* [gentoo-commits] gentoo-x86 commit in sci-biology/glimmer: ChangeLog glimmer-3.02-r1.ebuild
@ 2009-12-28 19:14 Andrey Kislyuk (weaver)
0 siblings, 0 replies; 3+ messages in thread
From: Andrey Kislyuk (weaver) @ 2009-12-28 19:14 UTC (permalink / raw
To: gentoo-commits
weaver 09/12/28 19:14:27
Modified: ChangeLog glimmer-3.02-r1.ebuild
Log:
QA fixes, including bug 298223
(Portage version: 2.2_rc30/cvs/Linux x86_64)
Revision Changes Path
1.4 sci-biology/glimmer/ChangeLog
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?rev=1.4&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?rev=1.4&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?r1=1.3&r2=1.4
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- ChangeLog 4 Jan 2009 01:24:22 -0000 1.3
+++ ChangeLog 28 Dec 2009 19:14:26 -0000 1.4
@@ -1,6 +1,10 @@
# ChangeLog for sci-biology/glimmer
# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v 1.3 2009/01/04 01:24:22 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v 1.4 2009/12/28 19:14:26 weaver Exp $
+
+ 28 Dec 2009; Andrey Kislyuk <weaver@gentoo.org>
+ +files/glimmer-3.02-glibc210.patch, glimmer-3.02-r1.ebuild:
+ QA fixes, including bug 298223
*glimmer-3.02-r1 (04 Jan 2009)
1.2 sci-biology/glimmer/glimmer-3.02-r1.ebuild
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?rev=1.2&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?rev=1.2&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?r1=1.1&r2=1.2
Index: glimmer-3.02-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- glimmer-3.02-r1.ebuild 4 Jan 2009 01:24:22 -0000 1.1
+++ glimmer-3.02-r1.ebuild 28 Dec 2009 19:14:26 -0000 1.2
@@ -1,10 +1,12 @@
# Copyright 1999-2009 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v 1.1 2009/01/04 01:24:22 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v 1.2 2009/12/28 19:14:26 weaver Exp $
-inherit versionator
+EAPI="2"
-MY_PV=$(delete_all_version_separators)
+inherit eutils
+
+MY_PV=${PV//./}
DESCRIPTION="An HMM-based microbial gene finding system from TIGR"
HOMEPAGE="http://www.cbcb.umd.edu/software/glimmer/"
@@ -16,26 +18,33 @@
KEYWORDS="~amd64 ~x86"
DEPEND=""
-RDEPEND="!app-crypt/pkcrack
+RDEPEND="app-shells/tcsh
+ !app-crypt/pkcrack
!media-libs/libextractor"
S="${WORKDIR}/${PN}${PV}"
-src_compile() {
+src_prepare() {
sed -i -e 's|\(set awkpath =\).*|\1 /usr/share/'${PN}'/scripts|' \
-e 's|\(set glimmerpath =\).*|\1 /usr/bin|' scripts/* || die "failed to rewrite paths"
- sed -i 's/include <string>/include <string.h>/' src/Common/delcher.hh
- cd src
- emake || die "emake failed"
+ # Fix Makefile to die on failure
+ sed -i 's/$(MAKE) $(TGT)/$(MAKE) $(TGT) || exit 1/' src/c_make.gen || die
+ # GCC 4.3 include fix
+ sed -i 's/include <string>/include <string.h>/' src/Common/delcher.hh || die
+ epatch "${FILESDIR}/${PN}-${PV}-glibc210.patch"
+}
+
+src_compile() {
+ emake -C src || die
}
src_install() {
rm bin/test
- dobin bin/*
+ dobin bin/* || die
dodir /usr/share/${PN}/scripts
insinto /usr/share/${PN}/scripts
- doins scripts/*
+ doins scripts/* || die
dodoc glim302notes.pdf
}
^ permalink raw reply [flat|nested] 3+ messages in thread
* [gentoo-commits] gentoo-x86 commit in sci-biology/glimmer: ChangeLog glimmer-3.02-r1.ebuild
@ 2009-12-29 20:37 Christian Faulhammer (fauli)
0 siblings, 0 replies; 3+ messages in thread
From: Christian Faulhammer (fauli) @ 2009-12-29 20:37 UTC (permalink / raw
To: gentoo-commits
fauli 09/12/29 20:37:48
Modified: ChangeLog glimmer-3.02-r1.ebuild
Log:
stable x86, bug 298762
(Portage version: 2.1.6.13/cvs/Linux i686)
Revision Changes Path
1.5 sci-biology/glimmer/ChangeLog
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?rev=1.5&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?rev=1.5&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?r1=1.4&r2=1.5
