1 files changed, 82 insertions, 0 deletions
diff --git a/sci-biology/seqan/seqan-2.2.0-r1.ebuild b/sci-biology/seqan/seqan-2.2.0-r1.ebuild
new file mode 100644
index 000000000000..313186fefcdc
--- /dev/null
+++ b/sci-biology/seqan/seqan-2.2.0-r1.ebuild
@@ -0,0 +1,82 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit cmake-utils python-single-r1
+
+DESCRIPTION="C++ Sequence Analysis Library"
+HOMEPAGE="http://www.seqan.de/"
+SRC_URI="http://packages.${PN}.de/${PN}-src/${PN}-src-${PV}.tar.gz"
+
+SLOT="0"
+LICENSE="BSD GPL-3"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="cpu_flags_x86_sse4_1 doc test"
+RDEPEND="
+	app-arch/bzip2
+	sys-libs/zlib
+	!!sci-biology/seqan:2.0
+	!!sci-biology/seqan:2.1
+	!!sci-biology/seqan:2.2"
+DEPEND="${RDEPEND}
+	${PYTHON_DEPS}
+	doc? ( dev-python/sphinx[${PYTHON_USEDEP}] )
+	test? ( dev-python/nose[${PYTHON_USEDEP}] )"
+
+REQUIRED_USE="doc? ( ${PYTHON_REQUIRED_USE} ) test? ( ${PYTHON_REQUIRED_USE} ) cpu_flags_x86_sse4_1"
+
+S="${WORKDIR}"/${PN}-${PN}-v${PV}
+
+src_prepare() {
+	seqan_major_ver=$(get_version_component_range 1)
+	seqan_majorminor_ver=$(get_version_component_range 1-2)
+
+	# install docs in proper Gentoo structure
+	sed -e "s#share/doc/seqan#share/doc/${PF}#" \
+		-e "s#\"share/doc/\${APP_NAME}\"#\"share/doc/${PF}/\${APP_NAME}\"#" \
+		-i util/cmake/SeqAnBuildSystem.cmake dox/CMakeLists.txt || die
+
+	# cmake module
+	sed -e "s#find_path(_SEQAN_BASEDIR \"seqan\"#find_path(_SEQAN_BASEDIR \"seqan-${seqan_majorminor_ver}\"#" \
+		-e 's#NO_DEFAULT_PATH)#PATHS /usr)#' \
+		-e "s#set(SEQAN_INCLUDE_DIRS_MAIN \${SEQAN_INCLUDE_DIRS_MAIN} \${_SEQAN_BASEDIR})#set(SEQAN_INCLUDE_DIRS_MAIN \${SEQAN_INCLUDE_DIRS_MAIN} \${_SEQAN_BASEDIR}/seqan-${seqan_majorminor_ver})#" \
+		-i util/cmake/FindSeqAn.cmake || die
+
+	# pkg-config file
+	sed -e "s#includedir=\${prefix}/include#includedir=\${prefix}/include/${PN}-${seqan_majorminor_ver}#" \
+		-i util/pkgconfig/${PN}.pc.in || die
+
+	rm -f util/cmake/FindZLIB.cmake || die
+	cmake-utils_src_prepare
+}
+
+src_configure() {
+	local mycmakeargs=(
+		-DSEQAN_BUILD_SYSTEM=SEQAN_RELEASE_LIBRARY
+		-DSEQAN_NO_DOX=$(usex !doc)
+	)
+	cmake-utils_src_configure
+}
+
+src_compile() {
+	cmake-utils_src_compile
+	use doc && cmake-utils_src_compile -C "${BUILD_DIR}" dox
+}
+
+src_install() {
+	cmake-utils_src_install
+
+	# multi-version header such that different seqan versions can be installed in parallel
+	mkdir "${ED%/}"/usr/include/${PN}-${seqan_majorminor_ver} || die
+	mv "${ED%/}"/usr/include/${PN}{,-${seqan_majorminor_ver}/} || die
+
+	# pkg-config file
+	mv "${ED%/}"/usr/share/pkgconfig/${PN}-{${seqan_major_ver},${seqan_majorminor_ver}}.pc || die
+
+	# create pkg-config symlink to restore default behaviour
+	dosym ${PN}-${seqan_majorminor_ver}.pc /usr/share/pkgconfig/${PN}-${seqan_major_ver}.pc
+}