/usr/bin/run-escript3 is in python3-escript 5.0-3.
This file is owned by root:root, with mode 0o755.
The actual contents of the file can be viewed below.
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##############################################################################
#
# Copyright (c) 2003-2016 by The University of Queensland
# http://www.uq.edu.au
#
# Primary Business: Queensland, Australia
# Licensed under the Apache License, version 2.0
# http://www.apache.org/licenses/LICENSE-2.0
#
# Development until 2012 by Earth Systems Science Computational Center (ESSCC)
# Development 2012-2013 by School of Earth Sciences
# Development from 2014 by Centre for Geoscience Computing (GeoComp)
#
##############################################################################
# Escript wrapper for python
# Sets LD_LIBRARY_PATH and PYTHONPATH and then runs either python or the MPI
# launcher.
# Extra paths can be configured about a page further down
# Search for EXTRA_PATH=""
# set to 1 if this is part of a packaged build (.deb) and files will be
# installed in standard locations rather than everything in a single directory
STDLOCATION=1
# Now we find the location of this script
# Note that this location should be absolute but does not need to be unique
scriptdir=""
CURDIR=$(pwd)
# Environment vars which control operations:
# ESCRIPT_NUM_NODES, ESCRIPT_NUM_PROCS, ESCRIPT_NUM_THREADS, ESCRIPT_HOSTFILE, ESCRIPT_CREATESTDFILES
HOSTFILE=/tmp/escript.$USER.$$
die () {
echo "Error: $@" 1>&2
exit 1
}
#Begin finding ESCRIPT_ROOT
if [ $STDLOCATION -ne 0 ]
then
#Package building scripts will replace this line
ESCRIPT_ROOT=/usr/lib/python3-escript
else
# We don't know the escript root so we need to work it out from the invocation
# Need to match if the name contains /
if $(echo $0|grep -q /)
then
# We are not using the PATH to find the script
cd "$(dirname $0)"
scriptdir=$(pwd)
cd "$CURDIR"
else
# name does not contain / therefore we are using
tscriptdir=$(which $0)
if [ $? -ne 0 ]
then
die "Unable to determine script directory!"
fi
scriptdir=$(dirname $tscriptdir)
fi
cd "$scriptdir/.."
ESCRIPT_ROOT=$(pwd)
cd ..
ESCRIPT_PARENT=$(pwd)
cd "$CURDIR"
fi
##### End finding ESCRIPT_ROOT ########
# if possible please express paths relative to $ESCRIPT_ROOT unless
# they are in an unrelated location
EXTRA_DYLD_LIBRARY_PATH=""
EXTRA_PATH=$ESCRIPT_ROOT/bin
EXTRA_PYTHONPATH=$ESCRIPT_ROOT
if [ $STDLOCATION -eq 1 ]
then
EXTRA_LD_LIBRARY_PATH=$ESCRIPT_ROOT/lib
else
EXTRA_LD_LIBRARY_PATH=$ESCRIPT_ROOT/lib
fi
BUILDINFO_FILE="$ESCRIPT_ROOT/lib/buildvars"
if [ ! -r "$BUILDINFO_FILE" ]; then
if [ "$1" = "-e" ]; then
echo "export LD_LIBRARY_PATH=$EXTRA_LD_LIBRARY_PATH:\$LD_LIBRARY_PATH"
echo "export PYTHONPATH=$EXTRA_PYTHONPATH:\$PYTHONPATH"
echo "export PATH=$EXTRA_PATH:\$PATH"
if [ "$(uname)" = "Darwin" ]
then
echo "export DYLD_LIBRARY_PATH=$EXTRA_DYLD_LIBRARY_PATH:$EXTRA_LD_LIBRARY_PATH:\$DYLD_LIBRARY_PATH"
fi
exit 0
fi
die "Unable to read escript build information!"
fi
get_buildvar () {
echo $(grep "^$1=" "$BUILDINFO_FILE" |cut -d= -f2)
}
PYTHON_MPI_NULL="$ESCRIPT_ROOT/lib/pythonMPI"
PYTHON_MPI_REDIRECT="$ESCRIPT_ROOT/lib/pythonMPIredirect"
PYTHON_CMD=$(get_buildvar python)
HELP_TEXT="
Usage: run-escript [options] script.py [arguments...]
