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fix: sbatch stderr parsing #2 #165

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Merged
merged 9 commits into from
Nov 7, 2024
Merged

fix: sbatch stderr parsing #2 #165

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60f7a98
fix: differentiation between stdout and stderr upon job submission, m…
cmeesters Oct 31, 2024
d545647
fix: typo
cmeesters Oct 31, 2024
c11d972
fix: formatting
cmeesters Oct 31, 2024
e070248
Add slurm_jobid error check
fgvieira Nov 1, 2024
35d69f2
fix: now checking for a substring in stderr output of sbatch to detec…
cmeesters Nov 5, 2024
fec0f3f
fix: merge conflict
cmeesters Nov 5, 2024
898d835
Update snakemake_executor_plugin_slurm/__init__.py
cmeesters Nov 6, 2024
efaeaf4
fix: the truncated error message will hopefully fix the linting
cmeesters Nov 6, 2024
de26f97
Small tweak
fgvieira Nov 7, 2024
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2 changes: 1 addition & 1 deletion snakemake_executor_plugin_slurm/__init__.py
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Original file line number Diff line number Diff line change
Expand Up @@ -233,7 +233,7 @@ def run_job(self, job: JobExecutorInterface):
raise WorkflowError(
f"SLURM job submission failed. The error message was {e.output}"
)
if err: # any other error message?
if "submission failed" in err: # any other error message indicating failure?
raise WorkflowError(
f"SLURM job submission failed. The error message was {err}"
)
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