v8.14.0

8.14.0 (2024-06-11)

Features

• add flag to mark files where path should not be modified (#2888) (d142b46)
• support per rule shell exec setting via resources (#2862) (ab8d2dd)

Documentation

• update FAQ - recommend ensure function for failing on empty output (#2910) (b035071)

v8.13.0

8.13.0 (2024-06-05)

Features

• support for default value specification when using lookup helper function (#2907) (08e88e2)

Documentation

• add badge for bioconda version (#2902) (3f01348)

v8.12.0

8.12.0 (2024-05-27)

Features

• Include parameters in extended benchmarks (#2887) (31a9c9b)

Bug Fixes

• fix corner case bug in input function exception handling (#2895) (fc24292)
• fix quoting issues when passing complex apptainer args to spawned jobs (#2898) (b07e2e0)
• properly restrict scheduler if --jobs/-j is used (in contrast to --cores) in local execution (#2897) (6a276bb)
• typo in workflow specific profile default location (#2878) (74627d3)

v8.11.6

8.11.6 (2024-05-17)

Bug Fixes

• fix opening of multiple checkout output files in the same input function when using remote storage (2f8e719)

v8.11.5

8.11.5 (2024-05-16)

Bug Fixes

• avoid premature deletion of local copies of remote storage input files used by multiple jobs (#2874) (21ec649)
• fix opening of checkpoint output files from remote storage (#2873) (e7cb7fb)

Documentation

• add link to code of conduct (889a3bc)

v8.11.4

8.11.4 (2024-05-11)

Bug Fixes

• fix missing await when opening checkpoint output (#2868) (25a361b)
• make checkpoint updates synchronous (#2871) (b0e7ebd)

Documentation

• update code of conduct email address (3047683)

v8.11.3

8.11.3 (2024-05-03)

Bug Fixes

• ignore errors when cleaning up runtime cache (#2859) (6df7046)
• show queries of remote storage files instead of local paths in summary (#2860) (ba1db8e)

v8.11.2

8.11.2 (2024-05-02)

Bug Fixes

• bug when requesting extended benchmark with slurm (#2855) (0e039ff)

v8.11.1

8.11.1 (2024-04-29)

Bug Fixes

• check template rendering output for leaked input file paths (#2850) (433302e)
• do not distinguish between local and remote rules in dryrun (74b99ec)
• omit norun jobs when determining remote storage input file retrieval (#2854) (37a7c7f)
• Prevent binary log files to crash snakemake execution with show-failed-logs (#2827) (8a80bda)
• replace pkg_resources for python 3.12 (#2831) (ac144fc)
• return set instead of list when just --quiet (#2829) (eeb57e2)
• small typo in error (#2853) (325a715)
• use keyword arguments in _IOFile.open (#2847) (50c84dc)

Documentation

• fix typo and link for RO Crate (#2851) (cec0041)

v8.11.0

8.11.0 (2024-04-25)

Features

• allow for more extensive benchmark file in jsonl format (#2691) (de12463)

Bug Fixes

• only download input for local jobs in the main process, not within remote groups (#2842) (97f428b)
• remove non-empty local copies of remote storage dirs (#2845) (71b2b87)
• retrieve files from storage if necessary when calling their open method (e.g. when accessing output files from a checkpoint) (#2839) (5448208)