Purdue University

Commands

• poppunk
• poppunk_add_weights.py
• poppunk_assign
• poppunk_batch_mst.py
• poppunk_calculate_rand_indices.py
• poppunk_calculate_silhouette.py
• poppunk_easy_run.py
• poppunk_extract_components.py
• poppunk_extract_distances.py
• poppunk_info
• poppunk_iterate.py
• poppunk_mandrake
• poppunk_mst
• poppunk_references
• poppunk_visualise

Module

You can load the modules by:

module load biocontainers
module load poppunk

Example job

Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.

To run poppunk on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=poppunk
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers poppunk