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* Update the EMBOSS suite (biology/emboss) to version 1.12.0James E. Housley2001-05-073-138/+25
| | | | | PR: 27179 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* Updata biology/fasta3 to version 33.t08.d4James E. Housley2001-05-073-8/+8
| | | | | PR: 27176 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* Update distfile checksum (PORTREVISION bumped)Jimmy Olgeni2001-04-205-37/+14
| | | | | | | | | | also: * Change maintainer's email address. * Remove support for older FreeBSD versions. PR: 26710 Submitted by: Glenn Johnson <gjohnson@srrc.ars.usda.gov>
* activate IGNOREFILES.FUJISHIMA Satsuki2001-04-141-0/+3
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* Ignore checksum. The distfile changes day by day.FUJISHIMA Satsuki2001-04-131-1/+1
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* This port require X libraries to build/run.Steve Price2001-04-111-0/+1
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* Overhaul QT/KDE support:Will Andrews2001-04-031-2/+1
| | | | | | | | | | | | | | | | | | - bsd.port.mk update to use bsd.kde.mk for USE_{QT,KDE}* - Cleanup corresponding ports for bsd.kde.mk update. - Fix bsd.kde.mk: use correct kdelibs dependency, put qt at the bottom, introduce QT_NONSTANDARD variable for nonstandard configure setup. - Update KDE2 to 2.1.1. Two patches included in x11/kdelibs2 to fix the proxy authentication that was broken for 2.1.1. Remove old patches. - Potentially fix kdelibs build for alpha. - Fix qt-designer 2.3.0 build. - Ruby stuff left alone since it looks like black magic to me. Should still work w/ compat shims for older USE_QT[,2] style. Some others were also left alone for the same reason. Reviewed by: portmgr, ports (bsd.kde.mk+bsd.port.mk) Submitted by: David Faure <faure@kde.org> (proxy auth patches) Alex Zepeda <garbanzo@kde.org> (old patches removal)
* update to 3.03Michael Haro2001-04-024-27/+5
| | | | | PR: 26094 Submitted by: maintainer
* updated port biology/phylip from vers 3.5 to 3.6Michael Haro2001-04-025-94/+110
| | | | | PR: 26146 Submitted by: "David A. Bader" <dbader@eece.unm.edu>
* - Update MASTER_SITES and WWW: lineKevin Lo2001-03-314-32/+21
| | | | | | | | | - Support CC/CFLAGS properly - Support install macros - Add PORTDOCS to pkg-plist PR: 26228 Submitted by: Ports Fury
* Update to 33.t08.d3.Maxim Sobolev2001-03-223-4/+3
| | | | Submitted by: maintainer
* - Upgrade to version 1.70Kevin Lo2001-03-135-18/+41
| | | | | | | - Update WWW PR: 25772 Submitted by: maintainer
* Upgrade to 0.4.Jun Kuriyama2001-03-134-12/+12
| | | | | Submitted by: Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp> (maintainer) PR: ports/25741
* o update to 2.7.2.FUJISHIMA Satsuki2001-03-132-5/+5
| | | | | | | o pass maintainership to ports@. PR: 25685 Submitted by: maintainer
* pass maintainership to ports@.FUJISHIMA Satsuki2001-03-131-1/+1
| | | | | PR: 25685 Submitted by: maintainer
* Update to lastest versionKevin Lo2001-03-122-2/+3
| | | | | PR: 25726 Submitted by: maintainer
* Update the EMBOSS suite to v1.11.0Neil Blakey-Milner2001-03-123-7/+12
| | | | | PR: 25728 Submitted by: johann@egenetics.com
* - A small bugfix lead to a rerelease without a version number change.Neil Blakey-Milner2001-03-122-1/+2
| | | | | | | - Bumped PORTREVISION. Submitted by: Johann Visagie <johann@egenetics.com> PR: 25725
* Update to 0.85.Trevor Johnson2001-03-122-2/+2
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* Force -O0 on the Alpha.Trevor Johnson2001-03-121-1/+7
| | | | Submitted by: steve
* fix WWW:FUJISHIMA Satsuki2001-03-091-1/+1
| | | | | PR: 25625 Submitted by: maintainer
* update to 33.t08.d2.FUJISHIMA Satsuki2001-03-082-2/+2
| | | | | PR: 25609 Submitted by: maintainer
* gd.2, not gd.1Ying-Chieh Liao2001-03-051-1/+1
| | | | Submitted by: bento
* Change MASTER_SITE and FTP/WWW lines: caos.kun.nl is cmbi.kun.nl now.Peter Pentchev2001-03-052-3/+3
| | | | | PR: 25422 Submitted by: Marc van Woerkom <marc.vanwoerkom@science-factory.com>
* Remove do-configure section, use PERL_CONFIGURE now.Vanilla I. Shu2001-03-011-1/+0
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* Update to version 1.10.1Kevin Lo2001-02-283-8/+7
| | | | | PR: 25449 Submitted by: maintainer
* reimport biology/genpakYing-Chieh Liao2001-02-288-0/+164
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* module name conflict with print/gp, so remove it and I'll reimport it againYing-Chieh Liao2001-02-288-163/+0
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* add gpYing-Chieh Liao2001-02-288-0/+163
| | | | GP is a set of small utilities to manipulate DNA sequences
* Update to version 1.10.0Kevin Lo2001-02-205-24/+51
| | | | | PR: 25228 Submitted by: MAINTAINER
* The author (at my request) has gone back to a more FreeBSD-friendlyTrevor Johnson2001-02-202-2/+1
| | | | way of naming the distfile. Change the port accordingly.
