freebsd-ports/biology/Makefile

# $FreeBSD$
#

    SUBDIR += artemis
    SUBDIR += babel
    SUBDIR += biojava
    SUBDIR += chemeq
    SUBDIR += clustalw
    SUBDIR += coalesce
    SUBDIR += deft
    SUBDIR += dna-qc
    SUBDIR += emboss
    SUBDIR += fasta
    SUBDIR += fasta3
    SUBDIR += fastdnaml
    SUBDIR += fluctuate
    SUBDIR += gaussian98
    SUBDIR += genpak
    SUBDIR += gff2ps
    SUBDIR += gperiodic
    SUBDIR += grappa
    SUBDIR += hmmer
    SUBDIR += kinemage
    SUBDIR += lamarc
    SUBDIR += migrate
    SUBDIR += molden
    SUBDIR += mopac
    SUBDIR += nab
    SUBDIR += ncbi-toolkit
    SUBDIR += nclever
    SUBDIR += ortep3
    SUBDIR += p5-AcePerl
    SUBDIR += p5-bioperl
    SUBDIR += p5-bioperl-devel
    SUBDIR += paml
    SUBDIR += phylip
    SUBDIR += platon
    SUBDIR += povchem
    SUBDIR += psi88
    SUBDIR += py-biopython
    SUBDIR += rasmol
    SUBDIR += recombine
    SUBDIR += ruby-bio
    SUBDIR += seaview
    SUBDIR += seqio
    SUBDIR += sim4
    SUBDIR += t_coffee
    SUBDIR += tinker
    SUBDIR += treeviewx
    SUBDIR += xdrawchem
    SUBDIR += xmolwt

.include <bsd.port.subdir.mk>
Change Id->FreeBSD. 1999-08-25 06:58:03 +02:00			`# $FreeBSD$`
The new ports category "biology" starts here today. No Darwin jokes please! 1997-12-13 06:54:24 +01:00			`#`

