113 lines
3.0 KiB
Bash
113 lines
3.0 KiB
Bash
# Copyright 1999-2021 Gentoo Authors
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# Distributed under the terms of the GNU General Public License v2
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EAPI=6
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inherit toolchain-funcs flag-o-matic webapp
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DESCRIPTION="The UCSC genome browser suite, also known as Jim Kent's library and GoldenPath"
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HOMEPAGE="http://genome.ucsc.edu/"
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SRC_URI="http://hgdownload.cse.ucsc.edu/admin/jksrc.v${PV}.zip"
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LICENSE="blat"
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SLOT="0"
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KEYWORDS="~amd64 ~x86"
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IUSE="+mysql +server static-libs"
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REQUIRED_USE="server? ( mysql )"
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WEBAPP_MANUAL_SLOT="yes"
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RDEPEND="
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dev-libs/openssl:0=
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media-libs/libpng:0=
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!<sci-biology/ucsc-genome-browser-223
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mysql? ( dev-db/mysql-connector-c:0= )
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server? ( virtual/httpd-cgi )" # TODO: test with other webservers
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DEPEND="${RDEPEND} app-arch/unzip"
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S="${WORKDIR}/kent"
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src_prepare() {
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default
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use server && webapp_src_preinst
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# bug #708064
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append-flags -fcommon
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sed \
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-e 's/-Werror//' \
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-e "/COPT/s:=.*$:=${LDFLAGS}:g" \
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-e "s/CC=gcc/CC=$(tc-getCC) ${CFLAGS}/" \
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-e 's:${CC} ${COPT} ${CFLAGS}:${CC} ${CFLAGS}:g' \
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-i src/inc/common.mk src/hg/lib/makefile || die
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find -name makefile -or -name cgi_build_rules.mk \
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| xargs sed -i \
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-e 's/-${USER}//g' \
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-e 's/-$(USER)//g' \
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-e 's:-O2::g' \
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-e 's:-ggdb::g' \
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-e 's:-pipe::g' || die
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sed \
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-e 's:${DISTDIR}${BINDIR}:${BINDIR}:g' \
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-i src/hg/genePredToMafFrames/makefile || die
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}
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src_compile() {
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export MACHTYPE=${MACHTYPE/-*/} \
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BINDIR="${WORKDIR}/destdir/opt/${PN}/bin" \
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SCRIPTS="${WORKDIR}/destdir/opt/${PN}/cluster/scripts" \
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ENCODE_PIPELINE_BIN="${WORKDIR}/destdir/opt/${PN}/cluster/data/encode/pipeline/bin" \
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PATH="${BINDIR}:${PATH}" \
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STRIP="echo 'skipping strip' "
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export MYSQLLIBS="none" MYSQLINC="none" DOCUMENTROOT="none" CGI_BIN="none"
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use mysql && export MYSQLLIBS="-L${EROOT}usr/$(get_libdir)/mysql/ -lmysqlclient -lz -lssl" \
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MYSQLINC="${ROOT}usr/include/mysql"
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use server && export DOCUMENTROOT="${WORKDIR}/destdir/${MY_HTDOCSDIR}" \
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CGI_BIN="${WORKDIR}/destdir/${MY_HTDOCSDIR}/cgi-bin"
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mkdir -p "$BINDIR" "$SCRIPTS" "$ENCODE_PIPELINE_BIN" || die
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use server && mkdir -p "$CGI_BIN" "$DOCUMENTROOT"
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emake -C src clean
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emake -C src/lib
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emake -C src/jkOwnLib
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emake -C src/utils/stringify
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emake -C src blatSuite
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if use mysql; then
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emake -j1 -C src/hg utils
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emake -j1 -C src utils
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emake -C src libs userApps
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if use server; then
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emake -j1 -C src/hg
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emake -j1 -C src
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fi
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fi
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}
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src_install() {
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use server && webapp_src_preinst
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cp -ad "${WORKDIR}"/destdir/* "${D}" || die
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use static-libs && dolib.a src/lib/${MACHTYPE/-*/}/*.a
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echo "PATH=${EPREFIX}/opt/${PN}/bin" > "${S}/98${PN}"
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doenvd "${S}/98${PN}"
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use server && webapp_postinst_txt en src/product/README.QuickStart
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use server && webapp_src_install
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insinto "/usr/include/${PN}"
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doins src/inc/*.h
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insinto "/usr/share/${PN}"
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doins -r src/product
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keepdir "/usr/share/doc/${PF}"
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find -name 'README*' -or -name '*.doc' | grep -v test | cpio -padv "${ED}/usr/share/doc/${PF}" || die
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}
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pkg_postinst() {
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use server && webapp_pkg_postinst
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}
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