beamnrc-4.ebuild

beamnrc-4.ebuild (text/plain), 11.88 KB, created by Sebastiaan on 2007-09-06 07:49:05 UTC

# Copyright 1999-2006 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# Made by Sebastiaan Breedveld ([e-mail])
#

# Installing EGSnrc and BEAMnrc seperately is not possible. The
# Mortran compiler provided by EGSnrc wants to have write-access to
# files which are already installed by EGSnrc, and no write-access is
# required. It is much, much easier to install both packages in one
# ebuild. Also because BEAMnrc requieres a `patch' to EGSnrc.

inherit distutils eutils flag-o-matic toolchain-funcs versionator qt3 fortran

DESCRIPTION="The EGSnrc Monte Carlo and BEAMnrc Radiotherapy package."
HOMEPAGE="http://www.irs.inms.nrc.ca/EGSnrc/EGSnrc.html"
SRC_URI="http://www.irs.inms.nrc.ca/EGSnrc/install_egs
	 http://www.irs.inms.nrc.ca/EGSnrc/V${PV}_EGSnrc.tar.bz2
	 http://www.irs.inms.nrc.ca/EGSnrc/V${PV}_spinms.tar.bz2
	 http://www.irs.inms.nrc.ca/EGSnrc/V${PV}_user_codes.tar.bz2
	 http://www.irs.inms.nrc.ca/EGSnrc/V${PV}_manuals.tar.bz2
	 http://www.irs.inms.nrc.ca/EGSnrc/V${PV}_EGSgui.tar.bz2
	 http://www.irs.inms.nrc.ca/BEAM/user_manuals/install_beam
	 http://www.irs.inms.nrc.ca/BEAM/user_manuals/V${PV}_BEAMnrc.tar.bz2
	 http://www.irs.inms.nrc.ca/BEAM/user_manuals/V${PV}_BEAMnrc_CT.tar.bz2
	 http://www.irs.inms.nrc.ca/BEAM/user_manuals/V${PV}_BEAMnrc_phsp.tar.bz2
	 http://www.irs.inms.nrc.ca/BEAM/user_manuals/beamnrc.mortran
	 http://www.irs.inms.nrc.ca/BEAM/user_manuals/phsp_macros.mortran
	 http://www.irs.inms.nrc.ca/EGS_Windows/EGS_Windows_${PV}.0.2.tar.gz"

LICENSE="EGSnrc"
KEYWORDS="~x86 ~amd64"
SLOT="0"
IUSE="X"
RDEPEND="X? ( dev-lang/tk )
	X? ( =x11-libs/qt-3* )
	X? ( sci-visualization/grace )
	X? ( x11-libs/xforms )"

DEPEND="${RDEPEND}"

FORTRAN="ifc gfortran g77"

MYPN=BEAMnrc
EGSDIR=${WORKDIR}/${MYPN}

src_unpack() {
	return
}

src_compile() {

	# Firstly, install EGSnrc

	ewarn ""
	ewarn "Note that the installation script will fail if"
	ewarn "the unique machine name and therefore the whole"
	ewarn "pathname is too long: a MORTRAN inconvenience."
	ewarn

	if [ -n "${interactive}" ]; then
		
		einfo ""
		einfo ""
		einfo "You have chosen to interactively configure EGSnrc."
		einfo "To answer the first two questions:"
		einfo "The EGSnrc/BEAMnrc distribution files are installed in: "
		einfo ""
		einfo "     ${PORTAGE_TMPDIR}/portage/${PF}/distdir"
		einfo ""
		einfo "You should install EGSnrc in this directory: "
		einfo ""
		einfo "     ${EGSDIR}"
		einfo ""
		einfo ""
		ebeep 2
		einfo "Compiling egs with user interaction..."
		sh distdir/install_egs || die "Make failed!"