* Update to 0.84.Trevor Johnson2001-02-193-15/+14
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* Update to version 2001-02-06James E. Housley2001-02-192-2/+2
| | | | | PR: 25200 Submitted by: Johann Visagie <johann@egenetics.com>
* Chase graphics/gd's shlib version bump.Akinori MUSHA2001-02-121-1/+2
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* - New port: biology/fasta3, which comprises the FASTA3 suite of DNA andJames E. Housley2001-02-129-0/+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 sequenceJames E. Housley2001-02-128-0/+151
| | | | | | | search tools PR: 24715 Submitted by: Johann Visagie <johann@egenetics.com>
* add gaussian98, an ab-initio molecular orbital calculation program.FUJISHIMA Satsuki2001-02-1112-0/+822
| | | | | PR: 23577 Submitted by: NAKATA, Maho <chat95@mbox.kyoto-inet.or.jp>
* Update to 0.84a. Generate the plist.Trevor Johnson2001-02-093-8/+10
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* - 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
* update from 3.7 to 3.8Ying-Chieh Liao2001-01-2518-167/+706
| | | | | PR: 24371 Submitted by: MAINTAINER
* Upgrade to version 1.9.0Kevin Lo2001-01-246-13/+47
| | | | | PR: 24597 Submitted by: MAINTAINER
* Massive style enforcement - use ^I instead of spaces for variables identation.Maxim Sobolev2001-01-171-2/+2
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* Clean up inefficient perl invocations; use multiple REs in the same call.Will Andrews2001-01-081-2/+2
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* Update to 1.2.6Kevin Lo2000-12-234-7/+25
| | | | | PR: 23756 Submitted by: Ports Fury
* Remove trailing period and package name from the pkg-comment.Dmitry Sivachenko2000-12-191-1/+1
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* Update to version 5.79.Steve Price2000-12-113-26/+42
| | | | | PR: 23345 Submitted by: Jeremy Shaffner <jeremy@external.org>
* 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>
* Distfile tarballs were rerolled without notice due to a minor bug.Peter Pentchev2000-12-011-4/+4
| | | | | PR: 23193 Submitted by: Johann Visagie <johann@egenetics.com>
* - 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
* Make nolonger support :U. Fix to compensate for that.James E. Housley2000-11-191-3/+6
| | | | | Submitted by: fenner Approved by: MAINTAINER
* They made changes to the "blast" program.James E. Housley2000-11-152-2/+3
| | | | Submitted by: MAINTAINER
* - 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
* - 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
* Change motif to a normal dependency. REQUIRES_MOTIF is now calledSatoshi Asami2000-11-081-1/+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.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
* 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
* Make portlint happy, remove a spaceJames E. Housley2000-11-011-1/+1
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* Update to version 1.7.0James E. Housley2000-11-013-2/+11
| | | | | PR: 22474 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* File missing in pkg-plistJames E. Housley2000-10-301-0/+1
| | | | Submitted by: bento
* 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>
* 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
* gmake is neededJames E. Housley2000-10-241-0/+1
| | | | Submitted by: bento
* Update to version 0.6.2James E. Housley2000-10-133-174/+132
| | | | | PR: 21954 Submitted by: Johann Visagie <johann@egenetics.com> MAINTAINER
* A file was added to distfile and then repackaged with the same name.James E. Housley2000-10-133-2/+5
| | | | | | | No response from MAINTAINER PR: 21345 Submitted by: Johann Visagie <wjv@cityip.co.za> (actual patch)
* Initial import of fastDNAml Version 1.2.2James 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>
* Missing " in post-patch targetJames E. Housley2000-10-111-1/+1
