Fedora 40 Update: python-snakemake-executor-plugin-slurm-jobstep-0.2.1-1.fc40

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Fedora Update Notification
FEDORA-2024-62ba68cc43
2024-04-28 03:15:21.869661
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Name        : python-snakemake-executor-plugin-slurm-jobstep
Product     : Fedora 40
Version     : 0.2.1
Release     : 1.fc40
URL         : https://github.com/snakemake/snakemake-executor-plugin-slurm-jobstep
Summary     : A Snakemake executor plugin for running srun jobs inside of SLURM jobs
Description :
A Snakemake executor plugin for running srun jobs inside of SLURM jobs (meant
for internal use by snakemake-executor-plugin-slurm).

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Update Information:

snakemake
8.10.7 (2024-04-12)
Bug Fixes
expand error on modules with prefix
failure message in cleanup_metadata
handle async method in cleanup_storage_objects
8.10.6 (2024-04-04)
Bug Fixes
only constrain by --max-threads if threads of job are already known
8.10.5 (2024-04-04)
Bug Fixes
properly delete local copies of storage files after remote jobs
respect APPTAINER_CACHEDIR and allow env variables in --apptainer-prefix and
--conda-prefix
8.10.4 (2024-03-27)
Documentation
fix links
8.10.3 (2024-03-27)
Documentation
mention maintainers
8.10.2 (2024-03-26)
Bug Fixes
remove default packages from conda envs
use base64 encoding for passing default resources args to jobs
8.10.1 (2024-03-26)
Bug Fixes
passing of --set-threads values to remote jobs
use base64 encoding when passing resources and threads to remote jobs (this
solves issues with complex quoted resources)
8.10.0 (2024-03-22)
Features
expose ResourceSettings in TestWorkflowsBase
python-snakemake-interface-common
1.17.2 (2024-04-11)
Bug Fixes
Add missing name field to InvalidPluginExceptions
properly handle missing defaults in plugin settings
python-snakemake-interface-executor-plugins
9.1.1 (2024-04-12)
Bug Fixes
pass cores to remote jobs if they are set
9.1.0 (2024-03-26)
Features
add utils for encoding CLI args as base64
9.0.2 (2024-03-22)
Bug Fixes
quote list of args
9.0.1 (2024-03-21)
Bug Fixes
fix quoting of string arguments that are passed to spawned jobs
python-snakemake-interface-storage-plugins
3.2.2 (2024-04-17)
Bug Fixes
improved storage tests
3.2.1 (2024-04-16)
Bug Fixes
rm local dir before storage test
3.2.0 (2024-04-15)
Features
add test case for directories
python-snakemake-executor-plugin-slurm-jobspec
0.2.1 (2024-04-11)
Bug Fixes
cgroup confinement
0.2.0 (2024-04-06)
Features
improved debug messages
python-snakemake-executor-plugin-slurm
0.4.5 (2024-04-17)
Bug Fixes
fix path typo
0.4.4 (2024-04-15)
Miscellaneous Chores
release 0.4.4
0.4.3 (2024-04-12)
Bug Fixes
always create logdir before sbatch
python-snakemake-storage-plugin-fs
1.0.3 (2024-04-17)
Bug Fixes
fix query validation (used deprecated API)
1.0.2 (2024-04-16)
Miscellaneous Chores
release 1.0.2
1.0.1 (2024-04-16)
Bug Fixes
do not consider URL-like queries as valid
python-snakemake-storage-plugin-s3
0.2.11 (2024-04-17)
Bug Fixes
update to at least 3.2.2 of storage interface
fix errors when retrieving directories
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ChangeLog:

* Fri Apr 12 2024 Packit <hello@xxxxxxxxxx> - 0.2.1-1
- Update to 0.2.1 upstream release
- Resolves: rhbz#2274660
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References:

  [ 1 ] Bug #2271076 - snakemake-8.10.4 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2271076
  [ 2 ] Bug #2271077 - python-snakemake-interface-executor-plugins-9.1.0 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2271077
  [ 3 ] Bug #2273536 - snakemake-8.10.6 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2273536
  [ 4 ] Bug #2274659 - python-snakemake-interface-common-1.17.2 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2274659
  [ 5 ] Bug #2274660 - python-snakemake-executor-plugin-slurm-jobstep-0.2.1 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2274660
  [ 6 ] Bug #2274843 - snakemake-8.10.7 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2274843
  [ 7 ] Bug #2274844 - python-snakemake-interface-executor-plugins-9.1.1 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2274844
  [ 8 ] Bug #2274845 - python-snakemake-executor-plugin-slurm-0.4.3 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2274845
  [ 9 ] Bug #2275104 - python-snakemake-interface-storage-plugins-3.2.0 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275104
  [ 10 ] Bug #2275105 - python-snakemake-executor-plugin-slurm-0.4.4 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275105
  [ 11 ] Bug #2275331 - python-snakemake-storage-plugin-fs-1.0.2 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275331
  [ 12 ] Bug #2275332 - python-snakemake-interface-storage-plugins-3.2.1 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275332
  [ 13 ] Bug #2275830 - python-snakemake-interface-storage-plugins-3.2.2 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275830
  [ 14 ] Bug #2275831 - python-snakemake-executor-plugin-slurm-0.4.5 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275831
  [ 15 ] Bug #2275832 - python-snakemake-storage-plugin-fs-1.0.3 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275832
  [ 16 ] Bug #2275833 - python-snakemake-storage-plugin-s3-0.2.11 is available
        https://bugzilla.redhat.com/show_bug.cgi?id=2275833
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This update can be installed with the "dnf" update program. Use
su -c 'dnf upgrade --advisory FEDORA-2024-62ba68cc43' at the command
line. For more information, refer to the dnf documentation available at
http://dnf.readthedocs.io/en/latest/command_ref.html#upgrade-command-label

All packages are signed with the Fedora Project GPG key. More details on the
GPG keys used by the Fedora Project can be found at
https://fedoraproject.org/keys
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