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#!/bin/bash |
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|
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# Escript/Finley wrapper for python |
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# Sets LD_LIBRARY_PATH and PYTHONPATH and then runs either python or the MPI launcher |
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|
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#Extra paths can be configured about a page further down |
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#Search for EXTRA_PATH="" |
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|
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#set to 1 if performing this is a standalone build and /packages contains the relevant tools |
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STANDALONE=0 |
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|
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#Now we find the location of this script |
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#Note that this location should be absolute but does not need to be unique |
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scriptdir="" |
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CURDIR=`pwd` |
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|
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#Environment vars which control operations: |
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# ESCRIPT_NUM_NODES, ESCRIPT_NUM_PROC, ESCRIPT_NUM_THREADS, ESCRIPT_HOSTFILE, ESCRIPT_CREATESTDFILES |
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|
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HOSTFILE=/tmp/escript.$$ |
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|
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|
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#Need to match if the name contains / |
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if [[ $0 =~ / ]] |
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then |
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# We are not using the PATH to find the script |
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cd `dirname $0` |
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scriptdir=`pwd` |
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cd $CURDIR |
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else |
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# name does not contain / therefore we are using |
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tscriptdir=`which $0` |
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if [ $? != 0 ] |
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then |
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echo "Error unable to determine script directory. Exiting." |
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exit 1 |
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fi |
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scriptdir=`dirname $tscriptdir` |
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fi |
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|
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cd $scriptdir/.. |
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ESCRIPT_ROOT=`pwd` |
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cd .. |
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ESCRIPT_PARENT=`pwd` |
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cd $CURDIR |
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##### End finding ESCRIPT_ROOT ######## |
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|
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PYTHON_MPI="$ESCRIPT_ROOT/lib/pythonMPI" |
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PYTHON_CMD=python |
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|
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# if possible please express paths relative to $ESCRIPT_ROOT unless |
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# they are in an unrelated location |
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|
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EXTRA_DYLD_LIBRARY_PATH="" |
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EXTRA_PATH=$ESCRIPT_ROOT/bin |
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EXTRA_PYTHONPATH=$ESCRIPT_ROOT |
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EXTRA_LD_LIBRARY_PATH=$ESCRIPT_ROOT/lib |
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|
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if [ $STANDALONE == 1 ] |
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then |
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EXTRA_PATH=$ESCRIPT_PARENT/packages/python/bin:$EXTRA_PATH |
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EXTRA_LD_LIBRARY_PATH=$ESCRIPT_PARENT/packages/boost/lib:$ESCRIPT_PARENT/packages/netcdf/lib/:$EXTRA_LD_LIBRARY_PATH |
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EXTRA_LD_LIBRARY_PATH=$ESCRIPT_PARENT/packages/vtk/lib/vtk-5.2:$ESCRIPT_PARENT/packages/mesa/lib:$EXTRA_LD_LIBRARY_PATH |
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EXTRA_LD_LIBRARY_PATH=$ESCRIPT_PARENT/packages/python/lib:$EXTRA_LD_LIBRARY_PATH |
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EXTRA_PYTHONPATH=$ESCRIPT_PARENT/packages/numarray/lib:$ESCRIPT_PARENT/packages/vtk/lib/python2.6/site-packages:$EXTRA_PYTHONPATH |
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fi |
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|
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|
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|
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HELP_TEXT=" |
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Usage: escript [options] script.py [arguments...] |
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-n nn number of nodes to use |
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-p np number of MPI processes to spawn |
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-t nt number of OpenMP threads to use |
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-f file name of MPI hostfile |
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-c print compile information for escript and exit |
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-V print escript version and exit |
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-i interactive mode |
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-b do not invoke python (run non-python programs) |
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-e print export statements for environment and exit |
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-o redirect output from MPI to files |
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-v print diagnostics |
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-x ..reserved for future use .. |
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script.py Your python script |
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arguments... The optional command-line arguments to your script |
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" |
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|
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if [ "$1" = "--help" ]; then |
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echo "$HELP_TEXT" |
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exit 0 |
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fi |
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#======================================================================================= |
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|
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# Avoid bug in hybrid runs with MPT MPI |
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|
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|
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# Parse the command-line options |
