributes by @mvdbeek in #16965
  • [23.1] Fix copying metadata to copied job outputs by @mvdbeek in #17007
  • [23.1] Update tar_to_directory dependency by @mvdbeek in #17009
  • [23.0] Upgrade minimum conda to be compatible with latest conda-build by @bernt-matthias in #17013
  • [23.1] Change log level for duplicate data table entries to warning by @mvdbeek in #16988
  • [23.1] Fix duplicated tools in tool panel view section copying by @jmchilton in #17036
  • [23.1] Fix filtering of active broadcasts for admins by @davelopez in #17049
  • [23.1] Prevent workflow submission with missing input values by @mvdbeek in #17048
  • [23.0] Fix extra files collection if using store_by="id" and outputs_to_working_directory by @mvdbeek in #17067
  • [23.1] Remove rollback from __check_jobs_at_startup by @mvdbeek in #17085
  • [23.1] Assert that DatasetCollectioElement has an associated object by @mvdbeek in #17071
  • [23.1] Fix input dates in notifications: consider timezone offset by @davelopez in #17088
  • [23.1] Add HEAD route to job_files endpoint by @mvdbeek in #17072
  • [23.1] Add support for larch datatypes by @patrick-austin in #17080
  • [23.1] Allow relative URLs in broadcasts action links by @davelopez in #17093
  • [23.1] Implement missing upload for S3 file sources by @davelopez in #17100
  • [23.1] Fix web_apps dependencies by @mvdbeek in #17099
  • [23.1] Ensure that plugin build hash actually has a git hash to compare with… by @dannon in #17104
  • [23.1] Set correct tool_path for packaged galaxy by @mvdbeek in #17102

New Contributors

Full Changelog: v23.1.1...v23.1.2

v23.1.1

23 Oct 19:37
e77b17d
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What's Changed

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v23.0.6

23 Oct 16:06
bce8be2
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What's Changed

  • [23.0] Fix upload paramfile handling (for real user setups) by @bernt-matthias in #16504
  • [22.01] Fix up tox.ini by @mvdbeek in #16567
  • [23.0] Add missing unit-coverage environment by @mvdbeek in #16570
  • [23.0] Fix dataset collection url in workflow reports by @mvdbeek in #16571
  • [23.0] Make sure job_wrapper uses a consistent metadata strategy by @mvdbeek in #16569
  • [23.0] Fix incorrect ASGI request host by @davelopez in #16574
  • [22.01] Fix incorrect ASGI request host by @davelopez in #16575
  • [23.0] Fix conditional step evaluation with datasets in repeats by @mvdbeek in #16584
  • [23.0] Don't read request body into memory by @mvdbeek in #16585
  • [23.0] Fix extra files path handling by @mvdbeek in #16541
  • [23.0] Fixes for extra files handling and cached object stores by @mvdbeek in #16595
  • [22.01] Passing Identifier for div to Write the Chart Panel to by @assuntad23 in #16598
  • [23.0] Allow the legacy DELETE dataset endpoint to accept any string for the history_id by @assuntad23 in #16593
  • [23.0] Don't fail invocation message without dependent_workflow_step_id by @mvdbeek in #16628
  • [23.0] Lazy load tool data tables in celery worker by @mvdbeek in #16640
  • [23.0] Force __DUPLICATE_FILE_TO_COLLECTION__ 'size' param to integer by @simonbray in #16659
  • [22.05] Switch to upstream setup-chromedriver action by @mvdbeek in #16669
  • [23.0] Update pulsar client library to 0.15.5 by @mvdbeek in #16701
  • [23.0] Fix RE for new version scheme in doc/source/conf.versioning.py by @mvdbeek in #16765
  • [23.0] Show MessageException in invocation UI by @mvdbeek in #16772
  • [23.0] Fix create/install commands for conda 23.9.0 by @nsoranzo in #16831

Full Changelog: v23.0.5...v23.0.6

v23.1.0

12 Feb 19:27
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Release notes

Galaxy 23.1.0 was released on 25th of September 2023

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What's Changed

list of all merged PRs
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v23.0.5