| | | | Submitted by: bento
* PR 21608 was not processed as intented.James E. Housley2000-10-112-21/+22
| | | | | | | Bumped PORTREVISION and removed duplicate from pkg-plist. PR: 21894 Submitted by: KATO Tsuguru <tkato@prontomail.ne.jp>
* Initial import of biology/biojavaJames E. Housley2000-10-106-0/+661
| | | | | PR: 21678 Submitted by: Brad Chapman <chapmanb@arches.uga.edu>
* - Update to 1.6.0Kevin Lo2000-10-103-363/+372
| | | | | | | - Reorder packing list PR: 21857 Submitted by: MAINTAINER
* - 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
* Initiail version of nab (4.2)James E. Housley2000-10-1017-0/+666
| | | | | PR: 21585 Submitted by: M. L. Dodson <bdodson@scms.utmb.EDU>
* This is nab (nucleic acid builder), a language for macromoleculesJames E. Housley2000-10-101-0/+1
| | | | | PR: 21585 Submitted by: M. L. Dodson <bdodson@scms.utmb.EDU>
* - Fix MASTER_SITES/DISTNAMEJames E. Housley2000-10-103-20/+19
| | | | | | | | | | | | - USEPGPLOT -> WITH_PGPLOT - Support FFLAGS/X11BASE properly Remove file: files/patch-ab PR: 21608 Submitted by: KATO Tsuguru <tkato@prontomail.ne.jp> Approved by: rmiya@cc.hirosaki-u.ac.jp (Ryo MIYAMOTO) MAINTAINER
* The last commit changes the ports and therefore need a PORTREVISION bumpJames E. Housley2000-10-102-0/+2
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* Support PREFIX properlyJames E. Housley2000-10-102-1/+5
| | | | | | PR: 21607 Submitted by: KATO Tsuguru <tkato@prontomail.ne.jp> Approved by: rmiya@cc.hirosaki-u.ac.jp (Ryo MIYAMOTO) MAINTAINER
* - Fix MASTER_SITESJames E. Housley2000-10-104-18/+36
| | | | | | | | | | | | | - Support CC/LOCALBASE/X11BASE/PREFIX properly Remove file: patches/patch-aa Approval from MAINTAINER after sending EMail PR: 21609 Submitted by: KATO Tsuguru <tkato@prontomail.ne.jp> Approved by: Chen Hsiung Chan <frankch@waru.life.nthu.edu.tw> MAINTAINER
* Add do-install target to port's Makefile. Remove patch sectionTrevor Johnson2000-10-092-10/+5
| | | | | | | adding install target to ${WRKSRC}/Makefile. PR: 21792 Submitted by: Kato Tsuguru <tkato@prontomail.ne.jp>
* Change PKGDIR from pkg/ to . Also fix places where ${PKGDIR} isSatoshi Asami2000-10-081-1/+1
| | | | | | spelled out (many of which are ${PKGDIR}/MESSAGE -> ${PKGMESSAGE} type fixes that shouldn't have been necessary) and the string "/pkg/" appear.
* Rename ${FILESDIR}/patch-* to ${PATCHDIR}/extra-patch-*.Satoshi Asami2000-10-081-2/+2
| | | | | (This should probably be rewritten to use EXTRA_PATCHES but I don't have time to test it now.)
* Implement USE_GTK, part 1.Jeremy Lea2000-10-053-38/+26
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* - Support CC/CFLAGS/PREFIX properlyJames E. Housley2000-10-036-8/+127
| | | | | | | | | | | | - gets() -> fgets() - Add WWW: line into pkg/DESCR Also bumped PORTREVISION to 1 PR: 21572 Submitted by: tkato@prontomail.ne.jp <KATO@FreeBSD.ORG, Tsuguru@FreeBSD.ORG> Reviewed by: will Approved by: MAINTAINER (dbader@eece.unm.edu)
* Correct and sort PLISTs.Jeremy Lea2000-10-032-6/+6
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* Change MAINTAINER for my ports.Trevor Johnson2000-10-021-1/+1
| | | | Approved by: will
* Add USE_XLIBKris Kennaway2000-09-221-0/+1
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* respect CXX and CXXFLAGS (Kato Tsuguru)Ade Lovett2000-09-194-20/+39
| | | | | | | | | | install data files (Kato Tsuguru) bump version (myself) use USE_NEWGCC (Will Andrews) make whitespace changes to Makefile PR: 21359 Submitted by: maintainer
* Update to 0.90.d03Neil Blakey-Milner2000-09-113-132/+152
| | | | | PR: 21202 Submitted by: Johann Visagie <johann@egenetics.com>
* Fix checksumKevin Lo2000-09-091-18/+1
| | | | | PR: 21115 Submitted by: Andreas Schulz <ats@first.gmd.de>
* Don't break package building on Satoshi's cluster. Explicitly dependThomas Gellekum2000-09-081-1/+1
| | | | on python1.5:lang/python15.
