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NCI-CGR / GwasQcPipeline Public

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feature: add a generic slurm cluster submit option#283

Merged

jaamarks merged 14 commits intodefaultNCI-CGR/GwasQcPipeline:defaultfrom issue-268-generic-slurmNCI-CGR/GwasQcPipeline:issue-268-generic-slurmCopy head branch name to clipboard

May 2, 2024

+330-294

Conversation Commits14 (14)Checks Files changed

Commits

Commits on May 2, 2024

docs: fix typo in snakemake.py
jaamarks
committed
feature: Enable submission to SLURM using a generic Snakemake profile
jaamarks
committed
Remove queue specification: Submit all jobs to default queue
jaamarks
committed
Delete snakemake.orig.sh - No longer used
jaamarks
committed
Fix Slurm time format for workflows > 24 hours (timedelta)
jaamarks
committed
Capture name of slurm partition from config
jaamarks
committed
Require slurm_partition key for --slurm submit
jaamarks
committed
Improve Error Message for Missing slurm_partition
jaamarks
committed
Add --slurm-partition option for cgr config
jaamarks
committed
docs: update conf.py with author information
jaamarks
committed
docs: include documentation about new --slurm option
jaamarks
committed
docs: update software params to align with current defaults
jaamarks
committed
Update tests to include the generic slurm submission feature
jaamarks
committed
style: apply pre-commit hooks
jaamarks
committed

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