* [gentoo-commits] proj/sci:master commit in: sci-biology/smalt-bin/
@ 2011-03-03 1:25 Martin Mokrejs
0 siblings, 0 replies; 4+ messages in thread
From: Martin Mokrejs @ 2011-03-03 1:25 UTC (permalink / raw
To: gentoo-commits
commit: b1a3838988dbce2229be1acb41d6dc6bf8f5a5c2
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Thu Mar 3 01:25:08 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Thu Mar 3 01:25:08 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=b1a38389
sci-biology/smalt-bin: an alternative to ssaha2 for even shorter reads
(Portage version: 2.1.9.28/git/Linux i686, unsigned Manifest commit)
---
sci-biology/smalt-bin/metadata.xml | 9 +++++++
sci-biology/smalt-bin/smalt-bin-0.5.0.ebuild | 33 ++++++++++++++++++++++++++
2 files changed, 42 insertions(+), 0 deletions(-)
diff --git a/sci-biology/smalt-bin/metadata.xml b/sci-biology/smalt-bin/metadata.xml
new file mode 100644
index 0000000..07b5255
--- /dev/null
+++ b/sci-biology/smalt-bin/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+ <herd>sci-biology</herd>
+ <maintainer>
+ <email>mmokrejs@fold.natur.cuni.cz</email>
+ <name>Martin Mokrejs</name>
+ </maintainer>
+</pkgmetadata>
diff --git a/sci-biology/smalt-bin/smalt-bin-0.5.0.ebuild b/sci-biology/smalt-bin/smalt-bin-0.5.0.ebuild
new file mode 100644
index 0000000..1e13f95
--- /dev/null
+++ b/sci-biology/smalt-bin/smalt-bin-0.5.0.ebuild
@@ -0,0 +1,33 @@
+# Copyright 1999-2011 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=3
+
+DESCRIPTION="Pairwise sequence alignment mapping DNA reads onto genomic reference, better over SSAHA2."
+HOMEPAGE="http://www.sanger.ac.uk/resources/software/smalt/"
+SRC_URI="ftp://ftp.sanger.ac.uk/pub4/resources/software/smalt/smalt-0.5.0.tgz"
+
+LICENSE="GRL"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}"
+
+S="${WORKDIR}"/smalt-"${PV}"
+
+src_install(){
+ if use x86; then
+ newbin smalt_i386 smalt || die
+ fi
+ if use amd64; then
+ newbin smalt_x86_64 smalt || die
+ fi
+ if use ia64; then
+ newbin smalt_ia64 || die
+ fi
+ dodoc NEWS smalt_manual.pdf || die
+ doman smalt.1 || die
+}
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/smalt-bin/
@ 2011-03-06 12:16 Martin Mokrejs
0 siblings, 0 replies; 4+ messages in thread
From: Martin Mokrejs @ 2011-03-06 12:16 UTC (permalink / raw
To: gentoo-commits
commit: eedf114fda741a6c37074ea1186acb9156d42f86
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sun Mar 6 12:14:04 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sun Mar 6 12:14:04 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=eedf114f
sci-biology/smalt-bin-0.5.1: version bump
(Portage version: 2.1.9.28/git/Linux i686, unsigned Manifest commit)
---
...alt-bin-0.5.0.ebuild => smalt-bin-0.5.1.ebuild} | 2 +-
1 files changed, 1 insertions(+), 1 deletions(-)
diff --git a/sci-biology/smalt-bin/smalt-bin-0.5.0.ebuild b/sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild
similarity index 97%
rename from sci-biology/smalt-bin/smalt-bin-0.5.0.ebuild
rename to sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild
index 1e13f95..9124a6c 100644
--- a/sci-biology/smalt-bin/smalt-bin-0.5.0.ebuild
+++ b/sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild
@@ -6,7 +6,7 @@ EAPI=3
DESCRIPTION="Pairwise sequence alignment mapping DNA reads onto genomic reference, better over SSAHA2."
HOMEPAGE="http://www.sanger.ac.uk/resources/software/smalt/"
-SRC_URI="ftp://ftp.sanger.ac.uk/pub4/resources/software/smalt/smalt-0.5.0.tgz"
+SRC_URI="ftp://ftp.sanger.ac.uk/pub4/resources/software/smalt/smalt-"${PV}".tgz"
LICENSE="GRL"
SLOT="0"
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/smalt-bin/
@ 2011-06-25 17:21 Justin Lecher
0 siblings, 0 replies; 4+ messages in thread
From: Justin Lecher @ 2011-06-25 17:21 UTC (permalink / raw
To: gentoo-commits
commit: 7425632b1897ebe8bdc4848c92be09eff06646f1
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sat Jun 25 12:59:45 2011 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sat Jun 25 12:59:45 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=7425632b
Cleaned ebuild and fixed LICENSE
(Portage version: 2.2.0_alpha41/git/Linux x86_64, signed Manifest commit with key 70EB7916)
---
sci-biology/smalt-bin/ChangeLog | 7 +++++++
sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild | 26 +++++++++-----------------
2 files changed, 16 insertions(+), 17 deletions(-)
diff --git a/sci-biology/smalt-bin/ChangeLog b/sci-biology/smalt-bin/ChangeLog
new file mode 100644
index 0000000..f3268fd
--- /dev/null
+++ b/sci-biology/smalt-bin/ChangeLog
@@ -0,0 +1,7 @@
+# ChangeLog for sci-biology/smalt-bin
+# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+ 25 Jun 2011; Justin Lecher <jlec@gentoo.org> smalt-bin-0.5.1.ebuild:
+ Cleaned ebuild and fixed LICENSE
+
diff --git a/sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild b/sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild
index 9124a6c..7566c20 100644
--- a/sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild
+++ b/sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild
@@ -2,32 +2,24 @@
# Distributed under the terms of the GNU General Public License v2
# $Header: $
-EAPI=3
+EAPI=4
-DESCRIPTION="Pairwise sequence alignment mapping DNA reads onto genomic reference, better over SSAHA2."