* Upgrade to 1.5.0Neil Blakey-Milner2000-09-084-66/+113
| | | | | PR: 21108 Submitted by: Johann Visagie <johann@egenetics.com>
* Update to emboss 1.4.0.Neil Blakey-Milner2000-09-074-52/+83
| | | | | PR: ports/20898 Submitted by: Johann Visagie <johann@egenetics.com>
* Update to version 2000.08.24Kevin Lo2000-09-044-7/+23
| | | | | PR: 20897 Submitted by: MAINTAINER
* USE_LIBTOOL implies GNU_CONFIGURE, so remove redundant GNU_CONFIGURE lines.Maxim Sobolev2000-08-211-1/+0
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* Update to emboss 1.1.0, fixing some style bugs too.Neil Blakey-Milner2000-08-135-6/+321
| | | | | PR: ports/20519 Submitted by: Johann Visagie <johann@egenetics.com> (maintainer)
* Upgrade to 0.90.d02.Will Andrews2000-08-062-3/+3
| | | | | PR: 20383 Submitted by: maintainer
* Fix MASTER_SITESChris D. Faulhaber2000-08-021-1/+1
| | | | | PR: 20120 Submitted by: Maintainer
* Add emboss, the European Molecular Biology Open Software SuiteNeil Blakey-Milner2000-08-016-0/+700
| | | | | PR: ports/20317 Submitted by: Johann Visagie <johann@egenetics.com>
* Add py-biopython, is a collection of Python packages and modules createdNeil Blakey-Milner2000-07-316-0/+166
| | | | | | | | by the Biopython Project, intended to provide the basis for building bioinformatics applications in the Python language. PR: ports/20260 Submitted by: Johann Visagie <johann@egenetics.com>
* Add BioPerl, a collection of Perl5 mods for bioinformatics/genomicsNeil Blakey-Milner2000-07-287-0/+259
| | | | | PR: ports/20252 Submitted by: Johann Visagie <johann@egenetics.com>
* Add p5-AcePerl, a perl interface to the ACEDB genome database systemNeil Blakey-Milner2000-07-289-0/+177
| | | | | PR: ports/20223 Submitted by: Johann Visagie <johann@egenetics.com>
* Add sim4, an implementation of the sim4 algorithm for aligning expressedNeil Blakey-Milner2000-07-277-0/+48
| | | | | | | DNA with genomic sequences PR: ports/20219 Submitted by: Johann Visagie <johann@egenetics.com>
* Add xdrawchem 0.82 - a program for drawing moleculesAlexander Langer2000-07-197-0/+65
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* Activating the chemeq, clustalw, paml, and phylip ports.Steve Price2000-07-101-0/+4
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* Adding phylip version 3.5.Steve Price2000-07-105-0/+161
| | | | | | | | | This is a FREE package of programs for inferring phylogenies and carrying out certain related tasks. At present it contains 30 programs, which carry out different algorithms on different kinds of data. PR: 19705 Submitted by: David A. Bader <dbader@cielo.eece.unm.edu>
* Add paml version 3.01.Steve Price2000-07-107-0/+89
| | | | | | | | A set of utilities for performing Phylogenetic Analysis by Maximum Likelihood (PAML). PR: 19753 Submitted by: David A. Bader <dbader@cielo.eece.unm.edu>
* Adding clustalw version 1.81.Steve Price2000-07-106-0/+66
| | | | | | | A CLUSTAL W Multiple Sequence Alignment Program. PR: 19746 Submitted by: David A. Bader <dbader@cielo.eece.unm.edu>
* Adding chemeq version 1.10.Steve Price2000-07-105-0/+62
| | | | | | | Outputs LaTeX code for chemical reactions. PR: 19374 Submitted by: Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
* - Use GTK_CONFIG/GLIB_CONFIG instead of hardcoded gtk12-config/glib12-configSteve Price2000-07-082-19/+27
| | | | | | | - Support CC/CFLAGS/PREIFX/LOCALBASE/X11BASE/MAKE/etc. properly PR: 19623 Submitted by: KATO Tsuguru <tkato@prontomail.ne.jp>
* Unbreak by extracting the correct distfileKris Kennaway2000-07-031-8/+2
| | | | Noticed by: bento
* ...local-distfiles... -> MASTER_SITE_LOCALAlexander Langer2000-06-201-1/+2
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* fc is ftn77 now, adjust accordingly.Alexander Langer2000-06-123-5/+6
| | | | | | PR: 19160, 19161 Submitted by: Glenn Johnson <gjohnson@nola.srrc.usda.gov> Reviewed by: will
* Update to version 1.0.3Alexander Langer2000-06-114-24/+23
| | | | | | | | | | | | PR: 19094 Submitted by: maintainer While I'm hear, clean up the port, e.g.: * Don't create/delete PATCHDIR while building this port * put the distfile, which is unversioned, to my local-distfiles space. * remove/reorder some actions, such as stripping twice. Reviewed by: will
