0.75.37

What's Changed

• Move deploy to a separate workflow for trusted publishing by @nsoranzo in #1608
• Finish release and fix release process by @bernt-matthias in #1607
• Set default mulled_resolution_cache_data_dir in planemo workspace by @mvdbeek in #1610
• Fix commit_version.py by @bernt-matthias in #1609

Full Changelog: 0.75.36...0.75.37

0.75.36

What's Changed

• Add new pangenomics category by @SaimMomin12 in #1603
• Fix exception handling in case of ReadTimeout errors by @nsoranzo in #1606
• Apply new black formatting by @mvdbeek in #1605
• Fix error in reports macro file by @bernt-matthias in #1604
• Add linter checking remote_repository_url by @bernt-matthias in #1581

New Contributors

• @SaimMomin12 made their first contribution in #1603

Full Changelog: 0.75.35...0.75.36

0.75.35

What's Changed

• Allow to skip url check by @bernt-matthias in #1597
• add response to error message by @bernt-matthias in #1598
• Add vault configuration file option by @arash77 in #1599
• Add documentation for workflow_track, invocation_download, and invoca… by @mvdbeek in #1601

Full Changelog: 0.75.34...0.75.35

0.75.34

What's Changed

• Bump actions/setup-node from 5 to 6 by @dependabot[bot] in #1582
• Use job cache in planemo rerun by @mvdbeek in #1583
• Bump actions/checkout from 5 to 6 by @dependabot[bot] in #1586
• Some refactoring and fixes for handing of conda packages by @bernt-matthias in #1592
• Fix for method that is renamed in 25.1 by @bernt-matthias in #1591
• Allow requirements_in_conda and biocontainer_registered in skip_file by @kostrykin in #1588
• Expand failed workflow jobs by default and sort steps numerically by @mvdbeek in #1594
• Make output of planemo workflow_job_init more helpful by @mvdbeek in #1595
• Implement upload progress bar by @mvdbeek in #1593
• Add TRS ID support for run and workflow_job_init by @mvdbeek in #1596

Full Changelog: 0.75.33...0.75.34

0.75.33

What's Changed

• Build and release script updates by @mvdbeek in #1561
• Fix underscores in config option by @bernt-matthias in #1567
• Enable dependabot version updates for GitHub actions by @nsoranzo in #1566
• Bump actions/checkout from 4 to 5 by @dependabot[bot] in #1569
• Bump actions/setup-python from 5 to 6 by @dependabot[bot] in #1570
• Bump actions/setup-node from 4 to 5 by @dependabot[bot] in #1571
• Updates to pyproject.toml and CI workflows by @nsoranzo in #1572
• Wait for upload job and make sure uploads are ok by @mvdbeek in #1574
• Raise click exception where we don't need a full traceback by @mvdbeek in #1577
• Fall back to sqlite when database creation fails by @mvdbeek in #1576
• Improve command not found handling by @mvdbeek in #1575
• Delay toil import and use or fail when actually used by @mvdbeek in #1580
• Don't report failed workflow run with --no_wait by @mvdbeek in #1579
• Fail when pointing at a profile that doesn't exist by @mvdbeek in #1578

Full Changelog: 0.75.32...0.75.33

0.75.32

What's Changed

• Fixing 429 url error by @arash77 in #1556
• Fix subworkflow invocation tracking by @mvdbeek in #1560

New Contributors

• @arash77 made their first contribution in #1556

Full Changelog: 0.75.31...0.75.32

0.75.31

What's Changed

• create provided output_directory if it doesn't exist by @Smeds in #1526
• Overhaul Galaxy job config handling. by @jmchilton in #1506
• Fix job handler setup by @mvdbeek in #1538
• Workflow progress bar. by @jmchilton in #1510
• add file extension to downloaded output by @Smeds in #1531
• Enable celery tasks by @mvdbeek in #1541
• Print job errors in workflow invocation as they occur by @mvdbeek in #1540
• Bump requirements for galaxy packages to 25.0 by @ahmedhamidawan in #1542
• cmd to export an existing invocations as an archive for storage or later import. by @Smeds in #1534
• update shed categories by @bgruening in #1539
• Add the option to download the outputs of a completed workflow run by @Smeds in #1532
• Add missing module to pyproject.toml by @mvdbeek in #1545
• Add a slurm_init command. by @jmchilton in #1543
• Don't do preload in managed instance by @mvdbeek in #1546
• Terminate polling if we can't advance invocation by @mvdbeek in #1547
• Drop unnecessary autogen in cmd_slurm_init by @mvdbeek in #1549
• Load default job metrics by @mvdbeek in #1548
• Add flag to export invocation from run command by @mvdbeek in #1551
• Make no_dependency_resolution and simultaneous_upload global options by @mvdbeek in #1553
• Add ruff and isort to make format and tox, add pre-commit config by @mvdbeek in #1552
• Don't pollute working directory with tools.yaml file by @mvdbeek in #1554

New Contributors

• @ahmedhamidawan made their first contribution in #1542

Full Changelog: 0.75.30...0.75.31

0.75.30

What's Changed

• fix lint_shed_version if there are no installable revisions by @bernt-matthias in #1509
• Fix bumping of dev versions by @mvdbeek in #1514
• Don't escape non-ascii unicode characters in json.dumps by @mvdbeek in #1523
• Fix version linter for new repos by @bernt-matthias in #1519
• Add switch to prevent early termination of workflow runs by @kostrykin in #1518
• Add missing collection operation tools by @mvdbeek in #1524

New Contributors

• @kostrykin made their first contribution in #1518

Full Changelog: 0.75.29...0.75.30

0.75.29

What's Changed

• Fix dependency specification by @mvdbeek in #1507

Full Changelog: 0.75.28...0.75.29

0.75.28

What's Changed

• Update browser user agent string by @nsoranzo in #1495
• Loosen test assertions by @bernt-matthias in #1494
• Add postgres singularity option by @Smeds in #1492
• Add support for Python 3.12 by @nsoranzo in #1496
• Migrate mypy settings to pyproject.toml. by @jmchilton in #1500
• Fix make quick-test. by @jmchilton in #1501
• Add linter to check if tool versions are bumped by @bernt-matthias in #1502
• Build Modernization by @jmchilton in #1503
• fix: removes that spaces that aren't allowed in the singularity instance name by @Smeds in #1504
• Print stdout stderr if install command fails by @mvdbeek in #1505

New Contributors

• @Smeds made their first contribution in #1492

Full Changelog: 0.75.27...0.75.28