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-rw-r--r--sci-biology/sim4/ChangeLog7
-rw-r--r--sci-biology/sim4/sim4-20030921.ebuild10
-rw-r--r--sci-biology/transfac/ChangeLog7
-rw-r--r--sci-biology/transfac/transfac-3.2.ebuild10
-rw-r--r--sci-biology/trnascan-se/ChangeLog8
-rw-r--r--sci-biology/trnascan-se/trnascan-se-1.23-r1.ebuild18
-rw-r--r--sci-biology/wise/ChangeLog7
-rw-r--r--sci-biology/wise/wise-2.2.0.ebuild34
8 files changed, 57 insertions, 44 deletions
diff --git a/sci-biology/sim4/ChangeLog b/sci-biology/sim4/ChangeLog
index cbf225e88c26..935d212ff0ff 100644
--- a/sci-biology/sim4/ChangeLog
+++ b/sci-biology/sim4/ChangeLog
@@ -1,6 +1,9 @@
# ChangeLog for sci-biology/sim4
-# Copyright 2000-2004 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/sim4/ChangeLog,v 1.3 2004/12/23 18:25:35 swegener Exp $
+# Copyright 2000-2006 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/sim4/ChangeLog,v 1.4 2006/01/21 18:31:55 ribosome Exp $
+
+ 21 Jan 2006; Olivier Fisette <ribosome@gentoo.org> sim4-20030921.ebuild:
+ Ebuild clean-up.
*sim4-20030921 (23 Dec 2004)
diff --git a/sci-biology/sim4/sim4-20030921.ebuild b/sci-biology/sim4/sim4-20030921.ebuild
index ba96b4c63f9c..2c4e5c4709cd 100644
--- a/sci-biology/sim4/sim4-20030921.ebuild
+++ b/sci-biology/sim4/sim4-20030921.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2004 Gentoo Foundation
+# Copyright 1999-2006 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/sim4/sim4-20030921.ebuild,v 1.1 2004/12/23 16:05:37 ribosome Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/sim4/sim4-20030921.ebuild,v 1.2 2006/01/21 18:31:55 ribosome Exp $
DESCRIPTION="A program to align cDNA and genomic DNA"
HOMEPAGE="http://globin.cse.psu.edu/html/docs/sim4.html"
@@ -11,13 +11,13 @@ SLOT="0"
KEYWORDS="x86 ~ppc"
IUSE=""
-S=${WORKDIR}/${PN}.2003-09-21
+S="${WORKDIR}/${PN}.2003-09-21"
src_compile() {
emake || die
}
src_install() {
- dobin sim4
- dodoc README.psublast README.sim4 VERSION
+ dobin sim4 || die
+ dodoc README.psublast README.sim4 VERSION || die
}
diff --git a/sci-biology/transfac/ChangeLog b/sci-biology/transfac/ChangeLog
index 86987baa29e4..c83f205f5840 100644
--- a/sci-biology/transfac/ChangeLog
+++ b/sci-biology/transfac/ChangeLog
@@ -1,6 +1,9 @@
# ChangeLog for sci-biology/transfac
-# Copyright 2000-2005 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/transfac/ChangeLog,v 1.10 2005/11/19 18:22:22 blubb Exp $
+# Copyright 2000-2006 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/transfac/ChangeLog,v 1.11 2006/01/21 18:34:30 ribosome Exp $
+
+ 21 Jan 2006; Olivier Fisette <ribosome@gentoo.org> transfac-3.2.ebuild:
+ Ebuild clean-up.
