The FreeBSD Ports Archive

FreeBSD biology : primer3

Primer3 helps to choose primers for PCR reactions

 "Primer3 is a complete rewrite of the original PRIMER program
(Primer 0.5), written by Steve Lincoln, Mark Daly, and Eric
Lander.  See DIFFERENCES FROM EARLIER VERSIONS for a discussion
of how Primer3 differs from its predecessors, Primer 0.5 and
Primer v2.

Primer3 picks primers for PCR reactions, considering as criteria:

o oligonucleotide melting temperature, size, GC content,
  and primer-dimer possibilities,
o PCR product size,
o positional constraints within the source sequence, and
o miscellaneous other constraints.

All of these criteria are user-specifiable as constraints, and
some are specifiable as terms in an objective function that
characterizes an optimal primer pair."
- from the README file 

primer3 history

v. 1.10
date: 2006/12/29 23:40:53;  author: miwi;  state: Exp;  lines: +7 -6
- Update to 1.0.1
- Update MASTER_SITES
- Pass maintainership to submitter

PR:		ports/107246
Submitted by:	Fernan Aguero (maintainer)

v. 1.9
date: 2006/12/26 12:46:33;  author: linimon;  state: Exp;  lines: +1 -1
Reset tonymaher@optusnet.com.au due to maintainer-timeouts and no response
to email.

Hat:		portmgr

v. 1.8
date: 2006/05/03 23:26:34;  author: edwin;  state: Exp;  lines: +0 -1
Remove USE_REINPLACE from all categories starting with B

v. 1.7
date: 2006/01/09 03:25:02;  author: edwin;  state: Exp;  lines: +1 -1
Fix maintainer address

    From: Tony Maher 
    To: Edwin Groothuis 
    Subject: Re: ports/91537: maths/xgobi - download site moved/maintainer addressupdate

    Actually I need  modify all my ports to use OptusNet rather than
    Biolateral.  Is there an easy way to do this or should I submit a
    separate 1-line patch and PR for each port?

    biology/crimap
    biology/dna-qc
    biology/flip
    biology/primer3
    biology/seqio
    biology/wise
    math/xgobi
    net/generic-nqs

Submitted by:	Tony Maher 

v. 1.6
date: 2005/06/13 04:31:34;  author: pat;  state: Exp;  lines: +5 -11
- Update to 1.0.0
- Make DATADIR/EXAMPLESDIR/DOCSDIR safe
- Don't hardcode ${CPIO}

PR:		ports/82154
Submitted by:	George Hartzell 
Approved by:	maintainer

v. 1.5
date: 2004/02/27 22:20:43;  author: krion;  state: Exp;  lines: +1 -1
- Fix MASTER_SITES

PR:		ports/63469
Submitted by:	maintainer

v. 1.4
date: 2003/12/20 12:20:49;  author: krion;  state: Exp;  lines: +1 -1
- Fix MASTER_SITES

PR:		60417
Submitted by:	maintainer

v. 1.3
date: 2003/02/21 11:01:36;  author: knu;  state: Exp;  lines: +1 -0
De-pkg-comment.

v. 1.2
date: 2002/11/07 13:45:17;  author: edwin;  state: Exp;  lines: +1 -0
Updated to fix problems as stated in PR ports/42915

PR:		ports/42915
Submitted by:	Tony Maher 

v. 1.1
date: 2002/09/17 15:31:09;  author: ijliao;  state: Exp;
add primer3 0.9
Primer3 helps to choose primers for PCR reactions

PR:		35298
Submitted by:	Tony Maher 
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