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non port: biology/p5-bioperl/Makefile

Number of commits found: 46

Sunday, 20 Nov 2016
23:56 sunpoet search for other commits by this committer
- Remove unnecessary USES=shebangfix
- Convert to new options target helper
Original commitRevision:426677 
Friday, 1 Apr 2016
13:29 mat search for other commits by this committer
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight
Original commitRevision:412344 
Saturday, 30 May 2015
12:32 amdmi3 search for other commits by this committer
- Fix shebangs
- Add NO_ARCH
- Add missing EXAMPLES option

Approved by:	portmgr blanket
MFH:		2015Q2
Original commitRevision:387940 
Friday, 8 May 2015
18:12 adamw search for other commits by this committer
Reassign biology/ perl modules to perl@.

While here:

Regenerate p5-AcePerl's patches using makepatch.
Make p5-Bio-ASN1-EntrezGene depend on p5-bioperl, instead of the
other way around. Bump PORTREVISION on those two ports.
Original commitRevision:385811 
Thursday, 12 Mar 2015
23:00 adamw search for other commits by this committer
Some OCD cleanups on some of the perl@ ports.

- 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.
Original commitRevision:381151 
Wednesday, 26 Nov 2014
13:08 mat search for other commits by this committer
Change the way Perl modules are installed, update the default Perl to 5.18.

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
Original commitRevision:373448 
Sunday, 27 Jul 2014
07:27 wen search for other commits by this committer
- Update to 1.6.924 [1]
- Reset maintainer to perl@

PR:		192088 [1]
Submitted by:	Kurt Jaeger<pi@FreeBSD.org> [1]
Original commitRevision:363015 
Friday, 30 May 2014
15:46 wen search for other commits by this committer
- Update to 1.6.923
- Add STAGE support

PR:		190342
Submitted by:	Muhammad Moinur Rahman <5u623l20@gmail.com>
Original commitRevision:355863 
Wednesday, 9 Apr 2014
09:49 bapt search for other commits by this committer
Mark as broken unstaged perl ports

With hat:	portmgr
Original commitRevision:350675 
Friday, 21 Feb 2014
13:35 ehaupt search for other commits by this committer
Remove trailing whitespaces from category biology
Original commitRevision:345397 
Monday, 10 Feb 2014
13:54 ehaupt search for other commits by this committer
According to the Porter's Handbook (5.12.2.3.) default options must be added to
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)
Original commitRevision:343634 
Friday, 3 Jan 2014
15:46 adamw search for other commits by this committer
Convert biology to MDOCS and MEXAMPLES
Original commitRevision:338550 
Friday, 20 Sep 2013
15:55 bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
Original commitRevision:327709 
Tuesday, 6 Aug 2013
08:50 az search for other commits by this committer
- Convert to new perl framework
- Trim Makefile header

Approved by:	wen@ (maintainer)
Original commitRevision:324306 
Friday, 7 Jun 2013
06:51 az search for other commits by this committer
- Avoid of using SITE_PERL
- Remove depend on DB_File.pm since it part of perl distribution

PR:		ports/178877
Submitted by:	az
Approved by:	matainer (timeout)
Original commitRevision:320153 
Monday, 1 Oct 2012
14:55 wen search for other commits by this committer
- Take maintainership
Original commitRevision:305131 
14:45 tabthorpe search for other commits by this committer
- Reassign to the heap at maintainer's request
Original commitRevision:305130 
Saturday, 30 Jun 2012
05:21 az search for other commits by this committer
- Remove SITE_PERL from *_DEPENDS

Approved by: portmgr@ (bapt@)
Original commit
Friday, 1 Jun 2012
05:26 dinoex search for other commits by this committer
- update png to 1.5.10
Original commit
Saturday, 21 Jan 2012
17:40 eadler search for other commits by this committer
At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450
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
Original commit
Sunday, 28 Mar 2010
06:47 dinoex search for other commits by this committer
- update to 1.4.1
Reviewed by:    exp8 run on pointyhat
Supported by:   miwi
Original commit
Friday, 5 Feb 2010
11:46 dinoex search for other commits by this committer
- update to jpeg-8
Original commit
Friday, 29 Jan 2010
14:52 kuriyama search for other commits by this committer
- Remove unneeded dependencies which is in perl-5.8.9 dist
  (part 19; last!).