* Clean up this port so that it installs stuff in a more proper locationWill Andrews2000-06-093-138/+138
| | | | | | | as per hier(7) and Porter's Handbook. PR: 18929 Submitted by: MAINTAINER
* Update to the latest version as of 5 June.Akinori MUSHA2000-06-084-15/+26
| | | | | PR: ports/19113, ports/19115 Submitted by: Maintainer
* Fix build for 4.0 and later. Make DESCR shorter.Will Andrews2000-06-085-165/+181
| | | | | PR: 19092 Submitted by: MAINTAINER
* Update to 3.6.Will Andrews2000-06-086-114/+145
| | | | | PR: 19091 Submitted by: MAINTAINER
* Convert to usable F77 binary, especially on 4.0 and newer.Will Andrews2000-06-084-82/+73
| | | | | PR: 19090 Submitted by: MAINTAINER
* Fix MD5 checksum. Since I was unable to find an older version of theWill Andrews2000-06-051-1/+1
| | | | | | | distfile, I can't say what changes were made. PR: 18986 Submitted by: Andreas Schulz <ats@first.gmd.de>
* Fix this port after the recent PORT{NAME,VERSION} changes. portlint(1)Steve Price2000-05-281-2/+4
| | | | while I'm here.
* Update to version 2000.04.26.Steve Price2000-05-283-5/+3
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* Chase the checksum (lots of code changes)Kris Kennaway2000-04-241-1/+1
| | | | Noticed by: bento
* WRKSRC-related fixes.Satoshi Asami2000-04-161-0/+1
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* update with the new PORTNAME/PORTVERSION variablesMichael Haro2000-04-0915-53/+51
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* Remove andy@icc.surw.chel.su as maintainer from his ports..he doesn'tKris Kennaway2000-03-291-1/+1
| | | | | | have time to maintain them. Approved by: andy
* Add virtual category "linux" to Linux apps and support libs/utils.Satoshi Asami2000-02-281-1/+1
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* Chase the checksum (minor source changes)Kris Kennaway2000-02-271-1/+1
| | | | Noticed by: bento
* update URLsMichael Haro2000-02-241-2/+2
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* update WWWMichael Haro2000-02-241-1/+1
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* Forgot to remove this lineChris Piazza2000-02-071-1/+0
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* Don't strip things we don't know how to stripChris Piazza2000-01-311-1/+1
| | | | | PR: 16445 Submitted by: Alexander Langer <alex@cichlids.com>
* fix some pkg/MESSAGE stuffMichael Haro2000-01-302-2/+2
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* Update to ver 1.2.2Chris Piazza2000-01-152-3/+3
| | | | | PR: 15955 Submitted by: Alexander Langer <alex@cichlids.com>
* Bump glib12 's share library version to 3,Vanilla I. Shu1999-10-102-10/+2
| | | | and portlint.
* f77(1) on the Alpha doesn't grok '-malign-double' so only use it on theSteve Price1999-09-271-0/+4
| | | | i386 port.
* Enforce random pkg/COMMENT rules, including the one that states EmacsTim Vanderhoek1999-09-182-2/+2
| | | | should be spelled corrcetly, although I rather liked "Emasc".
* Grammar and WWW: fix.Tim Vanderhoek1999-09-181-7/+6
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* Update to new version.Steve Price1999-09-183-8/+5
| | | | | PR: 13459 Submitted by: maintainer
* Compile-errorSatoshi Taoka1999-09-102-3/+9
| | | | | PR: 13513 Submitted by: Glenn Johnson <gljohns@bellsouth.net>
* Compile errorSatoshi Taoka1999-09-091-1/+1
| | | | | PR: 13613 Submitted by: maintainer
* Added gperiodic and xmolwtSatoshi Taoka1999-09-071-0/+2
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* Displays a periodic table of the elements.Satoshi Taoka1999-09-075-0/+58
| | | | | | PR: 12690 Submmitted by: Andrey Zakhvatov <andy@icc.surw.chel.su> Reviewed by: Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
* This program calculate formula weight and percent of each elements.Satoshi Taoka1999-09-076-0/+82
| | | | | PR: ports/13467 Submitted by: Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
* Distfile changed on the MASTER_SITE. I have no idea if thisChris Piazza1999-08-312-6/+6
| | | | | was functional or not, as there isn't a version number anywhere. Support CC in patch-aa, too...
