Building a conda Environment

A conda enviornment is needed for any post-processing scripts and visualizations of AlphaFold, including running alphapickle and generating sequence coverage plots.

module load anaconda
conda create --prefix /scratch/$USER/alphafold/conda/env python=3.8
source activate /scratch/$USER/alphafold/conda/env
conda install biopython matplotlib pandas
source deactivate 

You can call this conda environment inside a SLURM script:

conda run -p "/scratch/$USER/alphafold/conda/env" <command to run in env> 
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