sim4 2003.09.21 biology =1

An algorithm for aligning expressed DNA with genomic sequences

There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org
Port Added: 27 Jul 2000 11:33:01
License: not specified in port

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This package implements the Sim4 algorithm for aligning expressed DNA
with genomic sequences, described in the paper:

L. Florea, G. Hartzell, Z. Zhang, G. Rubin, and W. Miller (1998)
"A computer program for aligning a cDNA sequence with a genomic DNA sequence."
Genome Research 8, 967-974.

WWW: http://globin.cse.psu.edu/

Port maintained by the FreeBSD bio-porters mailing list.

CVSWeb : Sources : Main Web Site : Distfiles Availability : PortsMonThere are no ports dependent upon this port

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To install the port: cd /usr/ports/biology/sim4/ && make install clean
To add the package: pkg_add -r sim4

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Configuration Options

     No options to configure

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Master Sites:

http://globin.cse.psu.edu/ftp/dist/sim4/

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

- Get Rid MD5 support

Remove USE_REINPLACE from all categories starting with B

- Add SHA256

- Update to version 2003.09.21

PR:             ports/64160
Submitted by:   Liam J. Foy <liamfoy@sepulcrum.org>

Use PLIST_FILES.

Reviewed by:    marcus

Add SIZE.

ports with possibly unreachable MAINTAINERs
*** addresses that seem to be dead:

PR:             ports/58694
Submitted by:   Oliver Eikemeier <eikemeier@fillmore-labs.com>

De-pkg-comment.

Update to sim4-2002.03.03 to unbreak build.

Noticed by:     bento

- Update to version of 2001-12-30    

Update to version 2001.10.12.    

Update to version 2001-02-06    

Update biology/sim4 to 2000.10.19   Maintainership over to FreeBSD bio-porters
mailing list    

Convert category biology to new layout.  

Fix checksum    

Update to version 2000.08.24    

Add sim4, an implementation of the sim4 algorithm for aligning expressed   DNA
with genomic sequences    

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

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