Approved by:    portmgr (itetcu)
Original commit
Friday, 4 Dec 2009
11:50 wen search for other commits by this committer
- Update to 1.6.1

Approved by:    maintainer (via Email)
Original commit
Friday, 31 Jul 2009
13:57 dinoex search for other commits by this committer
- bump all port that indirectly depends on libjpeg and have not yet been bumped
or updated
Requested by:   edwin
Original commit
Wednesday, 22 Jul 2009
16:27 pgollucci search for other commits by this committer
- lang/perl5.6 is dead, remove PERL_LEVEL/PERL_VERSION < 500801 checks

PR:             ports/135398
Tested by:      2 -exp runs by pav
Approved by:    portmgr (pav)
Original commit
Thursday, 5 Mar 2009
17:56 skv search for other commits by this committer
Remove variable PERL_VER from the ports tree at all - because
it is obsolete since Perl 5.6.0.
Original commit
Monday, 23 Feb 2009
19:31 garga search for other commits by this committer
- Update to 1.6.0

PR:             ports/131989
Submitted by:   maintainer
Original commit
Wednesday, 14 Jan 2009
14:51 tobez search for other commits by this committer
Fix plist with perl 5.8.9.

Approved by:    portmgr (pav, implicit)
Original commit
Thursday, 17 Apr 2008
14:30 araujo search for other commits by this committer
- Take advantage of CPAN macro from bsd.sites.mk, change
${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)
Original commit
Saturday, 8 Sep 2007
00:53 linimon search for other commits by this committer
Welcome bsd.perl.mk.  Add support for constructs such as USE_PERL5=5.8.0+.
Drop support for antique perl.

Work done by:   gabor
Sponsored by:   Google Summer of Code 2007
Hat:            portmgr
Original commit
Saturday, 19 May 2007
20:32 flz search for other commits by this committer
- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.
Original commit
Sunday, 4 Dec 2005
22:11 edwin search for other commits by this committer
Add conflicst:
CONFLICTS=     p5-bioperl-1.[13579]*

Submitted by:   Mauricio Herrera Cuadra <arareko@yahoo.com>,Fernan Aguero
<fernan@iib.unsam.edu.ar>
Original commit
Friday, 3 Sep 2004
17:04 leeym search for other commits by this committer
- add missing MAN1 and MAN3
- apply DATADIR, EXAMPLESDIR, and DOCSDIR in PLIST
- update the usage of NOPORTDOCS

PR:             71322
Submitted by:   leeym
Approved by:    Fernan Aguero <fernan@iib.unsam.edu.ar>
Original commit
Thursday, 12 Aug 2004
12:48 mat search for other commits by this committer
After devel/p5-File-Temp has gained an IGNORE for PERL_LEVEL > 500800, all
these ports were broken because they always depended on it. I've rearranged all
the dependencies to fit the new scheme.
Original commit
Monday, 8 Mar 2004
03:29 linimon search for other commits by this committer
Unmark as broken for 4.x; instead, mark as ignore for perl < 5.6.
Original commit
Sunday, 22 Feb 2004
00:06 kris search for other commits by this committer
BROKEN on 4.x: Configure fails
Original commit
Wednesday, 21 Jan 2004
08:34 linimon search for other commits by this committer
Major update from 0.7.2 to 1.4 by new maintainer.  This is almost a complete
rework of the port.

See the page http://news.open-bio.org/archives/cat_bioperl.html for the
changes between 1.2 and 1.4.  The older changes are in the CVS tree.

From the new maintainer:

        Note that this new port just handles the installation of bioperl and
        not of additional extra stuff (bioperl-gui, bioperl-corba-server,
        bioperl-corba-client). This is unlike the behaviour of the current
        port.

        The extra stuff, though still functional, had very little adoption
        among users, and does not appear to be currently supported/maintained.

PR:             ports/47303 (and subsequent)
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (new maintainer)
Original commit
Friday, 24 Oct 2003
12:05 ijliao search for other commits by this committer
utilize SITE_PERL

PR:             58166
Submitted by:   Cheng-Lung Sung <clsung@dragon2.net>
Original commit
Friday, 7 Mar 2003
05:56 ade search for other commits by this committer
Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.
Original commit
Friday, 25 Jan 2002
11:46 wjv search for other commits by this committer
- Update to version 0.7.2, somewhat overdue.  :-)    
Original commit
Monday, 13 Aug 2001
11:26 wjv search for other commits by this committer
- Properly list run-time dependencies in RUN_DEPENDS in Makefile.   - Deploy
%%PERL_VER%% and %%PERL_ARCH%% pragmas consistently throughout     pkg-plist. 
(Ouch, that was embarrassing.)   - Bump PORTREVISION due to the above.   -
Update my email address and the project's URL in pkg-descr.    
Original commit
Wednesday, 4 Jul 2001
14:22 wjv search for other commits by this committer
- Update to version 0.7.1   - Add a build-time message to inform the user of
available options.    
Original commit
Tuesday, 26 Jun 2001
16:09 wjv search for other commits by this committer
Embarrassingly long overdue update to 0.7.0, including optional support for  
GUI (Tk) and CORBA extensions.    
Original commit
Friday, 13 Oct 2000
13:43 jeh search for other commits by this committer
Update to version 0.6.2    
Original commit
Friday, 28 Jul 2000
15:06 nbm search for other commits by this committer
Add BioPerl, a collection of Perl5 mods for bioinformatics/genomics    
Original commit

Number of commits found: 46