* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2015-03-31 16:19 Martin Mokrejs
0 siblings, 0 replies; 8+ messages in thread
From: Martin Mokrejs @ 2015-03-31 16:19 UTC (permalink / raw
To: gentoo-commits
commit: 3b0ca41e88d8131cf6aa944ff3da23ff743bd3a0
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Mar 31 16:19:08 2015 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Mar 31 16:19:08 2015 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=3b0ca41e
sci-biology/abacas: new package
Package-Manager: portage-2.2.18
sci-biology/abacas/ChangeLog | 9 +++++++++
sci-biology/abacas/abacas-1.3.1.ebuild | 33 +++++++++++++++++++++++++++++++++
sci-biology/abacas/metadata.xml | 9 +++++++++
3 files changed, 51 insertions(+)
diff --git a/sci-biology/abacas/ChangeLog b/sci-biology/abacas/ChangeLog
new file mode 100644
index 0000000..7f3ad38
--- /dev/null
+++ b/sci-biology/abacas/ChangeLog
@@ -0,0 +1,9 @@
+# ChangeLog for sci-biology/abacas
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*abacas-1.3.1 (31 Mar 2015)
+
+ 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ +abacas-1.3.1.ebuild, +metadata.xml:
+ sci-biology/abacas: new package
diff --git a/sci-biology/abacas/abacas-1.3.1.ebuild b/sci-biology/abacas/abacas-1.3.1.ebuild
new file mode 100644
index 0000000..e44862d
--- /dev/null
+++ b/sci-biology/abacas/abacas-1.3.1.ebuild
@@ -0,0 +1,33 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+DESCRIPTION="Order and orientate contigs, design primers for gap closing"
+HOMEPAGE="http://abacas.sourceforge.net"
+SRC_URI="http://downloads.sourceforge.net/project/abacas/abacas.1.3.1.pl"
+
+LICENSE="GPL-2+"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}
+ dev-lang/perl
+ sci-biology/mummer"
+
+S="${WORKDIR}"
+
+src_prepare(){
+ cp -p "${DISTDIR}"/abacas.1.3.1.pl abacas.pl || die
+ sed -i 's#/usr/local/bin/perl#/usr/bin/perl#' -i abacas.pl || die
+}
+src_install(){
+ dobin abacas.pl
+}
+
+pkg_postinst(){
+ einfo "To view the results use Artemis ACT (sci-biology/artemis)"
+}
diff --git a/sci-biology/abacas/metadata.xml b/sci-biology/abacas/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/abacas/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] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2015-03-31 16:30 Martin Mokrejs
0 siblings, 0 replies; 8+ messages in thread
From: Martin Mokrejs @ 2015-03-31 16:30 UTC (permalink / raw
To: gentoo-commits
commit: dd54616fed96ea4a72e618b1f1e040d8f79a488a
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Mar 31 16:29:53 2015 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Mar 31 16:29:53 2015 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=dd54616f
sci-biology/abacas: clarify description
Package-Manager: portage-2.2.18
sci-biology/abacas/ChangeLog | 3 +++
sci-biology/abacas/abacas-1.3.1.ebuild | 2 +-
2 files changed, 4 insertions(+), 1 deletion(-)
diff --git a/sci-biology/abacas/ChangeLog b/sci-biology/abacas/ChangeLog
index 7f3ad38..9c7e05d 100644
--- a/sci-biology/abacas/ChangeLog
+++ b/sci-biology/abacas/ChangeLog
@@ -2,6 +2,9 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> abacas-1.3.1.ebuild:
+ sci-biology/abacas: clarify description
+
*abacas-1.3.1 (31 Mar 2015)
31 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
diff --git a/sci-biology/abacas/abacas-1.3.1.ebuild b/sci-biology/abacas/abacas-1.3.1.ebuild
index e44862d..e0cdf72 100644
--- a/sci-biology/abacas/abacas-1.3.1.ebuild
+++ b/sci-biology/abacas/abacas-1.3.1.ebuild
@@ -4,7 +4,7 @@
EAPI=5
-DESCRIPTION="Order and orientate contigs, design primers for gap closing"
+DESCRIPTION="Order and orientate DNA contigs even via 6-frame protein alignments, design primers for gap closing"
HOMEPAGE="http://abacas.sourceforge.net"
SRC_URI="http://downloads.sourceforge.net/project/abacas/abacas.1.3.1.pl"
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2017-01-29 20:25 Justin Lecher
0 siblings, 0 replies; 8+ messages in thread
From: Justin Lecher @ 2017-01-29 20:25 UTC (permalink / raw
To: gentoo-commits
