107 lines
2.9 KiB
Bash
107 lines
2.9 KiB
Bash
# Copyright 1999-2019 Gentoo Authors
|
|
# Distributed under the terms of the GNU General Public License v2
|
|
|
|
EAPI=6
|
|
|
|
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${PV}.zip"
|
|
|
|
LICENSE="blat"
|
|
SLOT="0"
|
|
KEYWORDS="~amd64 ~x86"
|
|
IUSE="+mysql +server static-libs"
|
|
|
|
REQUIRED_USE="server? ( mysql )"
|
|
|
|
WEBAPP_MANUAL_SLOT="yes"
|
|
|
|
RDEPEND="
|
|
dev-libs/openssl:0=
|
|
media-libs/libpng:0=
|
|
!<sci-biology/ucsc-genome-browser-223
|
|
mysql? ( dev-db/mysql-connector-c:0= )
|
|
server? ( virtual/httpd-cgi )" # TODO: test with other webservers
|
|
DEPEND="${RDEPEND} app-arch/unzip"
|
|
|
|
S="${WORKDIR}/kent"
|
|
|
|
src_prepare() {
|
|
default
|
|
use server && webapp_src_preinst
|
|
sed \
|
|
-e 's/-Werror//' \
|
|
-e "/COPT/s:=.*$:=${LDFLAGS}:g" \
|
|
-e "s/CC=gcc/CC=$(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
|
|
}
|