sci-biology/seqan: Remove old and broken ebuilds

Package-Manager: portage-2.2.28

5 files changed, 0 insertions, 178 deletions

diff --git a/sci-biology/seqan/Manifest b/sci-biology/seqan/Manifest
index d7fdca839ecf..ab534dc90b93 100644
--- a/sci-biology/seqan/Manifest
+++ b/sci-biology/seqan/Manifest
@@ -1,4 +1,2 @@
-DIST seqan-1.3.1.zip 8787521 SHA256 87eebe73ace9ada2f4664a768ae212d4acc5fb3ce87702709c3d15bf2d153aeb SHA512 dafacccb4647fd0fc5a055d33390cb85f1c00ca74132e9b3839a739916acf9a2990db7db4f09e34f899b283cad8ccf6553a60cc7693164f250f08260c8ce8ae4 WHIRLPOOL 5a0a80d09e80285a4fc9fb9fb71adbea6b0b324a6a219cd7c9ef3d30e88133f5b25b3cf792b2b89e4ed07ff612f4aa347dc6f94e06974f947fe980c2e0a5d26b
 DIST seqan-src-1.4.2.tar.gz 120601994 SHA256 2b2c48572ea82fc2ac6a6e46bbd4204b6f8200fde717612797426af5ff6b82c3 SHA512 dbb56167c507b70111619a414054d9e70f1db42507bbfdf9e40c5dcbbe9489ad4187d882e638a675e96551c860c08f8203c929c4c9a558b19ea7d6059f50492a WHIRLPOOL 3c7f38e35d826adad94d53d359df8b5f1fb51746f3103457b12b41bd0bf161dc463d4a1932b0b23f2274d723c796116af0940260e1922ce806bb2466445788f0
-DIST seqan-src-2.0.0.tar.gz 115731415 SHA256 69cb39574e63de2f728715255ac7ffd26db6480d6ce33c8601eef05f282aed28 SHA512 9823b109c27fa770b86a72530ebb4f6ca4541f8f6cf979724730cd8c59809192c14178c01a9ec13ef0277c997c4c37f00c80bba1fef5ef57c367ae8285b0215a WHIRLPOOL afa5dd41106390f63523990ce876ef74952ce7787a2772c2116bafd564d466e588809e4c5812b5aa1137408a0291de739b70a9a1e116d212967f68f5246217f4
 DIST seqan-src-2.1.1.tar.gz 110874831 SHA256 df083d5939d7e73fd00bbc6bb291ac7ea7b8d446cf89a9758fdffdc0eca9ec1c SHA512 b82eb93129921eb867785add46d63f667c07f40556cd431acc73489c1032c19ff65b49415697415bdc7b788ffb8a80ab8d9e987fa38fc39c2399ff265fdc333f WHIRLPOOL b684d14db0cf22c7d1428c589293ee69674225e5b91845532f3135950a5a6178d4434b783177b3622e8661247856a20b42a7fb9275df4324124d2b21d728790f
diff --git a/sci-biology/seqan/files/seqan-2.0.0-zlib.patch b/sci-biology/seqan/files/seqan-2.0.0-zlib.patch
deleted file mode 100644
index de14e9d58b8e..000000000000
--- a/sci-biology/seqan/files/seqan-2.0.0-zlib.patch
+++ /dev/null
@@ -1,15 +0,0 @@
- include/seqan/stream/zipstream/zutil.h | 1 +
- 1 file changed, 1 insertion(+)
-
-diff --git a/include/seqan/stream/zipstream/zutil.h b/include/seqan/stream/zipstream/zutil.h
-index 2806344..f8b41e6 100644
---- a/include/seqan/stream/zipstream/zutil.h
-+++ b/include/seqan/stream/zipstream/zutil.h
-@@ -152,6 +152,7 @@ extern const char *z_errmsg[10]; /* indexed by 2-zlib_error */
- 
-          /* functions */
- 
-+#define OF(x) x
- #ifdef HAVE_STRERROR
-    extern char *strerror OF((int));
- #  define zstrerror(errnum) strerror(errnum)
diff --git a/sci-biology/seqan/seqan-1.3.1-r1.ebuild b/sci-biology/seqan/seqan-1.3.1-r1.ebuild
deleted file mode 100644
index 2bcb7f651f5b..000000000000
--- a/sci-biology/seqan/seqan-1.3.1-r1.ebuild
+++ /dev/null
@@ -1,50 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit cmake-utils flag-o-matic python-single-r1
-
-DESCRIPTION="C++ Sequence Analysis Library"
-HOMEPAGE="http://www.seqan.de/"