19 Nov 2005; Simon Stelling <blubb@gentoo.org> transfac-3.2.ebuild:
stable on amd64
diff --git a/sci-biology/transfac/transfac-3.2.ebuild b/sci-biology/transfac/transfac-3.2.ebuild
index fc2242242f5e..616640d2a0c3 100644
--- a/sci-biology/transfac/transfac-3.2.ebuild
+++ b/sci-biology/transfac/transfac-3.2.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2005 Gentoo Foundation
+# Copyright 1999-2006 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/transfac/transfac-3.2.ebuild,v 1.10 2005/11/19 18:22:22 blubb Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/transfac/transfac-3.2.ebuild,v 1.11 2006/01/21 18:34:30 ribosome Exp $
DESCRIPTION="A database of eucaryotic transcription factors"
HOMEPAGE="http://www.gene-regulation.com/pub/databases.html"
@@ -15,7 +15,7 @@ IUSE="emboss minimal"
DEPEND="emboss? ( sci-biology/emboss )"
-S=${WORKDIR}
+S="${WORKDIR}"
src_compile() {
if use emboss; then
@@ -30,10 +30,10 @@ src_compile() {
src_install() {
if ! use minimal; then
insinto /usr/share/${PN}-${SLOT}
- doins *.dat
+ doins *.dat || die
fi
if use emboss; then
insinto /usr/share/EMBOSS/data
- doins tf*
+ doins tf* || die
fi
}
diff --git a/sci-biology/trnascan-se/ChangeLog b/sci-biology/trnascan-se/ChangeLog
index 6e72da4e8dcc..8002e8ce7413 100644
--- a/sci-biology/trnascan-se/ChangeLog
+++ b/sci-biology/trnascan-se/ChangeLog
@@ -1,6 +1,10 @@
# ChangeLog for sci-biology/trnascan-se
-# Copyright 1999-2005 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/trnascan-se/ChangeLog,v 1.3 2005/08/12 21:14:38 ribosome Exp $
+# Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/trnascan-se/ChangeLog,v 1.4 2006/01/21 18:36:49 ribosome Exp $
+
+ 21 Jan 2006; Olivier Fisette <ribosome@gentoo.org>
+ trnascan-se-1.23-r1.ebuild:
+ Ebuild clean-up.
*trnascan-se-1.23-r1 (12 Aug 2005)
diff --git a/sci-biology/trnascan-se/trnascan-se-1.23-r1.ebuild b/sci-biology/trnascan-se/trnascan-se-1.23-r1.ebuild
index 805ec8f762f0..fabae2fff939 100644
--- a/sci-biology/trnascan-se/trnascan-se-1.23-r1.ebuild
+++ b/sci-biology/trnascan-se/trnascan-se-1.23-r1.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2005 Gentoo Foundation
+# Copyright 1999-2006 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/trnascan-se/trnascan-se-1.23-r1.ebuild,v 1.1 2005/08/12 21:14:38 ribosome Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/trnascan-se/trnascan-se-1.23-r1.ebuild,v 1.2 2006/01/21 18:36:49 ribosome Exp $
inherit toolchain-funcs
@@ -17,7 +17,7 @@ DEPEND="dev-lang/perl"
src_unpack() {
unpack ${A}
- cd ${S}
+ cd "${S}"
sed -e "s%BINDIR = \$(HOME)/bin%BINDIR = ${ROOT}/usr/bin%" \
-e "s%LIBDIR = \$(HOME)/lib/tRNAscan-SE%LIBDIR = ${ROOT}/usr/lib/${PN}%" \
-e "s%MANDIR = \$(HOME)/man%MANDIR = ${ROOT}/usr/share/man%" \
@@ -28,17 +28,17 @@ src_unpack() {
src_compile() {
emake || die
- mv tRNAscan-SE.man tRNAscan-SE.man.1
+ mv tRNAscan-SE.man tRNAscan-SE.man.1 || die
}
src_install() {
- dobin covels-SE coves-SE eufindtRNA tRNAscan-SE trnascan-1.4
- doman tRNAscan-SE.man.1
- dodoc MANUAL README Release.history
+ dobin covels-SE coves-SE eufindtRNA tRNAscan-SE trnascan-1.4 || die
+ doman tRNAscan-SE.man.1 || die
+ dodoc MANUAL README Release.history || die
insinto /usr/lib/${PN}/
- doins *.cm gcode.* Dsignal TPCsignal
+ doins *.cm gcode.* Dsignal TPCsignal || die
insinto /usr/share/doc/${PF}
- doins Manual.ps
+ doins Manual.ps || die
}
src_test() {
diff --git a/sci-biology/wise/ChangeLog b/sci-biology/wise/ChangeLog
index 050e1d7f934c..93fa8c050ecd 100644
--- a/sci-biology/wise/ChangeLog
+++ b/sci-biology/wise/ChangeLog
@@ -1,6 +1,9 @@
# ChangeLog for sci-biology/wise
-# Copyright 1999-2005 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/wise/ChangeLog,v 1.3 2005/05/21 23:31:50 weeve Exp $
+# Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/wise/ChangeLog,v 1.4 2006/01/21 18:40:12 ribosome Exp $
+
+ 21 Jan 2006; Olivier Fisette <ribosome@gentoo.org> wise-2.2.0.ebuild:
+ Ebuild clean-up.