-n nn number of nodes to use
-p np number of MPI processes to spawn per node
-t nt number of OpenMP threads to use
-f file name of MPI hostfile
-c print compile information for escript and exit
-V print escript version and exit
-i interactive mode
-b do not invoke python (run non-python programs)
-e print export statements for environment and exit
-o redirect output from MPI to files
-v print diagnostics
-x run in new xterm instance
-m tool run with valgrind {tool=m[emcheck]/c[allgrind]/[cac]h[egrind]}
script.py Your python script
arguments... The optional command-line arguments to your script
"
if [ "$1" = "--help" ]; then
echo "$HELP_TEXT"
exit 0
fi
#==============================================================================
# Parse the command-line options
while getopts 'bn:p:t:f:echim:oVvx' option
do
case "$option" in
"b") DO_BINARY=y
;;
"m") DO_VALGRIND=$OPTARG
;;
"n") ESCRIPT_NUM_NODES=$OPTARG
;;
"p") ESCRIPT_NUM_PROCS=$OPTARG
;;
"t") ESCRIPT_NUM_THREADS=$OPTARG
;;
"f") ESCRIPT_HOSTFILE=$OPTARG
;;
"c") cat "$BUILDINFO_FILE"
exit 0
;;
"V") echo "escript-development(build "$(get_buildvar svn_revision)")"
exit 0
;;
"h") echo "$HELP_TEXT"
exit 0
;;
"i") DO_INTERACTIVE=y
;;
"e") echo "export LD_LIBRARY_PATH=$EXTRA_LD_LIBRARY_PATH:\$LD_LIBRARY_PATH"
echo "export PYTHONPATH=$EXTRA_PYTHONPATH:\$PYTHONPATH"
echo "export PATH=$EXTRA_PATH:\$PATH"
if [ "$(uname)" = "Darwin" ]
then
echo "export DYLD_LIBRARY_PATH=$EXTRA_DYLD_LIBRARY_PATH:$EXTRA_LD_LIBRARY_PATH:\$DYLD_LIBRARY_PATH"
fi
exit 0
;;
"o") ESCRIPT_CREATESTDFILES=y
;;
"v") ESCRIPT_VERBOSE=y
;;
"x") DO_XTERM=y
;;
?) echo "$HELP_TEXT"
exit 1
;;
esac
done
shift $(($OPTIND - 1))
vlog () {
if [ ! -z $ESCRIPT_VERBOSE ]; then
echo "$@"
fi
}
#==============================================
#
# Read MPI_FLAVOUR and WITH_OPENMP from the buildvars
#
MPI_FLAVOUR=$(get_buildvar mpi)
WITH_OPENMP=$(get_buildvar openmp)
vlog "MPI flavour is $MPI_FLAVOUR."
if [ "$WITH_OPENMP" = "1" ]; then
vlog "OpenMP enabled."
else
vlog "OpenMP disabled."
fi
#
# Add VisIt paths if required
#
WITH_VISIT=$(get_buildvar visit)
if [ "$WITH_VISIT" = "1" ]; then
VISIT_BIN=$(which visit 2>/dev/null)
if [ $? -eq 0 ]; then
VISIT_PY_PATH=$($VISIT_BIN -env | grep LIBPATH | cut -d= -f2)
EXTRA_PYTHONPATH=$EXTRA_PYTHONPATH:$VISIT_PY_PATH
EXTRA_LD_LIBRARY_PATH=$EXTRA_LD_LIBRARY_PATH:$VISIT_PY_PATH
else
vlog "Warning: VisIt module enabled but VisIt not in path!"
fi
fi
#
# extend path variables
#
export PATH=$EXTRA_PATH:$PATH
export LD_LIBRARY_PATH=$EXTRA_LD_LIBRARY_PATH:$LD_LIBRARY_PATH
export PYTHONPATH=$EXTRA_PYTHONPATH:$PYTHONPATH
EXPORT_ENV="PATH,LD_LIBRARY_PATH,PYTHONPATH"
if [ "$(uname)" = "Darwin" ]
then
export DYLD_LIBRARY_PATH=$EXTRA_DYLD_LIBRARY_PATH:$EXTRA_LD_LIBRARY_PATH:$DYLD_LIBRARY_PATH
EXPORT_ENV="$EXPORT_ENV,DYLD_LIBRARY_PATH"
fi
vlog "PATH = $PATH
LD_LIBRARY_PATH = $LD_LIBRARY_PATH
PYTHONPATH = $PYTHONPATH"
if [ ! -z $DYLD_LIBRARY_PATH ]; then
vlog "DYLD_LIBRARY_PATH = $DYLD_LIBRARY_PATH"
fi
#==============================================
#
# Ensure the variables have sensible values
#
if [ "$MPI_FLAVOUR" = "none" ]
then
if [ ! -z "$ESCRIPT_NUM_NODES" ]; then
if [ $ESCRIPT_NUM_NODES -gt 1 ]; then
echo "Warning: MPI disabled but number of nodes set. Option ignored."
fi
fi
if [ ! -z "$ESCRIPT_NUM_PROCS" ]; then
if [ $ESCRIPT_NUM_PROCS -gt 1 ]; then
echo "Warning: MPI disabled but number of processors per node set. Option ignored."
fi
fi
if [ ! -z "$ESCRIPT_HOSTFILE" ]
then
echo "Warning: MPI disabled but host file is given. Option ignored."
fi
ESCRIPT_NUM_NODES=1
ESCRIPT_NUM_PROCS=1
else
# use the PBS_NODEFILE if not otherwise specified
if [ ! -z "$PBS_NODEFILE" ] && [ -z "$ESCRIPT_HOSTFILE" ]
then
ESCRIPT_HOSTFILE=$PBS_NODEFILE
fi
if [ ! -z "$ESCRIPT_HOSTFILE" ]
then
if [ -f "$ESCRIPT_HOSTFILE" ]
then
sort -u "${ESCRIPT_HOSTFILE}" > $HOSTFILE
HOSTLIST=$(awk 'BEGIN{S=""}{if (S == "") { S = $0 } else {S = S "," $0}}END{print S}' "$HOSTFILE")
NUM_HOSTS=$(cat "$HOSTFILE" | wc -l)
if [ ! -z $ESCRIPT_NUM_NODES ]
then
if [ $NUM_HOSTS -lt $ESCRIPT_NUM_NODES ]
then
die "Number of requested nodes must not exceed the number of entries selected in the host file $ESCRIPT_HOSTFILE. You asked for $ESCRIPT_NUM_NODES from $NUM_HOSTS."
fi
else
ESCRIPT_NUM_NODES=$NUM_HOSTS
fi
else
die "Cannot find hostfile $ESCRIPT_HOSTFILE!"
fi
else
echo "localhost" > $HOSTFILE
HOSTLIST="localhost"
fi
if [ -z $ESCRIPT_NUM_NODES ]
then
ESCRIPT_NUM_NODES=1
fi
if [ -z $ESCRIPT_NUM_PROCS ]
then
ESCRIPT_NUM_PROCS=1
fi
vlog "ESCRIPT_NUM_NODES = $ESCRIPT_NUM_NODES\nESCRIPT_NUM_PROCS = $ESCRIPT_NUM_PROCS"
fi
if [ "$WITH_OPENMP" = "1" ]
then
if [ -z $ESCRIPT_NUM_THREADS ]
then
ESCRIPT_NUM_THREADS=$OMP_NUM_THREADS
if [ -z $ESCRIPT_NUM_THREADS ]
then
ESCRIPT_NUM_THREADS=1
fi
fi
vlog "ESCRIPT_NUM_THREADS = $ESCRIPT_NUM_THREADS"
else
if [ ! -z $ESCRIPT_NUM_THREADS ] && [ $ESCRIPT_NUM_THREADS != 1 ]
then
echo "Warning: OpenMP is disabled but number of threads requested is $ESCRIPT_NUM_THREADS!=1. Option ignored."
fi
ESCRIPT_NUM_THREADS=1
fi
#
# Now we compute total number of Processes
#
TOTPROC=$((ESCRIPT_NUM_NODES * ESCRIPT_NUM_PROCS))
if [ $? -ne 0 ] #Some compute error
then #This could happen if the args were not a number
die "Expression of total number of processors = $ESCRIPT_NUM_NODES * $ESCRIPT_NUM_PROCS is not numerical!"
fi
# set up thread binding if unset -- disabled by default because it interfers
# with MPI binding
#if [ "$OMP_PROC_BIND" = "" ]; then
# #Force OpenMP binding for Intel (and GCC, though GCC is on by default)
# export OMP_PROC_BIND=true
#fi
#if [ "$KMP_AFFINITY" = "" ]; then
# #Set the style of binding (overrides OMP_PROC_BIND in many cases)
# export KMP_AFFINITY=verbose,compact
#fi
#
# Test to ensure people aren't trying to combine interactive and multi-process
#
if ([ ! -z $DO_INTERACTIVE ] || [ $# -eq 0 ]) && ([ $TOTPROC -gt 1 ])
then
die "Interactive mode cannot be used with more than one process!"
fi
if [ $TOTPROC -gt 1 ]
then
if [ "$ESCRIPT_CREATESTDFILES" = "y" ]
then
PYTHON_MPI=$PYTHON_MPI_REDIRECT
else
PYTHON_MPI=$PYTHON_MPI_NULL
fi
else
PYTHON_MPI=$PYTHON_MPI_NULL
fi
#==============================================================================
# Must have at least one command-line arg: the python script
if [ $# -eq 0 ]
then
if [ ! -z $DO_BINARY ]
then
die "No program to run was specified!"
else
DO_INTERACTIVE=y
fi
fi
#==============================================================================
if [ ! -z $DO_XTERM ]
then
EXEC_CMD="xterm -e"
else
EXEC_CMD=""
fi
if [ ! -z "$DO_VALGRIND" ]
then
VALGRIND_BIN=$(which valgrind 2>/dev/null)
if [ $? -eq 0 ]; then
LOGDIR=$ESCRIPT_ROOT/valgrind_logs
[ -d $LOGDIR ] || mkdir $LOGDIR
VG_TOOL=$(echo $DO_VALGRIND | awk '{ s=substr($0,1,1);print s;}')
if [ $VG_TOOL = "c" ];
then
# run callgrind
LOGFILE=${LOGDIR}/callgrind.%p.xml
VALGRIND="valgrind --tool=callgrind --callgrind-out-file=$LOGFILE"
EXEC_CMD="$EXEC_CMD $VALGRIND"
elif [ $VG_TOOL = "h" ];
then
# run cachegrind
LOGFILE=${LOGDIR}/cachegrind.%p.xml
VALGRIND="valgrind --tool=cachegrind --cachegrind-out-file=$LOGFILE"
EXEC_CMD="$EXEC_CMD $VALGRIND"
else
# run memcheck by default
LAST_N=$(ls -1 $LOGDIR|grep "^memcheck"|tail -1|cut -d. -f2)
NEW_N=$(printf "%04d" $((LAST_N + 1)))
LOGFILE=${LOGDIR}/memcheck.${NEW_N}.%p.xml
VALGRIND="valgrind --tool=memcheck --xml=yes --show-reachable=yes --error-limit=no --suppressions=$ESCRIPT_ROOT/scripts/escript.supp --leak-check=full --xml-file=$LOGFILE"
EXEC_CMD="$EXEC_CMD $VALGRIND"
fi
else
die "Execution with valgrind requested but valgrind not in path!"
fi
fi
if [ ! -z $DO_BINARY ]
then
EXEC_CMD="$EXEC_CMD $@"
else
# Check to see if the python version we were compiled with matches the
# one of PYTHON_CMD.
compfull=$(get_buildvar python_version)
compversion=$(echo $compfull | cut -d. -f1,2)
compmajor=$(echo $compfull | cut -d. -f1)
if [ "$PYTHON_CMD" = "python" ] # if people have customised the command they
then # might not want us changing it
if [ "$compmajor" = "3" ]
then
PYTHON_CMD=python33
fi
fi
intversion=$($PYTHON_CMD -c 'from __future__ import print_function;import sys;print("%d.%d"%(sys.version_info[0], sys.version_info[1]))')
if [ "$compversion" != "$intversion" ]
then
die "Python versions do not match. Escript was compiled for '$compversion'.
Current version of Python appears to be '$intversion'."
fi
if [ "$MPI_FLAVOUR" = "none" ]
then
if [ ! -z $DO_INTERACTIVE ]
then
EXEC_CMD="$EXEC_CMD $PYTHON_CMD -i $@"
else
EXEC_CMD="$EXEC_CMD $PYTHON_CMD $@"
fi
else
if [ ! -z $DO_INTERACTIVE ]
then
EXEC_CMD="$EXEC_CMD $PYTHON_MPI -i $@"
else
EXEC_CMD="$EXEC_CMD $PYTHON_MPI $@"
fi
fi
fi
vlog "Command to be executed is \"$EXEC_CMD\""
#==============================================================================
#
# now we start to spawn things:
#
if [ "$WITH_OPENMP" = "1" ]
then
export OMP_NUM_THREADS=$ESCRIPT_NUM_THREADS
EXPORT_ENV="$EXPORT_ENV,OMP_NUM_THREADS"
fi
if [ "$MPI_FLAVOUR" = "OPENMPI" ]
then
if [ -z `which rsh``which ssh` ]
then
AGENTOVERRIDE="--gmca plm_rsh_agent /bin/false"
fi
fi
vlog "Pre-launch command: \"\""
vlog "Launch command: \"${EXEC_CMD}\""
${EXEC_CMD}
EXIT_CODE=$?
vlog "Post-launch command: \"\""
if [ ! -z "$DO_VALGRIND" ]; then
echo "Valgrind log file written to ${LOGFILE}"
fi
rm -f $HOSTFILE
exit $EXIT_CODE
|