blat 34 biology =0

A fast tool for local sequence similarity searches
Maintained by: fernan@iib.unsam.edu.ar
Port Added: 15 Mar 2006 10:29:12
License: not specified in port

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BLAT is a bioinformatics software tool which performs rapid mRNA/DNA
and cross-species protein alignments. BLAT is more accurate and 500
times faster than popular existing tools for mRNA/DNA alignments and 50
times faster for protein alignments at sensitivity settings typically
used when comparing vertebrate sequences. (Source: Kent, W.J. 2002. BLAT
-- The BLAST-Like Alignment Tool. Genome Research 4: 656-664.
http://dx.doi.org/10.1101/gr.229202)

BLAT is not BLAST. DNA BLAT works by keeping an index of the entire
genome (but not the genome itself) in memory. Since the index takes up a
bit less than a gigabyte of RAM, BLAT can deliver high performance on a
reasonably priced Linux box.

WWW: http://www.genomeblat.com

CVSWeb : Sources : Main Web Site : Distfiles Availability : PortsMon

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NOTE: FreshPorts displays only required dependencies information. Optional dependencies are not covered.
Required To Build: devel/gmake
There are no ports dependent upon this port

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To install the port: cd /usr/ports/biology/blat/ && make install clean
To add the package: pkg_add -r blat

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Configuration Options

     No options to configure

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Master Sites:

http://www.soe.ucsc.edu/~kent/src/

ftp://ftp.FreeBSD.org/pub/FreeBSD/ports/distfiles/

- Get Rid MD5 support

- Remove USE_GCC where it can be satisfied with base compiler on following
  FreeBSD versions: 5.3 and up, 6.x, 7.x, 8-CURRENT

Update to version 34.
Remove BROKEN.

PR:             123218
Submitted by:   maintainer

Fix build on !i386

PR:             118922
Submitted by:   Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp>
Approved by:    Fernan Aguero <fernan@iib.unsam.edu.ar>

- Mark BROKEN outside i386: does not compile

Reported by:    pointyhat
Approved by:    portmgr (hat)

Mark as broken on gcc4.2.

[patch] cleanup non-supported FreeBSD versions

PR:             ports/111726
Submitted by:   Edwin Groothuis <edwin@mavetju.org>
Approved by:    maintainer timeout

Add blat 33, a fast tool for local sequence similarity searches.

PR:             ports/93060
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar>

12 vulnerabilities affecting 17 ports have been reported in the past 14 days

^* - modified, not new

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