* [gentoo-commits] proj/sci:master commit in: sci-biology/velvetk/
@ 2014-04-15 9:08 Martin Mokrejs
0 siblings, 0 replies; 4+ messages in thread
From: Martin Mokrejs @ 2014-04-15 9:08 UTC (permalink / raw
To: gentoo-commits
commit: 6662c1697f2b8a3ca44c0f5e72cdafff5da4d7b8
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Apr 15 09:06:13 2014 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Apr 15 09:06:13 2014 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=6662c169
sci-biology/velvetk: new package
Package-Manager: portage-2.2.7
---
sci-biology/velvetk/ChangeLog | 9 +++++++++
sci-biology/velvetk/metadata.xml | 9 +++++++++
sci-biology/velvetk/velvetk-20120606.ebuild | 29 +++++++++++++++++++++++++++++
3 files changed, 47 insertions(+)
diff --git a/sci-biology/velvetk/ChangeLog b/sci-biology/velvetk/ChangeLog
new file mode 100644
index 0000000..add4df7
--- /dev/null
+++ b/sci-biology/velvetk/ChangeLog
@@ -0,0 +1,9 @@
+# ChangeLog for sci-biology/velvetk
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*velvetk-20120606 (15 Apr 2014)
+
+ 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
+ +velvetk-20120606.ebuild:
+ sci-biology/velvetk: new package
diff --git a/sci-biology/velvetk/metadata.xml b/sci-biology/velvetk/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/velvetk/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/velvetk/velvetk-20120606.ebuild b/sci-biology/velvetk/velvetk-20120606.ebuild
new file mode 100644
index 0000000..2ebb4f3
--- /dev/null
+++ b/sci-biology/velvetk/velvetk-20120606.ebuild
@@ -0,0 +1,29 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit perl-module
+
+DESCRIPTION="Estimate the best k-mer size to use for your Velvet de novo assembly"
+HOMEPAGE="http://www.vicbioinformatics.com/software.velvetk.shtml"
+SRC_URI="http://www.vicbioinformatics.com/velvetk.pl"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}"
+
+S="${WORKDIR}"
+
+src_prepare(){
+ cp -p "${DISTDIR}"/velvetk.pl . || die
+}
+
+src_install(){
+ dobin velvetk.pl
+}
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/velvetk/
@ 2015-01-07 21:40 Martin Mokrejs
0 siblings, 0 replies; 4+ messages in thread
From: Martin Mokrejs @ 2015-01-07 21:40 UTC (permalink / raw
To: gentoo-commits
commit: 2ac683eaf770db8ff97cc6f8c7aa8d2fd5bb7e74
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Wed Jan 7 21:39:09 2015 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Wed Jan 7 21:39:09 2015 +0000
URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=2ac683ea
added perl to dependencies
Package-Manager: portage-2.2.7
---
sci-biology/velvetk/ChangeLog | 6 +++++-
sci-biology/velvetk/velvetk-20120606.ebuild | 4 ++--
2 files changed, 7 insertions(+), 3 deletions(-)
diff --git a/sci-biology/velvetk/ChangeLog b/sci-biology/velvetk/ChangeLog
index add4df7..20f03c2 100644
--- a/sci-biology/velvetk/ChangeLog
+++ b/sci-biology/velvetk/ChangeLog
@@ -1,7 +1,11 @@
# ChangeLog for sci-biology/velvetk
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ velvetk-20120606.ebuild:
+ added perl to dependencies
+
*velvetk-20120606 (15 Apr 2014)
15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
diff --git a/sci-biology/velvetk/velvetk-20120606.ebuild b/sci-biology/velvetk/velvetk-20120606.ebuild
index 2ebb4f3..b6bfc94 100644
--- a/sci-biology/velvetk/velvetk-20120606.ebuild
+++ b/sci-biology/velvetk/velvetk-20120606.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: $
@@ -15,7 +15,7 @@ SLOT="0"
KEYWORDS="~amd64"
IUSE=""
-DEPEND=""
+DEPEND="dev-lang/perl"
RDEPEND="${DEPEND}"
S="${WORKDIR}"
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/velvetk/
@ 2015-01-10 13:35 Justin Lecher
