* [gentoo-commits] gentoo-x86 commit in sci-biology/maq: ChangeLog maq-0.7.1-r1.ebuild
@ 2011-04-14 7:46 Justin Lecher (jlec)
0 siblings, 0 replies; 5+ messages in thread
From: Justin Lecher (jlec) @ 2011-04-14 7:46 UTC (permalink / raw
To: gentoo-commits
jlec 11/04/14 07:46:28
Modified: ChangeLog
Added: maq-0.7.1-r1.ebuild
Log:
Fix for _FORTIFY_SOURCE indicates presence of overflow, #363537; Don't mix FLAGS
(Portage version: 2.2.0_alpha30/cvs/Linux x86_64)
Revision Changes Path
1.5 sci-biology/maq/ChangeLog
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.5&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.5&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?r1=1.4&r2=1.5
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- ChangeLog 4 Apr 2009 19:19:39 -0000 1.4
+++ ChangeLog 14 Apr 2011 07:46:27 -0000 1.5
@@ -1,6 +1,13 @@
# ChangeLog for sci-biology/maq
-# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.4 2009/04/04 19:19:39 maekke Exp $
+# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.5 2011/04/14 07:46:27 jlec Exp $
+
+*maq-0.7.1-r1 (14 Apr 2011)
+
+ 14 Apr 2011; Justin Lecher <jlec@gentoo.org> +maq-0.7.1-r1.ebuild,
+ +files/maq-0.7.1-bfr-overfl.patch, +files/maq-0.7.1-flags.patch:
+ Fix for _FORTIFY_SOURCE indicates presence of overflow, #363537; Don't mix
+ FLAGS
04 Apr 2009; Markus Meier <maekke@gentoo.org> maq-0.7.1.ebuild:
amd64/x86 stable, bug #263735
1.1 sci-biology/maq/maq-0.7.1-r1.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.1&content-type=text/plain
Index: maq-0.7.1-r1.ebuild
===================================================================
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.1 2011/04/14 07:46:27 jlec Exp $
EAPI="4"
inherit autotools eutils
DESCRIPTION="Mapping and Assembly with Qualities - mapping Solexa and SOLiD reads to reference sequences"
HOMEPAGE="http://maq.sourceforge.net/"
SRC_URI="
mirror://sourceforge/${PN}/${P}.tar.bz2
mirror://sourceforge/${PN}/calib-36.dat.gz"
LICENSE="GPL-3"
SLOT="0"
IUSE=""
KEYWORDS="~amd64 ~x86"
DEPEND=""
RDEPEND=""
src_prepare() {
epatch \
"${FILESDIR}"/${P}-flags.patch \
"${FILESDIR}"/${P}-bfr-overfl.patch
eautoreconf
}
src_install() {
default
insinto /usr/share/maq
doins "${WORKDIR}"/*.dat || die
doman maq.1
dodoc ${PN}.pdf
}
^ permalink raw reply [flat|nested] 5+ messages in thread
* [gentoo-commits] gentoo-x86 commit in sci-biology/maq: ChangeLog maq-0.7.1-r1.ebuild
@ 2011-12-15 22:01 Justin Lecher (jlec)
0 siblings, 0 replies; 5+ messages in thread
From: Justin Lecher (jlec) @ 2011-12-15 22:01 UTC (permalink / raw
To: gentoo-commits
jlec 11/12/15 22:01:03
Modified: ChangeLog maq-0.7.1-r1.ebuild
Log:
Respect multilib, keyworded for prefix linux, remove additionally die
(Portage version: 2.2.0_alpha81/cvs/Linux x86_64)
Revision Changes Path
1.6 sci-biology/maq/ChangeLog
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.6&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.6&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?r1=1.5&r2=1.6
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- ChangeLog 14 Apr 2011 07:46:27 -0000 1.5
+++ ChangeLog 15 Dec 2011 22:01:03 -0000 1.6
@@ -1,6 +1,9 @@
# ChangeLog for sci-biology/maq
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.5 2011/04/14 07:46:27 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.6 2011/12/15 22:01:03 jlec Exp $
+
+ 15 Dec 2011; Justin Lecher <jlec@gentoo.org> maq-0.7.1-r1.ebuild:
+ Respect multilib, keyworded for prefix linux, remove additionally die
*maq-0.7.1-r1 (14 Apr 2011)
1.2 sci-biology/maq/maq-0.7.1-r1.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.2&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.2&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?r1=1.1&r2=1.2
Index: maq-0.7.1-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- maq-0.7.1-r1.ebuild 14 Apr 2011 07:46:27 -0000 1.1