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# option e should not be followed by a : |
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while getopts 'bn:p:t:f:h:ecVviox' option |
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do |
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case "$option" in |
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"b") DOBINARY=yes |
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;; |
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"n") ESCRIPT_NUM_NODES=$OPTARG |
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;; |
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"p") ESCRIPT_NUM_PROC=$OPTARG |
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;; |
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"t") ESCRIPT_NUM_THREADS=$OPTARG |
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;; |
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"f") ESCRIPT_HOSTFILE=$OPTARG |
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;; |
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"c") cat $ESCRIPT_ROOT/lib/buildvars |
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exit 0 |
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;; |
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"V") echo "escript-pre2.0(build "`grep svn_revision $ESCRIPT_ROOT/lib/buildvars |cut -d= -f2`")" |
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exit 0 |
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;; |
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"h") echo "$HELPTEXT" |
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exit 0 |
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;; |
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"i") DOINTERACTIVE=yes |
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;; |
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"e") echo "export LD_LIBRARY_PATH=$EXTRA_LD_LIBRARY_PATH:\$LD_LIBRARY_PATH" |
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echo "export PYTHONPATH=$EXTRA_PYTHONPATH:\$PYTHONPATH" |
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echo "export PATH=$EXTRA_PATH:\$PATH" |
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if [ `uname` == Darwin ] |
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then |
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echo "export DYLD_LIBRARY_PATH=$EXTRA_DYLD_LIBRARY_PATH:$EXTRA_LD_LIBRARY_PATH:\$DYLD_LIBRARY_PATH" |
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fi |
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exit 0 |
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;; |
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"o") ESCRIPT_CREATESTDFILES="yes" |
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;; |
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"v") ESCRIPT_VERBOSE="yes" |
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;; |
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"x") echo "-x not implemented yet" |
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exit 1 |
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;; |
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?) echo "$HELP_TEXT" |
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exit 1 |
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;; |
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esac |
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done |
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shift `expr $OPTIND - 1` |
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#============================================== |
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# |
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# Read the MPI_FLAVOUR from the buildvars |
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# |
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MPI_FLAVOUR=`grep mpi_flavour $ESCRIPT_ROOT/lib/buildvars |cut -d= -f2` |
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|
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if [ -f "$ESCRIPT_ROOT/lib/Compiled.with.mpi" ] && [ $MPI_FLAVOUR == "none" ] |
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then |
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echo "compiled with MPI but no MPI flavour specified." |
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exit 1 |
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fi |
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|
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if [ ! -z $ESCRIPT_VERBOSE ]; then echo "MPI flavor is $MPI_FLAVOUR."; fi |
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if [ -f "$ESCRIPT_ROOT/lib/Compiled.with.openmp" ]; |
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then |
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ESCRIPT_WITH_OPENMP="yes" |
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fi |
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if [ ! -z $ESCRIPT_VERBOSE ] && [ ! -z $ESCRIPT_WITH_OPENMP ]; then echo "OpenMP enbaled."; fi |
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# |
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# extend path variables |
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# |
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export PATH=$EXTRA_PATH:$PATH |
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export LD_LIBRARY_PATH=$EXTRA_LD_LIBRARY_PATH:$LD_LIBRARY_PATH |
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export PYTHONPATH=$EXTRA_PYTHONPATH:$PYTHONPATH |
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EXPORT_ENV="PATH, LD_LIBRARY_PATH, PYTHONPATH" |
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if [ `uname` == Darwin ] |
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then |
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export DYLD_LIBRARY_PATH=$EXTRA_DYLD_LIBRARY_PATH:$EXTRA_LD_LIBRARY_PATH:$DYLD_LIBRARY_PATH |
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EXPORT_ENV="$EXPORT_ENV, DYLD_LIBRARY_PATH" |
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fi |
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if [ ! -z $ESCRIPT_VERBOSE ] |
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then |
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echo "PATH = $PATH " |
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echo "LD_LIBRARY_PATH = $LD_LIBRARY_PATH " |
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echo "PYTHONPATH = $PYTHONPATH " |
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if [ ! -z $DYLD_LIBRARY_PATH ]; then echo "DYLD_LIBRARY_PATH = $DYLD_LIBRARY_PATH "; fi |
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fi |
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#============================================== |
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# |
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# Ensure the variables have sensible values |
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# |
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if [ $MPI_FLAVOUR == "none" ] |
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then |
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if [ ! -z $ESCRIPT_NUM_NODES ] |
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then |
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echo "Warning: MPI disabled but number of nodes set. Option ignored." |
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fi |
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if [ ! -z $ESCRIPT_NUM_PROCS ] |
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then |
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echo "Warning: MPI disabled but number of processors per node set. Option ignored." |
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fi |
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if [ ! -z $ESCRIPT_HOSTFILE ] |
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then |
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echo "Warning: MPI disabled but host file is given. Option ignored." |
