Bug 94741

Summary: [ maintainer update ] update biology/fasta3
Product: Ports & Packages Reporter: Fernan Aguero <fernan>
Component: Individual Port(s)Assignee: freebsd-ports-bugs (Nobody) <ports-bugs>
Status: Closed FIXED    
Severity: Affects Only Me    
Priority: Normal    
Version: Latest   
Hardware: Any   
OS: Any   
Attachments:
Description Flags
fasta3.diff none

Description Fernan Aguero 2006-03-20 17:00:38 UTC
	

	
A new version of the fasta distribution, fasta34t25d5.shar.Z, is
available from:

        ftp://ftp.virginia.edu/pub/fasta/fasta34t25d5.shar.Z

In general, the major changes in this version are internal; the
functions producing alignments and alignment coordinates have been
simplified.  One of the consequences is that for the parallel
versions, alignments are calculated only once, even if the alignment
information is needed several times (e.g. in the list of best scores
and as final alignments).

The major new feature is the ability to work with asymmetric scoring matrices.
Although the FASTA programs use the NxN scoring matrix format used by BLAST,
only half of the matrix was actually read  andthe rest inferred by symmetry.
This has been changed, and asymmetric matrices can be used.

In addition, the -V "*#" annotation option is now available in the
parallel versions of the programs, and some minor bug fixes are
included.

Bill Pearson
Comment 1 Pav Lucistnik freebsd_committer 2006-03-20 22:23:32 UTC
State Changed
From-To: open->closed

Committed, thanks!