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* Remove # $FreeBSD$ from Makefiles.Mathieu Arnold2021-04-061-1/+0
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* biology/hmmer: disable on powerpc64le and powerpcspePiotr Kubaj2021-03-101-1/+1
| | | | | | | | Altivec/VSX code in this port works only on big-endian POWER. powerpcspe has neither SSE2 nor Altivec. Notes: svn path=/head/; revision=568013
* Also enable on powerpc64le.Mark Linimon2020-09-241-1/+1
| | | | | | | Approved by: portmgr (tier-2 blanket) Notes: svn path=/head/; revision=549947
* biology/hmmer: update to 3.3Fernando Apesteguía2020-01-294-9/+26
| | | | | | | | PR: 243244 Submitted by: mzaki@e-mail.ne.jp (maintainer) Notes: svn path=/head/; revision=524533
* Convert to UCL & cleanup pkg-message (categories a-c)Mathieu Arnold2019-08-131-2/+6
| | | | Notes: svn path=/head/; revision=508834
* Bump PORTREVISION for ports depending on the canonical version of GCCGerald Pfeifer2019-07-261-0/+1
| | | | | | | | | | | | | | | | | | as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3 to GCC 9.1 under most circumstances now after revision 507371. This includes ports - with USE_GCC=yes or USE_GCC=any, - with USES=fortran, - using Mk/bsd.octave.mk which in turn features USES=fortran, and - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang, c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib plus, everything INDEX-11 shows with a dependency on lang/gcc9 now. PR: 238330 Notes: svn path=/head/; revision=507372
* vec_splats function is not supported by base GCC. Add USES=compiler:c11Mark Linimon2019-02-181-2/+2
| | | | | | | | | | | to fix build on powerpc platforms. PR: 235514 Submitted by: Piotr Kubaj Approved by: portmgr (tier-2 blanket) Notes: svn path=/head/; revision=493230
* biology/hmmer: update to 3.2.1Steve Wills2018-07-114-46/+23
| | | | | | | | PR: 229693 Submitted by: Motomichi Matsuzaki <mzaki@niid.go.jp> (maintainer) Notes: svn path=/head/; revision=474455
* Back out previous commits by jbeich demand.Mark Linimon2017-12-182-10/+2
| | | | Notes: svn path=/head/; revision=456588
* Bah. Remove spare line from cut-and-paste.Mark Linimon2017-12-181-1/+0
| | | | Notes: svn path=/head/; revision=456579
* Attempt to fix build on non-x86 archs. Untested, but does no harmMark Linimon2017-12-182-2/+11
| | | | | | | | | on x86. Approved by: portmgr (tier-2 blanket) Notes: svn path=/head/; revision=456578
* - Update to 3.1b2Wen Heping2017-11-115-39/+69
| | | | | | | | | | | - Pass maintainership to submitter PR: 223561 Submitted by: mzaki@niid.go.jp Approved by: bacon4000@gmail.com(previous maintainer) Notes: svn path=/head/; revision=453972
* Remove dead master sitesBaptiste Daroussin2017-10-131-0/+2
| | | | Notes: svn path=/head/; revision=451981
* Begin deorbit burn of ia64. We have not attempted to build packages forMark Linimon2017-06-251-1/+1
| | | | | | | | | | | it for many years. While here, alphabetize ARCHs, pet portlint, and modernize usages. Approved by: portmgr (tier-2 blanket) Notes: svn path=/head/; revision=444251
* - Update maintainer mail addressMartin Wilke2015-12-111-1/+1
| | | | | | | | | | | | - Update/Remove MASTER_SITE PR: 204755 Submitted by: jwbacon@tds.net (maintainer) Approved by: mat (mentor) Differential Revision: D4493 Notes: svn path=/head/; revision=403506
* - Remove deprecated optionDmitry Marakasov2015-04-021-9/+16
| | | | | | | | | | | | - Tweak compiler flags - Add LICENSE - Pass maintainership to submitter PR: 199066 Submitted by: jwbacon@tds.net Notes: svn path=/head/; revision=383013
* Cleanup plistBaptiste Daroussin2014-10-201-2/+0
| | | | Notes: svn path=/head/; revision=371237
* Add DOCS to OPTIONS_DEFINE to ports that check for PORT_OPTIONS:MDOCS.Adam Weinberger2014-07-152-14/+21
| | | | | | | While here, use OPTIONS helpers and re-enable manpage installation. Notes: svn path=/head/; revision=361934
* Stage supportAntoine Brodin2013-12-301-13/+4
| | | | Notes: svn path=/head/; revision=338155
* Add NO_STAGE all over the place in preparation for the staging support (cat: ↵Baptiste Daroussin2013-09-201-0/+1
| | | | | | | biology) Notes: svn path=/head/; revision=327709
* - Convert to new perl frameworkAndrej Zverev2013-08-031-1/+1
| | | | | | | - Trim Makefile header Notes: svn path=/head/; revision=324181
* - Update to 3.0Wen Heping2013-07-203-32/+46
| | | | | | | | - Convert to optionsNG - Drop maintainership Notes: svn path=/head/; revision=323349
* - Take maintainershipWen Heping2012-10-011-1/+1
| | | | Notes: svn path=/head/; revision=305131
* - Reassign to the heap at maintainer's requestThomas Abthorpe2012-10-011-6/+2
| | | | Notes: svn path=/head/; revision=305130
* - Get Rid MD5 supportMartin Wilke2011-03-191-1/+0
| | | | Notes: svn path=/head/; revision=271305
* - Update download locations, update WWWPhilip M. Gollucci2009-02-012-2/+2
| | | | | | | Reported by: -fetch-original pointyhat run Notes: svn path=/head/; revision=227349
* SHA256ifyEdwin Groothuis2006-01-221-0/+1
| | | | | | | Approved by: krion@ Notes: svn path=/head/; revision=154141
* - Remove a junk white space.Sergey Matveychuk2004-11-251-1/+1
| | | | Notes: svn path=/head/; revision=122436
* - Update to 2.3.2Sergey Matveychuk2004-11-255-69/+38
| | | | | | | | | | | - Add WITH_PVM knob - Pass maintainership to submitter PR: ports/74331 Submitted by: Fernan Aguero <fernan(at)iib.unsam.edu.ar> Notes: svn path=/head/; revision=122435
* With portmgr hat on, reset inactive maintainer. These ports are now upMark Linimon2004-11-201-1/+1
| | | | | | | for adoption. Notes: svn path=/head/; revision=121990
* SIZEify (maintainer timeout)Trevor Johnson2004-03-311-0/+1
| | | | Notes: svn path=/head/; revision=105747
* Cosmetic fix: use %%DOCSDIR%% macro.Sergey A. Osokin2003-10-221-5/+5
| | | | | | | | | | No functionally changes. Submitted by: Oleg Karachevtsev <ok@etrust.ru> A part of PR: 57992 Notes: svn path=/head/; revision=91882
* Clear moonlight beckons.Ade Lovett2003-03-072-1/+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
* - Add patch that will, for -CURRENT only, change: -pthread -> -lc_rJohann Visagie2002-07-112-0/+23
| | | | | | | | | - Bump $PORTREVISION Prompted by: Various questions from Rune Linding <linding@EMBL-Heidelberg.DE> Notes: svn path=/head/; revision=62806
* - Update port to version 2.2gJohann Visagie2001-08-224-223/+34
| | | | Notes: svn path=/head/; revision=46641
* - General clean-up of port.Johann Visagie2001-07-055-38/+252
| | | | | | | | | | - Install PDF and HTML documentation. - Take over maintainership. Approved by: Silence from previous maintainer; no objections from -ports Notes: svn path=/head/; revision=44780
* - Add %%PORTDOCS%% support to pkg-plist.Johann Visagie2001-07-042-3/+3
| | | | | | | | | | - $INSTALL_MAN -> $INSTALL_DATA in Makefile where appropriate. PR: 28668 Submitted by: Patrick Li <pat@databits.net> Notes: svn path=/head/; revision=44742
* update with the new PORTNAME/PORTVERSION variablesMichael Haro2000-04-081-2/+2
| | | | Notes: svn path=/head/; revision=27416
* fix some pkg/MESSAGE stuffMichael Haro2000-01-291-1/+1
| | | | Notes: svn path=/head/; revision=25253
* Change Id->FreeBSD.David E. O'Brien1999-08-251-1/+1
| | | | Notes: svn path=/head/; revision=20941
* As threatened, enforce the "Capital, no period" rule. Ellipses areTim Vanderhoek1999-06-261-1/+1
| | | | | | | | permitted. Note that, given current numeric motif of PW, this is done in four equally-sized commits of 393 files each. Notes: svn path=/head/; revision=19799
* Weasal and Wabbits and BIG FOOT.Tim Vanderhoek1999-05-021-2/+1
| | | | Notes: svn path=/head/; revision=18337
* Upgrade to 2.1.1Bill Fenner1999-03-083-8/+16
| | | | | | | | PR: ports/10228 Submitted by: Michael Haro mharo@area51.fremont.ca.us Notes: svn path=/head/; revision=17072
* Change *_DEPENDS on lang/perl5 to USE_PERL5 so we won't have anySatoshi Asami1999-01-021-3/+2
| | | | | | | | | | dependencies to perl5 in -current. This might cause some unwanted perl5 installations on -stable (if it was originally RUN_DEPENDS, perl5 will now be installed during build too, etc.), but its lifetime is limited anyway. Notes: svn path=/head/; revision=15765
* Update MASTER_SITES.Bill Fumerola1998-12-091-2/+2
| | | | | | | Thanks To: Fenner's portsurvey and ftpsearch.lycos.com Notes: svn path=/head/; revision=15237
* Remove empty doc dir on deinstall.Steve Price1998-09-271-0/+1
| | | | Notes: svn path=/head/; revision=13429
* Remove manpages from pkg/PLISTDavid E. O'Brien1998-08-131-8/+0
| | | | Notes: svn path=/head/; revision=12504
* Initial import of hmmer version 2.0.Steve Price1998-07-126-0/+86
Profile hidden Markov models for biological sequence analysis. PR: 7120 Submitted by: Matthew Jason Euclid Barnhart <barnhart@sequencer.wustl.edu> Notes: svn path=/head/; revision=11871
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