commit: 877d4bcc7fc3f8f3255757a09f54ca343758c65a Author: Justin Lecher <jlec <AT> gentoo <DOT> org> AuthorDate: Thu Apr 16 06:28:21 2015 +0000 Commit: Justin Lecher <jlec <AT> gentoo <DOT> org> CommitDate: Thu Apr 16 06:28:21 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=877d4bcc
In CVS Signed-off-by: Justin Lecher <jlec <AT> gentoo.org> sci-biology/ucsc-genome-browser/metadata.xml | 12 --- .../ucsc-genome-browser-260.ebuild | 106 --------------------- 2 files changed, 118 deletions(-) diff --git a/sci-biology/ucsc-genome-browser/metadata.xml b/sci-biology/ucsc-genome-browser/metadata.xml deleted file mode 100644 index 18137f6..0000000 --- a/sci-biology/ucsc-genome-browser/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";> -<pkgmetadata> - <maintainer> - <email>[email protected]</email> - <name>Andrey Kislyuk</name> - </maintainer> - <herd>sci-biology</herd> - <use> - <flag name="server">Install genome browser Web application. If this flag is off, only libraries and utilities from the suite are installed.</flag> - </use> -</pkgmetadata> diff --git a/sci-biology/ucsc-genome-browser/ucsc-genome-browser-260.ebuild b/sci-biology/ucsc-genome-browser/ucsc-genome-browser-260.ebuild deleted file mode 100644 index f81e171..0000000 --- a/sci-biology/ucsc-genome-browser/ucsc-genome-browser-260.ebuild +++ /dev/null @@ -1,106 +0,0 @@ -# Copyright 1999-2011 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: $ - -EAPI=4 - -inherit toolchain-funcs flag-o-matic webapp - -DESCRIPTION="The UCSC genome browser suite, also known as Jim Kent's library and GoldenPath" -HOMEPAGE="http://genome.ucsc.edu/"; -SRC_URI="http://hgdownload.cse.ucsc.edu/admin/jksrc.v${PV}.zip"; - -LICENSE="blat" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="+mysql +server +static-libs" - -REQUIRED_USE="server? ( mysql )" - -WEBAPP_MANUAL_SLOT="yes" - -DEPEND=" - app-arch/unzip - !<sci-biology/ucsc-genome-browser-223 - mysql? ( virtual/mysql ) - server? ( virtual/httpd-cgi )" # TODO: test with other webservers -RDEPEND="${DEPEND}" - -S="${WORKDIR}/kent" - -src_prepare() { - use server && webapp_src_preinst - sed \ - -e 's/-Werror//' \ - -e "/COPT/s:=.*$:=${LDFLAGS}:g" \ - -e "s/CC=gcc/CC=$(tc-getCC) ${CFLAGS}/" \ - -e 's:${CC} ${COPT} ${CFLAGS}:${CC} ${CFLAGS}:g' \ - -i src/inc/common.mk src/hg/lib/makefile || die - find -name makefile -or -name cgi_build_rules.mk \ - | xargs sed -i \ - -e 's/-${USER}//g' \ - -e 's/-$(USER)//g' \ - -e 's:-O2::g' \ - -e 's:-ggdb::g' \ - -e 's:-pipe::g' || die - sed \ - -e 's:${DISTDIR}${BINDIR}:${BINDIR}:g' \ - -i src/hg/genePredToMafFrames/makefile || die -} - -src_compile() { - export MACHTYPE=${MACHTYPE/-*/} \ - BINDIR="${WORKDIR}/destdir/opt/${PN}/bin" \ - SCRIPTS="${WORKDIR}/destdir/opt/${PN}/cluster/scripts" \ - ENCODE_PIPELINE_BIN="${WORKDIR}/destdir/opt/${PN}/cluster/data/encode/pipeline/bin" \ - PATH="${BINDIR}:${PATH}" \ - STRIP="echo 'skipping strip' " - - export MYSQLLIBS="none" MYSQLINC="none" DOCUMENTROOT="none" CGI_BIN="none" - - use mysql && export MYSQLLIBS="-L${EROOT}usr/$(get_libdir)/mysql/ -lmysqlclient -lz -lssl" \ - MYSQLINC="${ROOT}usr/include/mysql" - - use server && export DOCUMENTROOT="${WORKDIR}/destdir/${MY_HTDOCSDIR}" \ - CGI_BIN="${WORKDIR}/destdir/${MY_HTDOCSDIR}/cgi-bin" - - mkdir -p "$BINDIR" "$SCRIPTS" "$ENCODE_PIPELINE_BIN" || die - use server && mkdir -p "$CGI_BIN" "$DOCUMENTROOT" - - emake -C src clean - emake -C src/lib - emake -C src/jkOwnLib - emake -C src/utils/stringify - emake -C src blatSuite - if use mysql; then - emake -j1 -C src/hg utils - emake -j1 -C src utils - emake -C src libs userApps - if use server; then - emake -j1 -C src/hg - emake -j1 -C src - fi - fi -} - -src_install() { - use server && webapp_src_preinst - cp -ad "${WORKDIR}"/destdir/* "${D}" || die - use static-libs && dolib.a src/lib/${MACHTYPE/-*/}/*.a - echo "PATH=${EPREFIX}/opt/${PN}/bin" > "${S}/98${PN}" - doenvd "${S}/98${PN}" - - use server && webapp_postinst_txt en src/product/README.QuickStart - use server && webapp_src_install - - insinto "/usr/include/${PN}" - doins src/inc/*.h - insinto "/usr/share/${PN}" - doins -r src/product - keepdir "/usr/share/doc/${PF}" - find -name 'README*' -or -name '*.doc' | grep -v test | cpio -padv "${ED}/usr/share/doc/${PF}" || die -} - -pkg_postinst() { - use server && webapp_pkg_postinst -}
