From 457f5c4b226a05928988c0a90d15ff03b0050f43 Mon Sep 17 00:00:00 2001 From: Andrey Kislyuk Date: Mon, 26 Dec 2011 05:27:12 +0000 Subject: [PATCH] Version bump Package-Manager: portage-2.2.0_alpha74/cvs/Linux x86_64 --- sci-biology/GBrowse/ChangeLog | 7 ++- sci-biology/GBrowse/GBrowse-2.44.ebuild | 68 +++++++++++++++++++++++++ sci-biology/GBrowse/Manifest | 10 ++-- 3 files changed, 80 insertions(+), 5 deletions(-) create mode 100644 sci-biology/GBrowse/GBrowse-2.44.ebuild diff --git a/sci-biology/GBrowse/ChangeLog b/sci-biology/GBrowse/ChangeLog index 962c42fadde1..afd3e0887786 100644 --- a/sci-biology/GBrowse/ChangeLog +++ b/sci-biology/GBrowse/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-biology/GBrowse # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/GBrowse/ChangeLog,v 1.1 2011/07/20 00:56:03 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/GBrowse/ChangeLog,v 1.2 2011/12/26 05:27:12 weaver Exp $ + +*GBrowse-2.44 (26 Dec 2011) + + 26 Dec 2011; Andrey Kislyuk +GBrowse-2.44.ebuild: + Version bump *GBrowse-2.39 (20 Jul 2011) diff --git a/sci-biology/GBrowse/GBrowse-2.44.ebuild b/sci-biology/GBrowse/GBrowse-2.44.ebuild new file mode 100644 index 000000000000..a8c3828f29c4 --- /dev/null +++ b/sci-biology/GBrowse/GBrowse-2.44.ebuild @@ -0,0 +1,68 @@ +# Copyright 1999-2011 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/GBrowse/GBrowse-2.44.ebuild,v 1.1 2011/12/26 05:27:12 weaver Exp $ + +EAPI=4 + +MODULE_AUTHOR=LDS +inherit perl-module webapp + +DESCRIPTION="Generic Model Organism Database Project - The Generic Genome Browser" +HOMEPAGE="http://gmod.org/wiki/GBrowse" +KEYWORDS="~amd64 ~x86" +IUSE="-minimal mysql postgres +sqlite" + +CDEPEND=">=sci-biology/bioperl-1.6.9 + >=dev-perl/Bio-Graphics-2.09 + >=dev-perl/GD-2.07 + >=dev-perl/CGI-Session-4.02 + dev-perl/IO-String + dev-perl/JSON + dev-perl/libwww-perl + dev-perl/Statistics-Descriptive + !minimal? ( + dev-perl/Bio-Das + >=dev-perl/Bio-SamTools-1.20 + dev-perl/Crypt-SSLeay + dev-perl/DB_File-Lock + dev-perl/DBI + mysql? ( dev-perl/DBD-mysql ) + postgres? ( dev-perl/DBD-Pg ) + sqlite? ( dev-perl/DBD-SQLite ) + dev-perl/FCGI + dev-perl/File-NFSLock + dev-perl/GD-SVG + dev-perl/Net-OpenID-Consumer + dev-perl/Net-SMTP-SSL + )" +# >=dev-perl/Bio-DB-BigFile-1.00 - requires jklib to compile +DEPEND="virtual/perl-Module-Build + dev-perl/Capture-Tiny + ${CDEPEND}" +RDEPEND="${CDEPEND}" + +PATCHES=( "${FILESDIR}"/GBrowseInstall.pm-2.39.patch ) + +src_configure() { + webapp_src_preinst + +# myconf="--install_base=${D}/usr" or "--install_base=/opt/gbrowse" + myconf="--conf=/etc/gbrowse2" + myconf="${myconf} --htdocs=${MY_HTDOCSDIR}" + myconf="${myconf} --cgibin=${MY_CGIBINDIR}" + myconf="${myconf} --tmp=/var/tmp/gbrowse2" + myconf="${myconf} --persistent=/var/db/gbrowse2" + myconf="${myconf} --databases=/var/db/gbrowse2/databases" + myconf="${myconf} --installconf=no" + myconf="${myconf} --installetc=no" + perl-module_src_configure +} + +src_install() { + dodir /var/tmp/gbrowse2 + dodir /var/db/gbrowse2/sessions + dodir /var/db/gbrowse2/userdata + webapp_serverowned -R /var/tmp/gbrowse2 /var/db/gbrowse2 + perl-module_src_install + webapp_src_install +} diff --git a/sci-biology/GBrowse/Manifest b/sci-biology/GBrowse/Manifest index aa7cdeea3d67..cda208289dbe 100644 --- a/sci-biology/GBrowse/Manifest +++ b/sci-biology/GBrowse/Manifest @@ -3,13 +3,15 @@ Hash: SHA1 AUX GBrowseInstall.pm-2.39.patch 2878 RMD160 24dc53700c23521fb0e892ed1d675142eefc2c65 SHA1 961c73f9a83c101932558cd28945cfe2e5cc4b7f SHA256 80a1aefac21c55c040e89028f736c058b35695cbb816e44f4465665cdd14f9ab DIST GBrowse-2.39.tar.gz 11969088 RMD160 47dd338a0b99632e77a532a3c27d0b9d9d514dca SHA1 2cc48cc1603aa3ae487c47259f9a896bec4eff8e SHA256 b4e76acfa1d8f64d5f227c3ba0258666928b4f357428549be85f05c944337d44 +DIST GBrowse-2.44.tar.gz 12009913 RMD160 96b644a8d7f665f6403db1e76648d9eaf5374b9c SHA1 b81220e4c45ee3dae7e40de43bd351037b3170f1 SHA256 c77d8e0311eab9d581b128ee16ba0921bc651a157b68c3aed2e5e86240f8f5dc EBUILD GBrowse-2.39.ebuild 1916 RMD160 83a3031201321d64d9f8f0f22956e9778a9b2b12 SHA1 a011f1d5e9b29676db6e41a5d5f6e28d70770e4b SHA256 be9a81871de7957a39407c31f9c5ef291b5d1e0a9698d2460a6b44ce2d68cc11 -MISC ChangeLog 507 RMD160 3b8bc809f1220a6384e2230374eaec6f60ad3d68 SHA1 99c8bb305dfe14a9981b397c7a0bc415692f32c1 SHA256 d414d7a8180d22107f48c760dfc9c4d7038d7e7fdaf94b52a077fa3f4653b599 +EBUILD GBrowse-2.44.ebuild 1915 RMD160 0ffe5507ba39218c2eee94aed049fdaabfc5ae60 SHA1 5492cd5c891e82e6d8f0debcb0a4783145c5b550 SHA256 c7a197c95bcf2ca51a53503e347879be496cab1a09252dd2cd6a4882e7d368ad +MISC ChangeLog 624 RMD160 04aa002c91d094b79d67bba0c0dcd3dccd70b77b SHA1 98c848cfa513a19f0b645e5abe4c751ebd0c3812 SHA256 c062b92e248cd5be5405ed84bd5db37dd11a33649eee1541c32916085e952dc5 MISC metadata.xml 352 RMD160 c409abbd5e93c39f874f62376148fa32b7b93dd2 SHA1 9c92894b7db29b6e74ac51e0acbe457bd6e523a5 SHA256 b4ac9f3ef6106473d6685685245180ff6191165751d8c83d033f7ef0e918e82f -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.11 (GNU/Linux) -iEYEARECAAYFAk4mJ6kACgkQ8xSwyhbn2ObxJQCgmHKXPMD/s3TJ0UrDpqHiXWlP -T0cAoKIaPtBbGv7ToES76ff/hxTwM9nV -=NQga +iEYEARECAAYFAk74BbUACgkQ8xSwyhbn2OZqkACeM7zcWVtdh0l4zhs8h6mnhLyC +qPwAn3t1XAFvttHte+JNULTfyteA73eb +=PYxm -----END PGP SIGNATURE----- -- 2.26.2