diff options
| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2015-04-27 13:00:54 +0200 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2015-04-27 13:00:54 +0200 |
| commit | 56eef21f8af41d10246dc582ce51ec09cd514c3e (patch) | |
| tree | e6fbef3eab2839fdeedeb204fa2a76b727c44b97 /sci-biology/bowtie | |
| parent | sci-biology/stacks: SRC_URI cleanup (diff) | |
| download | sci-56eef21f8af41d10246dc582ce51ec09cd514c3e.tar.gz sci-56eef21f8af41d10246dc582ce51ec09cd514c3e.tar.bz2 sci-56eef21f8af41d10246dc582ce51ec09cd514c3e.zip | |
sci-biology/bowtie: version bump
Package-Manager: portage-2.2.18
Diffstat (limited to 'sci-biology/bowtie')
| -rw-r--r-- | sci-biology/bowtie/ChangeLog | 8 | ||||
| -rw-r--r-- | sci-biology/bowtie/Manifest | 3 | ||||
| -rw-r--r-- | sci-biology/bowtie/bowtie-2.2.3.ebuild (renamed from sci-biology/bowtie/bowtie-2.2.4.ebuild) | 0 | ||||
| -rw-r--r-- | sci-biology/bowtie/bowtie-2.2.5.ebuild | 52 |
4 files changed, 61 insertions, 2 deletions
diff --git a/sci-biology/bowtie/ChangeLog b/sci-biology/bowtie/ChangeLog index f3d98e2c4..0bc0afa46 100644 --- a/sci-biology/bowtie/ChangeLog +++ b/sci-biology/bowtie/ChangeLog @@ -2,10 +2,16 @@ # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 # $Header: $ +*bowtie-2.2.3 (27 Apr 2015) +*bowtie-2.2.5 (27 Apr 2015) + + 27 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> + +bowtie-2.2.3.ebuild, +bowtie-2.2.5.ebuild, -bowtie-2.2.4.ebuild: + sci-biology/bowtie: version bump + 06 Feb 2015; Ted Tanberry <ted.tanberry@gmail.com> bowtie-1.1.1.ebuild, bowtie-2.2.4.ebuild: Version bump, updated ebuild, fixed small build system bugs 28 Sep 2013; Justin Lecher <jlec@gentoo.org> bowtie-2.1.0.ebuild: Exchange common variables, fix SRC_URI - diff --git a/sci-biology/bowtie/Manifest b/sci-biology/bowtie/Manifest index b9cb1c316..df99ece11 100644 --- a/sci-biology/bowtie/Manifest +++ b/sci-biology/bowtie/Manifest @@ -1,2 +1,3 @@ DIST bowtie-1.1.1-src.zip 7711451 SHA256 92aacb2d32065ebee433ce76eff673c24ed12591eb6c20e22ad7e4a790c48f72 SHA512 b7e2604902d846e5e1ce79ae79eceed5401070e7db76f6875d1617e277f8244a32930b334b20869c712bab58d7d88ae26f2569350c8324df4dddae0400c013f9 WHIRLPOOL 65d1248280b32ca1f6cf7c270895abdfbec27f32128915b13a01e43a7697a743f1872440f528b29413140c260e9b7f61b6a4d435f3f83be486972b6b1533d6a5 -DIST bowtie2-2.2.4-source.zip 5725498 SHA256 1f3482bf31111dbfb8b547f984c4755296316f6c48c33c7d3cf19c814785d0aa SHA512 f4d40cb9d6d8f6b956d9ac6e109dba15d2e3815bb7e6498465e7ee81b59b725ae118fd6ec385482605b0218e99ee13350127926df3efe6e6ab0da7ff816b654f WHIRLPOOL 561b67d206a5e5791d3034c28700e371bca18005ff13ae895a816d95e92f606c1f5f1ffdd41e581ce052417ebb386b8ca36f1dc9dc3ed30fb4b5b8607164befd +DIST bowtie2-2.2.3-source.zip 5724584 SHA256 c4f5ce9f0f53a6b8c7f573a26e96f6909f25bd4e0e8bd77191eaa10671baf0bf SHA512 3baf0e764a79e34b6767a62d52777fc528a82481f417ea5f1b24f38e01fac68c2870daff3060c8da11681d3270e15a10ede034356522336a94f0936d70874684 WHIRLPOOL e19ea1cee85c5ccbc198a981587e8832ebfb4bd9a02332d8171d218e89e6c84df5760db6cd1f8195b712097c6ff3ae7790415d1e63afd2632979392709de26ab +DIST bowtie2-2.2.5-source.zip 5725798 SHA256 e22766dd9421c10e82a3e207ee1f0eb924c025b909ad5fffa36633cd7978d3b0 SHA512 8b97860fea73ef36a60dee3dbccdfc956ac7f619ec47a7b820d1df09cff8f77362ddc8071b59ea8021444bda59757d68bdf486fb453d5c4e4b896198bc465d60 WHIRLPOOL 7a8eb7e6d723ccb807a1db3b724326764f8f339017c0b4eb6b234e034458e736ba521106bcc8347c3c428008d8f138f463f3c3e6033b781e1c41898735c2a878 diff --git a/sci-biology/bowtie/bowtie-2.2.4.ebuild b/sci-biology/bowtie/bowtie-2.2.3.ebuild index d8059fc9d..d8059fc9d 100644 --- a/sci-biology/bowtie/bowtie-2.2.4.ebuild +++ b/sci-biology/bowtie/bowtie-2.2.3.ebuild diff --git a/sci-biology/bowtie/bowtie-2.2.5.ebuild b/sci-biology/bowtie/bowtie-2.2.5.ebuild new file mode 100644 index 000000000..d8059fc9d --- /dev/null +++ b/sci-biology/bowtie/bowtie-2.2.5.ebuild @@ -0,0 +1,52 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: $ + +EAPI=5 + +inherit eutils toolchain-funcs + +DESCRIPTION="An ultrafast memory-efficient short read aligner" +HOMEPAGE="http://bowtie-bio.sourceforge.net/bowtie2/" +SRC_URI="mirror://sourceforge/project/${PN}-bio/${PN}2/${PV}/${PN}2-${PV}-source.zip" + +LICENSE="GPL-3" +SLOT="2" +KEYWORDS="~amd64 ~x86" + +IUSE="examples cpu_flags_x86_sse2" +REQUIRED_USE="cpu_flags_x86_sse2" + +RDEPEND="dev-lang/perl" +DEPEND="${RDEPEND} + app-arch/unzip" + +S="${WORKDIR}/${PN}2-${PV}" + +DOCS=( AUTHORS NEWS TUTORIAL ) +HTML_DOCS=( doc/{manual.html,style.css} ) + +src_compile() { + emake \ + CC="$(tc-getCC)" \ + CPP="$(tc-getCXX)" \ + CFLAGS="" \ + CXXFLAGS="" \ + EXTRA_FLAGS="${LDFLAGS}" \ + RELEASE_FLAGS="${CXXFLAGS} -msse2" +} + +src_install() { + dobin ${PN}2 ${PN}2-* + + exeinto /usr/libexec/${PN}2 + doexe scripts/* + + newman MANUAL ${PN}2.1 + einstalldocs + + if use examples; then + insinto /usr/share/${PN}2 + doins -r example + fi +} |