0 siblings, 0 replies; 4+ messages in thread
From: Justin Lecher @ 2015-01-10 13:35 UTC (permalink / raw
To: gentoo-commits
commit: e342408b204d6966864aaebca258927ba00935e6
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sat Jan 10 12:56:34 2015 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sat Jan 10 12:56:34 2015 +0000
URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=e342408b
sci-biology/velvetk: Simplify ebuild
Package-Manager: portage-2.2.15
---
sci-biology/velvetk/ChangeLog | 3 +++
sci-biology/velvetk/velvetk-20120606.ebuild | 6 +-----
2 files changed, 4 insertions(+), 5 deletions(-)
diff --git a/sci-biology/velvetk/ChangeLog b/sci-biology/velvetk/ChangeLog
index 20f03c2..b1bf464 100644
--- a/sci-biology/velvetk/ChangeLog
+++ b/sci-biology/velvetk/ChangeLog
@@ -2,6 +2,9 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 10 Jan 2015; Justin Lecher <jlec@gentoo.org> velvetk-20120606.ebuild:
+ Simplify ebuild
+
07 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
velvetk-20120606.ebuild:
added perl to dependencies
diff --git a/sci-biology/velvetk/velvetk-20120606.ebuild b/sci-biology/velvetk/velvetk-20120606.ebuild
index b6bfc94..ae7940c 100644
--- a/sci-biology/velvetk/velvetk-20120606.ebuild
+++ b/sci-biology/velvetk/velvetk-20120606.ebuild
@@ -20,10 +20,6 @@ RDEPEND="${DEPEND}"
S="${WORKDIR}"
-src_prepare(){
- cp -p "${DISTDIR}"/velvetk.pl . || die
-}
-
src_install(){
- dobin velvetk.pl
+ dobin "${DISTDIR}"/velvetk.pl
}
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/velvetk/
@ 2019-03-30 23:37 Martin Mokrejs
0 siblings, 0 replies; 4+ messages in thread
From: Martin Mokrejs @ 2019-03-30 23:37 UTC (permalink / raw
To: gentoo-commits
commit: 52d9da4d866e95afa5270fb9533fa359df0a9957
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sat Mar 30 23:36:06 2019 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sat Mar 30 23:36:06 2019 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=52d9da4d
sci-biology/velvetk: drop faulty software per its author
From: Torsten S.
The velvetk.pl is faulty and should not be used.
Try `kmergenie` instead, or use the SPades Assembler.
sci-biology/velvetk/metadata.xml | 12 ------------
sci-biology/velvetk/velvetk-20120606.ebuild | 24 ------------------------
2 files changed, 36 deletions(-)
diff --git a/sci-biology/velvetk/metadata.xml b/sci-biology/velvetk/metadata.xml
deleted file mode 100644
index 138cb7705..000000000
--- a/sci-biology/velvetk/metadata.xml
+++ /dev/null
@@ -1,12 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
- <maintainer type="person">
- <email>mmokrejs@fold.natur.cuni.cz</email>
- <name>Martin Mokrejs</name>
- </maintainer>
- <maintainer type="project">
- <email>sci-biology@gentoo.org</email>
- <name>Gentoo Biology Project</name>
- </maintainer>
-</pkgmetadata>
diff --git a/sci-biology/velvetk/velvetk-20120606.ebuild b/sci-biology/velvetk/velvetk-20120606.ebuild
deleted file mode 100644
index a2fdb7c25..000000000
--- a/sci-biology/velvetk/velvetk-20120606.ebuild
+++ /dev/null
@@ -1,24 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit perl-module
-
-DESCRIPTION="Estimate the best k-mer size to use for your Velvet de novo assembly"
-HOMEPAGE="http://www.vicbioinformatics.com/software.velvetk.shtml"
-SRC_URI="http://www.vicbioinformatics.com/velvetk.pl"
-
-LICENSE="GPL-2"
-SLOT="0"
-KEYWORDS="~amd64"
-IUSE=""
-
-DEPEND="dev-lang/perl"
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}"
-
-src_install(){
- dobin "${DISTDIR}"/velvetk.pl
-}
^ permalink raw reply related [flat|nested] 4+ messages in thread
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