* Remove preceeding pkgname from some of the comments having one.Tim Vanderhoek1999-08-301-1/+1
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* grammar gnitTim Vanderhoek1999-08-301-1/+1
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* ln -> ${LN}Michael Haro1999-08-282-2/+2
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* echo -> ${ECHO} or ${ECHO_MSG} and in some cases, move echo stuffMichael Haro1999-08-281-8/+8
| | | | to pkg/MESSAGE and use ${CAT} ${PKGMESSAGE}
* Updated to 2.7.1Satoshi Taoka1999-08-253-11/+24
| | | | | PR: 13327 Submitted by: maintainer
* Change Id->FreeBSD.David E. O'Brien1999-08-2514-14/+14
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* Make port depend on linux_base instead of linux_lib.Marcel Moolenaar1999-07-211-3/+3
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* Fix typos and/or cleanup WWW:.Tim Vanderhoek1999-07-174-18/+13
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* BROKEN='MD5 checksum error'David E. O'Brien1999-07-151-1/+3
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* Fix port after distfile change.Chris Piazza1999-07-112-3/+2
| | | | | PR: 12585 Submitted by: maintainer
* Remove trailing spaces, and any periods that were hidden by them.Tim Vanderhoek1999-06-282-2/+2
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* As threatened, enforce the "Capital, no period" rule. Ellipses areTim Vanderhoek1999-06-279-9/+9
| | | | | permitted. Note that, given current numeric motif of PW, this is done in four equally-sized commits of 393 files each.
* Install into ${PREFIX}, not /usr/local.Chris Piazza1999-06-263-7/+7
| | | | | PR: 12214 Submitted by: n_hibma
* Clean up warnings for -current (g77)Chris Piazza1999-06-251-7/+9
| | | | Submitted by: maintainer
* Change ${INSTALL} to use -s and -c.Chris Piazza1999-06-241-45/+45
| | | | Requested by: maintainer
* Update tinker from version 3.6 to version 3.7Chris Piazza1999-06-237-310/+289
| | | | | PR: 12301 Submitted by: maintainer
* Make the psi88 port install into PREFIX instead of a hardcodedChris Piazza1999-06-191-4/+14
| | | | | | | /usr/local. PR: 12215 Submitted by: Nick Hibma <nick.hibma@jrc.it>
* The xforms ports is no longer an i386-only port.Steve Price1999-06-091-4/+1
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* Fill in a couple of missing WWW references...Marc G. Fournier1999-06-052-0/+4
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* Fix build for -current boxes with egcs' f77 compiler.Steve Price1999-05-242-11/+29
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* Allow this port to be built on -current i386 boxes that have egcs' f77Steve Price1999-05-241-2/+11
| | | | compiler. Mark it broken for -current Alpha boxes.
* This port doesn't build with egcs' f77 compiler.Steve Price1999-05-241-2/+7
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* Build this port on an Alpha box instead of trying to use i386 binaries.Steve Price1999-05-241-1/+5
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* Fix build for Alpha.Steve Price1999-05-241-1/+1
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* Fix build on -current (Alpha) machines.Steve Price1999-05-242-18/+29
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* Added WWW: for www-site target in DESCRSatoshi Taoka1999-05-192-2/+2
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* Added deft and ortep3Satoshi Taoka1999-05-191-1/+3
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* The Oak Ridge Thermal Ellipsoid Plot Program for Crystal StructureSatoshi Taoka1999-05-197-0/+594
| | | | | PR: 11649 Submitted by: Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
* Density functional molecular orbital calculation.Satoshi Taoka1999-05-197-0/+226
| | | | | PR: 11647 Submitted by: Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
* Fix checksumSeiichirou Hiraoka1999-05-091-1/+1
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* Changed MASTER_SITESSatoshi Taoka1999-05-081-2/+2
| | | | | PR: 11572 Submitted by: maintainer
* Changed MASTER_SITESSatoshi Taoka1999-05-081-3/+3
| | | | | PR: 11571 Submitted by: maintainer
* Add platon and moldenSatoshi Taoka1999-05-071-1/+3
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* display molecular orbitals and electron densities in 2D and 3DSatoshi Taoka1999-05-077-0/+201