commit: 413ca5cc2148c5f228149e919814f7cd0db2b6ee
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sun Jan 29 20:25:00 2017 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sun Jan 29 20:25:16 2017 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=413ca5cc
sci-biology/abacas: QA fixes
Bump to EAPI 6
shorten DESCRIPTION
Use optfeature
Package-Manager: Portage-2.3.3, Repoman-2.3.1
Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
sci-biology/abacas/abacas-1.3.1.ebuild | 14 +++++++++-----
1 file changed, 9 insertions(+), 5 deletions(-)
diff --git a/sci-biology/abacas/abacas-1.3.1.ebuild b/sci-biology/abacas/abacas-1.3.1.ebuild
index aecd8da..43379c7 100644
--- a/sci-biology/abacas/abacas-1.3.1.ebuild
+++ b/sci-biology/abacas/abacas-1.3.1.ebuild
@@ -1,10 +1,12 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2017 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
-EAPI=5
+EAPI=6
-DESCRIPTION="Order and orientate DNA contigs even via 6-frame protein alignments, design primers for gap closing"
+inherit eutils
+
+DESCRIPTION="Order and orientate DNA contigs even via 6-frame protein alignments"
HOMEPAGE="http://abacas.sourceforge.net"
SRC_URI="http://downloads.sourceforge.net/project/abacas/abacas.1.3.1.pl"
@@ -22,12 +24,14 @@ S="${WORKDIR}"
src_prepare(){
cp -p "${DISTDIR}"/abacas.1.3.1.pl abacas.pl || die
- sed -i 's#/usr/local/bin/perl#/usr/bin/perl#' -i abacas.pl || die
+ sed \
+ -i 's#/usr/local/bin/perl#/usr/bin/perl#' \
+ -i abacas.pl || die
}
src_install(){
dobin abacas.pl
}
pkg_postinst(){
- einfo "To view the results use Artemis ACT (sci-biology/artemis)"
+ optfeature "To view the results use Artemis ACT" sci-biology/artemis
}
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2017-02-18 22:59 Martin Mokrejs
0 siblings, 0 replies; 8+ messages in thread
From: Martin Mokrejs @ 2017-02-18 22:59 UTC (permalink / raw
To: gentoo-commits
commit: 55099512e2b0081a002629cc68db4c907f243885
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sat Feb 18 22:59:34 2017 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sat Feb 18 22:59:34 2017 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=55099512
sci-biology/abacas: add eapply_user
Package-Manager: Portage-2.3.3, Repoman-2.3.1
sci-biology/abacas/abacas-1.3.1.ebuild | 1 +
1 file changed, 1 insertion(+)
diff --git a/sci-biology/abacas/abacas-1.3.1.ebuild b/sci-biology/abacas/abacas-1.3.1.ebuild
index 43379c718..d805f7611 100644
--- a/sci-biology/abacas/abacas-1.3.1.ebuild
+++ b/sci-biology/abacas/abacas-1.3.1.ebuild
@@ -27,6 +27,7 @@ src_prepare(){
sed \
-i 's#/usr/local/bin/perl#/usr/bin/perl#' \
-i abacas.pl || die
+ eapply_user
}
src_install(){
dobin abacas.pl
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2021-03-05 21:44 Andrew Ammerlaan
0 siblings, 0 replies; 8+ messages in thread
From: Andrew Ammerlaan @ 2021-03-05 21:44 UTC (permalink / raw
To: gentoo-commits
commit: be68c478c07dca08d8260b8ceb529a39f335bf93
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Fri Mar 5 21:18:32 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Fri Mar 5 21:18:32 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=be68c478
sci-biology/abacas: EAPI bump, fix optfeature
Package-Manager: Portage-3.0.16, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
sci-biology/abacas/abacas-1.3.1.ebuild | 11 +++++------
1 file changed, 5 insertions(+), 6 deletions(-)
diff --git a/sci-biology/abacas/abacas-1.3.1.ebuild b/sci-biology/abacas/abacas-1.3.1.ebuild
index 4112bb8df..9abddf036 100644
--- a/sci-biology/abacas/abacas-1.3.1.ebuild
+++ b/sci-biology/abacas/abacas-1.3.1.ebuild
@@ -1,18 +1,17 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=6
+EAPI=7
-inherit eutils
+inherit optfeature
DESCRIPTION="Order and orientate DNA contigs even via 6-frame protein alignments"
HOMEPAGE="http://abacas.sourceforge.net"
-SRC_URI="http://downloads.sourceforge.net/project/abacas/abacas.1.3.1.pl"
+SRC_URI="https://downloads.sourceforge.net/project/abacas/abacas.1.3.1.pl"
LICENSE="GPL-2+"
SLOT="0"
KEYWORDS="~amd64"
