From 51f913cf74daccfe7ec8ffe90800945dcf6fe9b6 Mon Sep 17 00:00:00 2001
From: James E McClure <mcclurej@vt.edu>
Date: Fri, 1 Dec 2017 12:21:59 -0500
Subject: [PATCH] add PBS script for eos processing of Tiff files

---
 example/Tiff/eos-REV.pbs | 79 ++++++++++++++++++++++++++++++++++++++++
 1 file changed, 79 insertions(+)
 create mode 100644 example/Tiff/eos-REV.pbs

diff --git a/example/Tiff/eos-REV.pbs b/example/Tiff/eos-REV.pbs
new file mode 100644
index 00000000..305ec1ed
--- /dev/null
+++ b/example/Tiff/eos-REV.pbs
@@ -0,0 +1,79 @@
+#!/bin/bash
+#PBS -A GEO106
+#PBS -N Juanes
+#PBS -j oe
+#PBS -l walltime=02:00:00,nodes=1
+##PBS -l walltime=01:00:00,nodes=18
+##PBS -l gres=widow2%widow3
+##PBS -q killable
+##PBS -q debug
+
+#cd /tmp/work/$USER
+date
+
+cd $PBS_O_WORKDIR
+
+LBPM_WIA_INSTALL_DIR=/ccs/proj/geo106/eos/LBPM-WIA
+
+source $MODULESHOME/init/bash
+module swap PrgEnv-intel PrgEnv-gnu
+module load cray-hdf5-parallel
+module load cray-netcdf-hdf5parallel
+module load python_anaconda
+
+export LD_LIBRARY_PATH=${CRAY_LD_LIBRARY_PATH}:${LD_LIBRARY_PATH}
+
+## This is the code used to extract the tifs to subdirectories
+for i in `seq -w 0 804`; do 
+    file="ConcatenatedStacks0"$i".tif"; cp $file SubSet1; 
+done
+
+for i in `seq -w 805 1609`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet2; 
+done
+
+for i in `seq -w 1610 2414`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet3; 
+done
+
+for i in `seq -w 2415 3219`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet4; 
+done
+
+for i in `seq -w 3220 4024`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet5; 
+done
+
+for i in `seq -w 4025 4829`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet6; 
+done
+
+for i in `seq -w 4830 5634`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet7; 
+done
+
+for i in `seq -w 5635 6439`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet8; 
+done
+
+for i in `seq -w 6440 7244`; do 
+    file="ConcatenatedStacks"$i".tif"; cp $file SubSet9; 
+done
+
+
+# This is the code used to convert tif to raw 8-bit binary
+LIST=$(ls | grep SubSet)
+
+for dir in $LIST; do 
+   echo "Processing $dir"
+   cd $dir
+   python $LBPM_WIA_INSTALL_DIR/example/Tiff/TiffPreprocessor.py
+   cd ..
+done
+
+
+#     aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_segmented_decomp 0 2
+
+#     aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_segmented_pp
+
+exit;