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- ChangeLog 28 Dec 2009 19:14:26 -0000 1.4
+++ ChangeLog 29 Dec 2009 20:37:48 -0000 1.5
@@ -1,6 +1,10 @@
# ChangeLog for sci-biology/glimmer
# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v 1.4 2009/12/28 19:14:26 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v 1.5 2009/12/29 20:37:48 fauli Exp $
+
+ 29 Dec 2009; Christian Faulhammer <fauli@gentoo.org>
+ glimmer-3.02-r1.ebuild:
+ stable x86, bug 298762
28 Dec 2009; Andrey Kislyuk <weaver@gentoo.org>
+files/glimmer-3.02-glibc210.patch, glimmer-3.02-r1.ebuild:
1.3 sci-biology/glimmer/glimmer-3.02-r1.ebuild
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?rev=1.3&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?rev=1.3&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?r1=1.2&r2=1.3
Index: glimmer-3.02-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v
retrieving revision 1.2
retrieving revision 1.3
diff -u -r1.2 -r1.3
--- glimmer-3.02-r1.ebuild 28 Dec 2009 19:14:26 -0000 1.2
+++ glimmer-3.02-r1.ebuild 29 Dec 2009 20:37:48 -0000 1.3
@@ -1,6 +1,6 @@
# Copyright 1999-2009 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v 1.2 2009/12/28 19:14:26 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v 1.3 2009/12/29 20:37:48 fauli Exp $
EAPI="2"
@@ -15,7 +15,7 @@
LICENSE="Artistic"
SLOT="0"
IUSE=""
-KEYWORDS="~amd64 ~x86"
+KEYWORDS="~amd64 x86"
DEPEND=""
RDEPEND="app-shells/tcsh
^ permalink raw reply [flat|nested] 3+ messages in thread
* [gentoo-commits] gentoo-x86 commit in sci-biology/glimmer: ChangeLog glimmer-3.02-r1.ebuild
@ 2010-01-03 14:17 Pacho Ramos (pacho)
0 siblings, 0 replies; 3+ messages in thread
From: Pacho Ramos (pacho) @ 2010-01-03 14:17 UTC (permalink / raw
To: gentoo-commits
pacho 10/01/03 14:17:04
Modified: ChangeLog glimmer-3.02-r1.ebuild
Log:
amd64 stable, bug 298762
(Portage version: 2.1.7.15/cvs/Linux x86_64)
Revision Changes Path
1.6 sci-biology/glimmer/ChangeLog
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?rev=1.6&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?rev=1.6&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/ChangeLog?r1=1.5&r2=1.6
Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- ChangeLog 29 Dec 2009 20:37:48 -0000 1.5
+++ ChangeLog 3 Jan 2010 14:17:04 -0000 1.6
@@ -1,6 +1,9 @@
# ChangeLog for sci-biology/glimmer
-# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v 1.5 2009/12/29 20:37:48 fauli Exp $
+# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/ChangeLog,v 1.6 2010/01/03 14:17:04 pacho Exp $
+
+ 03 Jan 2010; Pacho Ramos <pacho@gentoo.org> glimmer-3.02-r1.ebuild:
+ amd64 stable, bug 298762
29 Dec 2009; Christian Faulhammer <fauli@gentoo.org>
glimmer-3.02-r1.ebuild:
1.4 sci-biology/glimmer/glimmer-3.02-r1.ebuild
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?rev=1.4&view=markup
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?rev=1.4&content-type=text/plain
diff : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild?r1=1.3&r2=1.4
Index: glimmer-3.02-r1.ebuild
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -r1.3 -r1.4
--- glimmer-3.02-r1.ebuild 29 Dec 2009 20:37:48 -0000 1.3
+++ glimmer-3.02-r1.ebuild 3 Jan 2010 14:17:04 -0000 1.4
@@ -1,6 +1,6 @@
-# Copyright 1999-2009 Gentoo Foundation
+# Copyright 1999-2010 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v 1.3 2009/12/29 20:37:48 fauli Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/glimmer/glimmer-3.02-r1.ebuild,v 1.4 2010/01/03 14:17:04 pacho Exp $
EAPI="2"
@@ -15,7 +15,7 @@
LICENSE="Artistic"
SLOT="0"
IUSE=""
-KEYWORDS="~amd64 x86"
+KEYWORDS="amd64 x86"
DEPEND=""
RDEPEND="app-shells/tcsh
^ permalink raw reply [flat|nested] 3+ messages in thread
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2009-12-29 20:37 Christian Faulhammer (fauli)
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