-IUSE=""
DEPEND=""
RDEPEND="${DEPEND}
@@ -26,7 +25,7 @@ src_prepare(){
sed \
-i 's#/usr/local/bin/perl#/usr/bin/perl#' \
-i abacas.pl || die
- eapply_user
+ default
}
src_install(){
dobin abacas.pl
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2023-02-10 13:52 Andrew Ammerlaan
0 siblings, 0 replies; 8+ messages in thread
From: Andrew Ammerlaan @ 2023-02-10 13:52 UTC (permalink / raw
To: gentoo-commits
commit: 1c43ca499c4bee0c73289a3bb8575d615ea55c4d
Author: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
AuthorDate: Fri Feb 10 13:52:29 2023 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Fri Feb 10 13:52:29 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=1c43ca49
sci-biology/abacas: fix static uri
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>
sci-biology/abacas/abacas-1.3.1.ebuild | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/sci-biology/abacas/abacas-1.3.1.ebuild b/sci-biology/abacas/abacas-1.3.1.ebuild
index 9abddf036..3a04e5e6b 100644
--- a/sci-biology/abacas/abacas-1.3.1.ebuild
+++ b/sci-biology/abacas/abacas-1.3.1.ebuild
@@ -7,7 +7,7 @@ inherit optfeature
DESCRIPTION="Order and orientate DNA contigs even via 6-frame protein alignments"
HOMEPAGE="http://abacas.sourceforge.net"
-SRC_URI="https://downloads.sourceforge.net/project/abacas/abacas.1.3.1.pl"
+SRC_URI="https://downloads.sourceforge.net/project/abacas/abacas.${PV}.pl"
LICENSE="GPL-2+"
SLOT="0"
@@ -21,7 +21,7 @@ RDEPEND="${DEPEND}
S="${WORKDIR}"
src_prepare(){
- cp -p "${DISTDIR}"/abacas.1.3.1.pl abacas.pl || die
+ cp -p "${DISTDIR}"/abacas.${PV}.pl abacas.pl || die
sed \
-i 's#/usr/local/bin/perl#/usr/bin/perl#' \
-i abacas.pl || die
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2023-02-17 20:46 Horea Christian
0 siblings, 0 replies; 8+ messages in thread
From: Horea Christian @ 2023-02-17 20:46 UTC (permalink / raw
To: gentoo-commits
commit: 253b8bbcdc0c24d1317d2b06abaa62afc637de5a
Author: Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Fri Feb 17 20:46:34 2023 +0000
Commit: Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Fri Feb 17 20:46:34 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=253b8bbc
sci-biology/abacas: update HOMEPAGE
Signed-off-by: Horea Christian <chr <AT> chymera.eu>
sci-biology/abacas/abacas-1.3.1.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-biology/abacas/abacas-1.3.1.ebuild b/sci-biology/abacas/abacas-1.3.1.ebuild
index 3a04e5e6b..c347b508b 100644
--- a/sci-biology/abacas/abacas-1.3.1.ebuild
+++ b/sci-biology/abacas/abacas-1.3.1.ebuild
@@ -6,7 +6,7 @@ EAPI=7
inherit optfeature
DESCRIPTION="Order and orientate DNA contigs even via 6-frame protein alignments"
-HOMEPAGE="http://abacas.sourceforge.net"
+HOMEPAGE="https://abacas.sourceforge.net"
SRC_URI="https://downloads.sourceforge.net/project/abacas/abacas.${PV}.pl"
LICENSE="GPL-2+"
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/abacas/
@ 2023-03-03 15:55 Horea Christian
0 siblings, 0 replies; 8+ messages in thread
From: Horea Christian @ 2023-03-03 15:55 UTC (permalink / raw
To: gentoo-commits
commit: 15ac292bd74961c69a100a6aefb7d5356e125620
Author: Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Fri Mar 3 15:53:47 2023 +0000
Commit: Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Fri Mar 3 15:55:07 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=15ac292b
sci-biology/abacas: update upstream metadata
Signed-off-by: Horea Christian <chr <AT> chymera.eu>
sci-biology/abacas/metadata.xml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-biology/abacas/metadata.xml b/sci-biology/abacas/metadata.xml
index 0f267b755..0bb7ca029 100644
--- a/sci-biology/abacas/metadata.xml
+++ b/sci-biology/abacas/metadata.xml
@@ -10,6 +10,6 @@
<name>Gentoo Biology Project</name>
</maintainer>
<upstream>
- <remote-id type="sourceforge">downloads</remote-id>
+ <remote-id type="sourceforge">abacas</remote-id>
</upstream>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 8+ messages in thread
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