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* gd.2, not gd.1ijliao2001-03-051-1/+1
| | | | Submitted by: bento
* Change MASTER_SITE and FTP/WWW lines: caos.kun.nl is cmbi.kun.nl now.roam2001-03-042-3/+3
| | | | | PR: 25422 Submitted by: Marc van Woerkom <marc.vanwoerkom@science-factory.com>
* Remove do-configure section, use PERL_CONFIGURE now.vanilla2001-03-011-1/+0
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* Update to version 1.10.1kevlo2001-02-283-8/+7
| | | | | PR: 25449 Submitted by: maintainer
* reimport biology/genpakijliao2001-02-288-0/+164
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* module name conflict with print/gp, so remove it and I'll reimport it againijliao2001-02-288-163/+0
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* add gpijliao2001-02-278-0/+163
| | | | GP is a set of small utilities to manipulate DNA sequences
* Update to version 1.10.0kevlo2001-02-205-24/+51
| | | | | PR: 25228 Submitted by: MAINTAINER
* The author (at my request) has gone back to a more FreeBSD-friendlytrevor2001-02-192-2/+1
| | | | way of naming the distfile. Change the port accordingly.
* Update to 0.84.trevor2001-02-193-15/+14
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* Update to version 2001-02-06jeh2001-02-192-2/+2
| | | | | PR: 25200 Submitted by: Johann Visagie <johann@egenetics.com>
* Chase graphics/gd's shlib version bump.knu2001-02-121-1/+2
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* - New port: biology/fasta3, which comprises the FASTA3 suite of DNA andjeh2001-02-119-0/+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>
* New port: biology/fasta, the FASTA2 suite of DNA and protein sequencejeh2001-02-118-0/+151
| | | | | | | search tools PR: 24715 Submitted by: Johann Visagie <johann@egenetics.com>
* add gaussian98, an ab-initio molecular orbital calculation program.sf2001-02-1012-0/+822
| | | | | PR: 23577 Submitted by: NAKATA, Maho <chat95@mbox.kyoto-inet.or.jp>
* Update to 0.84a. Generate the plist.trevor2001-02-083-8/+10
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* - Update EMBOSS (biology/emboss) from 1.9.0 to 1.9.1kevlo2001-01-2910-77/+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
* update from 3.7 to 3.8ijliao2001-01-2418-167/+706
| | | | | PR: 24371 Submitted by: MAINTAINER
* Upgrade to version 1.9.0kevlo2001-01-246-13/+47
| | | | | PR: 24597 Submitted by: MAINTAINER
* Massive style enforcement - use ^I instead of spaces for variables identation.sobomax2001-01-161-2/+2
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* Clean up inefficient perl invocations; use multiple REs in the same call.will2001-01-071-2/+2
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* Update to 1.2.6kevlo2000-12-224-7/+25
| | | | | PR: 23756 Submitted by: Ports Fury
* Remove trailing period and package name from the pkg-comment.demon2000-12-181-1/+1
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* Update to version 5.79.steve2000-12-113-26/+42
| | | | | PR: 23345 Submitted by: Jeremy Shaffner <jeremy@external.org>
* Update distfiles' checksums after the distfiles have been rerolled yetroam2000-12-042-4/+5
| | | | | | | again without changing names or versions. Also add a new MASTER_SITE. PR: 23262 Submitted by: Johann Visagie <johann@egenetics.com>
* Distfile tarballs were rerolled without notice due to a minor bug.roam2000-11-301-4/+4
| | | | | PR: 23193 Submitted by: Johann Visagie <johann@egenetics.com>
* - Update port biology/emboss from 1.7.0 to 1.8.0jeh2000-11-284-17/+124
| | | | | PR: 23130 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* Make nolonger support :U. Fix to compensate for that.jeh2000-11-191-3/+6
| | | | | Submitted by: fenner Approved by: MAINTAINER
* They made changes to the "blast" program.jeh2000-11-152-2/+3
| | | | Submitted by: MAINTAINER
* - This is a fairly extensive rework of this port.jeh2000-11-133-0/+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
* - This is a fairly extensive rework of this port.jeh2000-11-134-5/+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
* Change motif to a normal dependency. REQUIRES_MOTIF is now calledasami2000-11-071-1/+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.
* Yes. They did re-roll this version, it is legit.jeh2000-11-032-2/+2
| | | | | | | | They donot version the dist, but store them in versioned dir. Update Makefile to handle that. Update CHECKSUM Submitted by: bento
* Updated to new version. That is the pits, the day after it becomesjeh2000-11-024-4/+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
* Make portlint happy, remove a spacejeh2000-11-011-1/+1
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* Update to version 1.7.0jeh2000-11-013-2/+11
| | | | | PR: 22474 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* File missing in pkg-plistjeh2000-10-301-0/+1
| | | | Submitted by: bento
* New Port: biology/ncbi-toolkitjeh2000-10-2911-0/+376
| | | | | | | National Center for Biotechnology Information (NCBI) Development Toolkit. PR: 22388 Submitted by: Tony Maher <tony.maher@ebioinformatics.com>
* Update biology/sim4 to 2000.10.19jeh2000-10-263-5/+7
| | | | | | | Maintainership over to FreeBSD bio-porters mailing list PR: 22306 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* gmake is neededjeh2000-10-241-0/+1
| | | | Submitted by: bento
* Update to version 0.6.2jeh2000-10-133-174/+132
| | | | | PR: 21954 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* A file was added to distfile and then repackaged with the same name.jeh2000-10-133-2/+5
| | | | | | | No response from MAINTAINER PR: 21345 Submitted by: Johann Visagie <wjv@cityip.co.za> (actual patch)
* Initial import of fastDNAml Version 1.2.2jeh2000-10-126-0/+93
| | | | | | | The faster variant of DNAML, makes phylogenetic trees using maximum likelihood PR: 21931 Submitted by: Motomichi Matsuzaki <mzaki@e-mail.ne.jp>
* Missing " in post-patch targetjeh2000-10-111-1/+1
| | | | Submitted by: bento
* PR 21608 was not processed as intented.jeh2000-10-102-21/+22
| | | | | | | Bumped PORTREVISION and removed duplicate from pkg-plist. PR: 21894 Submitted by: KATO Tsuguru <tkato@prontomail.ne.jp>
* Initial import of biology/biojavajeh2000-10-106-0/+661
| | | | | PR: 21678 Submitted by: Brad Chapman <chapmanb@arches.uga.edu>
* - Update to 1.6.0kevlo2000-10-103-363/+372
| | | | | | | - Reorder packing list PR: 21857 Submitted by: MAINTAINER
* - Update biology/p5-AcePerl from 1.62 to 1.67kevlo2000-10-106-61/+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
* Initiail version of nab (4.2)jeh2000-10-1017-0/+666
| | | | | PR: 21585 Submitted by: M. L. Dodson <bdodson@scms.utmb.EDU>
* This is nab (nucleic acid builder), a language for macromoleculesjeh2000-10-101-0/+1
| | | | | PR: 21585 Submitted by: M. L. Dodson <bdodson@scms.utmb.EDU>
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