diff options
| -rw-r--r-- | sci-biology/seaview/ChangeLog | 80 | ||||
| -rw-r--r-- | sci-biology/seaview/Manifest | 16 | ||||
| -rw-r--r-- | sci-biology/seaview/files/digest-seaview-20070919 | 3 | ||||
| -rw-r--r-- | sci-biology/seaview/metadata.xml | 16 | ||||
| -rw-r--r-- | sci-biology/seaview/seaview-20070919.ebuild | 47 |
5 files changed, 162 insertions, 0 deletions
diff --git a/sci-biology/seaview/ChangeLog b/sci-biology/seaview/ChangeLog new file mode 100644 index 0000000..2bc3722 --- /dev/null +++ b/sci-biology/seaview/ChangeLog @@ -0,0 +1,80 @@ +# ChangeLog for sci-biology/seaview +# Copyright 2000-2007 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/ChangeLog,v 1.11 2007/10/21 04:34:16 je_fro Exp $ + +*seaview-20070919 (21 Oct 2007) + + 21 Oct 2007; <jeff@gentoo.org> seaview-20041220.ebuild, + seaview-20060213.ebuild, +seaview-20070919.ebuild: + Bumping to latest version which contains several new features. + + 25 Mar 2007; Danny van Dyk <kugelfang@gentoo.org> seaview-20041220.ebuild, + seaview-20060213.ebuild: + QA: Fixed assignment of CFLAGS. Makefile respects CXXFLAGS now. Fixed + include and library paths. + + 22 Feb 2007; Markus Ullmann <jokey@gentoo.org> ChangeLog: + Redigest for Manifest2 + + 03 Nov 2006; Olivier Fisette <ribosome@gentoo.org> + -seaview-20050713.ebuild: + Pruned old version. + +*seaview-20060213 (08 Mar 2006) + + 08 Mar 2006; Donnie Berkholz <spyderous@gentoo.org>; + +seaview-20060213.ebuild: + Bump to most recent modification date on upstream's unversioned tarball. + Fixes problem with file-open dialog not finding files, among others. + +*seaview-20050713 (07 Aug 2005) + + 07 Aug 2005; Olivier Fisette <ribosome@gentoo.org> + +seaview-20050713.ebuild: + New version. + + 24 Apr 2005; Michael Hanselmann <hansmi@gentoo.org> + seaview-20041220.ebuild: + Stable on ppc. + + 30 Jan 2005; Olivier Fisette <ribosome@gentoo.org> + seaview-20041220.ebuild: + Ebuild cleanup. + +*seaview-20041220 (09 Jan 2005) + + 09 Jan 2005; Olivier Fisette <ribosome@gentoo.org> -files/29seaview, + -seaview-1-r1.ebuild, +seaview-20041220.ebuild: + Changed versioning scheme. (Upstream does not use version numbers.) + +*seaview-1-r1 (23 Dec 2004) + + 23 Dec 2004; Olivier Fisette <ribosome@gentoo.org> +metadata.xml, + +files/29seaview, +seaview-1-r1.ebuild: + Moved from app-sci/seaview to sci-biology/seaview. + + 22 Nov 2004; Karol Wojtaszek <sekretarz@gentoo.org> seaview-1-r1.ebuild: + Added to ~amd64, bug #72078 + + 31 Oct 2004; Olivier Fisette <ribosome@gentoo.org> seaview-1-r1.ebuild: + Added to x86. + +*seaview-1 (24 Jun 2004) + + 24 Jun 2004; Olivier Fisette <ribosome@gentoo.org> + seaview-1-r1.ebuild, metedata.xml: + Added app-sci/clustalw as a mandatory dependency. + Set maintainer (ribosome). + +*seaview-1 (24 Jun 2004) + + 24 Jun 2004; David Holm <dholm@gentoo.org> seaview-1.ebuild: + Added to ~ppc. + +*seaview-1 (23 Jun 2004) + + 23 Jun 2004; Olivier Fisette <ribosome@gentoo.org> + seaview-1.ebuild, metadata.xml, files/29seaview : + Initial import. Ebuild submitted by Olivier Fisette <ribosome@gentoo.org>. + Reference: Gentoo Bugzilla, bug #54055 + diff --git a/sci-biology/seaview/Manifest b/sci-biology/seaview/Manifest new file mode 100644 index 0000000..c153e43 --- /dev/null +++ b/sci-biology/seaview/Manifest @@ -0,0 +1,16 @@ +DIST seaview-20070919.tar.bz2 129867 RMD160 a930e5286c8e2c82dd1b7d33f15682b525a83f4f SHA1 db2d36e6ef7cd446caf79cb93258c3b72b067248 SHA256 4c2b3d1e051f72194dc1b7fc742ed92c97f86926615fbd768b2f2e3cff7fea33 +EBUILD seaview-20070919.ebuild 1285 RMD160 4ae050d1540166939f55de55ceb548fd507b816c SHA1 af9a24b9334948180eb583d071f6968e1a1b15f1 SHA256 9207572269a3b2ab790ed52e4f4f0ee0e3e863fd6411098fa45c630a4a221256 +MD5 07be57bcb0f1e083723c7cc5aa44a96a seaview-20070919.ebuild 1285 +RMD160 4ae050d1540166939f55de55ceb548fd507b816c seaview-20070919.ebuild 1285 +SHA256 