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the --comment and --output flags are not escaped, which is problematic for wildcards with spaces. Modifying it to --output '{slurm_logfile}' and --comment '{job.name}' fixed the issue for me.
The text was updated successfully, but these errors were encountered:
snakemake-executor-plugin-slurm/snakemake_executor_plugin_slurm/__init__.py
Lines 74 to 77 in cf0560c
the
--comment
and--output
flags are not escaped, which is problematic for wildcards with spaces. Modifying it to--output '{slurm_logfile}'
and--comment '{job.name}'
fixed the issue for me.The text was updated successfully, but these errors were encountered: