root/galaxy-central/tools/human_genome_variation/lps_tool_wrapper.sh

#!/usr/bin/env bash
# script for execution of deployed applications
#
# Sets up the MCR environment for the current $ARCH and executes 
# the specified command.
#

export PATH=$PATH:$(dirname $0)

MCRROOT=${MCRROOT:-/galaxy/software/linux2.6-x86_64/bin/MCR-7.11/v711}
MWE_ARCH=glnxa64

if [ "$MWE_ARCH" = "sol64" ] ; then
  LD_LIBRARY_PATH=.:/usr/lib/lwp:${MCRROOT}/runtime/glnxa64
else
  LD_LIBRARY_PATH=.:${MCRROOT}/runtime/glnxa64
fi

LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${MCRROOT}/bin/glnxa64
LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${MCRROOT}/sys/os/glnxa64

if [ "$MWE_ARCH" = "maci" -o "$MWE_ARCH" = "maci64" ]; then
  DYLD_LIBRARY_PATH=${DYLD_LIBRARY_PATH}:/System/Library/Frameworks/JavaVM.framework/JavaVM:/System/Library/Frameworks/JavaVM.framework/Libraries
else
  MCRJRE=${MCRROOT}/sys/java/jre/glnxa64/jre/lib/amd64
  LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${MCRJRE}/native_threads
  LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${MCRJRE}/server
  LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${MCRJRE}/client
  LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${MCRJRE}
fi

XAPPLRESDIR=${MCRROOT}/X11/app-defaults

export LD_LIBRARY_PATH XAPPLRESDIR

lps_tool $*

exit 0