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* fix WWW:FUJISHIMA Satsuki2001-03-091-1/+1
| | | | | | | | PR: 25625 Submitted by: maintainer Notes: svn path=/head/; revision=39302
* update to 33.t08.d2.FUJISHIMA Satsuki2001-03-082-2/+2
| | | | | | | | PR: 25609 Submitted by: maintainer Notes: svn path=/head/; revision=39262
* gd.2, not gd.1Ying-Chieh Liao2001-03-051-1/+1
| | | | | | | Submitted by: bento Notes: svn path=/head/; revision=39071
* Change MASTER_SITE and FTP/WWW lines: caos.kun.nl is cmbi.kun.nl now.Peter Pentchev2001-03-042-3/+3
| | | | | | | | PR: 25422 Submitted by: Marc van Woerkom <marc.vanwoerkom@science-factory.com> Notes: svn path=/head/; revision=39046
* Remove do-configure section, use PERL_CONFIGURE now.Vanilla I. Shu2001-03-011-1/+0
| | | | Notes: svn path=/head/; revision=38917
* Update to version 1.10.1Kevin Lo2001-02-283-8/+7
| | | | | | | | PR: 25449 Submitted by: maintainer Notes: svn path=/head/; revision=38900
* reimport biology/genpakYing-Chieh Liao2001-02-288-0/+164
| | | | Notes: svn path=/head/; revision=38875
* module name conflict with print/gp, so remove it and I'll reimport it againYing-Chieh Liao2001-02-288-163/+0
| | | | Notes: svn path=/head/; revision=38874
* add gpYing-Chieh Liao2001-02-278-0/+163
| | | | | | | GP is a set of small utilities to manipulate DNA sequences Notes: svn path=/head/; revision=38854
* Update to version 1.10.0Kevin Lo2001-02-205-24/+51
| | | | | | | | PR: 25228 Submitted by: MAINTAINER Notes: svn path=/head/; revision=38518
* The author (at my request) has gone back to a more FreeBSD-friendlyTrevor Johnson2001-02-192-2/+1
| | | | | | | way of naming the distfile. Change the port accordingly. Notes: svn path=/head/; revision=38494
* Update to 0.84.Trevor Johnson2001-02-193-15/+14
| | | | Notes: svn path=/head/; revision=38487
* Update to version 2001-02-06James E. Housley2001-02-192-2/+2
| | | | | | | | PR: 25200 Submitted by: Johann Visagie <johann@egenetics.com> Notes: svn path=/head/; revision=38477
* Chase graphics/gd's shlib version bump.Akinori MUSHA2001-02-121-1/+2
| | | | Notes: svn path=/head/; revision=38246
* - New port: biology/fasta3, which comprises the FASTA3 suite of DNA andJames E. Housley2001-02-119-0/+204
| | | | | | | | | | | | protein sequence search programs - FASTA3 updates only some of the elements of FASTA2, which is why I have submitted ports of both versions (as biology/fasta and biology/fasta3) PR: 24716 Submitted by: Johann Visagie <johann@egenetics.com> Notes: svn path=/head/; revision=38207
* New port: biology/fasta, the FASTA2 suite of DNA and protein sequenceJames E. Housley2001-02-118-0/+151
| | | | | | | | | | search tools PR: 24715 Submitted by: Johann Visagie <johann@egenetics.com> Notes: svn path=/head/; revision=38205
* add gaussian98, an ab-initio molecular orbital calculation program.FUJISHIMA Satsuki2001-02-1012-0/+822
| | | | | | | | PR: 23577 Submitted by: NAKATA, Maho <chat95@mbox.kyoto-inet.or.jp> Notes: svn path=/head/; revision=38180
* Update to 0.84a. Generate the plist.Trevor Johnson2001-02-083-8/+10
| | | | Notes: svn path=/head/; revision=38124
* - Update EMBOSS (biology/emboss) from 1.9.0 to 1.9.1Kevin Lo2001-01-2910-77/+118
| | | | | | | | | | | - Update the EMBASSY package EMNU from 1.0.2 to 1.0.3 - Merged the four pkg-plist* files into one PR: 24717 Submitted by: MAINTAINER Notes: svn path=/head/; revision=37757
* update from 3.7 to 3.8Ying-Chieh Liao2001-01-2418-167/+706
| | | | | | | | PR: 24371 Submitted by: MAINTAINER Notes: svn path=/head/; revision=37545
* Upgrade to version 1.9.0Kevin Lo2001-01-246-13/+47
