sci-libs/ccp4-libs/ccp4-libs-6.1.3-r16.ebuild - platform/external/gentoo/overlays/gentoo - Git at Google

 # Copyright 1999-2015 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 # $Id$

 EAPI=5

 PYTHON_COMPAT=( python2_7 )

 inherit autotools eutils fortran-2 gnuconfig multilib python-single-r1 toolchain-funcs

 SRC="ftp://ftp.ccp4.ac.uk/ccp4"

 #UPDATE="04_03_09"
 #PATCHDATE="090511"

 MY_P="${P/-libs}"

 PATCH_TOT="0"

 DESCRIPTION="Protein X-ray crystallography toolkit - Libraries"
 HOMEPAGE="http://www.ccp4.ac.uk/"
 SRC_URI="${SRC}/${PV}/${MY_P}-core-src.tar.gz"
 # patch tarball from upstream
 	[[ -n ${UPDATE} ]] && SRC_URI="${SRC_URI} ${SRC}/${PV}/updates/${P}-src-patch-${UPDATE}.tar.gz"
 # patches created by us
 	[[ -n ${PATCHDATE} ]] && SRC_URI="${SRC_URI} https://dev.gentoo.org/~jlec/science-dist/${PV}-${PATCHDATE}-updates.patch.bz2"

 for i in $(seq $PATCH_TOT); do
 	NAME="PATCH${i}[1]"
 	SRC_URI="${SRC_URI}
 		${SRC}/${PV}/patches/${!NAME}"
 done

 LICENSE="ccp4"
 SLOT="0"
 KEYWORDS="amd64 ppc x86 ~amd64-linux ~x86-linux"
 IUSE="minimal"

 REQUIRED_USE="${PYTHON_REQUIRED_USE}"

 RDEPEND="
 	${PYTHON_DEPS}
 	!<sci-chemistry/ccp4-6.1.3
 	!<sci-chemistry/ccp4-apps-${PV}-r10
 	app-shells/tcsh
 	dev-lang/tcl:0
 	>=sci-libs/cbflib-0.9.2.2
 	sci-libs/fftw:2.1
 	sci-libs/mmdb:0
 	sci-libs/monomer-db
 	sci-libs/ssm
 	virtual/jpeg:0=
 	virtual/lapack
 	virtual/blas"
 DEPEND="${RDEPEND}
 	virtual/pkgconfig"

 S="${WORKDIR}/${MY_P}"

 MAKEOPTS+=" -j1"

 pkg_setup() {
 	fortran-2_pkg_setup
 	python-single-r1_pkg_setup
 }

 src_prepare() {
 	tc-export PKG_CONFIG RANLIB AR

 	sed \
 		-e "/^AR/s:ar:$(tc-getAR):g" \
 		-i lib/src/Makefile.in src/Makefile.in src/ccp4mapwish_/Makefile.in lib/ccif/Makefile.in || die

 	einfo "Applying upstream patches ..."
 	for patch in $(seq $PATCH_TOT); do
 		base="PATCH${patch}"
 		dir=$(eval echo \${${base}[0]})
 		p=$(eval echo \${${base}[1]})
 		pushd "${dir}" >& /dev/null
 		ccp_patch "${DISTDIR}/${p}"
 		popd >& /dev/null
 	done
 	einfo "Done."
 	echo

 	[[ -n ${PATCHDATE} ]] && epatch "${WORKDIR}"/${PV}-${PATCHDATE}-updates.patch

 	einfo "Applying Gentoo patches ..."
 	# fix buffer overflows wrt bug 339706
 	ccp_patch "${FILESDIR}"/${PV}-overflows.patch

 	# it tries to create libdir, bindir etc on live system in configure
 	ccp_patch "${FILESDIR}"/${PV}-dont-make-dirs-in-configure.patch

 	# gerror_ gets defined twice on ppc if you're using gfortran/g95
 	ccp_patch "${FILESDIR}"/6.0.2-ppc-double-define-gerror.patch

 	# make creation of libccif.so smooth
 	ccp_patch "${FILESDIR}"/${PV}-ccif-shared.patch

 	# lets try to build libmmdb seperatly
 	ccp_patch "${FILESDIR}"/${PV}-dont-build-mmdb.patch

 	# unbundle libjpeg and cbflib
 	ccp_patch "${FILESDIR}"/${PV}-unbundle-libs-ng2.patch

 	# Fix missing DESTIDR
 	# not installing during build
 	ccp_patch "${FILESDIR}"/${PV}-noinstall.patch
 	sed \
 		-e '/SHARE_INST/s:$(libdir):$(DESTDIR)/$(libdir):g' \
 		-i configure || die

