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author | V3n3RiX <venerix@redcorelinux.org> | 2017-10-09 18:53:29 +0100 |
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committer | V3n3RiX <venerix@redcorelinux.org> | 2017-10-09 18:53:29 +0100 |
commit | 4f2d7949f03e1c198bc888f2d05f421d35c57e21 (patch) | |
tree | ba5f07bf3f9d22d82e54a462313f5d244036c768 /sci-biology/bioperl-db/bioperl-db-1.6.9-r1.ebuild |
reinit the tree, so we can have metadata
Diffstat (limited to 'sci-biology/bioperl-db/bioperl-db-1.6.9-r1.ebuild')
-rw-r--r-- | sci-biology/bioperl-db/bioperl-db-1.6.9-r1.ebuild | 84 |
1 files changed, 84 insertions, 0 deletions
diff --git a/sci-biology/bioperl-db/bioperl-db-1.6.9-r1.ebuild b/sci-biology/bioperl-db/bioperl-db-1.6.9-r1.ebuild new file mode 100644 index 000000000000..facab7d5ffbe --- /dev/null +++ b/sci-biology/bioperl-db/bioperl-db-1.6.9-r1.ebuild @@ -0,0 +1,84 @@ +# 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 $? +} |