When working with the following module loading script in a Jupyter Notebook in Apptainer
! source ~/init.sh
! module load gmtsar/6.5
! module list
where in init.sh
#!/bin/bash
# TODO Put this where it belongs
# See: https://tudelft-caroline.atlassian.net/browse/CAR-73
export UNZIP_DISABLE_ZIPBOMB_DETECTION=TRUE
if ! echo $MODULEPATH | tr : '\n' | grep -qiF '/project/caroline/Software/modulefiles'; then
if [ -z "${MODULEPATH}" ]; then
export MODULEPATH='/project/caroline/Software/modulefiles'
else
export MODULEPATH="${MODULEPATH}:/project/caroline/Software/modulefiles"
fi
fi
This works in a normal conda env but not in Apptainer. By adding the source and load command in the Slurm job script, the module can be loaded normally.
We should add this as a trouble shooting section in the documentation.
When working with the following module loading script in a Jupyter Notebook in Apptainer
where in
init.shThis works in a normal conda env but not in Apptainer. By adding the source and load command in the Slurm job script, the module can be loaded normally.
We should add this as a trouble shooting section in the documentation.