 	# Fix upstreams code
 	ccp_patch "${FILESDIR}"/${PV}-impl-dec.patch

 	# use pkg-config to detect BLAS/LAPACK
 	ccp_patch "${FILESDIR}"/${PV}-lapack.patch

 	# proto type changing in version 0.9.2.2
 	ccp_patch "${FILESDIR}"/${PV}-cbf.patch

 	# proto type changing in version 0.9.2.2
 	ccp_patch "${FILESDIR}"/${PV}-no-pypath.patch

 	ccp_patch "${FILESDIR}"/${P}-force.patch

 	ccp_patch "${FILESDIR}"/${P}-format-security.patch

 	einfo "Done." # done applying Gentoo patches
 	echo

 	# not needed, we have it extra
 	rm -rf src/rapper/{libxml2,gc7.0} || die

 	sed \
 		-e "s:/usr:${EPREFIX}/usr:g" \
 		-e 's:-Wl,-rpath,$CLIB::g' \
 		-e 's: -rpath $CLIB::g' \
 		-e 's: -I${srcdir}/include/cpp_c_headers::g' \
 		-e 's:sleep 1:sleep .2:g' \
 		-i configure || die

 	gnuconfig_update

 	for i in lib/DiffractionImage src/rapper src/pisa; do
 		pushd ${i} > /dev/null
 			sed 's:-g::g' -i configure* || die
 			[[ -f configure.in ]] && mv configure.{in,ac}
 			eautoreconf
 		popd > /dev/null
 	done

 	## unbundle libssm
 	sed -e '/libdir/s:ssm::g' -i Makefile.in || die
 	find ./lib/src/mmdb ./lib/ssm ./lib/clipper ./lib/fftw lib/lapack -delete || die
 }

 src_configure() {
 	rm -rf lib/DiffractionImage/{jpg,CBFlib} || die

 	# Build system is broken if we set LDFLAGS
 	userldflags="${LDFLAGS}"
 	export SHARED_LIB_FLAGS="${LDFLAGS}"
 	unset LDFLAGS

 	# GENTOO_OSNAME can be one of:
 	# irix irix64 sunos sunos64 aix hpux osf1 linux freebsd
 	# linux_compaq_compilers linux_intel_compilers generic Darwin
 	# ia64_linux_intel Darwin_ibm_compilers linux_ibm_compilers
 	if [[ "$(tc-getFC)" = "ifort" ]]; then
 		if use ia64; then
 			GENTOO_OSNAME="ia64_linux_intel"
 		else
 			# Should be valid for x86, maybe amd64
 			GENTOO_OSNAME="linux_intel_compilers"
 		fi
 	else
 		# Should be valid for x86 and amd64, at least
 		GENTOO_OSNAME="linux"
 	fi

 	# Sets up env
 	ln -s \
 		ccp4.setup-bash \
 		"${S}"/include/ccp4.setup || die

 	# We agree to the license by emerging this, set in LICENSE
 	sed -i \
 		-e "s~^\(^agreed=\).*~\1yes~g" \
 		"${S}"/configure || die

 	# Fix up variables -- need to reset CCP4_MASTER at install-time
 	sed -i \
 		-e "s~^\(setenv CCP4_MASTER.*\)/.*~\1${WORKDIR}~g" \
 		-e "s~^\(export CCP4_MASTER.*\)/.*~\1${WORKDIR}~g" \
 		-e "s~^\(.*export CBIN=.*\)\$CCP4.*~\1\$CCP4/libexec/ccp4/bin/~g" \
 		-e "s~^\(.*setenv CBIN .*\)\$CCP4.*~\1\$CCP4/libexec/ccp4/bin/~g" \
 		-e "s~^\(setenv CCP4I_TCLTK.*\)/usr/local/bin~\1${EPREFIX}/usr/bin~g" \
 		"${S}"/include/ccp4.setup* || die

