* [gentoo-commits] proj/sci:master commit in: sci-biology/Atlas-Link/
@ 2020-09-27 22:43 Horea Christian
0 siblings, 0 replies; 3+ messages in thread
From: Horea Christian @ 2020-09-27 22:43 UTC (permalink / raw
To: gentoo-commits
commit: 767570471714492950777b01427b0eeafae98709
Author: Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sun Sep 27 22:36:25 2020 +0000
Commit: Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sun Sep 27 22:43:20 2020 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=76757047
sci-biology/Atlas-Link: removed discontinued package
Package-Manager: Portage-3.0.8, Repoman-3.0.1
Signed-off-by: Horea Christian <chr <AT> chymera.eu>
sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild | 26 ------------------------
sci-biology/Atlas-Link/metadata.xml | 12 -----------
2 files changed, 38 deletions(-)
diff --git a/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild b/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
deleted file mode 100644
index 9324bc4f8..000000000
--- a/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit perl-module
-
-DESCRIPTION="Link and orient genome sequence contigs using mate-pair information"
-HOMEPAGE="https://www.hgsc.bcm.edu/software/atlas-link"
-SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz -> ${P}.tar.gz"
-
-LICENSE="HGSC-BCM"
-SLOT="0"
-KEYWORDS=""
-IUSE=""
-
-# https://github.com/gitpan/Algorithm-ClusterPoints
-DEPEND="
- dev-lang/perl
- dev-perl/Graph
- dev-perl/Algorithm-ClusterPoints
- dev-perl/XML-DOM
- dev-perl/Statistics-Descriptive"
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}"/Atlas-link
diff --git a/sci-biology/Atlas-Link/metadata.xml b/sci-biology/Atlas-Link/metadata.xml
deleted file mode 100644
index 138cb7705..000000000
--- a/sci-biology/Atlas-Link/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>
^ permalink raw reply related [flat|nested] 3+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/Atlas-Link/
@ 2016-02-26 9:46 Justin Lecher
0 siblings, 0 replies; 3+ messages in thread
From: Justin Lecher @ 2016-02-26 9:46 UTC (permalink / raw
To: gentoo-commits
commit: 774fed3afd5665e21069cb814c5e2c2fbc8f7185
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Fri Feb 26 09:46:02 2016 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Feb 26 09:46:02 2016 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=774fed3a
sci-biology/Atlas-Link: Fix source location to new upstream setup * Chop DESCRIPTION to < 80 chars
* Bump to EAPI=6
Package-Manager: portage-2.2.27
Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
.../{Atlas-Link-0.01.ebuild => Atlas-Link-0.01-r1.ebuild} | 11 ++++++-----
sci-biology/Atlas-Link/metadata.xml | 2 +-
2 files changed, 7 insertions(+), 6 deletions(-)
diff --git a/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild b/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
similarity index 68%
rename from sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
rename to sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
index 58e2948..59a33b4 100644
--- a/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
+++ b/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
@@ -1,14 +1,14 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
-EAPI=5
+EAPI=6
inherit perl-module
-DESCRIPTION="Links and orients genome sequence contigs using mate-pair information or superscaffolds .agp files"
+DESCRIPTION="Link and orient genome sequence contigs using mate-pair information"
HOMEPAGE="https://www.hgsc.bcm.edu/software/atlas-link"
-SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz"
+SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz -> ${P}.tar.gz"
LICENSE="HGSC-BCM"
SLOT="0"
@@ -16,7 +16,8 @@ KEYWORDS=""
IUSE=""
# https://github.com/gitpan/Algorithm-ClusterPoints
-DEPEND="dev-lang/perl
+DEPEND="
+ dev-lang/perl
dev-perl/Graph
dev-perl/Algorithm-ClusterPoints
dev-perl/XML-DOM
diff --git a/sci-biology/Atlas-Link/metadata.xml b/sci-biology/Atlas-Link/metadata.xml
index 1699e58..f68a1b6 100644
--- a/sci-biology/Atlas-Link/metadata.xml
+++ b/sci-biology/Atlas-Link/metadata.xml
@@ -5,7 +5,7 @@
<email>mmokrejs@fold.natur.cuni.cz</email>
<name>Martin Mokrejs</name>
</maintainer>
-<maintainer type="project">
+ <maintainer type="project">
<email>sci-biology@gentoo.org</email>
<name>Gentoo Biology Project</name>
</maintainer>
^ permalink raw reply related [flat|nested] 3+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/Atlas-Link/
@ 2014-07-04 13:42 Martin Mokrejs
0 siblings, 0 replies; 3+ messages in thread
From: Martin Mokrejs @ 2014-07-04 13:42 UTC (permalink / raw
To: gentoo-commits
commit: 76473186d32683782345c0271a225416c49e7d27
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Fri Jul 4 13:41:22 2014 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Fri Jul 4 13:41:22 2014 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=76473186
sci-biology/Atlas-Link: noted dependence, see bug #516366
---
sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild | 26 ++++++++++++++++++++++++++
sci-biology/Atlas-Link/ChangeLog | 10 ++++++++++
sci-biology/Atlas-Link/metadata.xml | 9 +++++++++
3 files changed, 45 insertions(+)
diff --git a/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild b/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
new file mode 100644
index 0000000..bb15e64
--- /dev/null
+++ b/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
@@ -0,0 +1,26 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit perl-module
+
+DESCRIPTION="Links and orients genome sequence contigs using mate-pair information or superscaffolds .agp files"
+HOMEPAGE="https://www.hgsc.bcm.edu/software/atlas-link"
+SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz"
+
+LICENSE="HGSC-BCM"
+SLOT="0"
+KEYWORDS=""
+IUSE=""
+
+# https://github.com/gitpan/Algorithm-ClusterPoints
+DEPEND="dev-lang/perl
+ dev-perl/Graph
+ dev-perl/Algorithm-ClusterPoints
+ dev-perl/XML-DOM
+ dev-perl/Statistics-Descriptive"
+RDEPEND="${DEPEND}"
+
+S="${WORKDIR}"/Atlas-link
diff --git a/sci-biology/Atlas-Link/ChangeLog b/sci-biology/Atlas-Link/ChangeLog
new file mode 100644
index 0000000..cb92c11
--- /dev/null
+++ b/sci-biology/Atlas-Link/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-biology/Atlas-Link
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*Atlas-Link-0.01 (04 Jul 2014)
+
+ 04 Jul 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ +Atlas-Link-0.01.ebuild, +metadata.xml:
+ sci-biology/Atlas-Link: noted dependence, see bug #516366
+
diff --git a/sci-biology/Atlas-Link/metadata.xml b/sci-biology/Atlas-Link/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/Atlas-Link/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>
^ permalink raw reply related [flat|nested] 3+ messages in thread
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