galaxyproject/galaxy v25.0.2

on GitHub

What's Changed

• [25.0] Use venv instead of virtualenv in package make setup-venv by @natefoo in #20536
• [24.2] Move definition of DatasetCollectionDescriptionT before its use by @nsoranzo in #20539
• [24.2] Fix docs versioning by @nsoranzo in #20542
• [25.0] Prevent DCE collections from being renamed by @ahmedhamidawan in #20534
• [25.0] Remove num_unique_values tiff metadata element by @mvdbeek in #20464
• [25.0] Fix restricting user defined tool input datasets extensions by @mvdbeek in #20545
• [25.0] Fix PDF preview functionality in dataset view by @dannon in #20552
• [25.0] Fix activity bar reordering persistence by @dannon in #20550
• [25.0] Fix workflow invocation report pdf generate by @itisAliRH in #20558
• [25.0] Fix description and metadata of some packages by @nsoranzo in #20546
• [25.0] Fix Storage Dashboard Link to Dataset Details by @itisAliRH in #20565
• [24.2] Upgrade requests-unixsocket for requests compatibility by @natefoo in #20566
• [25.0] Don't assume cwd = job directory when running prepare dirs by @natefoo in #20571
• [25.0] Add redis conditional dependency by @davelopez in #20502
• [24.2] Fix apply rules ownership check by @mvdbeek in #20582
• [25.0] Don't fail volume mount construction for tools without tool directory by @mvdbeek in #20593
• [25.0] Prevent importing workflows with invalid step UUID by @davelopez in #20596
• [24.1] Do not set attribute on a namedtuple by @jdavcs in #20599
• [25.0] Fix workflow loading error handling by @davelopez in #20597
• [25.0] Constraint conditional redis version to allow only minor updates by @davelopez in #20603
• [25.0] Bump up python for for pulsar package tests by @mvdbeek in #20521
• [25.0] Clarify how to separate job and workflow scheduling by @mvdbeek in #20625
• [25.0] fix Admin job limit query by @martenson in #20626
• [24.2] Require user for visualizations create endpoint by @mvdbeek in #20629
• [25.0] Add mzMLb and MBI datatypes by @chambm in #20632
• [25.0] Fix HistoryDatasetAsTable by @mvdbeek in #20636
• [25.0] Fix bug: tool output file may be overwritten by Runner's multi work t… by @jianzuoyi in #20639
• [25.0] Fix IntersectionObserver updates when replacing items by @davelopez in #20646
• [24.2] Correct visualization response schema by @guerler in #20627
• [25.0] Avoid postgres truncation of aliases and labels by @mvdbeek in #20649
• [25.0] Fix optional unspecified input to conditional step by @mvdbeek in #20647
• [24.2] Fix empty default Optionals for tool_shed_repositories API. by @jmchilton in #20656
• [25.0] Ignore webob http exceptions for logging purposes by @mvdbeek in #20630
• [25.0] Pairtool updated format and sniffers by @Smeds in #20634
• [25.0] Add num_unique_values tiff metadata element, fixed by @kostrykin in #20669
• [25.0] Bump up pulsar dependency to 0.15.9 by @mvdbeek in #20672
• [24.2] Fix invocation header by @qchiujunhao in #20676
• Merge 24.2 into 25.0 by @ahmedhamidawan in #20681
• [25.0] Add support for M4A audio files by @arash77 in #20667
• [25.0] add fasta.bz2 as auto_compressed type by @bernt-matthias in #20496
• [25.0] Fix Invenio file downloads for published records with draft by @davelopez in #20685
• [25.0] Input linter: add missing attribute to sort_by by @bernt-matthias in #20693
• [24.2] Update Gravity to 1.0.8 by @natefoo in #20523
• [25.0] Fix dataset serializers and response models by @arash77 in #20694
• [25.0] Add datatype for LexicMap index by @Smeds in #20586
• [25.0] Propagate cached job output replacement to copies of outputs by @mvdbeek in #20553
• [25.0] Add username filter to published pages grid by @ahmedhamidawan in #20703
• [25.0] Fix scratchbook display by @dannon in #20684
• [25.0] Prevent negative offset in historyStore handleTotalCountChange by @davelopez in #20708
• [24.2] Fix planemo serve, need user list by @mvdbeek in #20575
• [25.0] Fix click to edit link by @mvdbeek in #20710
• [24.2] Fix test_base_image_for_targets mulled test to use mzmine by @nsoranzo in #20713
• [25.0] Fix deferred datasets in multiple dataset parameters. by @jmchilton in #20650
• [25.0] Improve workflow monitor loop times by @mvdbeek in #20522
• [25.0] Fix parameter models for optional color params. by @jmchilton in #20705
• [25.0] Remove content from packages/meta/requirements.txt by @nsoranzo in #20662
• [25.0] DatasetView Header - fixes text wrapping issues on small screens by @dannon in #20721
• [25.0] Fix maximum workflow invocation duration test by @mvdbeek in #20729
• [25.0] Update galaxy-release-util by @mvdbeek in #20727
• [25.0] Remove base_dir from zip in make_fast_zipfile by @davelopez in #20739
• [25.0] fix config for nginx in docs by @martenson in #20757

New Contributors

• @jianzuoyi made their first contribution in #20639
• @Smeds made their first contribution in #20634
• @qchiujunhao made their first contribution in #20676

Full Changelog: v25.0.1...v25.0.2