 	# Set up variables for build
 	source "${S}"/include/ccp4.setup-sh

 	export CC=$(tc-getCC)
 	export CXX=$(tc-getCXX)
 	export COPTIM=${CFLAGS}
 	export CXXOPTIM=${CXXFLAGS}
 	# Default to -O2 if FFLAGS is unset
 	export FC=$(tc-getFC)
 	export FOPTIM=${FFLAGS:- -O2}

 	export SHARE_LIB="\
 		$(tc-getCC) ${userldflags} -shared -Wl,-soname,libccp4c.so -o libccp4c.so \${CORELIBOBJS} \${CGENERALOBJS} \${CUCOBJS} \${CMTZOBJS} \${CMAPOBJS} \${CSYMOBJS} -L../ccif/ -lccif $(gcc-config -L | awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lm && \
 		$(tc-getFC) ${userldflags} -shared -Wl,-soname,libccp4f.so -o libccp4f.so \${FORTRANLOBJS} \${FINTERFACEOBJS} -L../ccif/ -lccif -L. -lccp4c $($(tc-getPKG_CONFIG) --libs mmdb) $(gcc-config -L | awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lstdc++ -lgfortran -lm"

 	# Can't use econf, configure rejects unknown options like --prefix
 	./configure \
 		--onlylibs \
 		--with-shared-libs \
 		--with-fftw="${EPREFIX}/usr" \
 		--with-warnings \
 		--disable-cctbx \
 		--disable-clipper \
 		--disable-ssm \
 		--tmpdir="${TMPDIR}" \
 		--bindir="${EPREFIX}/usr/libexec/ccp4/bin/" \
 		--libdir="${EPREFIX}/usr/$(get_libdir)" \
 		${GENTOO_OSNAME} || die "configure failed"
 }

 src_compile() {
 	emake DESTDIR="${D}" onlylib
 }

 src_install() {
 	# Set up variables for build
 	source "${S}"/include/ccp4.setup-sh

 	emake \
 		DESTDIR="${D}" \
 		includedir="${EPREFIX}/usr/include" \
 		library_includedir="${EPREFIX}/usr/include" \
 		install

