Changes to load tools transparently with the spack env modules and

parametrized even more the path that the JupyterLab kernel will be
created

create_JupyterLab_kernel.sh

 #!/bin/bash
 #title           :create_JupyterLab_kernel.sh
 #description     :Script to create a spackified JupyterLab kernel conf and place it to NFS where it can be loaded by all users.   
-#usage           :./create_JupyterLab_kernel.sh $BUILD-ENV
+#usage           :./create_JupyterLab_kernel.sh $INSTALLATION_ROOT $ENV $LAB_KERNEL_PATH
 #==============================================================================
 
 INSTALLATION_ROOT=$1
 SPACKIFIED_ENV=$2
-CONF_PATH="/srv/jupyterlab_kernels/int/release20210930"
+LAB_KERNEL_PATH=$3
 
 # load spack and spack repos
 cp -r /srv/$INSTALLATION_ROOT/spack/.spack ~
@@ -14,26 +14,26 @@ source /srv/$INSTALLATION_ROOT/spack/share/spack/setup-env.sh
 spack repo add /srv/$INSTALLATION_ROOT/ebrains-spack-builds
 
 # prepare the env file 
-mkdir $CONF_PATH/bin
-cat <<EOF > $CONF_PATH/bin/env.sh
+mkdir $LAB_KERNEL_PATH/bin
+cat <<EOF > $LAB_KERNEL_PATH/bin/env.sh
 #!/usr/bin/env bash
 set -euxo pipefail
 EOF
 
 # load here all tools
-spack load --sh -r python@3.8.11 py-ipykernel py-pip py-numpy@1.21.0 py-scipy py-pandas py-seaborn py-matplotlib arbor nest@3.0 neuron py-pynn tvb-data tvb-library %gcc@10.3.0 >> $CONF_PATH/bin/env.sh
-#spack env activate $SPACKIFIED_ENV --sh >> $CONF_PATH/bin/env.sh
+spack load --sh -r python@3.8.11 py-ipykernel py-pip py-numpy@1.21.0 py-scipy py-pandas py-seaborn py-matplotlib arbor nest@3.0 neuron py-pynn tvb-data tvb-library %gcc@10.3.0 >> $LAB_KERNEL_PATH/bin/env.sh
+#spack env activate $SPACKIFIED_ENV --sh >> $LAB_KERNEL_PATH/bin/env.sh
 
 # end of env creation
-cat <<EOF >>$CONF_PATH/bin/env.sh
+cat <<EOF >>$LAB_KERNEL_PATH/bin/env.sh
 python -m ipykernel_launcher -f \$@
 EOF
-chmod +x $CONF_PATH/bin/env.sh
+chmod +x $LAB_KERNEL_PATH/bin/env.sh
 # create the new kernel's configuration file
-mkdir $CONF_PATH/spack_python_kernel_release_20210930
-cat <<EOF >$CONF_PATH/spack_python_kernel_release_20210930/kernel.json
+mkdir $LAB_KERNEL_PATH/spack_python_kernel_release_20210930
+cat <<EOF >$LAB_KERNEL_PATH/spack_python_kernel_release_20210930/kernel.json
 {
- "argv": ["$CONF_PATH/bin/env.sh", "{connection_file}"],
+ "argv": ["$LAB_KERNEL_PATH/bin/env.sh", "{connection_file}"],
  "display_name": "EBRAINS_release_20210930",
  "name": "spack_python_kernel_release_20210930",
  "language": "python"

load_sim_tools.sh

@@ -8,13 +8,17 @@
 
 echo "Setting up environment..."
 
-cp -r /srv/test-build/spack/.spack ~
-source /srv/test-build/spack/share/spack/setup-env.sh
+INSTALLATION_ROOT="test-build"
+SPACKIFIED_ENV="ebrains-spack-builds"
 
-cd /srv/test-build/
+cp -r /srv/$INSTALLATION_ROOT/spack/.spack ~
+source /srv/$INSTALLATION_ROOT/spack/share/spack/setup-env.sh
+
+cd /srv/$INSTALLATION_ROOT
 spack repo add ebrains-spack-builds
-spack env activate ebrains-spack-builds
+spack env activate $SPACKIFIED_ENV
+
+module use /srv/$INSTALLATION_ROOT/spack/share/spack/modules/linux-centos7-broadwell/
+source /srv/$INSTALLATION_ROOT/spack/var/spack/environments/$SPACKIFIED_ENV/loads
 
 echo "Everything ready!"
-#echo "Starting Python..."
-#python