Setup pyyaml on singularity

Signed-off-by: Afonso Oliveira <[email protected]>

Author: AFOliveira

bin/python

@@ -0,0 +1,14 @@
+#!/bin/bash
+
+ROOT=$(dirname $(dirname $(realpath $BASH_SOURCE[0])))
+CONTAINER_TAG=$(cat ${ROOT}/bin/.container-tag)
+CONTAINER_PATH=${ROOT}/.singularity/image-${CONTAINER_TAG}.sif
+HOME_OPT="--bind ${ROOT}/.home:${HOME}"
+
+# Create virtual environment using absolute path
+echo "Creating virtual environment..."
+singularity exec ${HOME_OPT} ${CONTAINER_PATH} /usr/bin/python3 -m venv ${ROOT}/.home/.venv
+
+# Install packages
+echo "Installing packages..."
+singularity exec ${HOME_OPT} ${CONTAINER_PATH} bash -c "source ${ROOT}/.home/.venv/bin/activate && pip install pyyaml"

bin/setup

@@ -86,9 +86,16 @@ if [ ! -d ${ROOT}/node_modules ]; then
   singularity run ${HOME_OPT} ${CONTAINER_PATH} npm i
 fi
 
+if [ ! -d ${ROOT}/.home/.venv ]; then
+  singularity run ${HOME_OPT} ${CONTAINER_PATH} python3 -m venv ${ROOT}/.home/.venv
+  singularity run ${HOME_OPT} ${CONTAINER_PATH} bash -c "source ${ROOT}/.home/.venv/bin/activate && pip install pyyaml"
+fi
+
 BUNDLE="singularity run ${HOME_OPT} ${CONTAINER_PATH} bundle"
 RUBY="singularity run ${HOME_OPT} ${CONTAINER_PATH} bundle exec ruby"
 RAKE="singularity run ${HOME_OPT} ${CONTAINER_PATH} bundle exec rake"
 NPM="singularity run ${HOME_OPT} ${CONTAINER_PATH} npm"
 NPX="singularity run ${HOME_OPT} ${CONTAINER_PATH} npx"
 NODE="singularity run ${HOME_OPT} ${CONTAINER_PATH} node"
+PYTHON="singularity run ${HOME_OPT} ${CONTAINER_PATH} bash -c 'source ${ROOT}/.home/.venv/bin/activate && python'"
+