| | | | Submitted by: rmiya@cc.hirosaki-u.ac.jp (Ryo MIYAMOTO)
* the one of crystallographic toolsSatoshi Taoka1999-05-076-0/+175
| | | | Submitted by: rmiya@cc.hirosaki-u.ac.jp (Ryo MIYAMOTO)
* Be able to use ${PREFIX}Satoshi Taoka1999-05-075-13/+67
| | | | Submitted by: maintainer
* Fixed ${CATEGORIES} (removed misc from it)Satoshi Taoka1999-05-061-2/+2
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* Semi-empirical (MNDO, etc.) molecular orbital calculationSatoshi Taoka1999-05-0611-0/+213
| | | | | PR: ports/8863 Submitted by: Ryo MIYAMOTO rmiya@cc.hirosaki-u.ac.jp
* Plotting wavefunctions (molecular orbitals) in 3DSatoshi Taoka1999-05-069-0/+365
| | | | | PR: ports/8696 Submitted by: Ryo MIYAMOTO rmiya@cc.hirosaki-u.ac.jp
* Add mopac and psi88 (Move mopac and psi88 from misc to biology)Satoshi Taoka1999-05-061-1/+3
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* Weasal and Wabbits and BIG FOOT.Tim Vanderhoek1999-05-036-17/+12
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* Upgrade to 2.1.1Bill Fenner1999-03-093-8/+16
| | | | | PR: ports/10228 Submitted by: Michael Haro mharo@area51.fremont.ca.us
* Adjust port Makefiles to new EXTRACT_* variable defaults. See log ofSatoshi Asami1999-02-031-1/+3
| | | | | | | | | | | | | | | | | | | bsd.port.mk rev. 1.304 for details on the change. The fix here is one of the following. (1) Define USE_BZIP2 instead of BUILD_DEPENDS on bzip2 and redefining EXTRACT_* commands. (2) Change ${EXTRACT_CMD} to ${TAR} when the command is obviously calling the "tar" command (i.e., arguments like "-xzf" are spelled out). (3) If ${EXTRACT_CMD} is called directly with ${EXTRACT_BEFORE_ARGS}, add ${EXTRACT_AFTER_ARGS} to the command line as well. (4) If any of EXTRACT_CMD, EXTRACT_BEFORE_ARGS or EXTRACT_AFTER_ARGS is set, define the other two too.
* Correct the MD5 checksum.Vanilla I. Shu1999-01-311-1/+1
| | | | Submitted by: maintainer
* Added 'ONLY_FOR_ARCHS=i386' to XForms dependent ports.Hidetoshi Shimokawa1999-01-071-1/+4
| | | | XForms has not been available for FreeBSD/alpha yet.
* Add 'ONLY_FOR_ARCHS=i386' to linux_lib dependent ports.Hidetoshi Shimokawa1999-01-071-1/+3
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* 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.
* Update MASTER_SITES.Bill Fumerola1998-12-102-4/+6
| | | | Thanks To: Fenner's portsurvey and ftpsearch.lycos.com
* Add a comment about setting env var 'FC' to 'g77' if EGCS is to beJoseph Koshy1998-11-181-3/+4
| | | | used for building.
* Activate tinker.Joseph Koshy1998-11-171-1/+2
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* New port of the Tinker Molecular modelling program.Joseph Koshy1998-11-1711-0/+725
| | | | | | PR: 8690 Reviewed by: jkoshy Submitted by: Glenn Johnson <gljohns@bellsouth.net>
* Use bsd.port.{pre,post}.mk to move PORTOBJFORMAT to front, or changeSatoshi Asami1998-11-141-6/+8
| | | | | shell loops to make loops. Use EXTRA_PKG_FLAGS to add install scripts instead of adding it to PKG_FLAGS after bsd.port.mk.
* Update of MASTER_SITES.Bill Fumerola1998-11-131-2/+2
| | | | | PR: ports/8600 Submitted by: frankch@waru.life.nthu.edu.tw
* Unbreak for ELFJustin M. Seger1998-11-031-3/+1
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* Master site changed, update MD5.Joseph Koshy1998-10-082-3/+3
| | | | | PR: 8200 Submitted by: frankch@waru.life.nthu.edu.tw (maintainer)
* Checksum changed again....Satoshi Asami1998-09-281-1/+1
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* Remove empty doc dir on deinstall.Steve Price1998-09-271-0/+1
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* Don't strip the binary when building ELF.Steve Price1998-09-271-1/+5
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* Checksum of seaview.tar changed.Steve Price1998-09-271-1/+1
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* Mark broken for ELF because of xforms port.Steve Price1998-09-271-2/+4
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* Take the manpages out of pkg/PLIST and put them in MAN1.Steve Price1998-09-162-2/+3
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* Unbreak by making a new checksum and fixing the makefile to find a new sourceJustin M. Seger1998-08-213-6/+4
| | | | file.
