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sdd400_maxwell_integrate_with_subdirs.sh

+#!/bin/bash
+#SBATCH --partition=allcpu      #Partition to work on (select Cluster)
+#SBATCH --time=24:00:00		 #Maximum time of computation now set at 24 h
+#SBATCH --nodes=1            #For multiple nodes you need a script that runs as MPI
+#SBATCH	--job-name=integration_test           #Name of the job to find it in queue or in 
+#SBATCH --mail-type=END,FAIL                   #Send an email when finished or failed 
+#SBATCH --mail-user=lian.belgardt@physnet.uni-hamburg.de      #Send to email adress
+
+#use underscores here or you will have problems
+NPROCS=$(nproc)
+path_raw_data="/asap3/petra3/gpfs/p21.1/2024/data/11018943/raw/pe/" #directory to be integrated
+fpath_poni="/asap3/petra3/gpfs/p21.1/2024/data/11018943/processed/_People/Tjark/Poni/SDD_400mm.poni"
+fpath_mask="/asap3/petra3/gpfs/p21.1/2024/data/11018943/processed/_People/Tjark/Mask/SDD_400mm.edf"
+path_integrated_data="/asap3/petra3/gpfs/p21.1/2024/data/11018943/processed/_People/Tjark/postprocessing/SDD400/" #directory to save integrated data 
+
+plarization=0.99
+number_of_points=3000
+unit="q_A^-1"
+
+
+module load maxwell
+module load conda/3.11
+activate XrayDiff
+cd  /asap3/petra3/gpfs/p21.1/2024/data/11018943/processed/_People/Tjark/
+python3 maxwell_integrate_with_subdirs.py $path_raw_data $path_integrated_data $fpath_poni $fpath_mask $NPROCS $plarization $number_of_points $unit #Start python script