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2024-01-10MAN?PREFIX: eleminate its usage and move man to share/manBaptiste Daroussin2-23/+24
2022-09-07Remove WWW entries moved into port MakefilesStefan Eßer1-2/+0
Commit b7f05445c00f has added WWW entries to port Makefiles based on WWW: lines in pkg-descr files. This commit removes the WWW: lines of moved-over URLs from these pkg-descr files. Approved by: portmgr (tcberner)
2022-09-07Add WWW entries to port MakefilesStefan Eßer1-0/+1
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)
2022-07-20biology: remove 'Created by' linesTobias C. Berner1-2/+0
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
2021-05-06Deorbit RESTRICTED && NO_CDROM, part one.Mathieu Arnold1-3/+2
For ports that already use the licenses framwork, merge the content of RESTRICTED/NO_CDROM/LEGAL* entries into LICENSEs. Approved by: rene Differential Revision: https://reviews.freebsd.org/D30010
2021-04-06Remove # $FreeBSD$ from Makefiles.Mathieu Arnold1-1/+0
2019-08-13Convert to UCL & cleanup pkg-message (categories a-c)Mathieu Arnold1-4/+6
Notes: svn path=/head/; revision=508834
2016-05-19- Fix trailing whitespace in pkg-messagesDmitry Marakasov1-2/+2
Approved by: portmgr blanket Notes: svn path=/head/; revision=415503
2015-10-16- Update to 36.3.8Danilo Egea Gondolfo2-4/+4
- Pass maintainership to submitter PR: 203817 Submitted by: Wendell Borges <wendell@bsd.com.br> Notes: svn path=/head/; revision=399468
2015-05-07- Update to 36.3.7aWen Heping3-6/+11
Notes: svn path=/head/; revision=385592
2014-10-20Cleanup plistBaptiste Daroussin1-3/+0
Notes: svn path=/head/; revision=371237
2014-03-02biology/fasta3: Checked new distfile and regenerated distinfo to unbreakJohn Marino2-3/+8
Fasta3 distfile was significantly changed. This should have been released as a new version (e.g. 36.3.6e), so it's not clear why the distfile was rerolled. There are significant changes to makefiles, conf files and even a few .c and .h files. They all look like legitimate updates to me though. Set DIST_SUBDIR since this port is now known for rerolling, then regenerate distinfo. Also add Fasta license and bump revision. Notes: svn path=/head/; revision=346755
2014-01-03Mark as broken: Invalid checksum, seems like the software was rerolledBaptiste Daroussin1-0/+2
Notes: svn path=/head/; revision=338577
2013-10-29Update to version 36.3.6dPawel Pekala5-93/+114
PR: ports/181883 Submitted by: KATO Tsuguru <tkato432@yahoo.com> Notes: svn path=/head/; revision=331982
2013-09-20Add NO_STAGE all over the place in preparation for the staging support (cat: ↵Baptiste Daroussin1-0/+1
biology) Notes: svn path=/head/; revision=327709
2013-09-07- Use single space after WWW:Sunpoet Po-Chuan Hsieh1-1/+1
Notes: svn path=/head/; revision=326658
2013-07-19- Update to 36.3.6Wen Heping5-23/+30
- Drop maintainership Notes: svn path=/head/; revision=323293
2012-10-01- Take maintainershipWen Heping1-1/+1
Notes: svn path=/head/; revision=305131
2012-10-01- Reassign to the heap at maintainer's requestThomas Abthorpe1-7/+2
Notes: svn path=/head/; revision=305130
2011-10-22- remove maintainer tags from pkg-descrEitan Adler1-2/+0
Approved by: portmgr Approved by: bapt (mentor) Notes: svn path=/head/; revision=284139
2011-01-26- Update to 36.3.2 to fix distfile fetching on pointyhatBeat Gaetzi3-16/+13
PR: ports/154267 Submitted by: Fernan Aguero <fernan AT iib.unsam.edu.ar> (maintainer) Feature safe: yes Notes: svn path=/head/; revision=268272
2009-08-23Update to 35.4.9Max Brazhnikov2-4/+4
PR: ports/137991 Submitted by: Fernan Aguero (maintainer) Notes: svn path=/head/; revision=240189
2009-06-09- Update to 35.4.7 [1]Ion-Mihai Tetcu4-8/+27
- Obey PREFIX [2] Submitted by: maintainer [1] [2] Reported by: QATty [2] Notes: svn path=/head/; revision=235478
2009-02-23- Add forgotten patchDmitry Marakasov1-0/+11
Notes: svn path=/head/; revision=228919
2009-02-23- Update to 35.4.4Dmitry Marakasov3-25/+47
PR: 132007 Submitted by: Fernan Aguero <fernan at iib dot unsam dot edu dot ar> (maintainer) Notes: svn path=/head/; revision=228918
2008-04-10- Update to 35.3.6Cheng-Lung Sung2-5/+5
PR: ports/122607 Submitted by: maintainer (Fernan Aguero) Notes: svn path=/head/; revision=210980