* BROKEN:Justin M. Seger1998-08-211-1/+3
| | | | | # make checksum >> Checksum mismatch for seaview.tar.
* Remove manpages from pkg/PLISTDavid E. O'Brien1998-08-141-8/+0
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* Fix up dependencies for ports that moved into the x11-toolkits category.Satoshi Asami1998-08-081-2/+2
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* Rename all USE_X11 to USE_X_PREFIX. Requires 1.279 (3.0-current) orSatoshi Asami1998-08-051-2/+2
| | | | | 1.227.2.41 (2.2-stable) of bsd.port.mk for this to be interpreted correctly.
* Making x11 category more useful project part 1: take out "x11" ofSatoshi Asami1998-07-282-4/+4
| | | | | | ports that are mere users of X. Partial list submitted by: Josh Gilliam <josh@quick.net>
* Another batch of "Add homepage." for benchmarks through converters.Tim Vanderhoek1998-07-251-0/+2
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* Turn on hmmer.Steve Price1998-07-131-1/+2
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* Initial import of hmmer version 2.0.Steve Price1998-07-136-0/+86
| | | | | | | Profile hidden Markov models for biological sequence analysis. PR: 7120 Submitted by: Matthew Jason Euclid Barnhart <barnhart@sequencer.wustl.edu>
* Update to 2.6b2.1.Steve Price1998-05-243-7/+7
| | | | | PR: 6673 Submitted by: maintainer
* mkdir -> ${MKDIR}. This also has the side-effect of making thisSatoshi Asami1998-03-311-2/+2
| | | | port reinstall-friendly.
* Add DIST_SUBDIR, the name "periodic.tab" is kinda generic. Speaking of which,Satoshi Asami1998-03-172-7/+8
| | | | its checksum was different so fix it too.
* Add linux_lib DEPEND lines.Justin M. Seger1998-03-171-1/+4
| | | | | PR: 5816 Submitted by: frankch@waru.life.nthu.edu.tw
* Activate povchem.Vanilla I. Shu1998-03-161-1/+2
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* Povchem is a tool to generate POV file from a PDB(ProteinVanilla I. Shu1998-03-167-0/+78
| | | | | | | DataBank) entry. One can adjust many parameters for a high quality molecular graphic. PR: ports/6008 Submitted by: Frank Chen Hsiung Chan <frankch@waru.life.nthu.edu.tw>
* Activate kinemageJustin M. Seger1998-01-301-1/+2
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* Import of ports/biology/kinemage 4.2Justin M. Seger1998-01-305-0/+37
| | | | | | | | Kinemage is a molecular visualization program. It is very suitable for educational usage. PR: ports/5217 Submitted by: frankch@waru.life.nthu.edu.tw
* Typo (LIB_DEPEND -> LIB_DEPENDS).Satoshi Asami1997-12-261-2/+2
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* Move pkg/INSTALL to pkg/MESSAGE, add another patch from maintainer.Vanilla I. Shu1997-12-243-6/+14
| | | | | | PR: ports/5361 Reviewed by: asami Submitted by: maintainer
* Activate seaview.Vanilla I. Shu1997-12-221-1/+2
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* Seaview is a multiple DNA sequence alignment editor.Vanilla I. Shu1997-12-226-0/+72
| | | | | | | It is capable of align DNA sequences from various organisms and assign their position in the phylogenic tree. PR: ports/5229 Submitted by: Frank Chen Hsiung Chan <frankch@waru.life.nthu.edu.tw>
* Activate babel.Vanilla I. Shu1997-12-221-1/+2
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* This is a port of a molecular file format converter, babel.Vanilla I. Shu1997-12-227-0/+95
| | | | | | | Babel is developed by Dolata Group, Department of Chemistry, University of Arizona and Ohio State University. PR: ports/5215 Submitted by: Frank Chen Hsiung Chan <frankch@waru.life.nthu.edu.tw>
* Activate rasmol.Vanilla I. Shu1997-12-161-2/+2
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* rasmol is a biological molecule visualization program.Vanilla I. Shu1997-12-166-0/+46
| | | | | PR: ports/5214 Submitted by: frankch@waru.life.nthu.edu.tw
* The new ports category "biology" starts here today. No DarwinSatoshi Asami1997-12-132-0/+7
jokes please!
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