build(deps): (deps): bump cwltool from 3.1.20230425144158 to 3.1.20230719185429

[dependabot]

Bumps cwltool from 3.1.20230425144158 to 3.1.20230719185429.

Release notes

Sourced from cwltool's releases.

3.1.20230719185429

What's Changed

Python 3.7 is no longer a supported version of Python (though it still likely works).

• Update Python version support document; drop Python 3.7 (EOL) by @​mr-c in common-workflow-language/cwltool#1872

Fixes

• required outputs with secondaryFiles fix for containers by @​mr-c in common-workflow-language/cwltool#1870
• enable pickling of cwltool.workflow.Workflow by @​mr-c in common-workflow-language/cwltool#1878

Misc

• requirements.txt; remove spaces to enable re-use in other contexts by @​mr-c in common-workflow-language/cwltool#1867
• confirm that enhanced TypeDSL from schema-salad 1.3 doesn't change CWL v1.2 by @​mr-c in common-workflow-language/cwltool#1868
• Update flake8-bugbear requirement from <23.7 to <23.8 by @​dependabot in common-workflow-language/cwltool#1877
• Update black requirement from ~=23.3 to ~=23.7 by @​dependabot in common-workflow-language/cwltool#1876

Full Changelog: common-workflow-language/cwltool@3.1.20230624081518...3.1.20230719185429

3.1.20230624081518

What's Changed

• pass through QEMU_LD_PREFIX by default by @​mr-c in common-workflow-language/cwltool#1849
• dockerfile: pin graphviz to before 8.x by @​mr-c in common-workflow-language/cwltool#1863

Misc

• Remove deprecated use of Pathlib.Path as a context-mananger by @​mr-c in common-workflow-language/cwltool#1854
• gh-actions: keep running even if codecov upload fails by @​mr-c in common-workflow-language/cwltool#1857

Deps

• Update ruamel-yaml requirement from =0.16.0,<0.17.32 by @​dependabot in common-workflow-language/cwltool#1852
• Update flake8-bugbear requirement from <23.6 to <23.7 by @​dependabot in common-workflow-language/cwltool#1856
• Bump sphinx-rtd-theme from 1.2.1 to 1.2.2 by @​dependabot in common-workflow-language/cwltool#1858
• Update pytest requirement from =6.2,<7.5 by @​dependabot in common-workflow-language/cwltool#1864

Full Changelog: common-workflow-language/cwltool@3.1.20230601100705...3.1.20230624081518

3.1.20230601100705

What's Changed

• Ensure that files with identical basenames get staged to unique paths by @​mr-c in common-workflow-language/cwltool#1853

Full Changelog: common-workflow-language/cwltool@3.1.20230527103121...3.1.20230601100705

3.1.20230527103121

What's Changed

• synchronize setup.py & requirements.txt by @​mr-c in common-workflow-language/cwltool#1848 (fixes missing dependency on importlib_resources and importlib_metadata; also drop dependency on the bagit library library which is only used in the tests)

... (truncated)

Commits

• 1573509 enable pickling of cwltool.workflow.Workflow (#1878)
• f23d3e0 drop py3.7 lint checks
• dff81dc Update black requirement from ~=23.3 to ~=23.7
• 8fc75e1 Update Python version support document; drop Python 3.7 (EOL) (#1872)
• 48a75cc Update flake8-bugbear requirement from <23.7 to <23.8 (#1877)
• 0f7367b required outputs with secondaryFiles fix for containers (#1870)
• 263a554 tox: skip py3.6 for lint
• e4be144 confirm enhanced TypeDSL from Schema Salad v1.3 doesn't leak through
• f88d752 *requirements.txt; remove spaces to enable re-use in other contexts
• 15a4f64 Update pytest requirement from <7.4,>=6.2 to >=6.2,<7.5
• Additional commits viewable in compare view

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