Rename dldp/dldp/heatmap_pred/process_array.sh to dldp/dldp/heatmap_pred/HPC_SC20/process_array.sh

process_array.sh

@@ -0,0 +1,31 @@
+#$ -cwd
+#$ -A  weizhe.li
+#$ -l h_rt=002:00:00
+#$ -S /bin/sh
+#$ -j y
+#$ -pe thread 7
+#                           $ -N process_array  comes from process_main.sh
+
+# $QSUB -pe thread -t $ST-$EN -o $SYSOUT_DIR $ARRAY_SCRIPT $SPLIT_BASE_DIR $HDF5_FILE
+
+echo "Running $SGE_TASK_ID of job $JOB_ID on $HOSTNAME"
+
+BASENAME=$(( $SGE_TASK_ID - $SGE_TASK_FIRST + 1 ))      # data set suffix
+
+source /projects/mikem/UserSupport/weizhe.li/split_wsi/set_env.sh
+
+# Get params
+# source ./config.txt 
+source $5
+
+DIR=$1
+HDF5_FILE=$2            # one HDF5 file may contain many datasets
+HEATMAP_DIR=$3
+export LOG_DIR=$4
+
+export PYTHONUNBUFFERED=TRUE
+export HDF5_USE_FILE_LOCKING=FALSE
+
+# PROG=process_images_grp.py 
+PROG=process_images_grp_normalization_wli.py
+time python $PROG $DIR $HDF5_FILE $BASENAME $HEATMAP_DIR