		# Figure out CONFIGNAME
		CONFIGNAME=`ls ${EGSDIR}/bin/`

        else
        	# Use defaults

		# Default to ifort and icc
		#
		# This is somewhat inconvenient, but Gentoo
		# deceided not to use the ifc useflag anymore
		ifortbin=`which ifort 2> /dev/null`
		if test -x "${ifortbin}"; then
			FORTRANC=ifort
		else
			# No ifort installed, let the
			# fortran.eclass handle this
			fortran_pkg_setup
		fi

		iccbin=`which icc 2> /dev/null`
		if test -x "${iccbin}"; then
			CCOMPILER=icc
		else
			# No icc installed, use gcc
			CCOMPILER=gcc
		fi

		ewarn ""
		ewarn "Note that this ebuild defaults to the Intel Fortran"
		ewarn "Compiler and the Intel C Compiler to compile the EGSnrc."
		ewarn "If it is not installed, an alternative compiler will be used" 
		ewarn "(gfortran, g77 or gcc)."
		ewarn ""
		ewarn "Selected compilers are: ${FORTRANC} ${CCOMPILER}"
		ewarn ""
		ewarn "If this is not what you want, set 'interactive=1' and"
		ewarn "re-emerge for manual configuration."
		ewarn ""
		ewarn "You can choose your own compilers. The source compiles"
		ewarn "best with gcc-3 and g77, but icc 9 and ifort 9 also works well."
		ewarn "Do not use gfortran, since an important program will fail to"
		ewarn "build (ctcreate)."
		ewarn ""
		ewarn "Note that with any combination of compilers, one or more"
		ewarn "user files will not compile, but this is not critical."
		ewarn ""
		ebeep 2	

		CONFIGNAME="${ARCH}-${FORTRANC}"


		# Make answer list

echo $"
$WORKDIR/../distdir/
$EGSDIR

${FORTRANC}




$CCOMPILER

${CONFIGNAME}.conf
${CONFIGNAME}" > answers.txt

		einfo "Compiling egs..."
		sh distdir/install_egs < answers.txt || die "Make failed!"
	fi

	# Set environment variables
	export EGS_CONFIG="${EGSDIR}/specs/${CONFIGNAME}.conf"
	export MY_MACHINE="${CONFIGNAME}"
	export EGS_HOME="${EGSDIR}/egsnrc_for_user/"
	export HEN_HOUSE="${EGSDIR}/"
	mkdir $EGS_HOME

	# Figure out which compilers where used and where the Intel libraries are
	FORTRANC=`grep 'F77 = ' ${EGSDIR}/specs/${CONFIGNAME}.conf | cut -c7-`
	if [ "${FORTRANC}" == "ifort" ]; then
		FORTRANC_LIBPATH=`which ifort`
		FORTRANC_LIBPATH=`dirname ${FORTRANC_LIBPATH}`
		FORTRANC_LIBPATH=`dirname ${FORTRANC_LIBPATH}`
		export FORTRANC_LIBPATH="${FORTRANC_LIBPATH}/lib"

		# Replace / by \/ for use with sed
		echo $FORTRANC_LIBPATH | sed 's/\//\\\//g' > ${PORTAGE_TMPDIR}/portage/${PF}/temp/sedtemp
		sedFORTRANC_LIBPATH=`cat ${PORTAGE_TMPDIR}/portage/${PF}/temp/sedtemp`
	fi

	CCOMPILER=`grep 'CC = ' ${EGSDIR}/specs/${CONFIGNAME}.conf | cut -c6-`
	if [ "${CCOMPILER}" == "icc" ]; then
		CCOMPILER_LIBPATH=`which icc`
		CCOMPILER_LIBPATH=`dirname ${CCOMPILER_LIBPATH}`
		CCOMPILER_LIBPATH=`dirname ${CCOMPILER_LIBPATH}`
		export CCOMPILER_LIBPATH="${CCOMPILER_LIBPATH}/lib"

		# Replace / by \/ for use with sed
		echo $CCOMPILER_LIBPATH | sed 's/\//\\\//g' > ${PORTAGE_TMPDIR}/portage/${PF}/temp/sedtemp
		sedCCOMPILER_LIBPATH=`cat ${PORTAGE_TMPDIR}/portage/${PF}/temp/sedtemp`
	fi

	# Make egspp/egs++
	if [ "${CCOMPILER}" == "gcc" ]; then
		if [ "${ARCH}" == "amd64" ]; then
			cp ${EGSDIR}/specs/egspp_gcc64_example.conf "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		else
			cp ${EGSDIR}/specs/egspp_gcc_example.conf "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		fi

		# Patch configuration
		if [ "$(gcc_major_version)" -eq 4 ]; then
			sed -i 's/fortran_libs = -lg2c/fortran_libs = -lgfortran/' "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		fi

