Pruning old version

Package-Manager: portage-2.0.51.22-r3

10 files changed, 14 insertions, 164 deletions

diff --git a/sci-biology/phylip/ChangeLog b/sci-biology/phylip/ChangeLog
index cba92e1a056e..b3653ddc9afe 100644
--- a/sci-biology/phylip/ChangeLog
+++ b/sci-biology/phylip/ChangeLog
@@ -1,6 +1,9 @@
 # ChangeLog for sci-biology/phylip
 # Copyright 2000-2005 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/phylip/ChangeLog,v 1.12 2005/10/17 05:14:53 josejx Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/phylip/ChangeLog,v 1.13 2005/10/17 17:45:13 ribosome Exp $
+
+  17 Oct 2005; Olivier Fisette <ribosome@gentoo.org> -phylip-3.63.ebuild:
+  Pruning old version.
 
   17 Oct 2005; Joseph Jezak <josejx@gentoo.org> phylip-3.64.ebuild:
   Marked ppc stable for bug #108335.
diff --git a/sci-biology/phylip/files/digest-phylip-3.63 b/sci-biology/phylip/files/digest-phylip-3.63
deleted file mode 100644
index 5a62a93f6130..000000000000
--- a/sci-biology/phylip/files/digest-phylip-3.63
+++ /dev/null
@@ -1 +0,0 @@
-MD5 8bf06a775e68163f419e308597e08831 phylip-3.63.tar.bz2 601374
diff --git a/sci-biology/phylip/phylip-3.63.ebuild b/sci-biology/phylip/phylip-3.63.ebuild
deleted file mode 100644
index c7a5aa045ef5..000000000000
--- a/sci-biology/phylip/phylip-3.63.ebuild
+++ /dev/null
@@ -1,43 +0,0 @@
-# Copyright 1999-2005 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/phylip/phylip-3.63.ebuild,v 1.6 2005/02/19 04:29:40 j4rg0n Exp $
-
-inherit toolchain-funcs
-
-DESCRIPTION="PHYLIP - The PHYLogeny Inference Package"
-HOMEPAGE="http://evolution.genetics.washington.edu/phylip.html"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
-LICENSE="freedist"
-
-SLOT="0"
-KEYWORDS="x86 ~ppc ppc-macos"
-IUSE=""
-
-DEPEND="virtual/libc
-	virtual/x11"
-
-S=${WORKDIR}/${P}/src
-
-src_compile() {
-	sed -e "s/CFLAGS =/CFLAGS = ${CFLAGS}/" \
-		-e "s/CC        = cc/CC        = $(tc-getCC)/" \
-		-e "s/DC        = cc/DC        = $(tc-getCC)/" \
-		-i Makefile || die
-	mkdir ../fonts
-	emake -j1 all put || die
-	mv ../exe/font* ../fonts
-}
-
-src_install()
-{
-	cd ${WORKDIR}/${P}
-
-	dobin exe/*
-
-	dohtml phylip.html
-	insinto /usr/share/doc/${PF}/html/doc
-	doins doc/*
-
-	insinto /usr/share/${PN}/fonts
-	doins fonts/*
-}
diff --git a/sci-biology/qrna/ChangeLog b/sci-biology/qrna/ChangeLog
index 96b35086b0ee..87d940609c54 100644
--- a/sci-biology/qrna/ChangeLog
+++ b/sci-biology/qrna/ChangeLog
@@ -1,6 +1,9 @@
 # ChangeLog for sci-biology/qrna
 # Copyright 2000-2005 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/qrna/ChangeLog,v 1.8 2005/10/17 05:17:02 josejx Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/qrna/ChangeLog,v 1.9 2005/10/17 17:43:24 ribosome Exp $
+
+  17 Oct 2005; Olivier Fisette <ribosome@gentoo.org> -qrna-2.0.3b.ebuild:
+  Pruning old version.
 