29 Jul 10:29
af730bc
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What's Changed

  • [22.05] Slugify username received from oidc by @nuwang in #16251
  • [23.0] Don't attempt to call a bool when using mem-self handler assignment. by @natefoo in #16359
  • [23.0] Fix dataset create time convert by @itisAliRH in #15329
  • [23.0] Minor bug fix for default mail templates by @neoformit in #16362
  • [23.0] Fix display of named tags in mako by @davelopez in #16368
  • [23.0] Fix active step display in workflow editor side panel by @mvdbeek in #16364
  • [23.0] Copy when_expression when copying workflow step by @mvdbeek in #16377
  • [23.0] Pin black version to 23.3.0 in workflow action by @nsoranzo in #16390
  • [23.0] Don't always install node in the virtualenv by @nsoranzo in #16395
  • [23.0] Fix test discovery in vscode by @mvdbeek in #16413
  • [23.0] Skip installing npm/yarn if available, fix conditional dependency parsing, create virtualenv via conda when conda active by @bernt-matthias in #16403
  • [23.0] Allow duplicate labels in linter if outputs contain filters by @bernt-matthias in #15933
  • [23.0] Media player fix issue 16415 by @bdwheele in #16443
  • [23.0] Fix static file serving for robots.txt and favicon.ico when using per_host settings by @mira-miracoli in #16459
  • [22.05] Bump version of chromedriver setup action by @mvdbeek in #16461
  • [23.0] Fixes for (gitlab) error reporting by @bernt-matthias in #16424
  • [23.0] Fix filtering of disabled user preferences in UI by @davelopez in #16464
  • [23.0] Fix parsing tool metadata from bio.tools by @kysrpex in #16449
  • [23.0] Adjust test_data_download method in GalaxyInteractorApi so an admin user is not required by @simonbray in #16482
  • [23.0] Linter: fix regex for profile version by @bernt-matthias in #16480

New Contributors

Full Changelog: v23.0.4...v23.0.5

v23.0.4

30 Jun 21:22
03d9eb6
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What's Changed

  • [23.0] Fix tool recommendations shown in a d3 js tree by @anuprulez in #15852
  • [23.0] Fix folder access for anonymous user by @mvdbeek in #16330
  • [23.0] Fix default when statement evaluation by @mvdbeek in #16332
  • [23.0] Redact private role name and description when purging user by @mvdbeek in #16349
  • [23.0] Pin pydantic in packages to <2 by @natefoo in #16354

Full Changelog: v23.0.3...v23.0.4

v23.0.3

26 Jun 07:34
b4adbb4
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What's Changed

  • [23.0] Bump galaxy-release-util version to 0.1.2 by @mvdbeek in #16241
  • [23.0] When importing tool data bundles, use the first loc file for the matching table by @natefoo in #16247
  • [23.0] Load data tables in Celery worker by @mvdbeek in #16244
  • [23.0] xsd: add missing sep attribute for has_n_columns by @bernt-matthias in #16262
  • [23.0] Fix converting Enum value to str for Python 3.11 by @nsoranzo in #16284
  • [23.0] Forward port of slugify username received from oidc by @nuwang in #16271
  • [23.0] Missing init prevents models.py being bundled into tool_util by @nuwang in #16308

Full Changelog: v23.0.2...v23.0.3

23.0.2

13 Jun 16:34
a7f0a36
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What's Changed

  • [23.0] Fix Text File Busy errors at the source by @mvdbeek in #16212
  • [23.0] Point release deps fixes and docs by @mvdbeek in #16214
  • [23.0] Rename galaxy-webapps back to galaxy-web-apps by @mvdbeek in #16216
  • [23.0] Port selenium setup to non-deprecated selenium options by @mvdbeek in #16215
  • [23.0] Don't fail CWL tool parsing when Cheetah not installed by @mvdbeek in #16219
  • [23.0] Allow skipping expect_num_outputs when expect_failure is set in tool test by @bernt-matthias in #16237
  • [23.0] Use galaxy-release-util to upload python packages by @mvdbeek in #16240
  • [22.05] Fix dropbox import to support newer versions by @nuwang in #16239

Full Changelog: v23.0.1...v23.0.2

23.0.1

08 Jun 17:36
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A note about this release

This is the first Galaxy point release for which all Python packages are published to the Python Package Index.
Changes listed here and in the package changelog only include changes made since the v23.0 tag was published and do not include changes made in between the v22.5 and v23.0.1 tags. We will include all changes for future releases going forward and we strive for more frequent point releases.

What's Changed

Full Changelog: v23.0...v23.0.1