template_python.sh
137fc3bab4f4master

template_python.sh
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			#!/bin/bash

			## == Settings

			#SBATCH --account=cadmos

			#SBATCH --job-name=_job

			#SBATCH --nodes=_nodes
			#SBATCH --mem=_mem
			#SBATCH --ntasks=_tasks
			#SBATCH --cpus-per-task=_cores
			#SBATCH --time=_time

			#SBATCH --workdir ./output
			#SBATCH --mail-type=ALL
			#SBATCH --mail-user=_mail

			#SBATCH --array=1-_lines

			#SBATCH -o _job_%A_%a.out # Standard output
			#SBATCH -e _job_%A_%a.err # Standard error

			echo STARTING AT $(date)
			echo

			## ====== Specify here the needed modules

			source deactivate

			module purge
			module load gcc python/3.6.5

			source activate py3

			## ====== Get slurm array ID

			N=${SLURM_ARRAY_TASK_ID}
			echo Slurm array task ID: $N
			echo

			WORKDIR=_workdir

			# variable(s) to be read from file. Copy and change -f1 to -f2 if more than one column is read in control file
			_var=`head -n ${N} $WORKDIR/_controlFile \| tail -n 1 \| cut -d' ' -f1`

			## ====== User input

			PATH_TO_SCRIPT=$WORKDIR\/_pythonScript

			## ENTER OTHER USER INPUTS HERE ##

			## ===== Variable definitions

			CURR_ID=`expr $N - 1`

			## ===== Execute script
			python $PATH_TO_SCRIPT ## ADD COMMAND LINE ARGUMENTS

			source deactivate py3

			echo
			echo FINISHED AT $(date)