Commit 9f6599cd authored by Kenzo-Hugo Hillion's avatar Kenzo-Hugo Hillion
Browse files

Merge branch 'master' of gitlab.pasteur.fr:hub/tars-cwl-runner

parents e4272556 84a8d4b6
......@@ -5,13 +5,15 @@ singularity_imgs_path=/pasteur/projets/policy01/BioIT/Toil/.singularity_imgs/
# Go into the right environment
module load Python/3.7.2
module load singularity/3.2.0
module load node
source ${toil_venv}/bin/activate
export SINGULARITY_PULLFOLDER=${singularity_imgs_path}
# Prefetch every docker images and built them for singularity
docker_extract.py ${singularity_imgs_path} $1
docker_extract.py -s ${singularity_imgs_path} $1
# Run toil
# export TOIL_SLURM_ARGS="" # Need to be set by parameters later
toil-cwl-runner "$@"
toil-cwl-runner --singularity "$@"
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