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* - Move biology/p5-bioperl-run to biology/p5-BioPerl-RunSunpoet Po-Chuan Hsieh2016-12-181-48/+0
| | | | | | | | | - Sort *_DEPENDS - Add NO_ARCH - Bump PORTREVISION for biology/p5-bioperl renaming Notes: svn path=/head/; revision=428872
* Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.Mathieu Arnold2016-04-011-6/+6
| | | | | | | | With hat: portmgr Sponsored by: Absolight Notes: svn path=/head/; revision=412344
* Convert to new USE_GITHUB.Mathieu Arnold2015-03-201-9/+2
| | | | | | | | | While there, cleanup. Sponsored by: Absolight Notes: svn path=/head/; revision=381726
* Some OCD cleanups on some of the perl@ ports.Adam Weinberger2015-03-121-2/+2
| | | | | | | | | | | | | | | | - Remove dependencies in core - Put testing depends in TEST_DEPENDS - Remove unnecessary bsd.port.options.mk inclusions - Remove checks for Perl versions that no longer exist in the ports tree - Sort plists, some of which were so jumbled that I have to assume the plist was randomized before committing A lot of the plist changes in this commit are moving PERL5_MAN3 after SITE_PERL. It's repo churn now, but it makes updating the ports later far easier. Notes: svn path=/head/; revision=381151
* - Simplify MakefileSunpoet Po-Chuan Hsieh2015-01-181-9/+4
| | | | | | | | | - Use tab instead of space - Sort PLIST - Pass maintainership to perl@ Notes: svn path=/head/; revision=377369
* Change the way Perl modules are installed, update the default Perl to 5.18.Mathieu Arnold2014-11-261-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Before, we had: site_perl : lib/perl5/site_perl/5.18 site_perl/perl_arch : lib/perl5/site_perl/5.18/mach perl_man3 : lib/perl5/5.18/man/man3 Now we have: site_perl : lib/perl5/site_perl site_arch : lib/perl5/site_perl/mach/5.18 perl_man3 : lib/perl5/site_perl/man/man3 Modules without any .so will be installed at the same place regardless of the Perl version, minimizing the upgrade when the major Perl version is changed. It uses a version dependent directory for modules with compiled bits. As PERL_ARCH is no longer needed in plists, it has been removed from PLIST_SUB. The USE_PERL5=fixpacklist keyword is removed, the .packlist file is now always removed, as is perllocal.pod. The old site_perl and site_perl/arch directories have been kept in the default Perl @INC for all Perl ports, and will be phased out as these old Perl versions expire. PR: 194969 Differential Revision: https://reviews.freebsd.org/D1019 Exp-run by: antoine Reviewed by: perl@ Approved by: portmgr Notes: svn path=/head/; revision=373448
* biology/p5-bioperl-run: 1.6.1 -> 1.6.901, unbreak, stagifyKurt Jaeger2014-08-041-118/+28
| | | | Notes: svn path=/head/; revision=363975
* Reset maintainership for ports not staged with no pending PRBaptiste Daroussin2014-07-231-1/+1
| | | | | | | With hat: portmgr Notes: svn path=/head/; revision=362705
* Mark BROKEN: Fails to configureAntoine Brodin2014-06-191-0/+2
| | | | | | | | | | | | ===> Configuring for p5-bioperl-run-1.6.1_4 Invalid prerequisite condition '0/processing XML data/Bio::Tools::Run::EMBOSSacd' for XML::Twig at /usr/local/lib/perl5/site_perl/5.16/Module/Build/Base.pm line 1702. *** [do-configure] Error code 25 Reported by: pkg-fallout With hat: portmgr Notes: svn path=/head/; revision=358466
* Remove trailing whitespaces from category biologyEmanuel Haupt2014-02-211-1/+1
| | | | Notes: svn path=/head/; revision=345397
* According to the Porter's Handbook (5.12.2.3.) default options must be added toEmanuel Haupt2014-02-101-0/+2
