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CCBR / Pipeliner

An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.
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HPC snakemake upgrade incompatibility #371

Closed skchronicles closed 5 years ago

skchronicles commented 5 years ago

Snakemake Version Incompatibility: REVERT 5.1.3

Changes were made to module load ccbrpipeliner, master and activeDev branch

HPC upgraded the version of snakemake that is loaded when running module load snakemake/3.5. Previously, snakemake version 5.1.3 was loaded. Now, snakemake version 5.3.0 is loaded. This is problematic due to the base command we are using. We are using the -T switch which is no longer supported in the newer version.

Adding explicit module load snakemake/5.1.3 statements after module loading python 3.5 to the following files.

skchronicles commented 5 years ago

Changed implicit loading of snakemake to an explicit module load

module load snakemake/5.1.3