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set slurm walltime to 4 days #108

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Merged
kelly-sovacool merged 4 commits into from
Sep 10, 2025
Merged

set slurm walltime to 4 days #108

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b6f02e2
chore: remove unused slurm script headers
kelly-sovacool Sep 10, 2025
084cab4
fix: set slurm walltime to 4 days (96 hours)
kelly-sovacool Sep 10, 2025
147db24
chore: update CHANGELOG.md
kelly-sovacool Sep 10, 2025
bdf9fd1
Merge branch 'main' into slurm-walltime
kelly-sovacool Sep 10, 2025
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6 changes: 3 additions & 3 deletions CHANGELOG.md
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Original file line number Diff line number Diff line change
@@ -1,8 +1,8 @@
## LOGAN development version

- Removed old bindpaths and fixed ` /gs10 doesn't exist` error (#107, @samarth8392)
- Increased pipeline walltime for slurm submission to 100 hours (#107, @samarth8392)
- Minor documentation updates for setup and running LOGAN (#107, @samarth8392)
- Removed old bindpaths and fixed ` /gs10 doesn't exist` error. (#107, @samarth8392)
- Increased pipeline walltime for slurm submission to 4 days (96 hours). (#107, #108, @samarth8392)
- Minor documentation updates for setup and running LOGAN. (#107, @samarth8392)

## LOGAN 0.3.2

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13 changes: 0 additions & 13 deletions assets/slurm_header_biowulf.sh
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12 changes: 0 additions & 12 deletions assets/slurm_header_frce.sh
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3 changes: 2 additions & 1 deletion src/__main__.py
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Expand Up @@ -115,7 +115,7 @@ def cli():
def run(main_path, output, _mode, force_all, **kwargs):
"""
Run the workflow

Note: you must first run `logan init --output <output_dir>` to initialize
the output directory.
"""
Expand All @@ -142,6 +142,7 @@ def run(main_path, output, _mode, force_all, **kwargs):
force_all=force_all,
pipeline_name="LOGAN",
hpc_modules="nextflow/25",
hpc_walltime="4-00:00:00",
**kwargs,
)
finally:
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