21 May 2005; Jason Wever <weeve@gentoo.org> wise-2.2.0.ebuild:
Added ~sparc keyword.
diff --git a/sci-biology/wise/wise-2.2.0.ebuild b/sci-biology/wise/wise-2.2.0.ebuild
index 34b74139b706..98474672dbe0 100644
--- a/sci-biology/wise/wise-2.2.0.ebuild
+++ b/sci-biology/wise/wise-2.2.0.ebuild
@@ -1,6 +1,6 @@
-# Copyright 1999-2005 Gentoo Foundation
+# Copyright 1999-2006 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/wise/wise-2.2.0.ebuild,v 1.3 2005/05/21 23:31:50 weeve Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/wise/wise-2.2.0.ebuild,v 1.4 2006/01/21 18:40:12 ribosome Exp $
inherit eutils toolchain-funcs
@@ -20,11 +20,11 @@ DEPEND="${RDEPEND}
dev-lang/perl
virtual/tetex"
-S=${WORKDIR}/${PN}${PV}
+S="${WORKDIR}/${PN}${PV}"
src_unpack() {
unpack ${A}
- cd ${S}/src
+ cd "${S}"/src
# if use threads; then
# append-flags "-DPTHREAD"
# sed -e "s/#EXTRALIBS = -lpthread/EXTRALIBS = -lpthread/" -i makefile || die
@@ -32,16 +32,16 @@ src_unpack() {
sed -e "s/CC = cc/CC = $(tc-getCC)/" \
-e "s/CFLAGS = -c -O/CFLAGS = -c ${CFLAGS}/" \
-i makefile || die
- cd ${S}/docs
- cat ${S}/src/models/*.tex ${S}/src/dynlibsrc/*.tex | perl gettex.pl > temp.tex
+ cd "${S}"/docs
+ cat "${S}"/src/models/*.tex "${S}"/src/dynlibsrc/*.tex | perl gettex.pl > temp.tex
cat wise2api.tex temp.tex apiend.tex > api.tex
- epatch ${FILESDIR}/${PN}-api.tex.patch
+ epatch "${FILESDIR}"/${PN}-api.tex.patch
}
src_compile() {
cd src
make all || die
- cd ${S}/docs
+ cd "${S}"/docs
for i in api appendix dynamite wise2 wise3arch; do
latex ${i} || die
latex ${i} || die
@@ -50,19 +50,19 @@ src_compile() {
}
src_install() {
- dobin ${S}/src/bin/*
- dolib ${S}/src/base/libwisebase.a
- dolib ${S}/src/dynlibsrc/libdyna.a
- dobin ${S}/src/dynlibsrc/testgendb
- dolib ${S}/src/models/libmodel.a
+ dobin "${S}"/src/bin/*
+ dolib "${S}"/src/base/libwisebase.a
+ dolib "${S}"/src/dynlibsrc/libdyna.a
+ dobin "${S}"/src/dynlibsrc/testgendb
+ dolib "${S}"/src/models/libmodel.a
insinto /usr/share/${PN}
- doins -r ${S}/wisecfg
+ doins -r "${S}"/wisecfg
insinto /usr/share/doc/${PF}
- doins ${S}/docs/*.ps
- newenvd ${FILESDIR}/${PN}-env 24wise
+ doins "${S}"/docs/*.ps
+ newenvd "${FILESDIR}"/${PN}-env 24wise
}
src_test() {
- cd ${S}/src
+ cd "${S}"/src
WISECONFIGDIR="${S}/wisecfg" make test || die
}