pipeline2.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_2_170608_fly1_007.json"'
	echo FINISHED preprocessing at `date`
	matlab -nodesktop -nodisplay -r "test('files_2_170608_fly1_007.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_2_170608_fly1_007.json"'
	echo FINISHED Fiji at `date`