   17 Oct 2005; Joseph Jezak <josejx@gentoo.org> qrna-2.0.3c.ebuild:
   Marked ppc stable for bug #108336.
diff --git a/sci-biology/qrna/files/digest-qrna-2.0.3b b/sci-biology/qrna/files/digest-qrna-2.0.3b
deleted file mode 100644
index 43177b62e6db..000000000000
--- a/sci-biology/qrna/files/digest-qrna-2.0.3b
+++ /dev/null
@@ -1 +0,0 @@
-MD5 4258ab809070c2e6fe10a262b95f24ba qrna-2.0.3b.tar.bz2 8988306
diff --git a/sci-biology/qrna/qrna-2.0.3b.ebuild b/sci-biology/qrna/qrna-2.0.3b.ebuild
deleted file mode 100644
index 9025faaaa37f..000000000000
--- a/sci-biology/qrna/qrna-2.0.3b.ebuild
+++ /dev/null
@@ -1,55 +0,0 @@
-# Copyright 1999-2005 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/qrna/qrna-2.0.3b.ebuild,v 1.2 2005/08/07 14:21:59 ribosome Exp $
-
-inherit toolchain-funcs
-
-DESCRIPTION="Prototype ncRNA genefinder"
-HOMEPAGE="http://www.genetics.wustl.edu/eddy/software/"
-SRC_URI="mirror://gentoo/${P}.tar.bz2"
-LICENSE="GPL-2"
-
-SLOT="0"
-KEYWORDS="x86 ~ppc ~amd64"
-IUSE=""
-
-DEPEND="dev-lang/perl
-	virtual/libc"
-
-src_compile () {
-	sed -e "s/CC = gcc/CC = $(tc-getCC)/" \
-		-e "s/CFLAGS = -O/CFLAGS = ${CFLAGS}/" \
-		-i src/Makefile squid/Makefile
-	sed -e "s/CC     = gcc/CC = $(tc-getCC)/" \
-		-e "s/CFLAGS = -g -O2/CFLAGS = ${CFLAGS}/" \
-		-i squid02/Makefile
-	cd ${S}/squid
-	emake || die
-	cd ${S}/squid02
-	emake || die
-	cd ${S}/src
-	emake || die
-}
-
-src_install () {
-	cd ${S}/src
-	dobin cfgbuild eqrna eqrna_sample main rnamat_main shuffle
-	cd ${S}/squid02
-	dobin afetch alistat compalign compstruct revcomp seqsplit seqstat \
-		sfetch shuffle sindex sreformat translate weight
-	cd ${S}
-	dobin scripts/*
-
-	newdoc 00README
-	insinto /usr/share/doc/${PF}
-	doins documentation/*
-
-	insinto /usr/share/${PN}/data
-	doins lib/*
-	insinto /usr/share/${PN}/demos
-	doins Demos/*
-
-	# Sets the path to the QRNA data files.
-	insinto /etc/env.d
-	doins ${FILESDIR}/26qrna
-}
diff --git a/sci-biology/rebase/Manifest b/sci-biology/rebase/Manifest
index 016a09ededaf..7a7fad54dc5c 100644
--- a/sci-biology/rebase/Manifest
+++ b/sci-biology/rebase/Manifest
@@ -1,10 +1,6 @@
-MD5 cdf569ffe15c6b2523558fec5015df8b ChangeLog 5740
-MD5 550f8d428f3e75690b43d32df6aa60cd metadata.xml 900
 MD5 07a0dacdefd570a199eda0a6cc0f7323 rebase-510.ebuild 1105
-MD5 05c1988e81e86219aabfd311ce378dc2 rebase-507.ebuild 1099
-MD5 2260532531bb3ba54d56b05b4fbd1af4 rebase-508.ebuild 1105
 MD5 69b1a343f30e72fad61432c2246b4c28 rebase-509.ebuild 1099
+MD5 fa8be8bf715470410ea63976d9aa2ca8 ChangeLog 5862
+MD5 550f8d428f3e75690b43d32df6aa60cd metadata.xml 900
 MD5 8b72021e3a53e0c9ab7acaf2d016637e files/digest-rebase-509 63
 MD5 c9253e81b3d46b0f4226ff56b61f4313 files/digest-rebase-510 63
-MD5 50cb82dc8445892e84b0858103dbbc74 files/digest-rebase-507 63
-MD5 a0725a8e8d46017dbfaec45568377efa files/digest-rebase-508 63
diff --git a/sci-biology/t-coffee/ChangeLog b/sci-biology/t-coffee/ChangeLog
index d9f05e8d58ef..2fb79eeb2e5c 100644
--- a/sci-biology/t-coffee/ChangeLog
+++ b/sci-biology/t-coffee/ChangeLog
@@ -1,6 +1,9 @@
 # ChangeLog for sci-biology/t-coffee
 # Copyright 1999-2005 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/ChangeLog,v 1.7 2005/10/17 05:20:43 josejx Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/ChangeLog,v 1.8 2005/10/17 17:47:06 ribosome Exp $
+
+  17 Oct 2005; Olivier Fisette <ribosome@gentoo.org> -t-coffee-2.50.ebuild:
+  Pruning old version.
 