+DESCRIPTION="Pairwise sequence alignment mapping DNA reads onto genomic reference, better over SSAHA2"
HOMEPAGE="http://www.sanger.ac.uk/resources/software/smalt/"
SRC_URI="ftp://ftp.sanger.ac.uk/pub4/resources/software/smalt/smalt-"${PV}".tgz"
-LICENSE="GRL"
+LICENSE="as-is"
SLOT="0"
KEYWORDS="~x86 ~amd64"
IUSE=""
-DEPEND=""
-RDEPEND="${DEPEND}"
-
S="${WORKDIR}"/smalt-"${PV}"
src_install(){
- if use x86; then
- newbin smalt_i386 smalt || die
- fi
- if use amd64; then
- newbin smalt_x86_64 smalt || die
- fi
- if use ia64; then
- newbin smalt_ia64 || die
- fi
- dodoc NEWS smalt_manual.pdf || die
- doman smalt.1 || die
+ use x86 && newbin smalt_i386 smalt
+ use amd64 && newbin smalt_x86_64 smalt
+ use ia64 && newbin smalt_ia64
+
+ dodoc NEWS smalt_manual.pdf
+ doman smalt.1
}
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/smalt-bin/
@ 2021-01-19 9:35 Andrew Ammerlaan
0 siblings, 0 replies; 4+ messages in thread
From: Andrew Ammerlaan @ 2021-01-19 9:35 UTC (permalink / raw
To: gentoo-commits
commit: 1337d9fce7f3de3d236ae22cc3a0a22422fac06a
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Tue Jan 19 09:35:01 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Tue Jan 19 09:35:01 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=1337d9fc
sci-biology/smalt-bin: version bump, EAPI bump
Package-Manager: Portage-3.0.13, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
.../{smalt-bin-0.7.4.ebuild => smalt-bin-0.7.6.ebuild} | 11 +++++------
1 file changed, 5 insertions(+), 6 deletions(-)
diff --git a/sci-biology/smalt-bin/smalt-bin-0.7.4.ebuild b/sci-biology/smalt-bin/smalt-bin-0.7.6.ebuild
similarity index 69%
rename from sci-biology/smalt-bin/smalt-bin-0.7.4.ebuild
rename to sci-biology/smalt-bin/smalt-bin-0.7.6.ebuild
index 2059abad6..780bf4210 100644
--- a/sci-biology/smalt-bin/smalt-bin-0.7.4.ebuild
+++ b/sci-biology/smalt-bin/smalt-bin-0.7.6.ebuild
@@ -1,21 +1,20 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=5
+EAPI=7
MY_PN="${PN%-bin}"
MY_P="${MY_PN}-${PV}"
DESCRIPTION="Pairwise sequence alignment mapping DNA reads onto genomic reference"
-HOMEPAGE="http://www.sanger.ac.uk/resources/software/smalt/"
-SRC_URI="ftp://ftp.sanger.ac.uk/pub4/resources/software/${MY_PN}/${MY_P}.tgz"
+HOMEPAGE="https://sourceforge.net/projects/smalt/"
+SRC_URI="https://sourceforge.net/projects/${MY_PN}/files/${MY_P}-bin.tar.gz"
LICENSE="all-rights-reserved"
SLOT="0"
KEYWORDS="~amd64 ~x86"
-IUSE=""
-S="${WORKDIR}"/${MY_P}
+S="${WORKDIR}/${MY_P}-bin"
QA_PREBUILT="/opt/.*"
^ permalink raw reply related [flat|nested] 4+ messages in thread
end of thread, other threads:[~2021-01-19 9:35 UTC | newest]
Thread overview: 4+ messages (download: mbox.gz follow: Atom feed
-- links below jump to the message on this page --
2011-06-25 17:21 [gentoo-commits] proj/sci:master commit in: sci-biology/smalt-bin/ Justin Lecher
-- strict thread matches above, loose matches on Subject: below --
2021-01-19 9:35 Andrew Ammerlaan
2011-03-06 12:16 Martin Mokrejs
2011-03-03 1:25 Martin Mokrejs
This is a public inbox, see mirroring instructions
for how to clone and mirror all data and code used for this inbox