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	tadd cyclic impermeable experiment, change legend opacity - sphere - GPU-based …
	git clone git://src.adamsgaard.dk/sphere
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	---
	commit fbf7ff188ee3c9616021d31a1cd3c77915240f39
	parent 8e3a56486ad7fc58ab904525e5196ef6dfc7d47e
	Author: Anders Damsgaard <[email protected]>
	Date: Tue, 17 Mar 2015 12:58:57 +0100

	add cyclic impermeable experiment, change legend opacity

	Diffstat:
	M python/halfshear-darcy-combined.py \| 2 +-
	A python/halfshear-imper-cyclic-cont… \| 49 +++++++++++++++++++++++++++…
	A python/halfshear-imper-cyclic.sh \| 50 +++++++++++++++++++++++++++++…

	3 files changed, 100 insertions(+), 1 deletion(-)
	---
	diff --git a/python/halfshear-darcy-combined.py b/python/halfshear-darcy-combin…
	t@@ -19,7 +19,7 @@ outformat = 'pdf'
	fluid = True
	#threshold = 100.0 # [N]
	calculateforcechains = False
	-legend_alpha=0.5
	+legend_alpha=0.7
	linewidth=0.5

	rasterized=True # rasterize colored areas (pcolormesh and colorbar)
	diff --git a/python/halfshear-imper-cyclic-cont.sh b/python/halfshear-imper-cyc…
	t@@ -0,0 +1,49 @@
	+#!/bin/sh
	+#PBS -N hs-imper-cyc
	+#PBS -l nodes=1:ppn=3
	+#PBS -l walltime=48:00:00
	+#PBS -q qfermi
	+#PBS -M [email protected]
	+#PBS -m abe
	+
	+# Grendel CUDA
	+source /com/gcc/4.6.4/load.sh
	+CUDAPATH=/com/cuda/5.5.22
	+export PATH=$HOME/bin:$PATH
	+export PATH=$CUDAPATH/bin:$PATH
	+export LD_LIBRARY_PATH=$CUDAPATH/lib64:$CUDAPATH/lib:$LD_LIBRARY_PATH
	+
	+# Manually installed Python modules
	+export PYTHONPATH=$HOME/.local/lib/python:$PYTHONPATH
	+export PYTHONPATH=$HOME/.local/lib64/python:$PYTHONPATH
	+
	+# Manually installed Python
	+#export PATH=/home/adc/.local/bin:$PATH
	+
	+# Shared Python2.7
	+PYTHON=/com/python/2.7.6
	+export PYTHONPATH=$PYTHON/lib:$PYTHONPATH
	+export PATH=$PYTHON/bin:$PATH
	+
	+echo "`whoami`@`hostname`"
	+echo "Start at `date`"
	+
	+ORIGDIR=/home/adc/code/sphere
	+#WORKDIR=/scratch/$PBS_JOBID
	+WORKDIR=$ORIGDIR
	+
	+#cp -r $ORIGDIR/* $WORKDIR
	+
	+cd $WORKDIR
	+nvidia-smi
	+rm CMakeCache.txt
	+cmake . && make
	+cd python
	+python continue_sim.py halfshear-darcy-sigma0=80000.0-k_c=3.5e-15-mu=1.04e-07-…
	+python continue_sim.py halfshear-darcy-sigma0=80000.0-k_c=3.5e-15-mu=1.04e-07-…
	+python continue_sim.py halfshear-darcy-sigma0=80000.0-k_c=3.5e-15-mu=1.04e-07-…
	+wait
	+
	+#cp $WORKDIR/output/* $ORIGDIR/output/
	+
	+echo "End at `date`"
	diff --git a/python/halfshear-imper-cyclic.sh b/python/halfshear-imper-cyclic.sh
	t@@ -0,0 +1,50 @@
	+#!/bin/sh
	+#PBS -N hs-imper-cyc
	+#PBS -l nodes=1:ppn=3
	+#PBS -l walltime=48:00:00
	+#PBS -q qfermi
	+#PBS -M [email protected]
	+#PBS -m abe
	+
	+# Grendel CUDA
	+source /com/gcc/4.6.4/load.sh
	+CUDAPATH=/com/cuda/5.5.22
	+export PATH=$HOME/bin:$PATH
	+export PATH=$CUDAPATH/bin:$PATH
	+export LD_LIBRARY_PATH=$CUDAPATH/lib64:$CUDAPATH/lib:$LD_LIBRARY_PATH
	+
	+# Manually installed Python modules
	+export PYTHONPATH=$HOME/.local/lib/python:$PYTHONPATH
	+export PYTHONPATH=$HOME/.local/lib64/python:$PYTHONPATH
	+
	+# Manually installed Python
	+#export PATH=/home/adc/.local/bin:$PATH
	+
	+# Shared Python2.7
	+PYTHON=/com/python/2.7.6
	+export PYTHONPATH=$PYTHON/lib:$PYTHONPATH
	+export PATH=$PYTHON/bin:$PATH
	+
	+echo "`whoami`@`hostname`"
	+echo "Start at `date`"
	+
	+ORIGDIR=/home/adc/code/sphere
	+#WORKDIR=/scratch/$PBS_JOBID
	+WORKDIR=$ORIGDIR
	+
	+#cp -r $ORIGDIR/* $WORKDIR
	+
	+cd $WORKDIR
	+nvidia-smi
	+rm CMakeCache.txt
	+cmake . && make
	+cd python
	+# $ ipython halfshear-darcy-stress-starter.py <device> <fluid> <c_phi> <k_c> <…
	+python halfshear-darcy-stress-mod-starter.py 0 1 1.0 3.5e-15 80000.0 1.040e-7 …
	+python halfshear-darcy-stress-mod-starter.py 1 1 1.0 3.5e-15 80000.0 1.040e-7 …
	+python halfshear-darcy-stress-mod-starter.py 2 1 1.0 3.5e-15 80000.0 1.040e-7 …
	+wait
	+
	+#cp $WORKDIR/output/* $ORIGDIR/output/
	+
	+echo "End at `date`"