   17 Oct 2005; Joseph Jezak <josejx@gentoo.org> t-coffee-2.66.ebuild:
   Marked ppc stable for bug #108340.
diff --git a/sci-biology/t-coffee/files/digest-t-coffee-2.50 b/sci-biology/t-coffee/files/digest-t-coffee-2.50
deleted file mode 100644
index c624432fc6f3..000000000000
--- a/sci-biology/t-coffee/files/digest-t-coffee-2.50
+++ /dev/null
@@ -1 +0,0 @@
-MD5 9fe4f7e1d12bc17bc200e04f89898488 T-COFFEE_distribution_Version_2.50.tar.gz 1474719
diff --git a/sci-biology/t-coffee/t-coffee-2.50.ebuild b/sci-biology/t-coffee/t-coffee-2.50.ebuild
deleted file mode 100644
index e8632faa0ca3..000000000000
--- a/sci-biology/t-coffee/t-coffee-2.50.ebuild
+++ /dev/null
@@ -1,54 +0,0 @@
-# Copyright 1999-2005 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/t-coffee/t-coffee-2.50.ebuild,v 1.2 2005/08/07 14:55:45 ribosome Exp $
-
-inherit toolchain-funcs
-
-DESCRIPTION="A multiple sequence alignment package"
-HOMEPAGE="http://igs-server.cnrs-mrs.fr/~cnotred/Projects_home_page/t_coffee_home_page.html"
-SRC_URI="http://igs-server.cnrs-mrs.fr/~cnotred/Packages/T-COFFEE_distribution_Version_${PV}.tar.gz"
-LICENSE="t-coffee"
-
-RESTRICT="nomirror"
-
-SLOT="0"
-IUSE=""
-KEYWORDS="x86"
-
-DEPEND="sci-biology/clustalw"
-
-TCDIR="${WORKDIR}/T-COFFEE_distribution_Version_${PV}"
-S=${TCDIR}/t_coffee_source
-
-src_unpack(){
-	unpack ${A}
-	cd ${S}
-	sed -i -e "s/CC	= cc/CC	= $(tc-getCC) ${CFLAGS}/" makefile || die || die
-	cd ${TCDIR}/bin
-	sed -i -e 's%chdir "./example/test";%chdir "../example/test";%' test.pl || die
-
-}
-
-src_compile() {
-	make all || die
-}
-
-src_install() {
-	cd ${TCDIR}/bin
-	dobin t_coffee
-	insinto /usr/share/${PN}/lib
-	doins ${TCDIR}/html
-
-	dodoc ${TCDIR}/doc/README4T-COFFEE
-	insinto /usr/share/doc/${PF}
-	doins ${TCDIR}/doc/t_coffee{_doc.{doc,pdf},.pdf}
-	doins ${TCDIR}/doc/*.txt
-
-	insinto /usr/share/${PN}/example
-	doins ${TCDIR}/example/*
-}
-
-src_test() {
-	cd ${TCDIR}/bin
-	./test.pl || die
-}