 	sed \
 		-e "330,1000d" \
 		-i "${S}"/include/ccp4.setup-sh || die

 	sed \
 		-e "378,1000d" \
 		-i "${S}"/include/ccp4.setup-csh || die

 	sed \
 		-e "s:-${PV/-r*/}::g" \
 		-e "s:^\(.*export CCP4_MASTER=\).*:\1${EPREFIX}/usr:g" \
 		-e "s:^\(.*setenv CCP4_MASTER\).*:\1 ${EPREFIX}/usr:g" \
 		-e "s:^\(.*export CCP4=\).*CCP4_MASTER.*:\1${EPREFIX}/usr:g" \
 		-e "s:^\(.*setenv CCP4\).*CCP4_MASTER.*:\1 ${EPREFIX}/usr:g" \
 		-e "s:^\(.*export CCP4_SCR=\).*:\1${EPREFIX}/tmp:g" \
 		-e "s:^\(.*setenv CCP4_SCR \).*:\1${EPREFIX}/tmp:g" \
 		-e "s:^\(.*export BINSORT_SCR=\).*:\1${EPREFIX}/tmp:g" \
 		-e "s:^\(.*setenv BINSORT_SCR \).*:\1${EPREFIX}/tmp:g" \
 		-e "s:^\(.*export CCP4I_TOP=\).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i:g" \
 		-e "s:^\(.*setenv CCP4I_TOP \).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i:g" \
 		-e "s:^\(.*export CCP4I_TCLTK=\).*:\1${EPREFIX}/usr/bin:g" \
 		-e "s:^\(.*setenv CCP4I_TCLTK \).*:\1${EPREFIX}/usr/bin:g" \
 		-e "s:^\(.*export CCP4I_HELP=\).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i/help:g" \
 		-e "s:^\(.*setenv CCP4I_HELP \).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i/help:g" \
 		-e "s:^\(.*export CBIN=\).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
 		-e "s:^\(.*setenv CBIN \).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
 		-e "s:^\(.*export CCP4_BIN=\).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
 		-e "s:^\(.*setenv CCP4_BIN \).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
 		-e "s:^\(.*export CLIBD_MON=\).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
 		-e "s:^\(.*setenv CLIBD_MON \).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
 		-e "s:^\(.*export CLIBD=\).*:\1${EPREFIX}/usr/share/ccp4/data:g" \
 		-e "s:^\(.*setenv CLIBD \).*:\1${EPREFIX}/usr/share/ccp4/data:g" \
 		-e "s:^\(.*export CCP4_LIB=\).*:\1${EPREFIX}/usr/$(get_libdir):g" \
 		-e "s:^\(.*setenv CCP4_LIB \).*:\1${EPREFIX}/usr/$(get_libdir):g" \
 		-e "s:^\(.*export CCP4_BROWSER=\).*:\1firefox:g" \
 		-e "s:^\(.*setenv CCP4_BROWSER \).*:\1firefox:g" \
 		-e "s:^\(.*export MANPATH=\).*:\1\${MANPATH}:g" \
 		-e "s:^\(.*setenv MANPATH \).*:\1\${MANPATH}:g" \
 		-e "s:^\(.*export DBCCP4I_TOP=\).*:\1${EPREFIX}/usr/share/ccp4/dbccp4i:g" \
 		-e "s:^\(.*setenv DBCCP4I_TOP \).*:\1${EPREFIX}/usr/share/ccp4/dbccp4i:g" \
 		-e "s:^\(.*export MOLREPLIB=\).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
 		-e "s:^\(.*setenv MOLREPLIB \).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
 		-e "s:^\(.*export CDOC=\).*:\1${EPREFIX}/usr/share/doc:g" \
 		-e "s:^\(.*setenv CDOC \).*:\1${EPREFIX}/usr/share/doc:g" \
 		-e "s:^\(.*export CEXAM=\).*:\1${EPREFIX}/usr/share/doc/examples:g" \
 		-e "s:^\(.*setenv CEXAM \).*:\1${EPREFIX}/usr/share/doc/examples:g" \
 		-e "s:^\(.*export CINCL=\).*:\1${EPREFIX}/usr/share/ccp4/include:g" \
 		-e "s:^\(.*setenv CINCL \).*:\1${EPREFIX}/usr/share/ccp4/include:g" \
 		-e "s:\$CLIB/font84.dat:\"${EPREFIX}/usr/$(get_libdir)/font84.dat\":g" \
 		-e "s:\$CLIB/cif_mmdic.lib:\"${EPREFIX}/usr/$(get_libdir)/cif_mmdic.lib\":g" \
 		-e '/# .*LD_LIBRARY_PATH specifies/,/^$/d' \
 		-e '/CLIB=/d' \
 		-e '/CLIB /d' \
 		-e '/CLIBS=/d' \
 		-e '/CLIBS /d' \
 		-e "/alias/d" \
 		-e "/CCP4_HELPDIR/d" \
 		-e "/IMOSFLM_VERSION/d" \
 		-i "${S}"/include/ccp4.setup* || die

 	# Don't check for updates on every sourcing of /etc/profile
 	sed -i \
 		-e "s:\(eval python.*\):#\1:g" \
 		"${S}"/include/ccp4.setup* || die

 	# Libs
 	for file in "${S}"/lib/*; do
 		if [[ -d ${file} ]]; then
 			continue
 		elif [[ -x ${file} ]]; then
 			dolib.so ${file}
 		else
 			insinto /usr/$(get_libdir)
 			doins ${file}
 		fi
 	done

 	prune_libtool_files

 	sed \
 		-e 's:test "LD_LIBRARY_PATH":test "$LD_LIBRARY_PATH":g' \
 		-i "${S}"/include/ccp4.setup-sh || die

 	if ! use minimal; then
 		# Setup scripts
 		insinto /etc/profile.d
 		newins "${S}"/include/ccp4.setup-csh 40ccp4.setup.csh
 		newins "${S}"/include/ccp4.setup-sh 40ccp4.setup.sh

 		# Data
 		insinto /usr/share/ccp4/data/
 		doins -r "${S}"/lib/data/{*.PARM,*.prt,*.lib,*.dic,*.idl,*.cif,*.resource,*.york,*.hist,fraglib,reference_structures}

 		# Environment files, setup scripts, etc.
 		rm -rf "${S}"/include/{ccp4.setup*,COPYING,cpp_c_headers} || die
 		insinto /usr/share/ccp4/
 		doins -r "${S}"/include
 	fi

 	rm -f "${S}"/include/ccp4.setup* || die

 	dodoc "${S}"/lib/data/*.doc
 	newdoc "${S}"/lib/data/README DATA-README
 }

 pkg_postinst() {
 	einfo "The Web browser defaults to firefox. Change CCP4_BROWSER"
 	einfo "in ${EPREFIX}/etc/profile.d/40ccp4.setup* to modify this."
 }

