The FreeBSD Ports Archive

FreeBSD biology : hmmer

Profile hidden Markov models for biological sequence analysis

 HMMER is an implementation of profile hidden Markov model methods for
sensitive searches of biological sequence databases using multiple sequence
alignments as queries.

Given a multiple sequence alignment as input, HMMER builds a statistical
model called a "hidden Markov model" which can then be used as a query into
a sequence database to find (and/or align) additional homologues of the
sequence family. 

hmmer history

v. 1.15
date: 2004/11/25 22:58:29;  author: sem;  state: Exp;  lines: +1 -1
- Remove a junk white space.

v. 1.14
date: 2004/11/25 22:35:52;  author: sem;  state: Exp;  lines: +20 -11
- Update to 2.3.2
- Add WITH_PVM knob
- Pass maintainership to submitter

PR:		ports/74331
Submitted by:	Fernan Aguero 

v. 1.13
date: 2004/11/20 08:09:45;  author: linimon;  state: Exp;  lines: +1 -1
With portmgr hat on, reset inactive maintainer.  These ports are now up
for adoption.

v. 1.12
date: 2003/03/07 05:56:42;  author: ade;  state: Exp;  lines: +1 -0
Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.

v. 1.11
date: 2002/07/11 10:52:14;  author: wjv;  state: Exp;  lines: +2 -1
- Add patch that will, for -CURRENT only, change:  -pthread -> -lc_r
- Bump $PORTREVISION

Prompted by:	Various questions from Rune Linding 

v. 1.10
date: 2001/08/22 13:18:10;  author: wjv;  state: Exp;  lines: +14 -13
- Update port to version 2.2g

v. 1.9
date: 2001/07/05 08:58:12;  author: wjv;  state: Exp;  lines: +10 -11
- General clean-up of port.
- Install PDF and HTML documentation.
- Take over maintainership.

Approved by:	Silence from previous maintainer; no objections from -ports

v. 1.8
date: 2001/07/04 12:16:13;  author: wjv;  state: Exp;  lines: +2 -2
- Add %%PORTDOCS%% support to pkg-plist.
- $INSTALL_MAN -> $INSTALL_DATA in Makefile where appropriate.

PR:		28668
Submitted by:	Patrick Li 

v. 1.7
date: 2000/04/08 22:04:37;  author: mharo;  state: Exp;  lines: +3 -3
update with the new PORTNAME/PORTVERSION variables

v. 1.6
date: 2000/01/29 20:01:35;  author: mharo;  state: Exp;  lines: +2 -2
fix some pkg/MESSAGE stuff

v. 1.5
date: 1999/08/25 04:47:57;  author: obrien;  state: Exp;  lines: +1 -1
Change Id->FreeBSD.

v. 1.4
date: 1999/03/08 20:23:39;  author: fenner;  state: Exp;  lines: +9 -7
Upgrade to 2.1.1

PR:		ports/10228
Submitted by:	Michael Haro mharo@area51.fremont.ca.us

v. 1.3
date: 1999/01/02 00:12:17;  author: asami;  state: Exp;  lines: +2 -3
Change *_DEPENDS on lang/perl5 to USE_PERL5 so we won't have any
dependencies to perl5 in -current.  This might cause some unwanted
perl5 installations on -stable (if it was originally RUN_DEPENDS,
perl5 will now be installed during build too, etc.), but its lifetime
is limited anyway.

v. 1.2
date: 1998/12/09 22:35:04;  author: billf;  state: Exp;  lines: +2 -2
Update MASTER_SITES.

Thanks To:	Fenner's portsurvey and ftpsearch.lycos.com

v. 1.1
date: 1998/07/12 23:30:02;  author: steve;  state: Exp;
branches:  1.1.1;
Initial revision

v. 1.1.1.1
date: 1998/07/12 23:30:02;  author: steve;  state: Exp;  lines: +0 -0
Initial import of hmmer version 2.0.
Profile hidden Markov models for biological sequence analysis.

PR:		7120
Submitted by:	Matthew Jason Euclid Barnhart 
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