moved workflows to example directory

2016-11-07 13:04:38 -05:00
parent 74e945c9a3
commit 55df5b0c4d
12 changed files with 839 additions and 1 deletions
--- a/example/drainage/eos-MorphDrain.pbs
+++ b/example/drainage/eos-MorphDrain.pbs
@@ -0,0 +1,67 @@
+#!/bin/bash
+#PBS -A GEO106
+#PBS -N MorphDrain
+#PBS -j oe
+##PBS -l walltime=02:00:00,nodes=216
+#PBS -l walltime=01:00:00,nodes=4
+##PBS -l gres=widow2%widow3
+##PBS -q killable
+##PBS -q debug
+
+#cd /tmp/work/$USER
+date
+
+cd $PBS_O_WORKDIR
+
+#LBPM_WIA_INSTALL_DIR=/lustre/atlas/proj-shared/geo106/build-eos-LBPM-WIA
+
+LBPM_WIA_INSTALL_DIR=$MEMBERWORK/geo106/eos-LBPM-WIA
+
+#echo "PBS_O_WORKDIR: `echo $PBS_O_WORKDIR`"
+source $MODULESHOME/init/bash
+module swap PrgEnv-intel PrgEnv-gnu
+
+#module swap cray-mpich2 cray-mpich2/5.6.3
+#module load cudatoolkit
+
+export LD_LIBRARY_PATH=${CRAY_LD_LIBRARY_PATH}:${LD_LIBRARY_PATH}
+#export MPICH_RDMA_ENABLED_CUDA=1
+#aprun -n 27 -N 1 /lustre/atlas/scratch/mcclurej/geo106/LBPM-WIA/bin/lb2_Color_wia_mpi
+
+#LIST=$(ls|grep sw)
+#for DIR in $LIST; do 
+#  cd $DIR
+#  sat=$(cat Color.in  |head -3 | tail -1)
+#  aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_segmented_decomp
+#  aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_segmented_pp
+#  aprun -n 144 $LBPM_WIA_INSTALL_DIR/bin/lbpm_random_pp 1 0 
+#  aprun -n 144 $LBPM_WIA_INSTALL_DIR/bin/lbpm_random_pp 1 1
+
+#  aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_segmented_decomp 1 2
+#  aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_segmented_pp 
+
+#  aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_random_pp 0 1
+
+#mkdir -p MEDIA
+#cp ID* MEDIA/
+
+cp MEDIA/ID* ./
+
+LABEL="lrc32_sandpack"
+# Run morphological drainage and set up input files for media
+RADIUS="5.4 5.35 5.2 5 4.8 4.6 4.4 4.2 4 3.67 3.33 3 2.67 2.33 2 1.5"
+echo "radius sw" > morphdrain.csv
+for r in $RADIUS; do 
+      aprun -n 64 $LBPM_WIA_INSTALL_DIR/bin/lbpm_morphdrain_pp $r > morph.log
+      sat=$(grep sat morph.log | sed 's/Final saturation=//g')
+      tag=$(wc -l morphdrain.csv | cut -c1-2) 
+      echo "$r $sat" >> morphdrain.csv
+      DIR=$LABEL"_drain_"$tag
+      mkdir -p $DIR
+      cp ID.* $DIR
+      cp SignDist.* $DIR
+      cp Domain.in $DIR
+done
+
+exit;
+
--- a/example/drainage/setup-drain.py
+++ b/example/drainage/setup-drain.py
@@ -0,0 +1,74 @@
+import os
+import sys
+import csv
+
+name=sys.argv[1]
+#numpts=int(sys.argv[2])
+process="drain"
+cwd=os.getcwd()
+
+print("Initializing morphological drainage cases")
+print("Base name is "+name)
+
+# Parameters for color LBM
+tau=0.7
+alpha=0.005
+beta=0.95
+phisol=-1.0
+saturation=0.0
+Fx=0.0
+Fy=0.0
+Fz=0.0
+Restart=0
+pBC=1
+din=1.001
+dout=0.999
+maxtime=100005
+interval=50000
+tolerance=1e-5
+
+viscosity=(tau-0.5)/3
+ift=5.796*alpha
+
+radius=[]
+sw=[]
+with open("morphdrain.csv","r") as f:
+    for line in f:
+        reader=csv.reader(f,delimiter=' ')
+        for row in reader:
+            radius.append(float(row[0]))
+            sw.append(float(row[1]))
+
+numpts=len(radius)
+print("Number of cases "+str(numpts))
+
+for pt in range(0,numpts):
+    #compute the pressure difference
+    tag=pt+1
+    dp=2*ift/radius[pt]
+    din=1.0+0.5*dp
+    dout=1.0-0.5*dp
+    dirname=str(name)+"_"+str(process)+"_"+str(tag)
+    print("Creating " + dirname)
+    if not os.path.exists(dirname):
+        os.mkdir(dirname)
+    os.chdir(dirname)
+    ParamFile = open("Color.in","w")
+    ParamFile.write("%f\n" % tau)
+    ParamFile.write("%f " % alpha)
+    ParamFile.write("%f " % beta)
+    ParamFile.write("%f\n" % phisol)
+    ParamFile.write("%f\n" % saturation)
+    ParamFile.write("%f " % Fx)
+    ParamFile.write("%f " % Fy)
+    ParamFile.write("%f\n" % Fz)
+    ParamFile.write("%i " % Restart)
+    ParamFile.write("%i " % pBC)
+    ParamFile.write("%f " % din)
+    ParamFile.write("%f\n" % dout)
+    ParamFile.write("%i " % maxtime)
+    ParamFile.write("%i " % interval)
+    ParamFile.write("%f\n" % tolerance)
+    ParamFile.close()
+
+    os.chdir(cwd)