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non port: biology/p5-AcePerl/Makefile

Number of commits found: 46

Wednesday, 7 Sep 2022
21:10 Stefan E├čer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.

This commit implements such a proposal and moves one of the WWW: entries
of each pkg-descr file into the respective port's Makefile. A heuristic
attempts to identify the most relevant URL in case there is more than
one WWW: entry in some pkg-descr file. URLs that are not moved into the
Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr
files in order to preserve them.

There are 1256 ports that had no WWW: entries in pkg-descr files. These
ports will not be touched in this commit.

The portlint port has been adjusted to expect a WWW entry in each port
Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as
deprecated.

Approved by:		portmgr (tcberner)
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 b7f0544
Wednesday, 20 Jul 2022
14:20 Tobias C. Berner (tcberner) search for other commits by this committer
biology: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Aaron Dalton <aaron@FreeBSD.org>
  *  Akinori MUSHA aka knu <knu@idaemons.org>
  *  Andrey Zakhvatov
  *  Bob Zimmermann <rpz@cse.wustl.edu>
  *  Camson Huynh <chuynh@biolateral.com.au>
  *  Dan Siercks <dsiercks@uwm.edu>
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Hannes Hauswedell <h2+fbsdports@fsfe.org>
  *  J. Bacon <jwb@FreeBSD.org>
  *  Jason Bacon <jwb@FreeBSD.org>
  *  Jeremy <karlj000@unbc.ca>
  *  Johann Visagie <johann@egenetics.com>
  *  Johann Visagie <wjv@FreeBSD.org>
  *  Mauricio Herrera Cuadra <mauricio@arareko.net>
  *  Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp>
  *  Motomichi Matsuzaki <mzaki@e-mail.ne.jp>
  *  Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp>
  *  Motomichi Matsuzaki <mzaki@niid.go.jp>
  *  Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Razi Khaja <razi@genet.sickkids.on.ca>
  *  Reed A. Cartwright <cartwright@asu.edu>
  *  Ryo MIYAMOTO
  *  Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
  *  Sangwoo Shim <sangwoos@gmail.com>
  *  Sunpoet Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Tassilo Philipp <tphilipp@potion-studios.com>
  *  Tony Maher
  *  Tony Maher <tonym@biolateral.com.au>
  *  Wen Heping <wen@FreeBSD.org>
  *  Wen Heping <wenheping@gmail.com>
  *  Yonatan <onatan@gmail.com>
  *  Yuri Victorovich <yuri@rawbw.com>
  *  ballen
  *  barnhart@genetics.wustl.edu
  *  camson@bilateral.com.au
  *  chuynh@biolateral.com.au
  *  dbader@eece.unm.edu
  *  frankch@waru.life.nthu.edu.tw
  *  h2
  *  lentferj
  *  maho@FreeBSD.org
  *  mzaki@biol.s.u-tokyo.ac.jp
  *  tonym
  *  wen@FreeBSD.org

With hat:	portmgr
commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 37526bb
Tuesday, 6 Apr 2021
14:31 Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb 305f148
Saturday, 6 Oct 2018
13:06 des search for other commits by this committer
Fix every instance of RUN_DEPENDS:=${BUILD_DEPENDS} in p5 ports, except
for where it resulted in a change in output from build-depends-list or
run-depends-list.

Approved by:	portmgr (adamw)
Original commitRevision:481365 
Friday, 15 Sep 2017
08:58 mat search for other commits by this committer
Fix license information for portgs that use "the same license as Perl".

Sponsored by:	Absolight
Original commitRevision:449893 
Monday, 13 Feb 2017
22:43 tijl search for other commits by this committer
Move -fPIC to where Linux puts it so it is limited to a single library.
Original commitRevision:434059 
Thursday, 9 Feb 2017
18:53 linimon search for other commits by this committer
Add -fPIC to various ports to enable them to build on armv6.

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:433767 
Friday, 11 Nov 2016
09:31 linimon search for other commits by this committer
Mark various leaf ports broken on aarch64, and, where appropriate, other
tier-2 archs.

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:425879 
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 
Monday, 29 Jun 2015
15:47 adamw search for other commits by this committer
After r390893, chmod u+w/u-w for stripping perl XS modules is unnecessary,
and in fact now leads to incorrect permissions.

Remove all instances of it from perl@ ports.
Original commitRevision:390918 
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 
Saturday, 28 Mar 2015
17:20 sunpoet search for other commits by this committer
- Add LICENSE
- Space/Tab fix
Original commitRevision:382527 
Tuesday, 17 Mar 2015
03:09 amdmi3 search for other commits by this committer
- Simplify MASTER_SITES
- Strip libraries
Original commitRevision:381464 
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 
Monday, 10 Feb 2014
06:56 miwi search for other commits by this committer
- Stage support
Original commitRevision:343590 
Wednesday, 5 Feb 2014
17:35 mat search for other commits by this committer
Drop maintainership on those.

Sponsored by:	Absolight
Original commitRevision:342799 
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 
Friday, 2 Aug 2013
18:52 mat search for other commits by this committer
- Convert to new perl framework
- Trim Makefile header
- Remove MAKE_JOBS_SAFE=yes, it's the default.
Original commitRevision:324174 
Sunday, 10 Jun 2012
18:42 swills search for other commits by this committer
- Convert all remaining instances of BUILD_DEPENDS=${RUN_DEPENDS} or
  RUN_DEPENDS=${BUILD_DEPENDS} to use := which portlint has warned
  about for a while.