| | | | | | | | | | | | | | OPTIONS_DEFINE. This policy has been implemented only recently that's why we have many ports violating this policy. This patch adds the default options specified in the Porter's Handbook to OPTIONS_DEFINE where they are being used. Ports maintained by gnome@FreeBSD.org, kde@FreeBSD.org and x11@FreeBSD.org have been excluded. Approved by: portmgr (bapt) Notes: svn path=/head/; revision=343634
* Convert biology to MDOCS and MEXAMPLESAdam Weinberger2014-01-031-1/+4
| | | | Notes: svn path=/head/; revision=338550
* Add NO_STAGE all over the place in preparation for the staging support (cat: ↵Baptiste Daroussin2013-09-201-5/+2
| | | | | | | biology) Notes: svn path=/head/; revision=327709
* - convert to the new perl5 frameworkAndrej Zverev2013-09-071-1/+2
| | | | | | | Approved by: portmgr (bapt@, blanket) Notes: svn path=/head/; revision=326575
* - Remove SITE_PERL from *_DEPENDSAndrej Zverev2012-06-301-2/+2
| | | | | | | Approved by: portmgr@ (bapt@) Notes: svn path=/head/; revision=300277
* - update png to 1.5.10Dirk Meyer2012-06-011-1/+1
| | | | Notes: svn path=/head/; revision=297915
* At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450Eitan Adler2012-01-211-1/+1
| | | | | | | | | | | | | ports use BUILD_DEPENDS:= ${RUN_DEPENDS}. This patch fixes ports that are currently broken. This is a temporary measure until we organically stop using := or someone(s) spend a lot of time changing all the ports over. Explicit duplication > := > = and this just moves ports one step to the left Approved by: portmgr Notes: svn path=/head/; revision=289563
* - update to 1.4.1Dirk Meyer2010-03-281-1/+1
| | | | | | | | Reviewed by: exp8 run on pointyhat Supported by: miwi Notes: svn path=/head/; revision=251605
* - update to jpeg-8Dirk Meyer2010-02-051-1/+1
| | | | Notes: svn path=/head/; revision=249285
* - Relax check on bioperl version; people keep forgetting to update this checkPav Lucistnik2009-08-021-1/+1
| | | | | | | | | when updating bioperl port Reported by: pointyhat Notes: svn path=/head/; revision=238785
* - bump all port that indirectly depends on libjpeg and have not yet been ↵Dirk Meyer2009-07-311-0/+1
| | | | | | | | | bumped or updated Requested by: edwin Notes: svn path=/head/; revision=238701
* - Update to 1.6.1Martin Wilke2009-03-191-337/+108
| | | | | | | | | PR: 132122 Submitted by: Wen Heping <wenheping@gmail.com> Approved by: maintainer Notes: svn path=/head/; revision=230440
* - Unbreak after p5-bioperl changed portrevisionPav Lucistnik2009-01-151-1/+1
| | | | Notes: svn path=/head/; revision=226209
* - Take advantage of CPAN macro from bsd.sites.mk, change ↵Marcelo Araujo2008-04-171-1/+1
| | | | | | | | | | | | ${MASTER_SITE_PERL_CPAN} to CPAN. PR: ports/122674 Submitted by: Philip M. Gollucci <pgollucci@p6m7g8.com> Reworked by: araujo (myself) Approved by: portmgr (pav) Notes: svn path=/head/; revision=211450
* Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+.Mark Linimon2007-09-081-7/+1
| | | | | | | | | | | Drop support for antique perl. Work done by: gabor Sponsored by: Google Summer of Code 2007 Hat: portmgr Notes: svn path=/head/; revision=199069
* - Welcome X.org 7.2 \o/.Florent Thoumie2007-05-191-1/+2
| | | | | | | | - Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}. - Bump PORTREVISION for ports intalling files in ${X11BASE}. Notes: svn path=/head/; revision=191544
* Bioperl-run contain modules that provides a PERL interface to variousRenato Botelho2006-05-021-0/+377
bioinformatics applications. This allows various applications to be used with common Bioperl objects. WWW: http://bioperl.org/ PR: ports/93674 Submitted by: Mauricio Herrera Cuadra <mauricio@arareko.net> Notes: svn path=/head/; revision=161213
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