From ad890e9f96acbcf5b6ed504cc56fb27c577b3b05 Mon Sep 17 00:00:00 2001 From: Olivier Fisette Date: Thu, 23 Dec 2004 21:31:04 +0000 Subject: Moved from app-sci/clustalx to sci-biology/clustalx. --- sci-biology/clustalx/ChangeLog | 28 +++++++++++++++ sci-biology/clustalx/Manifest | 4 +++ sci-biology/clustalx/clustalx-1.83.ebuild | 47 +++++++++++++++++++++++++ sci-biology/clustalx/files/digest-clustalx-1.83 | 1 + sci-biology/clustalx/metadata.xml | 14 ++++++++ 5 files changed, 94 insertions(+) create mode 100644 sci-biology/clustalx/ChangeLog create mode 100644 sci-biology/clustalx/Manifest create mode 100644 sci-biology/clustalx/clustalx-1.83.ebuild create mode 100644 sci-biology/clustalx/files/digest-clustalx-1.83 create mode 100644 sci-biology/clustalx/metadata.xml (limited to 'sci-biology/clustalx') diff --git a/sci-biology/clustalx/ChangeLog b/sci-biology/clustalx/ChangeLog new file mode 100644 index 000000000000..d8149d85df25 --- /dev/null +++ b/sci-biology/clustalx/ChangeLog @@ -0,0 +1,28 @@ +# ChangeLog for app-sci/clustalx +# Copyright 1999-2004 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/clustalx/ChangeLog,v 1.1 2004/12/23 21:31:04 ribosome Exp $ + +*clustalx-1.83 (23 Dec 2004) + + 23 Dec 2004; Olivier Fisette +metadata.xml, + +clustalx-1.83.ebuild: + Moved from app-sci/clustalx to sci-biology/clustalx. + + 22 Nov 2004; Karol Wojtaszek clustalx-1.83.ebuild: + Added to ~amd64, bug #72084 + + 18 Nov 2004; Michael Sterrett clustalx-1.83.ebuild: + needs stable app-sci/ncbi-tools first + + 17 Nov 2004; Olivier Fisette clustalx-1.83.ebuild: + Added to x86. Use toolchain-funcs rather than the gcc eclass. + + 14 Oct 2004; Olivier Fisette clustalx-1.83.ebuild: + Use gcc.eclass rather than ${CC}. + +*clustalx-1.83 (06 Oct 2004) + + 06 Oct 2004; Olivier Fisette +metadata.xml, + +clustalx-1.83.ebuild: + Initial import. + diff --git a/sci-biology/clustalx/Manifest b/sci-biology/clustalx/Manifest new file mode 100644 index 000000000000..84f965bc69e3 --- /dev/null +++ b/sci-biology/clustalx/Manifest @@ -0,0 +1,4 @@ +MD5 85d7c090d64f675746361e68fce19490 ChangeLog 827 +MD5 272b5b012593acd07a7a60b8b64e6761 metadata.xml 509 +MD5 a6bdceb4558eaaa860058204ff1448f2 clustalx-1.83.ebuild 1358 +MD5 800c4da737d4fb9af3d8ffb7f6f44892 files/digest-clustalx-1.83 68 diff --git a/sci-biology/clustalx/clustalx-1.83.ebuild b/sci-biology/clustalx/clustalx-1.83.ebuild new file mode 100644 index 000000000000..0ea286492f03 --- /dev/null +++ b/sci-biology/clustalx/clustalx-1.83.ebuild @@ -0,0 +1,47 @@ +# Copyright 1999-2004 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/clustalx/clustalx-1.83.ebuild,v 1.1 2004/12/23 21:31:04 ribosome Exp $ + +inherit toolchain-funcs + +DESCRIPTION="Graphical interface for the ClustalW multiple alignment program" +HOMEPAGE="http://www-igbmc.u-strasbg.fr/BioInfo/ClustalX/" +SRC_URI="ftp://ftp-igbmc.u-strasbg.fr/pub/ClustalX/clustalx1.83.sun.tar.gz" +LICENSE="public-domain" + +SLOT="0" +KEYWORDS="~x86 ~amd64" +IUSE="" + +DEPEND="sci-biology/ncbi-tools + sci-biology/clustalw + virtual/x11" + +S="${WORKDIR}/${PN}${PV}.sun" + +src_unpack() { + unpack ${A} + cd ${S} + cp makefile.linux makefile + sed -i -e "s/CC = cc/CC = $(tc-getCC)/" makefile + sed -i -e "s/CFLAGS = -c -O/CFLAGS = -c ${CFLAGS}/" makefile + sed -i -e "s/LFLAGS = -O -lm/LFLAGS = -lm ${CFLAGS}/" makefile + sed -i -e "s%-I/usr/bio/src/ncbi/include%-I/usr/include/ncbi%" makefile + sed -i -e "s%-L/usr/bio/src/ncbi/lib -L/usr/ccs/lib -L/usr/X11R6/lib%-L/usr/lib -L/usr/X11R6/lib%" makefile + sed -i -e "s%clustalx_help%/usr/share/doc/${PF}/clustalx_help%" clustalx.c + sed -i -e "s%clustalw.doc%../clustalw.doc%" clustalx.html +} + +src_compile() { + make || die +} + +src_install() { + dobin clustalx + + dodoc README_X + dohtml clustalx.html + + insinto /usr/share/doc/${PF} + doins clustalx_help clustalw.doc +} diff --git a/sci-biology/clustalx/files/digest-clustalx-1.83 b/sci-biology/clustalx/files/digest-clustalx-1.83 new file mode 100644 index 000000000000..9d0832e69fb6 --- /dev/null +++ b/sci-biology/clustalx/files/digest-clustalx-1.83 @@ -0,0 +1 @@ +MD5 732538fe5fea04f4d5dd665e84c3b9ab clustalx1.83.sun.tar.gz 860205 diff --git a/sci-biology/clustalx/metadata.xml b/sci-biology/clustalx/metadata.xml new file mode 100644 index 000000000000..8ce831f76510 --- /dev/null +++ b/sci-biology/clustalx/metadata.xml @@ -0,0 +1,14 @@ + + + + + ribosome@gentoo.org + Olivier Fisette + + sci + + Clustal X is a graphical interface for the ClustalW multiple sequence + alignment program. It provides an integrated environment for performing + multiple sequence and profile alignments and analysing the results. + + -- cgit v1.2.3-65-gdbad