		# Only if ifort is used
		if [ "${FORTRANC}" == "ifort" ]; then
			sed -i "s/fortran_libs =/fortran_libs = -L$sedFORTRANC_LIBPATH -lifcore -lifport -lpthread/" "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		fi

	else # assume icc
		cp ${EGSDIR}/specs/egspp_intel1_example.conf "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		sed -i "s/-L\/home\/iwan\/intel\/fc8.0\/lib/ -L$sedFORTRANC_LIBPATH/" "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		sed -i "s/extra =/extra = -L$sedCCOMPILER_LIBPATH/" "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		sed -i "s/lib_link1 =/lib_link1 = -L$sedCCOMPILER_LIBPATH/" "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		sed -i 's/opt = /opt = -lstdc++ /' "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		if [ "${ARCH}" == "amd64" ]; then
			# Patch with -fPIC
			sed -i 's/opt = /opt = -fPIC /' "${EGSDIR}/specs/egspp_${CONFIGNAME}.conf"
		fi

	fi

	cd ${EGSDIR}/egs++
	einfo "Compiling EGS++..."
	emake -j1
	cd ${PORTAGE_TMPDIR}/portage/${PF}

	if use X; then
		einfo "Compiling the gui..."
		cd ${EGSDIR}/gui
		
		# First patch some GUI files for gcc-4
		if [ "$(gcc-major-version)" -eq 4 ]; then
			patch -p1 < "${FILESDIR}"/gcc-4.patch
		fi

		emake
		cd ${PORTAGE_TMPDIR}/portage/${PF}
	fi

	# Precompile user directory
echo $"${EGS_HOME}
yes
1" > answers2.txt
	einfo "Compiling the EGSnrc user files..."
	${EGSDIR}/scripts/finalize_egs_foruser < answers2.txt



	# Secondly, install BEAMnrc
	
	# Patch the install_beam script for Makefile errors
	cp distdir/install_beam temp/install_beam
	patch temp/install_beam "${FILESDIR}"/install_beam.patch

echo $"
$WORKDIR/../distdir/" > answers3.txt

	einfo "Compiling BEAMnrc..."
	sh ${PORTAGE_TMPDIR}/portage/${PF}/temp/install_beam < answers3.txt

	# Precompile user directory
	einfo "Compiling BEAMnrc user files..."
	${EGSDIR}/scripts/finalize_beam_foruser
	

	# Patch (http://www.irs.inms.nrc.ca/BEAM/user_manuals/DISTRIBUTION.html)
	einfo "Patching beamnrc.mortran and phsp_macros.mortran..."
	cp ${PORTAGE_TMPDIR}/portage/${PF}/distdir/beamnrc.mortran ${EGSDIR}/omega/beamnrc/
	cp ${PORTAGE_TMPDIR}/portage/${PF}/distdir/phsp_macros.mortran ${EGSDIR}/utils/


	# Thirdly, compile the viewer
	einfo "Compiling the EGS_Windows viewer..."
	cd ${WORKDIR}/
	unpack "EGS_Windows_${PV}.0.2.tar.gz"
	cd EGS_Windows/

	# Set correct compilers (just use gcc here).
	sed -i "s/cc/gcc/" Makefile.Linux
	if [ "$(gcc-major-version)" -eq 4 ]; then
		sed -i "s/g77/gfortran/" Makefile.Linux
	fi

	# Fix library dependence
	sed "s/LIBS=/LIBS=-lXpm/" Makefile.Linux > Makefile

	emake
	
	cp EGS_Windows_${PV}.0.Linux.exe ${EGSDIR}/bin/${CONFIGNAME}/show

}

src_install() {	

	# Remove portage paths in installation files
	einfo "Correct portage paths in files:"
	for sedfile in `grep -RHlI '/var/tmp/portage/beamnrc-4/work/' $EGSDIR` 
	do
		echo $sedfile
		sed -i 's/\/var\/tmp\/portage\/beamnrc-4\/work/\/opt/' $sedfile
	done

	# Correct permissions: no file should be world writable
	chmod g-w,o-w $EGSDIR/mortran3/mortran3.f

	# Permissions are really, really messed up.
	# Root owns the place, make the tcl scripts
	# world executable and all files world readable.
	chown -R root:root ${EGSDIR}/*
	find ${EGSDIR}/ -name '*.tcl' | xargs chmod a+rx
	chmod -R a+r ${EGSDIR}

