Draft Changelog

The following items should be added to the changelog for the next Toil release, at which point the list should be cleared. Add new items at the bottom:

Version 9.2 Draft

Changelog

Highlighted Features Added

• Toil now supports Python 3.14 (#5412)

Breaking Changes

• Toil no longer works on Python 3.9 (#5412)

CWL

• Bump cwltool from 3.1.20250925164626 to 3.1.20251031082601 (#5407)
• CWL file import now handles file:/path/to/file URIs, and other cases where the input filename is not the same as the normalized candidate URI, when doing import on workers. (#5392)
• CWL file import on workers will no longer symlink tool-associated files. (#5410)

WDL

• Toil now runs (some of) the WDL 1.2 spec tests (#5379, #5375)
• WDL import on workers now works (again?) (#5410)

Kubernetes

Dependencies

• Bump github/codeql-action from 2 to 4 (#5399)
• Update pytest-subtests requirement from <0.15,>=0.14.2 to >=0.14.2,<0.16 (#5404)

Misc

• Fixed some typos found while updating the Debian package for Toil (#5403)
• Toil no longer crashes trying to search AWS when the Flatcar release feed is unavailable (#5411)
• Quay.io login now has automatically-generated exponential backoff code (#5440)
• Toil Slurm cluster Docker tests are now using Python 3.12 and a new Slurm container image (#5440)
• Toil Cactus integration test now uses a newer version of Cactus that can shepherd sonLib through the wheel build process (#5440)
• Update AWS inventories for Toil release (#5444)

Thank you to our contributors: