add script that creates batch scripts

create_runscripts_HPC.sh

+#!/bin/csh -x
+
+echo "############################################################"
+echo "#                                                          #"
+echo "#            user interaction required                     #"
+echo "#                                                          #"
+echo "############################################################"
+
+echo "This script creates the HPC batch scripts to run mlt on compute nodes (gpus and develgpus)."
+echo "You can modify the created run scripts afterwards if needed."
+
+
+budget=''
+while [[ $budget == '' ]]
+do
+ read -p "Enter project budget for --account flag: " budget 
+done
+
+email=`jutil user show -o json | grep email | cut -f2 -d':' | cut -f1 -d',' | cut -f2 -d'"'`
+read -p "Enter e-mail address for --mail-user (default: ${email}): " new_email
+
+if [[ -z "$new_email" ]]; then
+    new_email=$email
+fi
+
+cat <<EOT > run_develgpus.bash
+#!/bin/bash -x
+#SBATCH --account=${budget}
+#SBATCH --nodes=1
+#SBATCH --output=mlt-out.%j
+#SBATCH --error=mlt-err.%j
+#SBATCH --time=02:00:00
+#SBATCH --partition=develgpus
+#SBATCH --gres=gpu:2
+#SBATCH --mail-type=ALL
+#SBATCH --mail-user=${email}
+
+source mlt_modules.sh
+source venv/bin/activate
+
+export PYTHONPATH=\${PWD}/venv/lib/python3.6/site-packages:\${PYTHONPATH}
+
+srun python run.py
+EOT
+
+echo "Created runscript: run_develgpus.bash"
+
+cat <<EOT > run_gpus.bash
+#!/bin/bash -x
+#SBATCH --account=${budget}
+#SBATCH --nodes=1
+#SBATCH --output=mlt-out.%j
+#SBATCH --error=mlt-err.%j
+#SBATCH --time=16:00:00
+#SBATCH --partition=gpus
+#SBATCH --gres=gpu:4
+#SBATCH --mail-type=ALL
+#SBATCH --mail-user=${email}
+
+source mlt_modules.sh
+source venv/bin/activate
+
+export PYTHONPATH=\${PWD}/venv/lib/python3.6/site-packages:\${PYTHONPATH}
+
+srun python run.py
+EOT
+
+echo "Created runscript: run_gpus.bash"
+
+echo "You have to run the the following command on a login node to download data:"
+echo "          \`python run.py'"
+echo "Please execute the following command to check if the setup went well:"
+echo "          \`sbatch run_develgpus.bash'"
+