 # Epatch wrapper for bulk patching
 ccp_patch() {
 	EPATCH_SINGLE_MSG="  ${1##*/} ..." epatch ${1}
 }
	# Copyright 1999-2015 Gentoo Foundation
	# Distributed under the terms of the GNU General Public License v2
	# $Id$

	EAPI=5

	PYTHON_COMPAT=( python2_7 )

	inherit autotools eutils fortran-2 gnuconfig multilib python-single-r1 toolchain-funcs

	SRC="ftp://ftp.ccp4.ac.uk/ccp4"

	#UPDATE="04_03_09"
	#PATCHDATE="090511"

	MY_P="${P/-libs}"

	PATCH_TOT="0"

	DESCRIPTION="Protein X-ray crystallography toolkit - Libraries"
	HOMEPAGE="http://www.ccp4.ac.uk/"
	SRC_URI="${SRC}/${PV}/${MY_P}-core-src.tar.gz"
	# patch tarball from upstream
	[[ -n ${UPDATE} ]] && SRC_URI="${SRC_URI} ${SRC}/${PV}/updates/${P}-src-patch-${UPDATE}.tar.gz"
	# patches created by us
	[[ -n ${PATCHDATE} ]] && SRC_URI="${SRC_URI} https://dev.gentoo.org/~jlec/science-dist/${PV}-${PATCHDATE}-updates.patch.bz2"

	for i in $(seq $PATCH_TOT); do
	NAME="PATCH${i}[1]"
	SRC_URI="${SRC_URI}
	${SRC}/${PV}/patches/${!NAME}"
	done

	LICENSE="ccp4"
	SLOT="0"
	KEYWORDS="amd64 ppc x86 ~amd64-linux ~x86-linux"
	IUSE="minimal"

	REQUIRED_USE="${PYTHON_REQUIRED_USE}"

	RDEPEND="
	${PYTHON_DEPS}
	!<sci-chemistry/ccp4-6.1.3
	!<sci-chemistry/ccp4-apps-${PV}-r10
	app-shells/tcsh
	dev-lang/tcl:0
	>=sci-libs/cbflib-0.9.2.2
	sci-libs/fftw:2.1
	sci-libs/mmdb:0
	sci-libs/monomer-db
	sci-libs/ssm
	virtual/jpeg:0=
	virtual/lapack
	virtual/blas"
	DEPEND="${RDEPEND}
	virtual/pkgconfig"

	S="${WORKDIR}/${MY_P}"

	MAKEOPTS+=" -j1"

	pkg_setup() {
	fortran-2_pkg_setup
	python-single-r1_pkg_setup
	}

	src_prepare() {
	tc-export PKG_CONFIG RANLIB AR

	sed \
	-e "/^AR/s:ar:$(tc-getAR):g" \
	-i lib/src/Makefile.in src/Makefile.in src/ccp4mapwish_/Makefile.in lib/ccif/Makefile.in \|\| die

	einfo "Applying upstream patches ..."
	for patch in $(seq $PATCH_TOT); do
	base="PATCH${patch}"
	dir=$(eval echo \${${base}[0]})
	p=$(eval echo \${${base}[1]})
	pushd "${dir}" >& /dev/null
	ccp_patch "${DISTDIR}/${p}"
	popd >& /dev/null
	done
	einfo "Done."
	echo

	[[ -n ${PATCHDATE} ]] && epatch "${WORKDIR}"/${PV}-${PATCHDATE}-updates.patch

	einfo "Applying Gentoo patches ..."
	# fix buffer overflows wrt bug 339706
	ccp_patch "${FILESDIR}"/${PV}-overflows.patch

	# it tries to create libdir, bindir etc on live system in configure
	ccp_patch "${FILESDIR}"/${PV}-dont-make-dirs-in-configure.patch

	# gerror_ gets defined twice on ppc if you're using gfortran/g95
	ccp_patch "${FILESDIR}"/6.0.2-ppc-double-define-gerror.patch

