module load python/anaconda3
source activate py3
of4x

pyFoamClearCase.py . --processors-remove
/usr/local/Pointwise/PointwiseV18.0R2/pointwise -b ./Hydro_V18_wider.glf
rm -r 0
cp -r 0_orig 0
transformPoints -scale '(0.0254 0.0254 0.0254)'
renumberMesh -overwrite
cp system/controlDict_simple system/controlDict
decomposePar
mpirun -np 28 potentialFoam -parallel > log.potentialFoam 2>&1
mpirun -np 28 simpleFoam -parallel > log.simpleFoam 2>&1
reconstructPar -latestTime
pyFoamCopyLastToFirst.py . .
pyFoamClearCase.py . --processors-remove
cp system/controlDict_parcel system/controlDict
decomposePar
mpirun -np 28 icoUncoupledKinematicParcelFoam -parallel > log.icoUncoupledKinematicParcelFoam 2>&1

module load python/anaconda3
source activate py3
module load mpi/openmpi-x86_64
source /usr/local/OpenFOAM/OpenFOAM-4.x/etc/bashrc
export PS1="(OF:\$WM_PROJECT_VERSION) $PS1"

. $WM_PROJECT_DIR/bin/tools/RunFunctions
echo "Environment setup complete"
rm -rf log.*
pyFoamClearCase.py . --processors-remove
echo "Case cleared"
renumberMesh -overwrite
echo "Renumbered mesh"
cp system/controlDict_simple system/controlDict
echo "Copied controlDict"
decomposePar
echo "Decomposed case"
runParallel potentialFoam
echo "PotentialFoam finished"
runParallel simpleFoam
echo "SimpleFoam finished"
reconstructPar -latestTime
echo "Case reconstructed"
pyFoamCopyLastToFirst.py . .
echo "Copied first to last"
pyFoamClearCase.py . --processors-remove
echo "Cleared case"
cp system/controlDict_parcel system/controlDict
echo "Copied controlDict"
decomposePar
echo "Decomposed case"
runParallel icoUncoupledKinematicParcelFoam
echo "IcoUncoupledKinematicParcelFoam finished"

uname -a
Linux login-01 3.10.0-514.el7.x86_64 #1 SMP Wed Oct 19 11:24:13 EDT 2016 x86_64 x86_64 x86_64 GNU/Linux

source /opt/anaconda3/latest/bin/activate

conda search "python"
conda create -n py3 python=3.5.4 anaconda

y

conda activate py3

Download packages:

git clone https://github.com/OpenFOAM/OpenFOAM-4.x.git

git clone https://github.com/OpenFOAM/ThirdParty-4.x.git

Don’t need to install any software for compilation

Set environment variables:

cd $𝐻𝑂𝑀𝐸

alias of4x='module load mpi/openmpi-x86_64; source $HOME/OpenFOAM/OpenFOAM-4.x/etc/bashrc; export PS1="(APR OF:\$WM_PROJECT_VERSION) $PS1"'

After logging out and logging in again, install Third Party Scotch and PT Scotch

of4x

cd $WM_THIRD_PARTY_DIR

./Allwmake > log.make 2>&1 &

Install OpenFOAM

cd ../OpenFOAM-4.x/

./Allwmake -j 16 > log.make 2>&1 &

(APR OF:4.x) (py3) $ echo $PATH

/misc/OpenFOAM/ThirdParty-4.x/platforms/linux64Gcc/gperftools-svn/bin:
/misc/OpenFOAM/ThirdParty-4.x/platforms/linux64Gcc/ParaView-5.0.1/bin:
/home/links/apr207/OpenFOAM/apr207-4.x/platforms/linux64GccDPInt32Opt/bin:
/misc/OpenFOAM/site/4.x/platforms/linux64GccDPInt32Opt/bin:
/misc/OpenFOAM/OpenFOAM-4.x/platforms/linux64GccDPInt32Opt/bin:
/misc/OpenFOAM/OpenFOAM-4.x/bin:
/misc/OpenFOAM/OpenFOAM-4.x/wmake:
/usr/lib64/openmpi/bin:
/home/links/apr207/.conda/envs/py3/bin:
/usr/local/anaconda3/bin:
/usr/local/texlive/2017/bin/x86_64-linux:
/usr/lib64/qt-3.3/bin:
/usr/local/bin:
/usr/bin:
/usr/local/sbin:
/usr/sbin:
/opt/puppetlabs/bin:
/home/links/apr207/.local/bin:
/home/links/apr207/bin

sh pw-V18.0R2-linux_x86_64-jre.sh
Next
Accept
/home/links/apr207/Pointwise/PointwiseV18.0R2 is installation directory
Run Pointwise
(Won't find license)
Specify license server
server: emps-pointwise
port: 2385