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fi |
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ESCRIPT_NUM_NODES=1 |
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ESCRIPT_NUM_PROCS=1 |
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else |
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if [ ! -z $ESCRIPT_HOSTFILE ] |
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then |
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if [ -f $ESCRIPT_HOSTFILE ] |
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then |
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cat $ESCRIPT_HOSTFILE | sort -u > $HOSTFILE |
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NUM_HOSTS = `wc -l $HOSTFILE` |
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if [ ! -z $ESCRIPT_NUM_NODES ] |
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then |
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if [ $NUM_HOSTS -ne $ESCRIPT_NUM_NODES ] |
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then |
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echo "number of hosts selected in the host file $ESCRIPT_HOSTFILE needs to match the requested number of nodes $ESCRIPT_NUM_NODES." |
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exit 1 |
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fi |
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else |
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ESCRIPT_NUM_NODES = $NUM_HOSTS |
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fi |
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else |
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echo "cannot find hostfile $ESCRIPT_HOSTFILE." |
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exit 1 |
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fi |
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else |
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HOSTFILE='' |
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fi |
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|
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if [ -z $ESCRIPT_NUM_NODES ] |
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then |
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ESCRIPT_NUM_NODES=1 |
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fi |
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|
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if [ -z $ESCRIPT_NUM_PROCS ] |
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then |
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ESCRIPT_NUM_PROCS=1 |
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fi |
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|
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if [ ! -z $ESCRIPT_VERBOSE ] |
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then |
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echo "ESCRIPT_NUM_NODES = $ESCRIPT_NUM_NODES " |
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echo "ESCRIPT_NUM_PROCS = $ESCRIPT_NUM_PROCS " |
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fi |
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fi |
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|
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if [ ! -z $ESCRIPT_WITH_OPENMP ] |
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then |
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if [ -z $ESCRIPT_NUM_THREADS ] |
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then |
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ESCRIPT_NUM_THREADS=$OMP_NUM_THREADS |
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if [ -z $ESCRIPT_NUM_THREADS ] |
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then |
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ESCRIPT_NUM_THREADS=1 |
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fi |
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if [ ! -z $ESCRIPT_VERBOSE ]; then echo "Number of threads is $ESCRIPT_NUM_THREADS."; fi |
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fi |
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else |
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ESCRIPT_NUM_THREADS=1 |
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fi |
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# |
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# Now we compute total number of Processes |
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# |
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(( TOTPROC=$ESCRIPT_NUM_NODES * $ESCRIPT_NUM_PROCS)) |
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if [ $? -ne 0 ] #Some compute error |
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then #This could happen if the args were not a number |
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echo "expression of total number of processors = $ESCRIPT_NUM_NODES * $ESCRIPT_NUM_PROCS is not numerical." |
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exit 1 |
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fi |
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# |
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# Test to ensure people aren't trying to combine interactive and multi-process |
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# |
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if [[ ( ( -z $DOINTERACTIVE ) || ( $# -eq 0 ) ) && ( $TOTPROC -gt 1) ]] |
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then |
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echo "Interactive mode cannot be used with more than one process" |
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exit 1 |
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fi |
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#========================================================================================================= |
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# Must have at least one command-line arg: the python script |
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if [ $# -eq 0 ] |
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then |
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if [ ! -z $DOBINARY ] |
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then |
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echo "No program to run was specified. Exiting." |
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exit 1 |
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fi |
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fi |
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|
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#========================================================================================================= |
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if [ ! -z $DOBINARY ] |
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then |
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EXEC_CMD="$@" |
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else |
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if [ $MPI_FLAVOUR == "none" ] |
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then |
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# Check to see if the python version we were compiled with matches the one of EXEC_CMD |
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# We should only do this check if they are running a python script |
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if [ -f $ESCRIPT_ROOT/lib/pyversion ] |
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then |
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compversion=`cat $ESCRIPT_ROOT/lib/pyversion` |
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intversion=`$PYTHON_CMD --version 2>&1` |
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if [ "$compversion" != "$intversion" ] |
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then |
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echo "Python versions do not match. Escript was compiled for "$compversion"." |