	# make creation of libccif.so smooth
	ccp_patch "${FILESDIR}"/${PV}-ccif-shared.patch

	# lets try to build libmmdb seperatly
	ccp_patch "${FILESDIR}"/${PV}-dont-build-mmdb.patch

	# unbundle libjpeg and cbflib
	ccp_patch "${FILESDIR}"/${PV}-unbundle-libs-ng2.patch

	# Fix missing DESTIDR
	# not installing during build
	ccp_patch "${FILESDIR}"/${PV}-noinstall.patch
	sed \
	-e '/SHARE_INST/s:$(libdir):$(DESTDIR)/$(libdir):g' \
	-i configure \|\| die

	# Fix upstreams code
	ccp_patch "${FILESDIR}"/${PV}-impl-dec.patch

	# use pkg-config to detect BLAS/LAPACK
	ccp_patch "${FILESDIR}"/${PV}-lapack.patch

	# proto type changing in version 0.9.2.2
	ccp_patch "${FILESDIR}"/${PV}-cbf.patch

	# proto type changing in version 0.9.2.2
	ccp_patch "${FILESDIR}"/${PV}-no-pypath.patch

	ccp_patch "${FILESDIR}"/${P}-force.patch

	ccp_patch "${FILESDIR}"/${P}-format-security.patch

	einfo "Done." # done applying Gentoo patches
	echo

	# not needed, we have it extra
	rm -rf src/rapper/{libxml2,gc7.0} \|\| die

	sed \
	-e "s:/usr:${EPREFIX}/usr:g" \
	-e 's:-Wl,-rpath,$CLIB::g' \
	-e 's: -rpath $CLIB::g' \
	-e 's: -I${srcdir}/include/cpp_c_headers::g' \
	-e 's:sleep 1:sleep .2:g' \
	-i configure \|\| die

	gnuconfig_update

	for i in lib/DiffractionImage src/rapper src/pisa; do
	pushd ${i} > /dev/null
	sed 's:-g::g' -i configure* \|\| die
	[[ -f configure.in ]] && mv configure.{in,ac}
	eautoreconf
	popd > /dev/null
	done

	## unbundle libssm
	sed -e '/libdir/s:ssm::g' -i Makefile.in \|\| die
	find ./lib/src/mmdb ./lib/ssm ./lib/clipper ./lib/fftw lib/lapack -delete \|\| die
	}

	src_configure() {
	rm -rf lib/DiffractionImage/{jpg,CBFlib} \|\| die

	# Build system is broken if we set LDFLAGS
	userldflags="${LDFLAGS}"
	export SHARED_LIB_FLAGS="${LDFLAGS}"
	unset LDFLAGS

	# GENTOO_OSNAME can be one of:
	# irix irix64 sunos sunos64 aix hpux osf1 linux freebsd
	# linux_compaq_compilers linux_intel_compilers generic Darwin
	# ia64_linux_intel Darwin_ibm_compilers linux_ibm_compilers
	if [[ "$(tc-getFC)" = "ifort" ]]; then
	if use ia64; then
	GENTOO_OSNAME="ia64_linux_intel"
	else
	# Should be valid for x86, maybe amd64
	GENTOO_OSNAME="linux_intel_compilers"
	fi
	else
	# Should be valid for x86 and amd64, at least
	GENTOO_OSNAME="linux"
	fi

	# Sets up env
	ln -s \
	ccp4.setup-bash \
	"${S}"/include/ccp4.setup \|\| die

	# We agree to the license by emerging this, set in LICENSE
	sed -i \
	-e "s~^\(^agreed=\).*~\1yes~g" \
	"${S}"/configure \|\| die

	# Fix up variables -- need to reset CCP4_MASTER at install-time
	sed -i \
	-e "s~^\(setenv CCP4_MASTER.\)/.~\1${WORKDIR}~g" \
	-e "s~^\(export CCP4_MASTER.\)/.~\1${WORKDIR}~g" \
	-e "s~^\(.export CBIN=.\)\$CCP4.*~\1\$CCP4/libexec/ccp4/bin/~g" \
	-e "s~^\(.setenv CBIN .\)\$CCP4.*~\1\$CCP4/libexec/ccp4/bin/~g" \
	-e "s~^\(setenv CCP4I_TCLTK.*\)/usr/local/bin~\1${EPREFIX}/usr/bin~g" \
	"${S}"/include/ccp4.setup* \|\| die

