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104 lines
2.3 KiB
104 lines
2.3 KiB
# Copyright 1999-2023 Gentoo Authors
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# Distributed under the terms of the GNU General Public License v2
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EAPI=8
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BIOPERL_RELEASE=1.6.9
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DIST_NAME=BioPerl-DB
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DIST_AUTHOR=CJFIELDS
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DIST_VERSION=1.006900
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DIST_TEST="do" # Parallelism probably bad
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inherit perl-module
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DESCRIPTION="Perl tools for bioinformatics - Perl API that accesses the BioSQL schema"
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HOMEPAGE="http://www.bioperl.org/"
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SLOT="0"
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KEYWORDS="amd64 ~x86"
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IUSE="test"
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RESTRICT="test"
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RDEPEND="
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>=sci-biology/bioperl-${PV}
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dev-perl/DBD-mysql
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dev-perl/DBI
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sci-biology/biosql"
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DEPEND="
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${RDEPEND}
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test? (
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dev-perl/Data-Stag
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dev-perl/Sub-Uplevel
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dev-perl/Test-Warn
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dev-perl/Test-Exception
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virtual/perl-Test-Simple
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)"
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BDEPEND="dev-perl/Module-Build"
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PATCHES=( "${FILESDIR}"/${PN}-1.6.9-db.patch )
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src_prepare() {
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export GENTOO_DB_HOSTNAME=localhost
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perl-module_src_prepare
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}
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src_test() {
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einfo "Removing bundled test libraries t/lib"
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rm -r "${S}/t/lib" || die "Cannot remove t/lib"
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ebegin "Setting up test database"
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local mysql_install_db="${EPREFIX}/usr/share/mariadb/scripts/mysql_install_db"
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[[ ! -x "${mysql_install_db}" ]] && mysql_install_db="${EPREFIX}/usr/bin/mysql_install_db"
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[[ ! -x "${mysql_install_db}" ]] && die "mysql_install_db command not found!"
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local mysqld="${EPREFIX}/usr/sbin/mysqld"
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local socket="${T}/mysql.sock"
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local pidfile="${T}/mysql.pid"
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local datadir="${T}/mysql-data-dir"
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local mysql="${EPREFIX}/usr/bin/mysql"
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mkdir -p "${datadir}" || die "Can't make mysql database dir";
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chmod 755 "${datadir}" || die "Can't fix mysql database dir perms";
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"${mysql_install_db}" \
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--basedir="${EPREFIX}/usr" \
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--datadir="${datadir}" \
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--user=$(whoami) \
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|| die "Failed to initalize test database"
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"${mysqld}" \
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--no-defaults \
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--user=$(whoami) \
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--skip-networking \
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--skip-grant \
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--socket="${socket}" \
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--pid-file="${pidfile}" \
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--datadir="${datadir}" &
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local maxtry=20
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while ! [[ -S "${socket}" || "${maxtry}" -lt 1 ]] ; do
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maxtry=$((${maxtry}-1))
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echo -n "."
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sleep 1
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done
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local rc=1
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[[ -S "${socket}" ]] && rc=0
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eend ${rc}
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[[ ${rc} -ne 0 ]] && die "Failed to start mysqld test instance"
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export MYSQL_UNIX_PORT="${socket}"
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perl-module_src_test
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ebegin "Shutting down mysql test database"
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pkill -F "${pidfile}"
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eend $?
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}
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src_install() {
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mydoc="AUTHORS BUGS FAQ"
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perl-module_src_install
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}
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