+++ maq-0.7.1-r1.ebuild 15 Dec 2011 22:01:03 -0000 1.2
@@ -1,8 +1,8 @@
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.1 2011/04/14 07:46:27 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.2 2011/12/15 22:01:03 jlec Exp $
-EAPI="4"
+EAPI=4
inherit autotools eutils
@@ -15,22 +15,22 @@
LICENSE="GPL-3"
SLOT="0"
IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND=""
-RDEPEND=""
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
src_prepare() {
epatch \
- "${FILESDIR}"/${P}-flags.patch \
- "${FILESDIR}"/${P}-bfr-overfl.patch
+ "${FILESDIR}"/${P}-flags.patch \
+ "${FILESDIR}"/${P}-bfr-overfl.patch
+ sed \
+ -e '/ext_CFLAGS/s:-m64::g' \
+ -i configure* || die
eautoreconf
}
src_install() {
default
insinto /usr/share/maq
- doins "${WORKDIR}"/*.dat || die
+ doins "${WORKDIR}"/*.dat
doman maq.1
dodoc ${PN}.pdf
}
^ permalink raw reply [flat|nested] 5+ messages in thread
* [gentoo-commits] gentoo-x86 commit in sci-biology/maq: ChangeLog maq-0.7.1-r1.ebuild
@ 2011-12-15 22:37 Justin Lecher (jlec)
0 siblings, 0 replies; 5+ messages in thread
From: Justin Lecher (jlec) @ 2011-12-15 22:37 UTC (permalink / raw
To: gentoo-commits
jlec 11/12/15 22:37:04
Modified: ChangeLog maq-0.7.1-r1.ebuild
Log:
Add missing dependency on sys-libs/zlib
(Portage version: 2.2.0_alpha81/cvs/Linux x86_64)
Revision Changes Path
1.8 sci-biology/maq/ChangeLog
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.8&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.8&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?r1=1.7&r2=1.8
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -r1.7 -r1.8
--- ChangeLog 15 Dec 2011 22:26:13 -0000 1.7
+++ ChangeLog 15 Dec 2011 22:37:04 -0000 1.8
@@ -1,6 +1,9 @@
# ChangeLog for sci-biology/maq
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.7 2011/12/15 22:26:13 ago Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.8 2011/12/15 22:37:04 jlec Exp $
+
+ 15 Dec 2011; Justin Lecher <jlec@gentoo.org> maq-0.7.1-r1.ebuild:
+ Add missing dependency on sys-libs/zlib
15 Dec 2011; Agostino Sarubbo <ago@gentoo.org> maq-0.7.1-r1.ebuild:
Stable for AMD64, wrt bug #393759
1.4 sci-biology/maq/maq-0.7.1-r1.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.4&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.4&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?r1=1.3&r2=1.4
Index: maq-0.7.1-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- maq-0.7.1-r1.ebuild 15 Dec 2011 22:26:13 -0000 1.3
+++ maq-0.7.1-r1.ebuild 15 Dec 2011 22:37:04 -0000 1.4
@@ -1,6 +1,6 @@
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.3 2011/12/15 22:26:13 ago Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.4 2011/12/15 22:37:04 jlec Exp $
EAPI=4
@@ -17,6 +17,9 @@
IUSE=""
KEYWORDS="amd64 ~x86 ~amd64-linux ~x86-linux"
+RDEPEND="sys-libs/zlib"
+DEPEND="${RDEPEND}"
+
src_prepare() {
epatch \
"${FILESDIR}"/${P}-flags.patch \
^ permalink raw reply [flat|nested] 5+ messages in thread
* [gentoo-commits] gentoo-x86 commit in sci-biology/maq: ChangeLog maq-0.7.1-r1.ebuild
@ 2011-12-18 19:53 PaweA Hajdan (phajdan.jr)
0 siblings, 0 replies; 5+ messages in thread
From: PaweA Hajdan (phajdan.jr) @ 2011-12-18 19:53 UTC (permalink / raw
To: gentoo-commits
phajdan.jr 11/12/18 19:53:20
Modified: ChangeLog maq-0.7.1-r1.ebuild
Log:
x86 stable wrt bug #393759
(Portage version: 2.1.10.11/cvs/Linux i686)
Revision Changes Path
1.9 sci-biology/maq/ChangeLog
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.9&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.9&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?r1=1.8&r2=1.9
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v
retrieving revision 1.8
retrieving revision 1.9
diff -u -r1.8 -r1.9
--- ChangeLog 15 Dec 2011 22:37:04 -0000 1.8
+++ ChangeLog 18 Dec 2011 19:53:20 -0000 1.9
@@ -1,6 +1,9 @@
