3.1.20221008225030

What's new

• implement the loop construct extension by @GlassOfWhiskey and @mr-c in #1641

Misc

• Add QEMU step and platforms field to the publish action for Arm Docker image by @suecharo in #1736
• quay: publish ":latest" tag by @mr-c in #1737
• Bump mypy from 0.971 to 0.982 by @dependabot in #1739 #1747
• test with Python 3.11 by @mr-c in #1742

Full Changelog: 3.1.20220913185150...3.1.20221008225030

3.1.20220913185150

What's Changed

• notifyAll → notify_all: deprecated in Python 3.x; not even listed in the docs. by @mr-c in #1734
• Experimental fast validator code path, using cwl-utils by @tetron in #1720
• conformance coverage: ignore more paths by @mr-c in #1735

Full Changelog: 3.1.20220907141119...3.1.20220913185150

3.1.20220907141119

What's Changed

• upgrade jshint to version 2.13.5 by @mr-c in #1729
• Workflow checker: ignore 'null' when comparing arrays of types by @mr-c in #1721
• Handle relative paths and locations in cwl.output.json by @tetron in #1732

Full Changelog: 3.1.20220830195442...3.1.20220907141119

3.1.20220830195442

What's Changed

• fixed --beta-use-biocontainers by @mr-c in #1724

• Provenance: fix bagit structure when there are no data files by @simleo in #1727

• Fix codespell issues by @kinow in #1715

• tidy up rdflib type hints by @mr-c in #1702

• Import dependencies from cwl_utils after code refactoring by @GlassOfWhiskey in #1686

• remove some psutil type ignores by @mr-c in #1707

• Update .gitignore by @jjkoehorst in #1711

• Update CONTRIBUTING.md by @jjkoehorst in #1712

• remove old cruft by @mr-c in #1716

• tests: reduce number of software containers by @mr-c in #1718

• Import check_format from cwl-utils by @GlassOfWhiskey in #1717

• 22.x1 release of galaxy-tool-util breaks us by @mr-c in #1723

• improve test running on mac-os by @mr-c in #1710

• CONTRIBUTING.md: recommend updating pip in the dev venv by @simleo in #1726

New Contributors

• @GlassOfWhiskey made their first contribution in #1686
• @jjkoehorst made their first contribution in #1711

Full Changelog: 3.1.20220802125926...3.1.20220830195442

3.1.20220802125926

What's Changed

• include ruamel.yaml in the mypy reqs & fix/test container build by @mr-c in #1701

Full Changelog: 3.1.20220801180230...3.1.20220802125926

3.1.20220801180230

What's Changed

• Ignore flake8-bugbear false positives by @mr-c in #1691
• logging.warn is deprecated, use warning by @kinow in #1692
• Exclude children of subdirectories from symlink by @jfennick in #1690
• Set last modification date of remote file as local file timestamp by @RenskeW in #1676
• Bump mypy from 0.961 to 0.971 by @dependabot in #1697
• Update rdflib requirement from <6.2,>=4.2.2 to >=4.2.2,<6.3 by @dependabot in #1698
• MyPy stubs rename by @mr-c in #1699

New Contributors

• @jfennick made their first contribution in #1690

Full Changelog: 3.1.20220628170238...3.1.20220801180230

3.1.20220623174452

What's Changed

• Prevent the default value from being used when values were already passed by @kinow in #1675
• Expressiontool timer by @douglowe in #1681
• Bump actions/setup-python from 3 to 4 by @dependabot in #1679

New Contributors

• @douglowe made their first contribution in #1681

Full Changelog: 3.1.20220607081835...3.1.20220623174452

3.1.20220607081835

What's Changed

• Enhanced detection of singularity version including a distribution detection by @salexan2001 in #1654
• Fix udocker installation link by @kinow in #1667
• fix py3.6 compat@mr-c

Deps

• Bump docker/login-action from 1 to 2 by @dependabot in #1663
• Bump docker/setup-buildx-action from 1 to 2 by @dependabot in #1662
• Bump docker/build-push-action from 2 to 3 by @dependabot in #1661
• Bump mypy from 0.950 to 0.960 by @dependabot in #1670
• Bump mypy from 0.960 to 0.961 by @dependabot in #1677

New Contributors

• @salexan2001 made their first contribution in #1654

Full Changelog: 3.1.20220502060230...3.1.20220607081835

3.1.20220502060230

What's Changed

• --print-dot now matches the view.commonwl.org behavior (node color dependent on class type) by @RenskeW in #1655
• Bump github/codeql-action from 1 to 2 by @dependabot in #1656
• Bump mypy from 0.942 to 0.950 by @dependabot in #1657
  This also fixed #1658 when compiling cwltool using mypyc

Full Changelog: 3.1.20220406080846...3.1.20220502060230

3.1.20220406080846

What's Changed

• Fix & check for common mispellings by @mr-c in #1636
• less random files left over after tests by @mr-c in #1637
• cwltool Python support policy by @tetron in #1621
• print-dot: Removed primary path prefix from graph labels by @RenskeW in #1647

Dependencies

• Bump codecov/codecov-action from 2.1.0 to 3 by @dependabot in #1653
• Bump mypy from 0.931 to 0.940 by @dependabot in #1643
• Bump mypy from 0.940 to 0.941 by @dependabot in #1644
• Bump mypy from 0.941 to 0.942 by @dependabot in #1649
• Bump actions/cache from 2 to 3 by @dependabot in #1646
• Bump actions/checkout from 2 to 3 by @dependabot in #1631
• Update pytest requirement from <7.1,>=6.2 to >=6.2,<7.2 by @dependabot in #1642
• Bump actions/setup-python from 2 to 3 by @dependabot in #1630

New Contributors

• @RenskeW made their first contribution in #1647

Full Changelog: 3.1.20220224085855...3.1.20220406080846