bug_ebuild/gentoo/sci-chemistry/coot/coot-0.8.2-r1.ebuild

# Copyright 1999-2017 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2

EAPI=5

PYTHON_COMPAT=( python2_7 )

AUTOTOOLS_AUTORECONF="true"

inherit autotools-utils python-single-r1 toolchain-funcs versionator

MY_S2_PV=$(replace_version_separator 2 - ${PV})
MY_S2_P=${PN}-${MY_S2_PV/pre1/pre-1}
MY_S_P=${MY_S2_P}-${PR/r/revision-}
MY_PV=${PV}
MY_P=${PN}-${MY_PV}

DESCRIPTION="Crystallographic Object-Oriented Toolkit"
HOMEPAGE="https://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/"
SRC_URI="
	http://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/source/releases/${MY_P}.tar.gz
	test? ( https://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/data/greg-data.tar.gz -> ${P}-greg-data.tar.gz )"

SLOT="0"
LICENSE="GPL-3"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE="+openmp static-libs test"

REQUIRED_USE="${PYTHON_REQUIRED_USE}"

AUTOTOOLS_IN_SOURCE_BUILD=1

SCIDEPS="
	sci-libs/libccp4
	sci-libs/clipper
	>=sci-libs/coot-data-2
	>=sci-libs/gsl-1.3
	sci-libs/fftw:2.1=
	sci-libs/mmdb:2
	sci-libs/monomer-db
	sci-libs/ssm
	sci-chemistry/reduce
	sci-chemistry/probe"

XDEPS="
	gnome-base/libgnomecanvas
	gnome-base/librsvg:2
	media-libs/libpng:0=
	media-libs/freeglut
	x11-libs/gtk+:2
	x11-libs/goocanvas:0
	x11-libs/gtkglext
	virtual/opengl"

SCHEMEDEPS="
	<dev-scheme/guile-2
	dev-scheme/net-http
	dev-scheme/guile-gui
	>=dev-scheme/guile-lib-0.1.6
	dev-scheme/guile-www
	>=x11-libs/guile-gtk-2.1"

RDEPEND="
	${SCIDEPS}
	${XDEPS}
	${SCHEMEDEPS}
	${PYTHON_DEPS}
	dev-db/sqlite:3
	dev-libs/boost:0=[python,${PYTHON_USEDEP}]
	dev-libs/glib:2
	>=dev-libs/gmp-4.2.2-r2:0=
	dev-python/pygobject:2[${PYTHON_USEDEP}]
	dev-python/pygtk:2[${PYTHON_USEDEP}]
	>=net-misc/curl-7.19.6
	net-dns/libidn
	sys-libs/readline:0=
	"
DEPEND="${RDEPEND}
	virtual/pkgconfig
	>=sys-devel/libtool-2.4-r2
	dev-lang/swig
	sys-devel/bc
	test? ( dev-scheme/greg )"

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

pkg_setup() {
	if use openmp; then
		tc-has-openmp || die "Please use an OPENMP capable compiler"
	fi
	python-single-r1_pkg_setup
}

PATCHES=(
	"${FILESDIR}"/${P}-desktop.patch
	"${FILESDIR}"/${P}-sandbox-icons.patch
	"${FILESDIR}"/${P}-libtool.patch
	"${FILESDIR}"/${P}-libguile.patch
)

src_unpack() {
	default
	if use test; then
		cd "${S}" || die
		ln -sf ../greg-data || die
	fi
}

src_prepare() {
	sed \
		-e '/export LD_LIBRARY/s:^:#:g' \
		-i src/coot.in || die

	sed \
		-e "s:AM_COOT_SYS_BUILD_TYPE:COOT_SYS_BUILD_TYPE=Gentoo-Linux-${EPYTHON}-gtk2 ; AC_MSG_RESULT([\$COOT_SYS_BUILD_TYPE]); AC_SUBST(COOT_SYS_BUILD_TYPE):g" \
		-i configure.ac || die

	autotools-utils_src_prepare
}

src_configure() {
	# All the --with's are used to activate various parts.
	# Yes, this is broken behavior.
	local myeconfargs=(
		--with-goocanvas-prefix="${EPREFIX}/usr"
		--with-guile="${EPREFIX}/usr"
		--with-python="${EPREFIX}/usr"
		--with-guile-gtk
		--with-pygtk="${EPREFIX}/usr"
		--with-sqlite3
		--with-boost="${EPREFIX}/usr"
		)
	autotools-utils_src_configure
}

src_test() {
	source "${EPREFIX}/etc/profile.d/40ccp4.setup.sh"
	mkdir "${T}"/coot_test || die

	export COOT_STANDARD_RESIDUES="${S}/standard-residues.pdb"
	export COOT_SCHEME_DIR="${S}/scheme/"
	export COOT_RESOURCES_FILE="${S}/cootrc"
	export COOT_PIXMAPS_DIR="${S}/pixmaps/"
	export COOT_DATA_DIR="${S}/"
	export COOT_PYTHON_DIR="${S}/python/"
	export PYTHONPATH="${COOT_PYTHON_DIR}:${S}/src:${PYTHONPATH}"
	export PYTHONHOME="${EPREFIX}"/usr/
	export CCP4_SCR="${T}"/coot_test/
	export CLIBD_MON="${EPREFIX}/usr/share/data/monomers/"
	export COOT_REF_STRUCTS="${EPREFIX}/usr/share/data/monomers/"
	export SYMINFO="${S}/syminfo.lib"

	export COOT_TEST_DATA_DIR="${S}"/greg-data/

	cat > command-line-greg.scm <<- EOF
	(use-modules (ice-9 greg))
		(set! greg-tools (list "greg-tests"))
			(set! greg-debug #t)
			(set! greg-verbose 5)
			(let ((r (greg-test-run)))
				(if r
				(coot-real-exit 0)
				(coot-real-exit 1)))
	EOF

	einfo "Running test with following paths ..."
	einfo "COOT_STANDARD_RESIDUES $COOT_STANDARD_RESIDUES"
	einfo "COOT_SCHEME_DIR $COOT_SCHEME_DIR"
	einfo "COOT_RESOURCES_FILE $COOT_RESOURCES_FILE"
	einfo "COOT_PIXMAPS_DIR $COOT_PIXMAPS_DIR"
	einfo "COOT_DATA_DIR $COOT_DATA_DIR"
	einfo "COOT_PYTHON_DIR $COOT_PYTHON_DIR"
	einfo "PYTHONPATH $PYTHONPATH"
	einfo "PYTHONHOME $PYTHONHOME"
	einfo "CCP4_SCR ${CCP4_SCR}"
	einfo "CLIBD_MON ${CLIBD_MON}"
	einfo "SYMINFO ${SYMINFO}"

	"${S}"/src/coot-bin --no-graphics --script command-line-greg.scm || die
	"${S}"/src/coot-bin --no-graphics --script python-tests/coot_unittest.py || die
}