search

crim-ca / weaver

Weaver: Workflow Execution Management Service (EMS); Application, Deployment and Execution Service (ADES); OGC API - Processes; WPS; CWL Application Package
https://pavics-weaver.readthedocs.io
Apache License 2.0
23 stars 6 forks source link

[Requirement] Scheduled daily dependency update on Friday #557

Closed pyup-bot closed 10 months ago

pyup-bot commented 10 months ago

Update cwltool from 3.1.20230213100550 to 3.1.20230906142556.

Changelog ### 3.1.20230906142556 ``` What's Changed Dropped Python 3.6 support, brought back Python 3.7 support for this release only Python 3.12 is now supported * Fixed race condition which happens when a job runs "too fast", by jmfernandez in https://github.com/common-workflow-language/cwltool/pull/1890 * Propery locate podman images by jmfernandez in https://github.com/common-workflow-language/cwltool/pull/1891 * add cudaDeviceCount flag to the request requirements by ndonyapour in https://github.com/common-workflow-language/cwltool/pull/1895 * use nonlocal mem_tn variable by jfennick in https://github.com/common-workflow-language/cwltool/pull/1896 * start testing with Python 3.12 by mr-c in https://github.com/common-workflow-language/cwltool/pull/1882 * py version support policy, RHEL: only track full support releases by mr-c in https://github.com/common-workflow-language/cwltool/pull/1881 * Cope with narrower terminal by mr-c in https://github.com/common-workflow-language/cwltool/pull/1893 * release testing tweaks by mr-c in https://github.com/common-workflow-language/cwltool/pull/1900 * add back in Python 3.7 for one last release by mr-c in https://github.com/common-workflow-language/cwltool/pull/1898 Deps * Update rdflib requirement from <6.4,>=4.2.2 to >=4.2.2,<7.1 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1880 * Bump sphinx-rtd-theme from 1.2.2 to 1.3.0 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1892 * bump minimum required schema_salad version to reflect reality. by mr-c in https://github.com/common-workflow-language/cwltool/pull/1894 * Bump actions/checkout from 3 to 4 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1897 New Contributors * ndonyapour made their first contribution in https://github.com/common-workflow-language/cwltool/pull/1895 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230719185429...3.1.20230906142556 ``` ### 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 https://github.com/common-workflow-language/cwltool/pull/1872 Fixes * required outputs with secondaryFiles fix for containers by mr-c in https://github.com/common-workflow-language/cwltool/pull/1870 * enable pickling of cwltool.workflow.Workflow by mr-c in https://github.com/common-workflow-language/cwltool/pull/1878 Misc * requirements.txt; remove spaces to enable re-use in other contexts by mr-c in https://github.com/common-workflow-language/cwltool/pull/1867 * confirm that enhanced TypeDSL from schema-salad 1.3 doesn't change CWL v1.2 by mr-c in https://github.com/common-workflow-language/cwltool/pull/1868 * Update flake8-bugbear requirement from <23.7 to <23.8 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1877 * Update black requirement from ~=23.3 to ~=23.7 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1876 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230624081518...3.1.20230719185429 ``` ### 3.1.20230624081518 ``` What's Changed * pass through QEMU_LD_PREFIX by default by mr-c in https://github.com/common-workflow-language/cwltool/pull/1849 * dockerfile: pin graphviz to before 8.x by mr-c in https://github.com/common-workflow-language/cwltool/pull/1863 Misc * Remove deprecated use of Pathlib.Path as a context-mananger by mr-c in https://github.com/common-workflow-language/cwltool/pull/1854 * gh-actions: keep running even if codecov upload fails by mr-c in https://github.com/common-workflow-language/cwltool/pull/1857 Deps * Update ruamel-yaml requirement from <0.17.28,>=0.16.0 to >=0.16.0,<0.17.32 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1852 * Update flake8-bugbear requirement from <23.6 to <23.7 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1856 * Bump sphinx-rtd-theme from 1.2.1 to 1.2.2 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1858 * Update pytest requirement from <7.4,>=6.2 to >=6.2,<7.5 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1864 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/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 https://github.com/common-workflow-language/cwltool/pull/1853 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230527103121...3.1.20230601100705 ``` ### 3.1.20230527103121 ``` What's Changed * synchronize setup.py & requirements.txt by mr-c in https://github.com/common-workflow-language/cwltool/pull/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) **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230526180938...3.1.20230527103121 ``` ### 3.1.20230526180938 ``` What's Changed * CWLProv snapshots: capture the workflow even if the cwl:tool trick in the input object is used by mr-c in https://github.com/common-workflow-language/cwltool/pull/1847 * Refactoring provenance.py as provenance submodule by RenskeW in https://github.com/common-workflow-language/cwltool/pull/1775 * use importlib instead of the deprecated pkg_resources by mr-c in https://github.com/common-workflow-language/cwltool/pull/1844 * Bump sphinx-rtd-theme from 1.2.0 to 1.2.1 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1845 * Update ruamel-yaml requirement from <0.17.27,>=0.16.0 to >=0.16.0,<0.17.28 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1846 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230513155734...3.1.20230526180938 ``` ### 3.1.20230513155734 ``` What's Changed * Update ruamel-yaml requirement from <0.17.22,>=0.16.0 to >=0.16.0,<0.17.27 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1838 * --leave-tmpdir includes the input staging directories by mr-c in https://github.com/common-workflow-language/cwltool/pull/1674 https://github.com/common-workflow-language/cwltool/pull/1840 * Bump mypy from 1.2.0 to 1.3.0 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1839 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230425144158...3.1.20230513155734 ``` ### 3.1.20230425144158 ``` What's Changed * Bump mypy from 1.1.1 to 1.2.0 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1825 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230425122939...3.1.20230425144158 ``` ### 3.1.20230424211314 ``` What's Changed * always print floats on the command line with decimal notation by mr-c in https://github.com/common-workflow-language/cwltool/pull/1832 * Better error message when parsing hints in the upgrader by mr-c in https://github.com/common-workflow-language/cwltool/pull/1830 Misc * synchronize reqs. by mr-c in https://github.com/common-workflow-language/cwltool/pull/1823 * Update black requirement from ~=23.1 to ~=23.3 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1824 * Update pytest requirement from <7.3,>=6.2 to >=6.2,<7.4 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1826 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230325110543...3.1.20230424211314 ``` ### 3.1.20230325110543 ``` What's Changed * Bump mypy from 1.0.1 to 1.1.1 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1817 * Executor clears any saved result when execute is called. by tetron in https://github.com/common-workflow-language/cwltool/pull/1813 * CWL exprs in ResourceRequirement fields can return floats in CWL v1.2+ by mr-c in https://github.com/common-workflow-language/cwltool/pull/1818 * Update rdflib requirement from <6.3,>=4.2.2 to >=4.2.2,<6.4 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1820 * guard `import pwd` for windows by jfennick in https://github.com/common-workflow-language/cwltool/pull/1822 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230302145532...3.1.20230325110543 ``` ### 3.1.20230302145532 ``` What's Changed * Raise error is socket is **not** available by BrunoGrandePhD in https://github.com/common-workflow-language/cwltool/pull/1809 * mypyc: enable subclassing and/or pickling of popular classes by mr-c in https://github.com/common-workflow-language/cwltoo/pull/1814 Misc * ga: cleanups from actionlint by mr-c in https://github.com/common-workflow-language/cwltool/pull/1805 * ga: colorful output by mr-c in https://github.com/common-workflow-language/cwltool/pull/1807 * Bump mypy from 1.0.0 to 1.0.1 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1810 * Bump actions/cache from 2 to 3 by dependabot in https://github.com/common-workflow-language/cwltool/pull/1812 New Contributors * BrunoGrandePhD made their first contribution in https://github.com/common-workflow-language/cwltool/pull/1809 **Full Changelog**: https://github.com/common-workflow-language/cwltool/compare/3.1.20230213100550...3.1.20230302145532 ```
Links - PyPI: https://pypi.org/project/cwltool - Changelog: https://data.safetycli.com/changelogs/cwltool/ - Repo: https://github.com/common-workflow-language/cwltool
codecov[bot] commented 10 months ago

Codecov Report

Merging #557 (2d84bb0) into master (f7be768) will not change coverage. Report is 8 commits behind head on master. The diff coverage is n/a.

@@           Coverage Diff           @@
##           master     #557   +/-   ##
=======================================
  Coverage   84.43%   84.43%           
=======================================
  Files          79       79           
  Lines       17637    17637           
  Branches     2674     2674           
=======================================
  Hits        14891    14891           
  Misses       2019     2019           
  Partials      727      727

:loudspeaker: Have feedback on the report? Share it here.