	# Set up variables for build
	source "${S}"/include/ccp4.setup-sh

	export CC=$(tc-getCC)
	export CXX=$(tc-getCXX)
	export COPTIM=${CFLAGS}
	export CXXOPTIM=${CXXFLAGS}
	# Default to -O2 if FFLAGS is unset
	export FC=$(tc-getFC)
	export FOPTIM=${FFLAGS:- -O2}

	export SHARE_LIB="\
	$(tc-getCC) ${userldflags} -shared -Wl,-soname,libccp4c.so -o libccp4c.so \${CORELIBOBJS} \${CGENERALOBJS} \${CUCOBJS} \${CMTZOBJS} \${CMAPOBJS} \${CSYMOBJS} -L../ccif/ -lccif $(gcc-config -L \| awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lm && \
	$(tc-getFC) ${userldflags} -shared -Wl,-soname,libccp4f.so -o libccp4f.so \${FORTRANLOBJS} \${FINTERFACEOBJS} -L../ccif/ -lccif -L. -lccp4c $($(tc-getPKG_CONFIG) --libs mmdb) $(gcc-config -L \| awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lstdc++ -lgfortran -lm"

	# Can't use econf, configure rejects unknown options like --prefix
	./configure \
	--onlylibs \
	--with-shared-libs \
	--with-fftw="${EPREFIX}/usr" \
	--with-warnings \
	--disable-cctbx \
	--disable-clipper \
	--disable-ssm \
	--tmpdir="${TMPDIR}" \
	--bindir="${EPREFIX}/usr/libexec/ccp4/bin/" \
	--libdir="${EPREFIX}/usr/$(get_libdir)" \
	${GENTOO_OSNAME} \|\| die "configure failed"
	}

	src_compile() {
	emake DESTDIR="${D}" onlylib
	}

	src_install() {
	# Set up variables for build
	source "${S}"/include/ccp4.setup-sh

	emake \
	DESTDIR="${D}" \
	includedir="${EPREFIX}/usr/include" \
	library_includedir="${EPREFIX}/usr/include" \
	install