| | | | | | | | PR: 24597 Submitted by: MAINTAINER Notes: svn path=/head/; revision=37536
* Massive style enforcement - use ^I instead of spaces for variables identation.Maxim Sobolev2001-01-161-2/+2
| | | | Notes: svn path=/head/; revision=37252
* Clean up inefficient perl invocations; use multiple REs in the same call.Will Andrews2001-01-071-2/+2
| | | | Notes: svn path=/head/; revision=36897
* Update to 1.2.6Kevin Lo2000-12-224-7/+25
| | | | | | | | PR: 23756 Submitted by: Ports Fury Notes: svn path=/head/; revision=36229
* Remove trailing period and package name from the pkg-comment.Dmitry Sivachenko2000-12-181-1/+1
| | | | Notes: svn path=/head/; revision=36071
* Update to version 5.79.Steve Price2000-12-113-26/+42
| | | | | | | | PR: 23345 Submitted by: Jeremy Shaffner <jeremy@external.org> Notes: svn path=/head/; revision=35877
* Update distfiles' checksums after the distfiles have been rerolled yetPeter Pentchev2000-12-042-4/+5
| | | | | | | | | | again without changing names or versions. Also add a new MASTER_SITE. PR: 23262 Submitted by: Johann Visagie <johann@egenetics.com> Notes: svn path=/head/; revision=35651
* Distfile tarballs were rerolled without notice due to a minor bug.Peter Pentchev2000-11-301-4/+4
| | | | | | | | PR: 23193 Submitted by: Johann Visagie <johann@egenetics.com> Notes: svn path=/head/; revision=35565
* - Update port biology/emboss from 1.7.0 to 1.8.0James E. Housley2000-11-284-17/+124
| | | | | | | | PR: 23130 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER Notes: svn path=/head/; revision=35477
* Make nolonger support :U. Fix to compensate for that.James E. Housley2000-11-191-3/+6
| | | | | | | | Submitted by: fenner Approved by: MAINTAINER Notes: svn path=/head/; revision=35251
* They made changes to the "blast" program.James E. Housley2000-11-152-2/+3
| | | | | | | Submitted by: MAINTAINER Notes: svn path=/head/; revision=35154
* - This is a fairly extensive rework of this port.James E. Housley2000-11-133-0/+56
| | | | | | | | | | | | | | - "EMBASSY" applications are third party tools which have been adapted to function as part of EMBOSS, but which are not included with the base EMBOSS distribution for licensing or other reasons. This new version of the EMBOSS port now contains the three current EMBASSY applications as well, and during installation the user is presented with a dialog(1) menu to PR: 22818 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER Notes: svn path=/head/; revision=35081
* - This is a fairly extensive rework of this port.James E. Housley2000-11-134-5/+150
| | | | | | | | | | | | | | | - "EMBASSY" applications are third party tools which have been adapted to function as part of EMBOSS, but which are not included with the base EMBOSS distribution for licensing or other reasons. This new version of the EMBOSS port now contains the three current EMBASSY applications as well, and during installation the user is presented with a dialog(1) menu to choose which of these should be isntalled. PR: 22818 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER Notes: svn path=/head/; revision=35080
* Change motif to a normal dependency. REQUIRES_MOTIF is now calledSatoshi Asami2000-11-071-1/+1
| | | | | | | | | | | | | | | | | USE_MOTIF and generates a LIB_DEPENDS to x11-toolkits/open-motif. As before, it implies USE_XPM (and therefore USE_XLIB). Motif-dummy is removed from PKG_IGNORE_DEPENDS, whose sole resident is now XFree86-3. Most of the simple ".if defined(HAVE_MOTIF)"s are removed to always have USE_MOTIF. ftp/moxftp will define USE_MOTIF unless WANT_ATHENA_VERSION (new variable) is defined. I merged the X cases in cad/mars, so USE_MOTIF is used iff WITHOUT_X11 is not defined. I will remove x11-toolkits/Motif-dummy (which has been repo copied to open-motif) in a few days. Notes: svn path=/head/; revision=34892