# Pointwise alias for this version
alias pointwise="/home/links/apr207/Pointwise/PointwiseV18.0R2/pointwise"

BUILD_DIR=$HOME/OpenFOAM
mkdir $BUILD_DIR
cd $BUILD_DIR
wget https://sourceforge.net/projects/openfoamplus/files/v1812/OpenFOAM-v1812.tgz
wget https://sourceforge.net/projects/openfoamplus/files/v1812/ThirdParty-v1812.tgz
tar -xvf OpenFOAM-v1812.tgz -C $BUILD_DIR
tar -xvf ThirdParty-v1812.tgz -C $BUILD_DIR

# load ARM compiler if no compilers are loaded
module load PrgEnv-allinea/6.0.5
# or swap current cray compiler with arm compiler
module switch PrgEnv-cray/6.0.5 PrgEnv-allinea/6.0.5

# Download the two patch files and apply the patch running the below commands
wget https://dl.dropboxusercontent.com/s/jnpjop7kll5f3ph/OpenFOAM-v1812.patch
wget https://dl.dropboxusercontent.com/s/q0iwu2qf7pv9s6n/ThirdParty-v1812.patch
(cd OpenFOAM-v1812/; patch -p1 < $BUILD_DIR/OpenFOAM-v1812.patch)
(cd ThirdParty-v1812/; patch -p1 < $BUILD_DIR/ThirdParty-v1812.patch)
# create prefs.sh file with compiler options
cd $BUILD_DIR/OpenFOAM-v1812
echo -e "WM_COMPILER=Arm \nWM_MPLIB=CRAY-MPICH \nWM_LABEL_SIZE=64" > etc/prefs.sh
# add the following to $HOME/.bashrc:
module swap PrgEnv-cray PrgEnv-allinea
alias localof1812='module load PrgEnv-allinea; export OPENFOAM_DIR=$HOME/OpenFOAM/OpenFOAM-v1812; export PATH=$PATH:$OPENFOAM_DIR/bin/; source $OPENFOAM_DIR/etc/bashrc; export PS1="(LOCAL OF:\$WM_PROJECT_VERSION) $PS1"'
# reload bashrc (exit and relogin)

# This step is optional to check if everything is okay to build OpenFOAM
foamSystemCheck
# Compile openfoam using all available processors (-j) with reduced output (-s) and log the output (-l) to a file so that we can examine any compilation issues later.
./Allwmake -j -s -l

#!/bin/bash
#PBS -N openfoam_job
# Select 1 nodes (maximum of 64 cores)
#PBS -l select=1:ncpus=4
# Select wall time to 1 hour
#PBS -l walltime=1:00:00
# Use the arm nodes
#PBS -q arm
# Load modules for currently recommended OpenFOAM v1812 build
module load PrgEnv-allinea
# Change to directory that script was submitted from
export PBS_O_WORKDIR=$(readlink -f $PBS_O_WORKDIR)
export OMP_NUM_THREADS=1
cd $PBS_O_WORKDIR
# Load the environment variables for OpenFOAM v1812 build
export OPENFOAM_DIR=$HOME/OpenFOAM/OpenFOAM-v1812
export PATH=$PATH:$OPENFOAM_DIR/bin/
source $OPENFOAM_DIR/etc/bashrc
# Clear folder
rm -rf log
rm -rf log.*
rm -rf openfoam*
rm -rf processor*
rm -rf 0.*
rm -rf postProcessing
# Launch OpenFoam solvers
blockMesh > log.blockMesh 2>&1
checkMesh > log.checkMesh 2>&1
decomposePar > log.decomposePar 2>&1
aprun -n 4 icoFoam -parallel > log.icoFoam 2>&1
reconstructPar -time 0: > log.reconstructPar 2>&1