	sed \
	-e "330,1000d" \
	-i "${S}"/include/ccp4.setup-sh \|\| die

	sed \
	-e "378,1000d" \
	-i "${S}"/include/ccp4.setup-csh \|\| die

	sed \
	-e "s:-${PV/-r*/}::g" \
	-e "s:^\(.export CCP4_MASTER=\).:\1${EPREFIX}/usr:g" \
	-e "s:^\(.setenv CCP4_MASTER\).:\1 ${EPREFIX}/usr:g" \
	-e "s:^\(.export CCP4=\).CCP4_MASTER.*:\1${EPREFIX}/usr:g" \
	-e "s:^\(.setenv CCP4\).CCP4_MASTER.*:\1 ${EPREFIX}/usr:g" \
	-e "s:^\(.export CCP4_SCR=\).:\1${EPREFIX}/tmp:g" \
	-e "s:^\(.setenv CCP4_SCR \).:\1${EPREFIX}/tmp:g" \
	-e "s:^\(.export BINSORT_SCR=\).:\1${EPREFIX}/tmp:g" \
	-e "s:^\(.setenv BINSORT_SCR \).:\1${EPREFIX}/tmp:g" \
	-e "s:^\(.export CCP4I_TOP=\).:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i:g" \
	-e "s:^\(.setenv CCP4I_TOP \).:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i:g" \
	-e "s:^\(.export CCP4I_TCLTK=\).:\1${EPREFIX}/usr/bin:g" \
	-e "s:^\(.setenv CCP4I_TCLTK \).:\1${EPREFIX}/usr/bin:g" \
	-e "s:^\(.export CCP4I_HELP=\).:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i/help:g" \
	-e "s:^\(.setenv CCP4I_HELP \).:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i/help:g" \
	-e "s:^\(.export CBIN=\).:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
	-e "s:^\(.setenv CBIN \).:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
	-e "s:^\(.export CCP4_BIN=\).:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
	-e "s:^\(.setenv CCP4_BIN \).:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
	-e "s:^\(.export CLIBD_MON=\).:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
	-e "s:^\(.setenv CLIBD_MON \).:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
	-e "s:^\(.export CLIBD=\).:\1${EPREFIX}/usr/share/ccp4/data:g" \
	-e "s:^\(.setenv CLIBD \).:\1${EPREFIX}/usr/share/ccp4/data:g" \
	-e "s:^\(.export CCP4_LIB=\).:\1${EPREFIX}/usr/$(get_libdir):g" \
	-e "s:^\(.setenv CCP4_LIB \).:\1${EPREFIX}/usr/$(get_libdir):g" \
	-e "s:^\(.export CCP4_BROWSER=\).:\1firefox:g" \
	-e "s:^\(.setenv CCP4_BROWSER \).:\1firefox:g" \
	-e "s:^\(.export MANPATH=\).:\1\${MANPATH}:g" \
	-e "s:^\(.setenv MANPATH \).:\1\${MANPATH}:g" \
	-e "s:^\(.export DBCCP4I_TOP=\).:\1${EPREFIX}/usr/share/ccp4/dbccp4i:g" \
	-e "s:^\(.setenv DBCCP4I_TOP \).:\1${EPREFIX}/usr/share/ccp4/dbccp4i:g" \
	-e "s:^\(.export MOLREPLIB=\).:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
	-e "s:^\(.setenv MOLREPLIB \).:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
	-e "s:^\(.export CDOC=\).:\1${EPREFIX}/usr/share/doc:g" \
	-e "s:^\(.setenv CDOC \).:\1${EPREFIX}/usr/share/doc:g" \
	-e "s:^\(.export CEXAM=\).:\1${EPREFIX}/usr/share/doc/examples:g" \
	-e "s:^\(.setenv CEXAM \).:\1${EPREFIX}/usr/share/doc/examples:g" \
	-e "s:^\(.export CINCL=\).:\1${EPREFIX}/usr/share/ccp4/include:g" \
	-e "s:^\(.setenv CINCL \).:\1${EPREFIX}/usr/share/ccp4/include:g" \
	-e "s:\$CLIB/font84.dat:\"${EPREFIX}/usr/$(get_libdir)/font84.dat\":g" \
	-e "s:\$CLIB/cif_mmdic.lib:\"${EPREFIX}/usr/$(get_libdir)/cif_mmdic.lib\":g" \
	-e '/# .*LD_LIBRARY_PATH specifies/,/^$/d' \
	-e '/CLIB=/d' \
	-e '/CLIB /d' \
	-e '/CLIBS=/d' \
	-e '/CLIBS /d' \
	-e "/alias/d" \
	-e "/CCP4_HELPDIR/d" \
	-e "/IMOSFLM_VERSION/d" \
	-i "${S}"/include/ccp4.setup* \|\| die

	# Don't check for updates on every sourcing of /etc/profile
	sed -i \
	-e "s:\(eval python.*\):#\1:g" \
	"${S}"/include/ccp4.setup* \|\| die

	# Libs
	for file in "${S}"/lib/*; do
	if [[ -d ${file} ]]; then
	continue
	elif [[ -x ${file} ]]; then
	dolib.so ${file}
	else
	insinto /usr/$(get_libdir)
	doins ${file}
	fi
	done

	prune_libtool_files

	sed \
	-e 's:test "LD_LIBRARY_PATH":test "$LD_LIBRARY_PATH":g' \
	-i "${S}"/include/ccp4.setup-sh \|\| die

	if ! use minimal; then
	# Setup scripts
	insinto /etc/profile.d
	newins "${S}"/include/ccp4.setup-csh 40ccp4.setup.csh
	newins "${S}"/include/ccp4.setup-sh 40ccp4.setup.sh

	# Data
	insinto /usr/share/ccp4/data/
	doins -r "${S}"/lib/data/{.PARM,.prt,.lib,.dic,.idl,.cif,.resource,.york,*.hist,fraglib,reference_structures}

	# Environment files, setup scripts, etc.
	rm -rf "${S}"/include/{ccp4.setup*,COPYING,cpp_c_headers} \|\| die
	insinto /usr/share/ccp4/
	doins -r "${S}"/include
	fi

	rm -f "${S}"/include/ccp4.setup* \|\| die

	dodoc "${S}"/lib/data/*.doc
	newdoc "${S}"/lib/data/README DATA-README
	}

	pkg_postinst() {
	einfo "The Web browser defaults to firefox. Change CCP4_BROWSER"
	einfo "in ${EPREFIX}/etc/profile.d/40ccp4.setup* to modify this."
	}

	# Epatch wrapper for bulk patching
	ccp_patch() {
	EPATCH_SINGLE_MSG=" ${1##*/} ..." epatch ${1}
	}