You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
85 lines
2.0 KiB
85 lines
2.0 KiB
# Copyright 1999-2017 Gentoo Foundation
|
|
# Distributed under the terms of the GNU General Public License v2
|
|
|
|
EAPI=6
|
|
|
|
BIOPERL_RELEASE=1.6.9
|
|
|
|
DIST_NAME=BioPerl-DB
|
|
DIST_AUTHOR=CJFIELDS
|
|
DIST_VERSION=1.006900
|
|
inherit perl-module
|
|
|
|
DESCRIPTION="Perl tools for bioinformatics - Perl API that accesses the BioSQL schema"
|
|
HOMEPAGE="http://www.bioperl.org/"
|
|
|
|
SLOT="0"
|
|
KEYWORDS="~amd64 ~x86"
|
|
RESTRICT="test"
|
|
IUSE="test"
|
|
|
|
DIST_TEST="do" # Parallelism probably bad
|
|
PATCHES=( "${FILESDIR}/${PN}-1.6.9-db.patch" )
|
|
RDEPEND="
|
|
>=sci-biology/bioperl-${PV}
|
|
dev-perl/DBD-mysql
|
|
dev-perl/DBI
|
|
sci-biology/biosql"
|
|
DEPEND="${RDEPEND}
|
|
dev-perl/Module-Build
|
|
test? (
|
|
dev-perl/Data-Stag
|
|
dev-perl/Sub-Uplevel
|
|
dev-perl/Test-Warn
|
|
dev-perl/Test-Exception
|
|
virtual/perl-Test-Simple
|
|
)
|
|
"
|
|
src_prepare() {
|
|
export GENTOO_DB_HOSTNAME=localhost
|
|
perl-module_src_prepare
|
|
}
|
|
src_install() {
|
|
mydoc="AUTHORS BUGS FAQ"
|
|
perl-module_src_install
|
|
}
|
|
src_test() {
|
|
einfo "Removing bundled test libraries t/lib"
|
|
rm -r "${S}/t/lib" || die "Cannot remove t/lib"
|
|
|
|
ebegin "Setting up test database"
|
|
|
|
local mysqld="${EPREFIX}/usr/sbin/mysqld"
|
|
local socket="${T}/mysql.sock"
|
|
local pidfile="${T}/mysql.pid"
|
|
local datadir="${T}/mysql-data-dir"
|
|
local mysql="${EPREFIX}/usr/bin/mysql"
|
|
|
|
mkdir -p "${datadir}" || die "Can't make mysql database dir";
|
|
chmod 755 "${datadir}" || die "Can't fix mysql database dir perms";
|
|
|
|
if $mysqld --help | grep -q MariaDB ; then
|
|
"${EPREFIX}"/usr/share/mysql/scripts/mysql_install_db \
|
|
--basedir="${EPREFIX}/usr" \
|
|
--datadir="${datadir}" \
|
|
--user=$(whoami) || die "Can't initalize database"
|
|
fi
|
|
|
|
${mysqld} --no-defaults --user=$(whoami) --skip-networking \
|
|
--socket="${socket}" \
|
|
--pid-file="${pidfile}" \
|
|
--datadir="${datadir}" &
|
|
maxtry=20
|
|
while ! [[ -S "${socket}" || "${maxtry}" -lt 1 ]] ; do
|
|
maxtry=$((${maxtry}-1))
|
|
echo -n "."
|
|
sleep 1
|
|
done
|
|
eend $?
|
|
export MYSQL_UNIX_PORT="${socket}"
|
|
perl-module_src_test
|
|
ebegin "Shutting down mysql test database"
|
|
pkill -F "${pidfile}"
|
|
eend $?
|
|
}
|