# ChangeLog for sci-biology/maq
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.8 2011/12/15 22:37:04 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.9 2011/12/18 19:53:20 phajdan.jr Exp $
+
+ 18 Dec 2011; Pawel Hajdan jr <phajdan.jr@gentoo.org> maq-0.7.1-r1.ebuild:
+ x86 stable wrt bug #393759
15 Dec 2011; Justin Lecher <jlec@gentoo.org> maq-0.7.1-r1.ebuild:
Add missing dependency on sys-libs/zlib
1.5 sci-biology/maq/maq-0.7.1-r1.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.5&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.5&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?r1=1.4&r2=1.5
Index: maq-0.7.1-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- maq-0.7.1-r1.ebuild 15 Dec 2011 22:37:04 -0000 1.4
+++ maq-0.7.1-r1.ebuild 18 Dec 2011 19:53:20 -0000 1.5
@@ -1,6 +1,6 @@
# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.4 2011/12/15 22:37:04 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.5 2011/12/18 19:53:20 phajdan.jr Exp $
EAPI=4
@@ -15,7 +15,7 @@
LICENSE="GPL-3"
SLOT="0"
IUSE=""
-KEYWORDS="amd64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 x86 ~amd64-linux ~x86-linux"
RDEPEND="sys-libs/zlib"
DEPEND="${RDEPEND}"
^ permalink raw reply [flat|nested] 5+ messages in thread
* [gentoo-commits] gentoo-x86 commit in sci-biology/maq: ChangeLog maq-0.7.1-r1.ebuild
@ 2012-06-23 10:15 Justin Lecher (jlec)
0 siblings, 0 replies; 5+ messages in thread
From: Justin Lecher (jlec) @ 2012-06-23 10:15 UTC (permalink / raw
To: gentoo-commits
jlec 12/06/23 10:15:20
Modified: ChangeLog maq-0.7.1-r1.ebuild
Log:
sci-biology/maq: Add patch for gcc-4.7, #422869
(Portage version: 2.2.0_alpha110/cvs/Linux x86_64)
Revision Changes Path
1.10 sci-biology/maq/ChangeLog
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.10&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?rev=1.10&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/ChangeLog?r1=1.9&r2=1.10
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v
retrieving revision 1.9
retrieving revision 1.10
diff -u -r1.9 -r1.10
--- ChangeLog 18 Dec 2011 19:53:20 -0000 1.9
+++ ChangeLog 23 Jun 2012 10:15:20 -0000 1.10
@@ -1,6 +1,10 @@
# ChangeLog for sci-biology/maq
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.9 2011/12/18 19:53:20 phajdan.jr Exp $
+# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/ChangeLog,v 1.10 2012/06/23 10:15:20 jlec Exp $
+
+ 23 Jun 2012; Justin Lecher <jlec@gentoo.org> maq-0.7.1-r1.ebuild,
+ +files/maq-0.7.1-gcc-4.7.patch:
+ Add patch for gcc-4.7, #422869
18 Dec 2011; Pawel Hajdan jr <phajdan.jr@gentoo.org> maq-0.7.1-r1.ebuild:
x86 stable wrt bug #393759
1.6 sci-biology/maq/maq-0.7.1-r1.ebuild
file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.6&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?rev=1.6&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild?r1=1.5&r2=1.6
Index: maq-0.7.1-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- maq-0.7.1-r1.ebuild 18 Dec 2011 19:53:20 -0000 1.5
+++ maq-0.7.1-r1.ebuild 23 Jun 2012 10:15:20 -0000 1.6
@@ -1,6 +1,6 @@
-# Copyright 1999-2011 Gentoo Foundation
+# Copyright 1999-2012 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.5 2011/12/18 19:53:20 phajdan.jr Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/maq/maq-0.7.1-r1.ebuild,v 1.6 2012/06/23 10:15:20 jlec Exp $
EAPI=4
@@ -23,7 +23,8 @@
src_prepare() {
epatch \
"${FILESDIR}"/${P}-flags.patch \
- "${FILESDIR}"/${P}-bfr-overfl.patch
+ "${FILESDIR}"/${P}-bfr-overfl.patch \
+ "${FILESDIR}"/${P}-gcc-4.7.patch
sed \
-e '/ext_CFLAGS/s:-m64::g' \
-i configure* || die
^ permalink raw reply [flat|nested] 5+ messages in thread
end of thread, other threads:[~2012-06-23 10:15 UTC | newest]
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2011-12-15 22:01 Justin Lecher (jlec)
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2012-06-23 10:15 Justin Lecher (jlec)
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