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@dependabot dependabot bot commented on behalf of github Dec 13, 2022

Updates the requirements on snakemake to permit the latest version.

Release notes

Sourced from snakemake's releases.

v7.19.0

7.19.0 (2022-12-13)

Features

  • add keyword to gridftp remote provide to specify the number or disable usage of multiple data stream (#1974) (3e6675d)
  • provide information about temp, pipe, and service files in --summary (#1977) (c7c7776)
  • native SLURM support (--slurm, see docs) (#1015) (c7ea059)

Bug Fixes

  • avoid logfile writing in case of dryrun; better hints in case of incomplete checkpoints (#1994) (a022705)
  • handle case where zenodo deposition does not return files (#2004) (b63c4a7)
  • issue #1882 WorkflowError: Metadata can't be created as it already exists (Windows) (#1971) (d4484e6)
  • json validation error with markdown cells (#1986) (6c26f75)
Changelog

Sourced from snakemake's changelog.

7.19.0 (2022-12-13)

Features

  • add keyword to gridftp remote provide to specify the number or disable usage of multiple data stream (#1974) (3e6675d)
  • provide information about temp, pipe, and service files in --summary (#1977) (c7c7776)
  • native SLURM support (--slurm, see docs) (#1015) (c7ea059)

Bug Fixes

  • avoid logfile writing in case of dryrun; better hints in case of incomplete checkpoints (#1994) (a022705)
  • handle case where zenodo deposition does not return files (#2004) (b63c4a7)
  • issue #1882 WorkflowError: Metadata can't be created as it already exists (Windows) (#1971) (d4484e6)
  • json validation error with markdown cells (#1986) (6c26f75)

7.18.2 (2022-11-10)

Bug Fixes

  • Change ratelimiter dependency to throttler (#1958) (50b8f16)
  • fixed problem with leaked modifications when inheriting multiple times from the same rule (#1957) (2475cbc)
  • forwarding --keep-incomplete to cluster executor (#1951) (2894c7d)
  • show input files on job error (#1949) (ad21631)

7.18.1 (2022-11-03)

Bug Fixes

  • regression ValueError introduced with 7.17.2 (#1947) (53a4fca)

7.18.0 (2022-10-31)

Features

  • first try to match output files against input files while persisting wildcard values from the consuming job. This can dramatically reduce ambiuity problems. Thanks to @​descostesn! (#1939) (d093907)

7.17.2 (2022-10-28)

Bug Fixes

  • Consider source cache when setting search path for python scripts. This allows to import from Python modules next to scripts while deploying the workflow as a snakemake module, even from remote locations. (#1940) (27be1d4)

7.17.1 (2022-10-28)

... (truncated)

Commits
  • 88d9268 chore(main): release 7.19.0 (#1995)
  • c7ea059 feat: SLURM executor (#1015)
  • b63c4a7 fix: handle case where zenodo deposition does not return files (#2004)
  • a022705 fix: avoid logfile writing in case of dryrun; better hints in case of incompl...
  • d4484e6 fix: issue #1882 WorkflowError: Metadata can't be created as it already exist...
  • 3e6675d feat: add keyword to gridftp remote provide to specify the number or disable...
  • c7c7776 feat: provide information about temp, pipe, and service files in --summary (#...
  • 6c26f75 fix: json validation error with markdown cells (#1986)
  • 7331bb1 chore: remove slurm setup and wait for PR #1015
  • a5c3523 chore(main): release 7.18.2 (#1950)
  • Additional commits viewable in compare view

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Updates the requirements on [snakemake](https://github.com/snakemake/snakemake) to permit the latest version.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](snakemake/snakemake@v7.8.0...v7.19.0)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:development
...

Signed-off-by: dependabot[bot] <support@github.com>
@dependabot dependabot bot added dependencies Pull requests that update a dependency file python Pull requests that update Python code labels Dec 13, 2022
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dependabot bot commented on behalf of github Jan 19, 2023

Superseded by #21.

@dependabot dependabot bot closed this Jan 19, 2023
@dependabot dependabot bot deleted the dependabot/pip/snakemake-gte-7.8-and-lt-7.20 branch January 19, 2023 10:12
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