[med-svn] [Git][med-team/toil][upstream] New upstream version 9.4.1

[Michael R. Crusoe (@crusoe)]

Michael R. Crusoe pushed to branch upstream at Debian Med / toil


Commits:
b534d4bc by Michael R. Crusoe at 2026-05-07T18:02:18+02:00
New upstream version 9.4.1
- - - - -


42 changed files:

- .gitlab-ci.yml
- BOTS.md
- contrib/admin/cleanup_aws_resources.py
- + contrib/admin/find_hanging_tests.py
- contrib/admin/test-pr
- docker/Dockerfile.py
- pyproject.toml
- requirements-cwl.txt
- requirements-dev.txt
- requirements.txt
- src/toil/batchSystems/mesos/batchSystem.py
- src/toil/batchSystems/slurm.py
- src/toil/cwl/cwltoil.py
- src/toil/cwl/utils.py
- src/toil/job.py
- src/toil/jobStores/aws/jobStore.py
- src/toil/lib/aws/ami.py
- src/toil/lib/aws/s3.py
- src/toil/lib/aws/utils.py
- − src/toil/lib/aws/utils.py.orig
- src/toil/lib/generatedEC2Lists.py
- src/toil/options/common.py
- src/toil/provisioners/aws/awsProvisioner.py
- src/toil/server/cli/wes_cwl_runner.py
- src/toil/server/utils.py
- src/toil/server/wes/tasks.py
- src/toil/server/wes/toil_backend.py
- src/toil/test/batchSystems/batchSystemTest.py
- src/toil/test/batchSystems/test_slurm.py
- src/toil/test/cactus/test_cactus_integration.py
- src/toil/test/cwl/cwlTest.py
- src/toil/test/jobStores/jobStoreTest.py
- src/toil/test/lib/aws/test_s3.py
- src/toil/test/server/serverTest.py
- src/toil/test/sort/sortTest.py
- src/toil/test/src/jobFileStoreTest.py
- src/toil/test/src/jobServiceTest.py
- src/toil/test/src/jobTest.py
- src/toil/test/utils/utilsTest.py
- + src/toil/test/wdl/testfiles/cromwell_pair.wdl
- src/toil/test/wdl/wdltoil_test.py
- version_template.py


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/toil/-/commit/b534d4bcd248bc4b9a5cd90c360cd11956e37bf5

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View it on GitLab: https://salsa.debian.org/med-team/toil/-/commit/b534d4bcd248bc4b9a5cd90c360cd11956e37bf5
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