Initial import of artemis 4.0 Artemis is a DNA sequence viewer and annotation tool. PR: 32914 Submitted by: Camson <chuynh@biolateral.com.au> 2001-12-22 15:39:40 +01:00			`SUBDIR += artemis`
Activate babel. 1997-12-21 22:58:57 +01:00			`SUBDIR += babel`
Initial import of biology/biojava PR: 21678 Submitted by: Brad Chapman <chapmanb@arches.uga.edu> 2000-10-10 13:14:03 +02:00			`SUBDIR += biojava`
Activating the chemeq, clustalw, paml, and phylip ports. 2000-07-10 05:26:57 +02:00			`SUBDIR += chemeq`
			`SUBDIR += clustalw`
Add coalesce 1.50, a program to fit population models. 2001-08-06 16:41:58 +02:00			`SUBDIR += coalesce`
Added deft and ortep3 1999-05-19 15:38:46 +02:00			`SUBDIR += deft`
Add dna-qc 1993.07.26, a quality control algorithm for DNA sequencing projects. PR: 32998 Submitted by: Tony Maher <tonym@biolateral.com.au> 2001-12-19 04:20:48 +01:00			`SUBDIR += dna-qc`
Add emboss, the European Molecular Biology Open Software Suite PR: ports/20317 Submitted by: Johann Visagie <johann@egenetics.com> 2000-07-31 21:13:54 +02:00			`SUBDIR += emboss`
New port: biology/fasta, the FASTA2 suite of DNA and protein sequence search tools PR: 24715 Submitted by: Johann Visagie <johann@egenetics.com> 2001-02-11 17:24:18 +01:00			`SUBDIR += fasta`
- New port: biology/fasta3, which comprises the FASTA3 suite of DNA and 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> 2001-02-11 17:28:59 +01:00			`SUBDIR += fasta3`
Initial import of fastDNAml Version 1.2.2 The faster variant of DNAML, makes phylogenetic trees using maximum likelihood PR: 21931 Submitted by: Motomichi Matsuzaki <mzaki@e-mail.ne.jp> 2000-10-12 14:31:13 +02:00			`SUBDIR += fastdnaml`
Add fluctuate 1.30, a program to fit population models. 2001-08-06 16:45:39 +02:00			`SUBDIR += fluctuate`
add gaussian98, an ab-initio molecular orbital calculation program. PR: 23577 Submitted by: NAKATA, Maho <chat95@mbox.kyoto-inet.or.jp> 2001-02-10 20:38:20 +01:00			`SUBDIR += gaussian98`
reimport biology/genpak 2001-02-28 03:46:51 +01:00			`SUBDIR += genpak`
Add gff2ps 0.97b, converts gff-formated genomic data-sets to PostScript. PR: 32920 Submitted by: Camson Huynh <chuynh@biolateral.com.au> 2001-12-19 11:03:26 +01:00			`SUBDIR += gff2ps`
Added gperiodic and xmolwt 1999-09-06 22:09:12 +02:00			`SUBDIR += gperiodic`
Add grappa 1.0.2, Genome Rearrangements Analysis and Phylogeny Software. PR: 28541 Submitted by: dbader@eece.unm.edu 2001-07-04 10:39:40 +02:00			`SUBDIR += grappa`
Turn on hmmer. 1998-07-13 01:30:50 +02:00			`SUBDIR += hmmer`
Activate kinemage 1998-01-29 18:25:59 +01:00			`SUBDIR += kinemage`
Add lamarc 2001.08.06, a package of programs for computing population parameters. 2001-08-07 10:17:58 +02:00			`SUBDIR += lamarc`
Add migrate 1.2, a program to estimate population sizes and migration rates. 2001-08-06 15:07:46 +02:00			`SUBDIR += migrate`
Add platon and molden 1999-05-07 08:59:25 +02:00			`SUBDIR += molden`
Add mopac and psi88 (Move mopac and psi88 from misc to biology) 1999-05-06 10:18:35 +02:00			`SUBDIR += mopac`
This is nab (nucleic acid builder), a language for macromolecules PR: 21585 Submitted by: M. L. Dodson <bdodson@scms.utmb.EDU> 2000-10-10 04:56:57 +02:00			`SUBDIR += nab`
New Port: biology/ncbi-toolkit National Center for Biotechnology Information (NCBI) Development Toolkit. PR: 22388 Submitted by: Tony Maher <tony.maher@ebioinformatics.com> 2000-10-29 14:56:24 +01:00			`SUBDIR += ncbi-toolkit`
Add nclever 4.0, a character-based version of NCBI's Entrez program. PR: 30783 Submitted by: Tony Maher <tonym@biolateral.com.au> 2001-09-26 11:22:02 +02:00			`SUBDIR += nclever`
Added deft and ortep3 1999-05-19 15:38:46 +02:00			`SUBDIR += ortep3`
Add p5-AcePerl, a perl interface to the ACEDB genome database system PR: ports/20223 Submitted by: Johann Visagie <johann@egenetics.com> 2000-07-28 15:16:10 +02:00			`SUBDIR += p5-AcePerl`
Add BioPerl, a collection of Perl5 mods for bioinformatics/genomics PR: ports/20252 Submitted by: Johann Visagie <johann@egenetics.com> 2000-07-28 16:06:03 +02:00			`SUBDIR += p5-bioperl`
Add p5-bioperl-devel 0.9.0, a collection of Perl modules for bioinformatics (developer's release). 2001-08-14 11:36:36 +02:00			`SUBDIR += p5-bioperl-devel`
Activating the chemeq, clustalw, paml, and phylip ports. 2000-07-10 05:26:57 +02:00			`SUBDIR += paml`
			`SUBDIR += phylip`
Add platon and molden 1999-05-07 08:59:25 +02:00			`SUBDIR += platon`
Activate povchem. 1998-03-16 08:01:32 +01:00			`SUBDIR += povchem`
Add mopac and psi88 (Move mopac and psi88 from misc to biology) 1999-05-06 10:18:35 +02:00			`SUBDIR += psi88`
Add py-biopython, is a collection of Python packages and modules created 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> 2000-07-31 14:12:24 +02:00			`SUBDIR += py-biopython`
Activate rasmol. 1997-12-15 18:47:41 +01:00			`SUBDIR += rasmol`
Add recombine 1.40, a program to fit population models across sites. 2001-08-06 16:49:53 +02:00			`SUBDIR += recombine`
Add ruby-bio (BioRuby), an integrated environment for Bioinformatics written in Ruby. 2001-10-24 08:21:52 +02:00			`SUBDIR += ruby-bio`
Activate seaview. 1997-12-21 23:05:43 +01:00			`SUBDIR += seaview`
Add seqio 1.2.2, a set of C functions which can read/write biological sequence files. PR: 29922 Submitted by: Tony Maher <tonym@biolateral.com.au> 2001-08-22 14:07:26 +02:00			`SUBDIR += seqio`
Add sim4, an implementation of the sim4 algorithm for aligning expressed DNA with genomic sequences PR: ports/20219 Submitted by: Johann Visagie <johann@egenetics.com> 2000-07-27 16:33:00 +02:00			`SUBDIR += sim4`
Add t_coffee 1.37, a multiple DNA or protein sequence alignment package. 2002-01-25 15:58:16 +01:00			`SUBDIR += t_coffee`
Activate tinker. 1998-11-17 05:54:28 +01:00			`SUBDIR += tinker`
Add treeviewx 0.1.1, a phylogenetic tree viewer. PR: 29770 Submitted by: Tony Maher <tonym@biolateral.com.au> 2001-08-17 10:39:28 +02:00			`SUBDIR += treeviewx`
Add xdrawchem 0.82 - a program for drawing molecules 2000-07-19 15:23:02 +02:00			`SUBDIR += xdrawchem`
Added gperiodic and xmolwt 1999-09-06 22:09:12 +02:00			`SUBDIR += xmolwt`
The new ports category "biology" starts here today. No Darwin jokes please! 1997-12-13 06:54:24 +01:00
			`.include <bsd.port.subdir.mk>`