# New ports collection makefile for:	BioRuby
# Date created:		24 October 2001
# Whom:			Akinori MUSHA aka knu <knu@idaemons.org>
#
# $FreeBSD$
#

PORTNAME=	bio
PORTVERSION=	1.1.0
CATEGORIES=	biology ruby
MASTER_SITES=	http://bioruby.org/archive/
PKGNAMEPREFIX=	${RUBY_PKGNAMEPREFIX}
DISTNAME=	${PORTNAME}ruby-${PORTVERSION}
DIST_SUBDIR=	ruby

MAINTAINER=	mauricio@arareko.net
COMMENT=	Integrated environment for Bioinformatics written in Ruby

OPTIONS=	XMLPARSER	"xmlparser support for faster Blast processing" off \
		BDB4		"bdb4 support for faster flat file indexing" off \
		MYSQL		"MySQL database support for BioSQL" off \
		PGSQL		"PostgreSQL database support for BioSQL" off
OPTIONSFILE=	${PORT_DBDIR}/ruby-${PORTNAME}/options

USE_RUBY=	yes
USE_RUBY_SETUP=	yes
RUBY_SETUP=	install.rb

.include <bsd.port.pre.mk>

.if defined(WITH_XMLPARSER)
RUN_DEPENDS+=	${RUBY_SITEARCHLIBDIR}/xmlparser.so:${PORTSDIR}/textproc/ruby-xmlparser
.endif
.if defined(WITH_BDB4)
RUN_DEPENDS+=	${RUBY_SITEARCHLIBDIR}/bdb.so:${PORTSDIR}/databases/ruby-bdb
.endif
.if defined(WITH_MYSQL)
RUN_DEPENDS+=	${RUBY_SITELIBDIR}/DBD/Mysql/Mysql.rb:${PORTSDIR}/databases/ruby-dbd_mysql
.endif
.if defined(WITH_PGSQL)
RUN_DEPENDS+=	${RUBY_SITELIBDIR}/DBD/Pg/Pg.rb:${PORTSDIR}/databases/ruby-dbd_pg
.endif

post-patch:
	${RUBY} -i -pe 'gsub(%r"(/etc/bioinformatics/)") { "${PREFIX}" + $$1 }' \
		${WRKSRC}/doc/Tutorial.rd \
		${WRKSRC}/lib/bio/io/registry.rb

do-install:
	${MKDIR} ${PREFIX}/etc/bioinformatics
.for f in etc/bioinformatics/seqdatabase.ini
	${INSTALL_DATA} ${WRKSRC}/${f} ${PREFIX}/${f}.sample
	if [ ! -f ${PREFIX}/${f} ]; then \
		${CP} -p ${PREFIX}/${f}.sample ${PREFIX}/${f}; \
	fi
.endfor
.if !defined(NOPORTDOCS)
	${MKDIR} ${RUBY_MODEXAMPLESDIR}
	${CP} -R ${WRKSRC}/sample/ ${RUBY_MODEXAMPLESDIR}/
	${MKDIR} ${RUBY_MODDOCDIR}/ja
	${INSTALL_DATA} ${WRKSRC}/ChangeLog ${WRKSRC}/README ${RUBY_MODDOCDIR}/
	${INSTALL_DATA} ${WRKSRC}/doc/*.rd ${RUBY_MODDOCDIR}/
	${INSTALL_DATA} ${WRKSRC}/doc/*.rd.ja ${RUBY_MODDOCDIR}/ja/
.endif

.include <bsd.port.post.mk>
17.19</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/lodash.merge-4.6.2'>dependabot/npm_and_yarn/devel/electron4/files/lodash.merge-4.6.2</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/minimist-1.2.2'>dependabot/npm_and_yarn/devel/electron4/files/minimist-1.2.2</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/minimist-1.2.3'>dependabot/npm_and_yarn/devel/electron4/files/minimist-1.2.3</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/node-fetch-2.6.1'>dependabot/npm_and_yarn/devel/electron4/files/node-fetch-2.6.1</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/serve-10.1.2'>dependabot/npm_and_yarn/devel/electron4/files/serve-10.1.2</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/y18n-3.2.2'>dependabot/npm_and_yarn/devel/electron4/files/y18n-3.2.2</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.3'>dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.3</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.4'>dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.4</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/ini-1.3.8'>dependabot/npm_and_yarn/devel/electron6/files/ini-1.3.8</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/lodash-4.17.19'>dependabot/npm_and_yarn/devel/electron6/files/lodash-4.17.19</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/lodash.merge-4.6.2'>dependabot/npm_and_yarn/devel/electron6/files/lodash.merge-4.6.2</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/node-fetch-2.6.1'>dependabot/npm_and_yarn/devel/electron6/files/node-fetch-2.6.1</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/serve-10.1.2'>dependabot/npm_and_yarn/devel/electron6/files/serve-10.1.2</option>
<option value='gnome-3.22'>gnome-3.22</option>
<option value='gnome-3.24'>gnome-3.24</option>
<option value='gnome-3.26'>gnome-3.26</option>
<option value='gnome-3.28'>gnome-3.28</option>
<option value='gnome-3.32'>gnome-3.32</option>
<option value='gnome-3.36' selected='selected'>gnome-3.36</option>
<option value='gstreamer'>gstreamer</option>
<option value='gstreamer-1.16'>gstreamer-1.16</option>
<option value='gstreamer0.10-removal'>gstreamer0.10-removal</option>
<option value='main'>main</option>
<option value='master'>master</option>
<option value='mate-1.16'>mate-1.16</option>
<option value='mate-1.18'>mate-1.18</option>
<option value='mate-1.20'>mate-1.20</option>
<option value='mate-1.22'>mate-1.22</option>
</select> <input type='submit' value='switch'/></form></td></tr>
<tr><td class='sub'>FreeBSD GNOME current development ports (https://github.com/freebsd/freebsd-ports-gnome)</td><td class='sub right'></td></tr></table>
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