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1.4
date	2008.03.19.13.31.52;	author jadawin;	state Exp;
branches;
next	1.3;

1.3
date	2007.12.15.18.47.00;	author pav;	state Exp;
branches;
next	1.2;

1.2
date	2000.10.03.01.10.19;	author jeh;	state Exp;
branches;
next	1.1;

1.1
date	2000.07.10.03.17.40;	author steve;	state Exp;
branches;
next	;


desc
@@


1.4
log
@- Update to version 2.0.5
- Add RESTRICTED due to a non-commercial use licence.

PR:		ports/121794
Submitted by:	KATO Tsuguru <tkato432@@yahoo.com>
Approved by:	thierry and tabthorpe (mentors)
@
text
@ClustalW2 is a general purpose multiple sequence alignment program for
DNA or proteins. It produces biologically meaningful multiple sequence
alignments of divergent sequences. It calculates the best match for the
selected sequences, and lines them up so that the identities,
similarities and differences can be seen. Evolutionary relationships
can be seen via viewing Cladograms or Phylograms. 

WWW: http://www.clustal.org/
@


1.3
log
@- Update to 2.0

PR:		ports/117713
Submitted by:	Motomichi Matsuzaki <mzaki@@e-mail.ne.jp>
@
text
@d1 6
a6 1
               CLUSTAL W Multiple Sequence Alignment Program
d8 1
a8 17
Clustal W is a multiple alignment program for DNA or proteins.
Clustal W was written by Des Higgins (des@@chah.ucc.ie), Julie Thompson
(julie@@IGBMC.u-strasbg.fr), and Toby Gibson (Gibson@@EMBL-Heidelberg.DE).
Version 2.0 has been completely rewritten in C++.

Original Paper:
    Thompson, J.D., D. G. Higgins and T. J. Gibson. 1994. CLUSTAL W:
improving the sensitivity of progressive multiple sequence alignment
through sequence weighting, positions-specific gap penalties and
weight matrix choice. Nucleic Acids Research 22: 4673-4680.
    
Tips:
    Higgins, D. G., J. D. Thompson, and T. J. Gibson. 1996. Using
CLUSTAL for multiple sequence alignments. Methods in Enzymology 266:
383-402.

WWW: http://bips.u-strasbg.fr/fr/Documentation/ClustalX/
@


1.2
log
@- Support CC/CFLAGS/PREFIX properly
- 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)
@
text
@d3 4
a6 11
ClustalW was written by Des Higgins (now at University College, Cork,
Ireland) (des@@chah.ucc.ie), Julie Thompson (julie@@IGBMC.u-strasbg.fr),
Toby Gibson, (Gibson@@EMBL-Heidelberg.DE), and Franc'ois Jeanmougin
(pingouin@@igbmc.u-strasbg.fr). It is a complete rewrite and upgrade of
the Clustal and ClustalV packages. which were developed by Des
Higgins. New features include the ability to detect read different
input formats (NBRF/PIR, Fasta, EMBL/Swissprot); align old alignments;
produce phylogenetic trees after alignment (Neighbor Joining trees
with a bootstrap option); write different alignment formats (Clustal,
NBRF/PIR, GCG, PHYLIP); full command line interface. It is described
in the following papers:
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a19 1
WWW: http://www-igbmc.u-strasbg.fr/BioInfo/ClustalX/Top.html
@


1.1
log
@Adding clustalw version 1.81.
A CLUSTAL W Multiple Sequence Alignment Program.

PR:		19746
Submitted by:	David A. Bader <dbader@@cielo.eece.unm.edu>
@
text
@d24 1
a24 1
  See URL: www-igbmc.u-strasbg.fr/BioInfo/ClustalX/Top.html
@

