Created
December 6, 2021 22:51
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Bash script for activating a conda environment with snakemake on a cluster. One argument - the conda environment. Use it like shell.prefix("./act-conda-sm-clust.sh env; ")
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| #!/usr/bin/env bash | |
| set -eu | |
| if [ -f ~/miniconda3/etc/profile.d/conda.sh ]; then | |
| [ -z "${CONDA_EXE}" ] && echo "Error, missing \$CONDA_EXE !" && exit 1 | |
| CONDA_BASE=$(${CONDA_EXE} info --base) | |
| ADDR2LINE="" | |
| source $CONDA_BASE/etc/profile.d/conda.sh | |
| conda activate $1 || exit 1 | |
| fi | |
| set +eu |
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