diff options
| author |   Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> | 2019-02-19 12:26:14 +0100 |
|---|---|---|
| committer | Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> | 2019-02-19 12:26:14 +0100 |
| commit | b6846dd42e04e42c0103983272b6db0db248f75a (patch) | |
| tree | 01ed16036887ddca56fde0215556fd7114657e81 /sci-biology/bowtie | |
| parent | sci-biology/bowtie: removing -9999 ebuild (diff) | |
| download | sci-b6846dd42e04e42c0103983272b6db0db248f75a.tar.gz sci-b6846dd42e04e42c0103983272b6db0db248f75a.tar.bz2 sci-b6846dd42e04e42c0103983272b6db0db248f75a.zip | |
sci-biology/bowtie: removing not working -1.2.2 ebuild
Package-Manager: Portage-2.3.61, Repoman-2.3.12
Signed-off-by: Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
Diffstat (limited to 'sci-biology/bowtie')
| -rw-r--r-- | sci-biology/bowtie/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/bowtie/bowtie-1.2.2.ebuild | 77 |
2 files changed, 0 insertions, 78 deletions
diff --git a/sci-biology/bowtie/Manifest b/sci-biology/bowtie/Manifest index 58e5c5299..87beeab0c 100644 --- a/sci-biology/bowtie/Manifest +++ b/sci-biology/bowtie/Manifest @@ -1,2 +1 @@ -DIST bowtie-1.2.2-src.zip 7758948 BLAKE2B 76f16f1383af9caf18776616b28556124b02eba39236de745cff902feff85312c98972009a503229658ba4b6b13d6b5470373792de8703d1ef7ffc25ec11f5a7 SHA512 60e44515088c9a67b46b66bcab0c96e25134f5ef6b001f87b1992c6185d6a9e0addb4ddddc65036e1614d697ba9546bca4990bdc8b3a217b0506fafec69c01ce DIST bowtie2-2.3.4.3-source.zip 17156180 BLAKE2B 4004aa417f318f5540b129eb97d7f14d31b087c77bb767d547b195d3b966ec272fe7df5888d60b5501330d2ac011f05bdc9b062fa34d5b96b2b29ea0b6167a5c SHA512 9e048c1a86a479c5fe728a492129372d2366d6c50530e05db3faad5ac055596d9f95ac0a9f50099ab3dd945893a587c02e8aaa9b62cc3ead75f6691c52413a2f diff --git a/sci-biology/bowtie/bowtie-1.2.2.ebuild b/sci-biology/bowtie/bowtie-1.2.2.ebuild deleted file mode 100644 index cae085bff..000000000 --- a/sci-biology/bowtie/bowtie-1.2.2.ebuild +++ /dev/null @@ -1,77 +0,0 @@ -# Copyright 1999-2019 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=6 - -inherit flag-o-matic toolchain-funcs - -DESCRIPTION="Popular short read aligner for Next-generation sequencing data" -HOMEPAGE="http://bowtie-bio.sourceforge.net/" -SRC_URI="mirror://sourceforge/bowtie-bio/${P}-src.zip" - -LICENSE="Artistic" -SLOT="1" -KEYWORDS="" - -IUSE="examples +tbb" - -RDEPEND="tbb? ( dev-cpp/tbb )" -DEPEND="${RDEPEND} - sci-biology/seqan:1.4 - app-arch/unzip" - -DOCS=( AUTHORS NEWS TUTORIAL doc/README ) -HTML_DOCS=( doc/{manual.html,style.css} ) - -PATCHES=( - "${FILESDIR}/${P}-_ContextLss-1.1-1.4.patch" - "${FILESDIR}/${P}-fix-Intel-compilation.patch" - "${FILESDIR}/${P}-unbundle-seqan.patch" -) -# other patches to be still considered -# "${FILESDIR}/${P}-fix-setBegin-call.patch" -# "${FILESDIR}/${P}-seqan-popcount.patch" -# "${FILESDIR}/${P}-seqan-rename-ChunkPool.patch" -# "${FILESDIR}/${P}-seqan-rename-fill-to-resize.patch" -# "${FILESDIR}/${P}-spelling.patch" -# "${FILESDIR}/${P}-tbb-tinythread-missing.patch" -#) - -src_prepare() { - default - - # remove bundled libraries, use system seqan 1.4 - rm -rf SeqAn-1.1/ third_party/ || die - - # innocuous non-security flags, prevent log pollution - append-cxxflags \ - -Wno-unused-local-typedefs \ - -Wno-unused-but-set-variable \ - -Wno-unused-variable -} - -src_compile() { - emake \ - CC="$(tc-getCC)" \ - CPP="$(tc-getCXX)" \ - CFLAGS="" \ - CXXFLAGS="" \ - EXTRA_FLAGS="${LDFLAGS}" \ - RELEASE_FLAGS="${CXXFLAGS}" \ - WITH_TBB="$(usex tbb 1 0)" -} - -src_install() { - dobin ${PN} ${PN}-* - - exeinto /usr/libexec/${PN} - doexe scripts/* - - newman MANUAL ${PN}.1 - einstalldocs - - if use examples; then - insinto /usr/share/${PN} - doins -r genomes indexes - fi -} |