Bump toil[cwl] from 5.6.0 to 5.9.2

[dependabot[bot]]

Bumps toil[cwl] from 5.6.0 to 5.9.2.

Release notes

Sourced from toil[cwl]'s releases.

5.9.2

Changelog

Bug Fixes

• Change build tag import (#4329)

Thank you to our contributors: @​adamnovak , @​Hexotical !

5.9.0

Changelog

Bug Fixes

• Fix --provisioner and --metrics together (#4328)
• Ignore incorrect type hint from boto3, remove json.loads (#4330)
• Warn about missing --bypass-file-store with in-place update (#4337)
• Replace prepareHTSubmission with prepareSubmission in HTCondor (#4319)
• Merge "Google fixes" (#4293)
• Support (only) current htcondor (#4320)
• Delete k8s jobs individually when batch delete fails (#4306)

Misc

• Update aws spot documentation (#4310)
• Enable parallel testing (#3493)
• Add documentation for running CWL workflows on non-Toil-managed Kubernetes clusters (#4332)
• Export all slurm args by default (#4237)
• Allow for subclasses of base types in messages (#4322)
• Non cache default (#4299)

Dependencies

• Bump mypy from 0.982 to 0.991 (#4345)
• Bump schema-salad>=8.4.20230128170514,=8.3.20220913105718,<8.4 (#4342) (#4341)
• Bump cwltool from 3.1.20221008225030 to 3.1.20221201130942 (#4338)
• Bump pyupgrade to 3.7 (#4295)

Thank you to our contributors: @​adamnovak , @​Hexotical , @​w-gao, @​mr-c , @​gmloose , @​boukn , and @​thiagogenez !

5.8.0

Changelog

Highlighted Features Added

• Toil server now exposes workflow tasks via WES (#4046).
• Toil server now has a --wes_dialect agc option that will hide any tasks that don't have Amazon Batch job IDs, and put the IDs in the task names for those that do (#4047).
• Toil jobs now accept an accelerators requirement, like accelerators=1 or accelerators={'kind': 'gpu', 'brand': 'nvidia', 'count': 2} (#4163)
• Include total requested cores for each job type in toil stats (#4173)
• Toil jobs now expose job.accelerators to workflow
• Add prefix suffix params to AbstractFileStore.getLocalTempFile and AbstractFileStore.getLocalTempFileName (#4273)
• CWL: --no-compute-checksum, --strict-cpu-limit, --disable-validate, and --fast-parser are now available

... (truncated)

Commits

• 54bfe0b Update with fix.
• bbb234c Update version_template.py
• 9257042 Issues/4314 change build tag import (#4329)
• d656409 Update flake8-bugbear requirement from <21,>=20.11.1 to >=20.11.1,<24 (#4347)
• 8155e0a Update version_template.py
• f2b756b Update version_template.py
• 887dede Bump mypy from 0.982 to 0.991 (#4345)
• eb21245 Issues/1951 update aws spot documentation (#4310)
• 02b4aad Revert "Bump cwltool from 3.1.20221201130942 to 3.1.20230127121939 (#4344)" (...
• bc232cd Bump cwltool from 3.1.20221201130942 to 3.1.20230127121939 (#4344)
• Additional commits viewable in compare view

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