* Yes. They did re-roll this version, it is legit.James E. Housley2000-11-032-2/+2
| | | | | | | | | | | They donot version the dist, but store them in versioned dir. Update Makefile to handle that. Update CHECKSUM Submitted by: bento Notes: svn path=/head/; revision=34732
* Updated to new version. That is the pits, the day after it becomesJames E. Housley2000-11-024-4/+3
| | | | | | | | | | a port they release a new version. This is a new version, w/o a number. PR: 22522 Submitted by: Tony Maher <tonym@dt.home> MAINTAINER Notes: svn path=/head/; revision=34626
* Make portlint happy, remove a spaceJames E. Housley2000-11-011-1/+1
| | | | Notes: svn path=/head/; revision=34535
* Update to version 1.7.0James E. Housley2000-11-013-2/+11
| | | | | | | | PR: 22474 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER Notes: svn path=/head/; revision=34533
* File missing in pkg-plistJames E. Housley2000-10-301-0/+1
| | | | | | | Submitted by: bento Notes: svn path=/head/; revision=34458
* New Port: biology/ncbi-toolkitJames E. Housley2000-10-2911-0/+376
| | | | | | | | | | National Center for Biotechnology Information (NCBI) Development Toolkit. PR: 22388 Submitted by: Tony Maher <tony.maher@ebioinformatics.com> Notes: svn path=/head/; revision=34402
* Update biology/sim4 to 2000.10.19James E. Housley2000-10-263-5/+7
| | | | | | | | | | Maintainership over to FreeBSD bio-porters mailing list PR: 22306 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER Notes: svn path=/head/; revision=34252
* gmake is neededJames E. Housley2000-10-241-0/+1
| | | | | | | Submitted by: bento Notes: svn path=/head/; revision=34172
* Update to version 0.6.2James E. Housley2000-10-133-174/+132
| | | | | | | | PR: 21954 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER Notes: svn path=/head/; revision=33772
* A file was added to distfile and then repackaged with the same name.James E. Housley2000-10-133-2/+5
| | | | | | | | | | No response from MAINTAINER PR: 21345 Submitted by: Johann Visagie <wjv@cityip.co.za> (actual patch) Notes: svn path=/head/; revision=33769
* Initial import of fastDNAml Version 1.2.2James E. Housley2000-10-126-0/+93
| | | | | | | | | | The faster variant of DNAML, makes phylogenetic trees using maximum likelihood PR: 21931 Submitted by: Motomichi Matsuzaki <mzaki@e-mail.ne.jp> Notes: svn path=/head/; revision=33727
* Missing " in post-patch targetJames E. Housley2000-10-111-1/+1
| | | | | | | Submitted by: bento Notes: svn path=/head/; revision=33706
* PR 21608 was not processed as intented.James E. Housley2000-10-102-21/+22
| | | | | | | | | | Bumped PORTREVISION and removed duplicate from pkg-plist. PR: 21894 Submitted by: KATO Tsuguru <tkato@prontomail.ne.jp> Notes: svn path=/head/; revision=33686
* Initial import of biology/biojavaJames E. Housley2000-10-106-0/+661
| | | | | | | | PR: 21678 Submitted by: Brad Chapman <chapmanb@arches.uga.edu> Notes: svn path=/head/; revision=33667
* - Update to 1.6.0Kevin Lo2000-10-103-363/+372
| | | | | | | | | | - Reorder packing list PR: 21857 Submitted by: MAINTAINER Notes: svn path=/head/; revision=33651
* - Update biology/p5-AcePerl from 1.62 to 1.67Kevin Lo2000-10-106-61/+88
| | | | | | | | | | | | | | - 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 PR: 21865 Submitted by: MAINTAINER Notes: svn path=/head/; revision=33644
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