-SRC_URI="http://ftp.seqan.de/releases/${P}.zip"
-
-SLOT="0"
-LICENSE="BSD GPL-3"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-IUSE=""
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="${PYTHON_DEPS}
-	~sci-biology/samtools-0.1.19"
-DEPEND="${RDEPEND}"
-
-S="${WORKDIR}"/${P}/cmake
-
-pkg_setup() {
-	if [[ ${MERGE_TYPE} != binary ]]; then
-		[[ $(gcc-major-version) -gt 4 ]] || \
-		( [[ $(gcc-major-version) -eq 4 && $(gcc-minor-version) -gt 8 ]] ) \
-		&& die "Sorry, but gcc 4.9 or higher is unsupported"
-	fi
-}
-
-src_prepare() {
-	append-cppflags -I"${EPREFIX}/usr/include/bam"
-	rm -rf "${S}"/../lib/samtools || die
-
-	sed \
-		-e "s:docs:docs/.:g" \
-		-e "/DESTINATION/s:seqan:doc/${PF}/html:g" \
-		-i CMakeLists.txt || die
-
-	sed \
-		-e "/DESTINATION/s:bin):share/${PN}):g" \
-		-i apps/CMakeLists.txt || die
-
-	cmake-utils_src_prepare
-}
diff --git a/sci-biology/seqan/seqan-1.4.2.ebuild b/sci-biology/seqan/seqan-1.4.2.ebuild
deleted file mode 100644
index 4b9740c2d205..000000000000
--- a/sci-biology/seqan/seqan-1.4.2.ebuild
+++ /dev/null
@@ -1,60 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit cmake-utils flag-o-matic 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"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE} cpu_flags_x86_sse4_1"
-
-RDEPEND="${PYTHON_DEPS}
-	sci-biology/samtools"
-DEPEND="${RDEPEND}"
-
-PATCHES=(
-	"${FILESDIR}"/${P}-shared.patch
-	"${FILESDIR}"/${P}-include.patch
-)
-
-src_prepare() {
-	append-cppflags -msse4.1
-	rm -f \
-		util/cmake/FindZLIB.cmake \
-		|| die
-	touch extras/apps/seqan_flexbar/README || die
-	sed \
-		-e "s:share/doc:share/doc/${PF}:g" \
-		-i docs/CMakeLists.txt util/cmake/SeqAnBuildSystem.cmake || die
-	cmake-utils_src_prepare
-}
-
-src_configure() {
-	local mycmakeargs=(
-		-DBoost_NO_BOOST_CMAKE=ON
-	)
-	cmake-utils_src_configure
-}
-
-src_install() {
-	mkdir -p "${BUILD_DIR}"/docs/html || die
-	cmake-utils_src_install
-	chmod 755 "${ED}"/usr/bin/*sh || die
-
-	mv "${ED}"/usr/bin/{,seqan-}join || die
-}
-
-pkg_postinst() {
-	elog "Due to filecollision the 'join' binary has been renamed to seqan-join"
-}
diff --git a/sci-biology/seqan/seqan-2.0.0.ebuild b/sci-biology/seqan/seqan-2.0.0.ebuild
deleted file mode 100644
index 5437e6df9f5b..000000000000
--- a/sci-biology/seqan/seqan-2.0.0.ebuild
+++ /dev/null
@@ -1,51 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit cmake-utils flag-o-matic 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"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE} cpu_flags_x86_sse4_1"
-
-RDEPEND="${PYTHON_DEPS}
-	dev-libs/boost:=
-	sci-biology/samtools"
-DEPEND="${RDEPEND}"
-
-S="${WORKDIR}"/${PN}-${PN}-v${PV}
-
-PATCHES=(
-	"${FILESDIR}"/${P}-zlib.patch
-)
-
-src_prepare() {
-	rm -f \
-		util/cmake/FindZLIB.cmake \
-		|| die
-	cmake-utils_src_prepare
-}
-
-src_configure() {
-	local mycmakeargs=(
-		-DBoost_NO_BOOST_CMAKE=ON
-	)
-	cmake-utils_src_configure
-}
-
-src_install() {
-	mkdir -p "${BUILD_DIR}"/docs/html || die
-	cmake-utils_src_install
-	chmod 755 "${ED}"/usr/bin/*sh || die
-}