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echo "Current version of Python appears to be "$intversion"." |
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exit 1 |
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fi |
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fi |
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if [ ! -z $DOINTERACTIVE ] |
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then |
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EXEC_CMD="$PYTHON_CMD -i $@" |
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else |
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EXEC_CMD="$PYTHON_CMD $@" |
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fi |
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else |
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EXEC_CMD="$PYTHONMPI $@" |
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fi |
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fi |
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if [ ! -z $ESCRIPT_VERBOSE ]; then echo "Command to be executed is $EXEC_CMD."; fi |
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#=============================================================================================== |
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# |
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# now we start to spwan things: |
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# |
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if [ ! -z $ESCRIPT_WITH_OPENMP ] |
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then |
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export OMP_NUM_THREADS=$ESCRIPT_NUM_THREADS |
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EXPORT_ENV="$EXPORT_ENV, OMP_NUM_THREADS" |
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fi |
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|
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#=============== no MPI =================================== |
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if [ $MPI_FLAVOUR == "none" ] |
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then |
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$EXEC_CMD |
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|
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#=============== OpenMPI =================================== |
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elif [ $MPI_FLAVOUR == "OPENMPI" ] |
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then |
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echo "OPENMPI not implemented yet." |
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|
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#=============== Intel MPI =================================== |
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elif [ $MPI_FLAVOR == "INTELMPI" ] |
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then |
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if [ -z $HOSTFILE ] |
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then |
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mpdboot -n $ESCRIPT_NUM_PROCS -r ssh -f $HOSTFILE |
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if [ $? -ne 0 ] |
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then |
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echo "mpdboot with host file $ESCRIPT_HOSTFILE for $ESCRIPT_NUM_PROCS nodes failed." |
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exit 1 |
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else |
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if [ ! -z $ESCRIPT_VERBOSE ]; then echo "mpdboot was started with host file $ESCRIPT_HOSTFILE for $ESCRIPT_NUM_PROCS nodes."; fi |
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fi |
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fi |
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$CMD="mpiexec -n $ESCRIPT_NUM_PROCS -perhost $ESCRIPT_NUM_PROCS -envall -$EXEC_CMD" |
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if [ ! -z $ESCRIPT_VERBOSE ]; then echo "MPI command is $CMD."; fi |
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$CMD |
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if [ -z $HOSTFILE ] |
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then |
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mpdallexit |
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if [ ! -z $ESCRIPT_VERBOSE ]; then echo "mpdallexit executed."; fi |
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fi |
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#=============== SGI's MPIMPT =================================== |
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elif [ $MPI_FLAVOR == "MPT" ] |
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then |
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export MPI_NUM_MEMORY_REGIONS=0 |
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EXPORT_ENV="$EXPORT_ENV, MPI_NUM_MEMORY_REGIONS" |
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if [ -z $HOSTFILE ] |
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then |
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HOST_LIST=`awk 'BEGIN{S=""}{if (S == "") { S = $0 } else {S = S "," $0}}END{print S}' $HOSTFILE` |
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CMD="mpiexec $HOST_LIST $ESCRIPT_NUM_PROCS $EXEC_CMD" |
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else |
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CMD="mpiexec -np $TOTPROC -$EXEC_CMD" |
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fi |
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if [ ! -z $ESCRIPT_VERBOSE ]; then echo "MPI command is $CMD."; fi |
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$CMD |
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#=============== SGI's MPICH =================================== |
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elif [ $MPI_FLAVOR == "MPICH" ] |
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then |
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echo "MPICH not implemented yet." |
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else |
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echo "unknown MPI falvour $MPI_FLAVOR." |
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exit 1 |
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fi |
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exit 0 |
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# Using OpenMP? |
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#OMP_OPTIONS='' |
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#if [ -f "$ESCRIPT_ROOT/lib/Compiled.with.openmp" ]; then |
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# EXEC_CMD="$mpi_launcher $MPI_NUM_PROCS $PYTHON_MPI" |
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# ESCRIPT_NUM_THREADS=$OMP_NUM_THREADS |
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# OMP_OPTIONS="env OMP_NUM_THREADS=$ESCRIPT_NUM_THREADS" |
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#fi |
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|
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# Using MPI? |
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#if [ -f "$ESCRIPT_ROOT/lib/Compiled.with.mpi" ]; then |
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# EXEC_CMD="$mpi_launcher $MPI_NUM_PROCS $PYTHON_MPI" |
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#else |
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# if [ "$TOTPROC" -ne 1 ]; then |
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# echo "Escript/Finley was not compiled for MPI. You can not use the -n and -p options." |
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# exit 1 |
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# fi |
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#fi |
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