PR:             ports/168208
Approved by:    portmgr (miwi)
Original commit
Monday, 4 Jun 2012
08:31 az search for other commits by this committer
- Remove SITE_PERL from *_DEPENDS
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
Saturday, 16 Jan 2010
14:45 kuriyama search for other commits by this committer
- Remove unneeded dependencies which is in perl-5.8.9 dist from ports
  maintained by (perl|ports|kuriyama)@FreeBSD.org.

- Targets are: Test::Simple, Digest::MD5, Locale-Maketext,
  ExtUtils::MakeMaker, ExtUtils::ParseXS, File::Temp, Getopt::Long,
  Encode, Digest, Pod::Parser, File::Spec.
Original commit
Sunday, 13 Dec 2009
18:07 pgollucci search for other commits by this committer
- Turn over a bunch of p5- ports that change infrequently to perl@
  so more people can look at them.
Original commit
Tuesday, 7 Jul 2009
22:11 pav search for other commits by this committer
- Flip MAKE_JOBS_SAFE to MAKE_JOBS_UNSAFE

Reported by:    pointyhat
Original commit
Saturday, 16 May 2009
06:27 pgollucci search for other commits by this committer
- Mark most of my ports MAKE_JOBS_SAFE=yes

Tested by: several builds in P6 TB
Original commit
Monday, 5 Jan 2009
17:27 pav search for other commits by this committer
- Remove conditional checks relevant only on FreeBSD 5.x and older
Original commit
Wednesday, 24 Dec 2008
08:23 pgollucci search for other commits by this committer
Update to 1.92
Changes http://search.cpan.org/src/LDS/AcePerl-1.92/ChangeLog

Approved by:    gabor (mentor)
Original commit
Wednesday, 23 Jul 2008
02:43 pgollucci search for other commits by this committer
Update my ports to my freebsd address

Approved by:    araujo (mentor)
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
Monday, 4 Dec 2006
04:13 rafan search for other commits by this committer
- Mark broken on amd64 < 6. We got following

cc -O -pipe  -fPIC  -g -Wall -DACEDB4  -I. -I./wh -DFREEBSD -c -O -pipe  -fPIC 
-g -Wall -DACEDB4 -c arraysub.c
arraysub.c: In function `stackused':
arraysub.c:54: error: unrecognizable insn:
(insn 44 22 24 2 arraysub.c:53 (set (reg:SI 1 dx [66])
        (subreg:SI (plus:DI (subreg:DI (reg:SI 7 sp) 0)
                        (const_int -1 [0xffffffffffffffff])) 0)) -1 (nil)
                            (nil))
arraysub.c:54: internal compiler error: in extract_insn, at recog.c:2083

Reported by:    pointyhat via kris
Approved by:    Philip M. Gollucci (maintainer)
Original commit
Monday, 27 Nov 2006
02:35 rafan search for other commits by this committer
- Update to 1.91
- Unbreak on amd64

PR:             ports/105414
Submitted by:   rafan
Approved by:    maintainer timeout (15 days)
Original commit
Tuesday, 2 May 2006
23:16 leeym search for other commits by this committer
- Update to 1.89
- refine BROKEN to make portlint happier
- patch to use on Scalar::Util instead of WeakRef
- mark IGNORE under old perl which don't support weak reference

PR:             96656
Submitted by:   leeym
Approved by:    maintainer
Original commit
Monday, 11 Apr 2005
20:34 flz search for other commits by this committer
- Change maintainer's email address.
Original commit
Sunday, 7 Mar 2004
12:56 kris search for other commits by this committer
BROKEN on amd64 and ia64: Does not compile (missing -fPIC)
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
Tuesday, 17 Jun 2003
18:39 erwin search for other commits by this committer
- update to 1.83
- give maintainership to submitter as the old maintainer's
  address bounces

PR:             52054
Submitted by:   Philip M. Gollucci <philip@p6m7g8.com>
Approved by:    maintainer bounces
Original commit
Friday, 21 Feb 2003
11:01 knu search for other commits by this committer
De-pkg-comment.
Original commit
Thursday, 13 Feb 2003
02:52 edwin search for other commits by this committer
Add dependency on security/p5-Digest-MD5
Noticed on: bento
Original commit
Thursday, 10 Oct 2002
12:59 knu search for other commits by this committer
CC, CXX, CFLAGS, PTHREAD_CFLAGS and PTHREAD_LIBS may contain `/' in
them when using a non-default compiler/linker, so do not use `/' as
delimiter for s///. (I picked `|' instead)
Original commit
Friday, 25 Jan 2002
12:35 wjv search for other commits by this committer
- Update to version 1.82    
Original commit
Monday, 13 Aug 2001
12:27 wjv search for other commits by this committer
Update to version 1.75    
Original commit
Tuesday, 13 Mar 2001
14:50 kevlo search for other commits by this committer
- Upgrade to version 1.70   - Update WWW    
Original commit
Thursday, 1 Mar 2001
06:39 vanilla search for other commits by this committer
Remove do-configure section, use PERL_CONFIGURE now.    
Original commit
Tuesday, 10 Oct 2000
05:03 kevlo search for other commits by this committer
- Update biology/p5-AcePerl from 1.62 to 1.67   - Alphabetise ${PLIST} to ease
future maintenance   - Port now compiles in XS optimisations and RPC server
interface   - Port now honours ${CC} properly, also for compiled extensions   -
Port now uses PERL_CONFIGURE   - Hand over port MAINTAINERship to FreeBSD
bio-porters mailing list    
Original commit
Friday, 28 Jul 2000
14:16 nbm search for other commits by this committer
Add p5-AcePerl, a perl interface to the ACEDB genome database system    
Original commit

Number of commits found: 46