Deleted the script to build the special kernel, as it is included in the...

Deleted the script to build the special kernel, as it is included in the Instalation on Jureca and Juwels

002-Methods/003-Visualization/001-InSitu/001-Catalyst/build_ParaViewKernel.sh

-# INPUT NEEDED:
-export KERNEL_NAME="paraviewkernel5.8"
-export KERNEL_TYPE="private" # private or project
-export KERNEL_VENVS_DIR=~/jupyter/kernels
-export LOAD_PARAVIEW_COMMAND="module load ParaView/5.8.0-EGL-opengl-Python-3.6.8"
-export LOAD_JUPYTER_COMMAND="module load Jupyter/2019a-devel-Python-3.6.8"
-export UNLOAD_VTK_COMMAND="module unload VTK"
-
-
-echo "Kernel Name:"
-echo ${KERNEL_NAME}
-echo "Kernel Type:"
-echo ${KERNEL_TYPE}
-echo "Kernel venvs dir:"
-echo ${KERNEL_VENVS_DIR} # double check
-
-
-###################
-# private kernel
-if [ ${KERNEL_TYPE} == "private" ]; then
-  export KERNEL_SPECS_PREFIX=${HOME}/.local
-  echo "private kernel"
-# project kernel
-else
-  export KERNEL_SPECS_PREFIX=${PROJECT}/.local
-  echo "project kernel"
-fi
-export KERNEL_SPECS_DIR=${KERNEL_SPECS_PREFIX}/share/jupyter/kernels
-
-# check if kernel name is unique
-if [ -d "${KERNEL_SPECS_DIR}/${KERNEL_NAME}" ]; then
-  echo "ERROR: Kernel already exists in ${KERNEL_SPECS_DIR}/${KERNEL_NAME}"
-  echo "       Rename kernel name or remove directory."
-fi
-
-echo ${KERNEL_SPECS_DIR}/${KERNEL_NAME} # double check
-
-
-
-###################
-mkdir -p ${KERNEL_VENVS_DIR}
-if [ ${KERNEL_TYPE} != "private" ]; then
-  echo "Please check the permissions and ensure your project partners have read/execute permissions:"
-  namei -l ${KERNEL_VENVS_DIR}
-fi
-
-
-module -q purge
-module -q use $OTHERSTAGES        
-module -q load Stages/Devel-2019a 2> /dev/null # any stage can be used
-module -q load GCCcore/.8.3.0     2> /dev/null
-module -q load Python/3.6.8                    # only Python is required
-#module -q load GCC/8.3.0
-#module -q load ParaStationMPI/5.2.2-1
-#module -q load ParaView/5.7.0-EGL-opengl-Python-3.6.8
-
-module list # double check
-
-
-python -m venv --system-site-packages ${KERNEL_VENVS_DIR}/${KERNEL_NAME}
-source ${KERNEL_VENVS_DIR}/${KERNEL_NAME}/bin/activate
-export PYTHONPATH=${VIRTUAL_ENV}/lib/python3.6/site-packages:${PYTHONPATH}
-echo ${VIRTUAL_ENV} # double check
-
-which pip
-#pip install --ignore-installed ipykernel
-ls ${VIRTUAL_ENV}/lib/python3.6/site-packages/ # double check
-
-
-echo "#!/bin/bash
-
-# Load required modules
-module purge
-module use "'$OTHERSTAGES'"
-module load Stages/Devel-2019a
-module load GCCcore/.8.3.0
-module load Python/3.6.8
-
-# Load extra modules you need for your kernel (as you did in step 1.2)
-module load GCC/8.3.0
-module load ParaStationMPI/5.2.2-1
-${LOAD_PARAVIEW_COMMAND}
-${LOAD_JUPYTER_COMMAND}
-${UNLOAD_VTK_COMMAND}
-module list
-    
-# Activate your Python virtual environment
-source ${KERNEL_VENVS_DIR}/${KERNEL_NAME}/bin/activate
-    
-# Ensure python packages installed in the virtual environment are always prefered
-export PYTHONPATH=${VIRTUAL_ENV}/lib/python3.6/site-packages:"'${PYTHONPATH}'"
-echo ${PYTHONPATH}
-
-exec python -m ipykernel "'$@' > ${VIRTUAL_ENV}/kernel.sh
-chmod +x ${VIRTUAL_ENV}/kernel.sh
-
-python -m ipykernel install --name=${KERNEL_NAME} --prefix ${VIRTUAL_ENV}
-export VIRTUAL_ENV_KERNELS=${VIRTUAL_ENV}/share/jupyter/kernels
-
-mv ${VIRTUAL_ENV_KERNELS}/${KERNEL_NAME}/kernel.json ${VIRTUAL_ENV_KERNELS}/${KERNEL_NAME}/kernel.json.orig
-
-echo '{
-  "argv": [
-    "'${KERNEL_VENVS_DIR}/${KERNEL_NAME}/kernel.sh'",
-    "-m",
-    "ipykernel_launcher",
-    "-f",
-    "{connection_file}"
-  ],
-  "display_name": "'${KERNEL_NAME}'",
-  "language": "python"
-}' > ${VIRTUAL_ENV_KERNELS}/${KERNEL_NAME}/kernel.json
-
-cd ${KERNEL_SPECS_DIR}
-ln -s ${VIRTUAL_ENV_KERNELS}/${KERNEL_NAME} .
-ls ${KERNEL_SPECS_DIR} # double check
-
-
-deactivate