R6289/pipeline_test.run
cfea8427fe6ccluster_pipeline

pipeline_test.run
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			#!/bin/bash
			#SBATCH -p debug
			#SBATCH --workdir /home/aymanns/motion-correction-paper
			#SBATCH --nodes 1
			#SBATCH --ntasks 1
			#SBATCH --cpus-per-task 1
			#SBATCH --mem 128000
			#SBATCH --time 01:00:00
			module load matlab
			module load jdk
			module load gcc
			module load openblas/0.2.19-openmp
			echo STARTING at `date`
			/home/aymanns/Fiji.app/ImageJ-linux64 --ij2 --headless --console --run /home/aymanns/motion-correction-paper/preprocessing.py 'parameter_file="files_test.json"'
			echo FINISHED preprocessing at `date`
			matlab -nodesktop -nodisplay -r "test('files_test.json')"
			echo FINISHED Matlab at `date`
			/home/aymanns/Fiji.app/ImageJ-linux64 --ij2 --headless --console --run /home/aymanns/motion-correction-paper/fiji_script_vertical_combination.py 'parameter_file="files_test.json"'
			echo FINISHED Fiji at `date`