9.14.5 (2025-12-15)

Bug Fixes

• remove erroneous assert in the scheduler (is_main_process) (#3881) (d5acdd1)

9.14.4 (2025-12-09)

Bug Fixes

• fix follow-up issue with group job handling when retrieving storage (#3871) (20b99ac)

9.14.3 (2025-12-08)

Bug Fixes

• ensure that queue input jobs wait if the queue is still empty upon job creation (#3866) (555ab6a)
• fix issues with cyclic dependencies when using the update and before_update flag (#3857) (21cc94e)

9.14.2 (2025-12-05)

Bug Fixes

• correctly handle groups when retrieving storage input (#3861) (8c818f4)

9.14.1 (2025-12-02)

Bug Fixes

• always raise FileNotFoundError in case of missing files in resource expressions that do size evaluations (#3854) (0f1991a)
• ensure that spawned jobs do not handle retries themselves. The main process does that. (#3855) (396271b)

9.14.0 (2025-11-27)

Features

• Support Hy in script directive (#3824) (2329c9e)

Bug Fixes

• Add support for pathlib in notebook field (#3811) (7b2180a)
• Addressed race condition in workdir_handler.py (#3844) (8dbfcfb)
• cleanup update-marked output files of failed jobs if there was no backup to restore them (#3843) (41f1ce8)
• correct Windows callable path handling (#3832) (5caad70)
• expand env vars on resources (#3823) (fcfa1bc)
• fix backup for output marked by update (#3839) (09c64b7)
• Minor fixes/additions to logging module. (#3802) (3b3986d)
• mount local storage prefix into containers (#3840) (f1e8b62)
• properly format input/output files in case of missing rule to produce them (#3849) (69d5d24)
• Unpack AnnotatedString in _apply_wildcards (#3798) (7886508)

Performance Improvements

• retrieve storage inputs immediately before scheduling jobs instead of before running the entire workflow (#3850) (4ac6cda)

9.13.7 (2025-11-07)

Bug Fixes

• backup output files marked for update and restore them in case of job failures (#3833) (3e0904d)

9.13.6 (2025-11-06)

Bug Fixes

• only complain about mixed rules and functions for workflows that are not in a single snakefile; improve internal pathvar error handling (#3829) (a729a47)

9.13.5 (2025-11-04)

Bug Fixes

• cache wrapper files and wait for them in case of shared filesystem for sources (#3809) (498fff7)
• correctly handle meta-wrapper tag replacement depending on the used snakemake-wrapper release (#3826) (8d46a4a)
• ensure that flags are properly considered for input files before applying path modifiers (i.e. default storage providers) (#3813) (d3bfe32)
• ensure that tokens are not leaked when paths or uris of source files are logged (#3821) (a217e50)
• print secs as numeric in jsonl benchmark format (#3814) (395a5e6)
• revert breaking change in 9.11.9 disallowing empty input files even when unused (#3810) (83c05cc)
• shorten report ids (thus dir names) in order to avoid issues with path length on windows (#3822) (b24d971)

9.13.4 (2025-10-22)

Bug Fixes

• properly handle local annotation on input functions (#3805) (6511d30)