#!/usr/bin/bash

# Set IMOD_DIR if it is not set already
#
export IMOD_DIR=${IMOD_DIR:=/opt/imod}

# Set IMOD_JAVADIR if it is not set already
#
if [ -f "/usr/bin/archlinux-java" ]
then
	export IMOD_JAVADIR=${IMOD_JAVADIR:=/usr/lib/jvm/`/usr/bin/archlinux-java get`}
fi

# Put the IMOD programs on the path
#
if ! echo ${PATH} | /bin/grep -q "$IMOD_DIR/bin" ; then
    export PATH=$IMOD_DIR/bin:$PATH
fi

# Set variable with location of the IMOD plugins
#
export IMOD_PLUGIN_DIR=$IMOD_DIR/lib/imodplug

# Tell the system where the IMOD libraries are located.
#
export LD_LIBRARY_PATH=$IMOD_DIR/lib:$LD_LIBRARY_PATH

# Put the man pages on the man path only if it exists
#
if [ ! -z "$MANPATH" ] ; then
    export MANPATH=$IMOD_DIR/man:$MANPATH
fi

# Set a variable with the location of configuration/calibration/data files
#
export IMOD_CALIB_DIR=${IMOD_CALIB_DIR:=/opt/IMOD/ImodCalib}

# Source local startup file in ImodCalib if it exists
#
if [ -r $IMOD_CALIB_DIR/IMOD.sh ] ; then
    . $IMOD_CALIB_DIR/IMOD.sh
fi

# Disable alarming stack traces from Intel Fortran
#
export FOR_DISABLE_STACK_TRACE=1

# Set a variable to indicate where our copy of Qt library is
#
export IMOD_QTLIBDIR="$IMOD_DIR/qtlib"

# A subm function to run command files in the background with submfg
#
if [ -z "$BASH" ] ; then return 0 ; fi
function subm () { submfg $* & }