	# Add convenience links to bin directory for common commands
	cd ${EGSDIR}/bin/${CONFIGNAME}/	
	ln -s ../../omega/progs/gui/beamnrc/beamnrc_gui.tcl beamnrc_gui
	ln -s ../../omega/progs/gui/beamnrc/beamnrc_gui.tcl beam_gui
	ln -s ../../omega/progs/gui/dosxyznrc/dosxyznrc_gui.tcl dosxyznrc_gui
	ln -s ../../omega/progs/gui/dosxyznrc/dosxyznrc_gui.tcl dosxyz_gui
	ln -s ../../omega/progs/gui/beamdp/beamdp_gui.tcl beamdp_gui
	ln -s ../../scripts/pprocess pprocess


	# Very dirty, dirty binary patch
	einfo "Doing a dirty and dangerous binary patch on beam_build.exe and pegs4.exe."
	sed -i 's/\/var\/tmp\/portage\/beamnrc-4\/work\/BEAMnrc\/omega/\/opt\/BEAMnrc\/omega\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\//' ${EGSDIR}/bin/${CONFIGNAME}/beam_build.exe
	sed -i 's/\/var\/tmp\/portage\/beamnrc-4\/work\/BEAMnrc\/specs/\/opt\/BEAMnrc\/specs\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\//' ${EGSDIR}/bin/${CONFIGNAME}/beam_build.exe
	sed -i 's/\/var\/tmp\/portage\/beamnrc-4\/work\/BEAMnrc/\/opt\/BEAMnrc\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\//' ${EGSDIR}/bin/${CONFIGNAME}/pegs4.exe
	sed -i 's/\/var\/tmp\/portage\/beamnrc-4\/work\/BEAMnrc/\/opt\/BEAMnrc\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\/\//' ${EGSDIR}/egsnrc_for_user/${CONFIGNAME}/dosxyznrc

	# Patch file so a batch job redirects output to batch.log
	cd ${EGSDIR}/omega/progs/gui/beamnrc
	patch < "${FILESDIR}"/run_beamnrc.patch
	cd ${PORTAGE_TMPDIR}/portage/${PF}/

	# Keep empty directories in $EGS_HOME/pegs4
	keepdir ${EGSDIR}/egsnrc_for_user/pegs4/data
	keepdir ${EGSDIR}/egsnrc_for_user/pegs4/density
	keepdir ${EGSDIR}/egsnrc_for_user/pegs4/inputs

	# Add paths to environment
	echo "HEN_HOUSE=/opt/${MYPN}" >> ${T}/71${PN}
	echo "EGS_CONFIG=/opt/${MYPN}/specs/${CONFIGNAME}.conf" >> ${T}/71${PN}
	echo 'EGS_HOME=~/egsnrc/' >> ${T}/71${PN}
	echo "EGS_BATCH_SYSTEM=at" >> ${T}/71${PN}
	echo "OMEGA_HOME=/opt/${MYPN}/omega/" >> ${T}/71${PN}
	echo "PATH=/opt/${MYPN}/bin/${CONFIGNAME}/" >> ${T}/71${PN}
        doenvd ${T}/71${PN}


	# Build and install this package in /opt due to
	# the internal references to the programs and data
	# used in the package (so do not integrate the
	# binaries of this package in the main system).
	
	dodir /opt
	mv ${EGSDIR} ${D}/opt


	# cleanup portage directory
	rm ${PORTAGE_TMPDIR}/portage/${PF}/*.txt
	rm ${PORTAGE_TMPDIR}/portage/${PF}/*.log
	rm ${PORTAGE_TMPDIR}/portage/${PF}/*.status
	return
}

pkg_postinst() {
        ewarn ""
        ewarn "For each user, copy /opt/${MYPN}/egsnrc_for_user to /home/USER/egsnrc"
        ewarn "and chown -R for the user."
	ewarn ""
	ewarn "Because BEAMnrc fails to detect the executable paths correctly,"
	ewarn "add this to the login script for each user (e.g. .bashrc):"
	ewarn ""
	ewarn '   export PATH=$PATH:$HOME/egsnrc/bin/'"${CONFIGNAME}/"
	ewarn '   export EGS_HOME=$HOME/egsnrc/'
	ewarn ""
	ebeep 2
	return
}