2008-03-30- Update to 35.3.5Rong-En Fan3-53/+49
- Switch to .tar.gz distfile so that we don't define our do-extract - While I'm here, using substitution for version numbers in pkg-plist for easier upgrade PR: ports/121690 Submitted by: Wen heping <wenheping at gmail.com> Approved by: maintainer timeout (2 weeks) Notes: svn path=/head/; revision=210155
2007-03-09- Update to 34.26.2Martin Wilke2-8/+6
PR: 110079 Submitted by: Fernan Aguero<fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=186993
2006-10-31- Update to 34.t26.b3Martin Wilke3-4/+7
PR: ports/104508 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=175755
2006-06-09- Update to 34.t25.d9Pav Lucistnik2-5/+5
PR: ports/98761 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=164922
2006-06-05- Update to 34.t25.d8 [1]Erwin Lansing2-5/+5
- While I'm here, pet portlint [2] PR: 98398 [1] Submitted by: miwi [1], self [2] Approved by: maintainer [1] Notes: svn path=/head/; revision=164525
2006-05-24- update to 34.t25.d7Sergey Matveychuk3-77/+7
- add MASTER_SITE_LOCAL as a second master site PR: ports/97310 Submitted by: maintainer Notes: svn path=/head/; revision=163293
2006-05-21BROKEN: UnfetchableKris Kennaway1-0/+2
Notes: svn path=/head/; revision=163002
2006-05-07- Update to 34.t25.d6Sergey Matveychuk4-38/+80
PR: ports/96063 Submitted by: maintainer Notes: svn path=/head/; revision=161621
2006-03-20- Update to 34.t25.d5Pav Lucistnik2-4/+4
PR: ports/94741 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=157817
2006-02-10Update to 34.t25.d4.Sam Lawrance11-167/+155
PR: ports/93052 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=155633
2006-01-22SHA256ifyEdwin Groothuis1-0/+1
Approved by: krion@ Notes: svn path=/head/; revision=154141
2004-07-01Chase mastersite and fix checksum to unbreak. (Changes are inclusion of aMark Linimon2-8/+4
logfile, one Linux-only change, and one change in a test script). Assign submitter as new maintainer as current one has not responded to PRs for some time. PR: ports/68199 Submitted by: Fernan Aguero <fernan at iib dot unsam dot edu dot ar> Notes: svn path=/head/; revision=112639
2004-06-21Set an expiry date of 2004-08-20 for these BROKEN/IGNORE/FORBIDDENKris Kennaway1-0/+2
ports. They will be removed on or after that date if they are still broken and no fix has been submitted to GNATS. Notes: svn path=/head/; revision=111956
2004-03-31SIZEify (maintainer timeout)Trevor Johnson1-0/+1
Notes: svn path=/head/; revision=105747
2004-02-21BROKEN: Checksum mismatchKris Kennaway1-0/+2
Notes: svn path=/head/; revision=101589
2003-11-15unPERLify by using REINPLACE_CMD and SED where appropriate.Joe Marcus Clarke1-1/+1
PR: 47654 Submitted by: Simon 'portlint' Schubert <corecode@corecode.ath.cx> Notes: svn path=/head/; revision=94047
2003-10-22Cosmetic fix: use %%DOCSDIR%% macro.Sergey A. Osokin1-20/+20
No functionally changes. Submitted by: Oleg Karachevtsev <ok@etrust.ru> A part of PR: 57992 Notes: svn path=/head/; revision=91882
2003-03-07Clear moonlight beckons.Ade Lovett2-1/+1
Requiem mors pacem pkg-comment, And be calm ports tree. E Nomini Patri, E Fili, E Spiritu Sancti. Notes: svn path=/head/; revision=77045
2002-08-23Prefer <limits.h> over <values.h> as the latter has been removed fromKris Kennaway4-0/+44
-current. Noticed by: bento Notes: svn path=/head/; revision=64853
2001-07-03Replace erroneous usage of INSTALL_MAN with INSTALL_DATA.Johann Visagie1-1/+1
PR: 28666 Submitted by: Patrick Li <pat@databits.net> Notes: svn path=/head/; revision=44684
2001-06-27Updating my email address in my remaining ports.Johann Visagie1-1/+1
Prompted by: vanilla Notes: svn path=/head/; revision=44495
2001-05-07Updata biology/fasta3 to version 33.t08.d4James E. Housley3-8/+8
PR: 27176 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER Notes: svn path=/head/; revision=42359
2001-03-22Update to 33.t08.d3.Maxim Sobolev3-4/+3
Submitted by: maintainer Notes: svn path=/head/; revision=40193
2001-03-12- A small bugfix lead to a rerelease without a version number change.Neil Blakey-Milner2-1/+2
- Bumped PORTREVISION. Submitted by: Johann Visagie <johann@egenetics.com> PR: 25725 Notes: svn path=/head/; revision=39638