9207572269a3b2ab790ed52e4f4f0ee0e3e863fd6411098fa45c630a4a221256 seaview-20070919.ebuild 1285 +MISC ChangeLog 2580 RMD160 0a4ab543410509dcfa53552ca4f992e695d6a88f SHA1 402ac9d67c48a77d8ad9e4981df2cb2e2377c9df SHA256 5b5d249dc723e47db3304ad21402f19066e924f05f338e29bf229a1bfa7d48d3 +MD5 9eb13bbfc43618b0143c056a4eb54416 ChangeLog 2580 +RMD160 0a4ab543410509dcfa53552ca4f992e695d6a88f ChangeLog 2580 +SHA256 5b5d249dc723e47db3304ad21402f19066e924f05f338e29bf229a1bfa7d48d3 ChangeLog 2580 +MISC metadata.xml 622 RMD160 971008c946d3c492a86c946d8be5ed7881981600 SHA1 4a772f6c65f56de1a01eb770bc3b00998e8fc793 SHA256 a1d62029203598fbf7b1f3d97d004ff7fccf30246276ff8f9ba99b7696691529 +MD5 62b43c9f7320b7c9c27eac02b2644cd5 metadata.xml 622 +RMD160 971008c946d3c492a86c946d8be5ed7881981600 metadata.xml 622 +SHA256 a1d62029203598fbf7b1f3d97d004ff7fccf30246276ff8f9ba99b7696691529 metadata.xml 622 +MD5 45aa688396038db1079a932bd2cdf57c files/digest-seaview-20070919 253 +RMD160 530dd5235936f0920209c8e101fb5b8aee19de28 files/digest-seaview-20070919 253 +SHA256 798c5db6eb97a43719bc4bff4bab0e0043b1cb7cf3c72c092b9d256dd3229e9d files/digest-seaview-20070919 253 diff --git a/sci-biology/seaview/files/digest-seaview-20070919 b/sci-biology/seaview/files/digest-seaview-20070919 new file mode 100644 index 0000000..e8fa4d2 --- /dev/null +++ b/sci-biology/seaview/files/digest-seaview-20070919 @@ -0,0 +1,3 @@ +MD5 aa7a0d87d2cf4a69d3b639ac9c1aef06 seaview-20070919.tar.bz2 129867 +RMD160 a930e5286c8e2c82dd1b7d33f15682b525a83f4f seaview-20070919.tar.bz2 129867 +SHA256 4c2b3d1e051f72194dc1b7fc742ed92c97f86926615fbd768b2f2e3cff7fea33 seaview-20070919.tar.bz2 129867 diff --git a/sci-biology/seaview/metadata.xml b/sci-biology/seaview/metadata.xml new file mode 100644 index 0000000..64a7c16 --- /dev/null +++ b/sci-biology/seaview/metadata.xml @@ -0,0 +1,16 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <herd>sci-biology</herd> + <maintainer> + <email>ribosome@gentoo.org</email> + <name>Olivier Fisette</name> + </maintainer> + <longdescription> + SeaView is a graphical multiple sequence alignment editor developped by + Manolo Gouy. SeaView is able to read and write various alignment + formats (NEXUS, MSF, CLUSTAL, FASTA, PHYLIP, MASE). It allows to + manually edit the alignment, and also to run DOT-PLOT or CLUSTALW + programs to locally improve the alignment. + </longdescription> +</pkgmetadata> diff --git a/sci-biology/seaview/seaview-20070919.ebuild b/sci-biology/seaview/seaview-20070919.ebuild new file mode 100644 index 0000000..b304546 --- /dev/null +++ b/sci-biology/seaview/seaview-20070919.ebuild @@ -0,0 +1,47 @@ +# Copyright 1999-2007 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/seaview/seaview-20070919.ebuild,v 1.1 2007/10/21 04:34:16 je_fro Exp $ + +inherit toolchain-funcs multilib + +DESCRIPTION="A graphical multiple sequence alignment editor" +HOMEPAGE="http://pbil.univ-lyon1.fr/software/seaview.html" +SRC_URI="mirror://gentoo/${P}.tar.bz2" +LICENSE="public-domain" + +SLOT="0" +KEYWORDS="~x86 ~ppc ~amd64" +IUSE="" + +DEPEND="x11-libs/fltk + media-libs/pdflib + sci-biology/clustalw" + +# =media-libs/pdflib-6.0* + +src_unpack() { + unpack ${A} + cd "${S}" + + # Respect CXXFLAGS. Package uses CFLAGS as CXXFLAGS. + # Fix invocation of C++ compiler. + # Fix include and library paths. + sed -i \ + -e '/^FLTK/d' \ + -e '/^X11/d' \ + -e 's:#HELP_NOT:HELP_NOT:' \ + -e "s:bge\/mgouy\/seaview:usr/share/${PN}:" \ + -e "s:^CXX.*:CXX = $(tc-getCXX):" \ + -e 's:-I$(FLTK):-I/usr/include/fltk-1.1:' \ + -e 's:-I$(X11)/include:-I/usr/include/X11R6:' \ + -e "s:\(^CFLAGS .*\):\1 ${CXXFLAGS}:" \ + -e "s:-L\$(FLTK)/lib:-L/usr/$(get_libdir)/fltk-1.1:" \ + -e "s:-L\$(X11)/lib:-L/usr/$(get_libdir)/X11:" \ + Makefile || die +} + +src_install() { + dobin seaview seaview_align.sh + insinto "/usr/share/${PN}" + doins protein.mase seaview.help +} |