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Port details
ariadne Programs to compare protein sequences and profiles
1.3 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port

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Port Added: 22 Jun 2004 14:31:00
License: not specified in port
ARIADNE is a package of two programs, ariadne and prospero, that compare
protein sequences and profiles using the Smith-Waterman algorithm, and
assesses statistical significance using a new accurate formula,
described in Mott, 2000, "Accurate Formula for P-values of gapped local
sequence and profile alignments" J. Mol Biol. 300:649-659.

The sequence/profile comparison algorithms used in ARIADNE are standard,
and are probably not the fastest implementations available. The novel
part is the method for determining statistical significance, which will
give thresholds of significance that are accurate to within 5% 95% of
the time.

The package is written in ANSI C. You are free to incorporate the method
used for assessing statistical significance into third-party code,
provided you cite the above reference. The routines for assessing
significance are all in gaplib.c 

WWW: http://www.well.ox.ac.uk/ariadne/
SVNWeb : Homepage : Distfiles Availability : PortsMon

NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. gmake : devel/gmake
There are no ports dependent upon this port

To install the port: cd /usr/ports/biology/ariadne/ && make install clean
To add the package: pkg install biology/ariadne


Configuration Options
===> The following configuration options are available for ariadne-1.3:
     DOCS=on: Build and/or install documentation
===> Use 'make config' to modify these settings

USES:
gmake tar:Z

Master Sites:
  1. http://distcache.FreeBSD.org/ports-distfiles/
  2. http://www.well.ox.ac.uk/ariadne/

Number of commits found: 11

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
24 Mar 2015 16:01:22
Original commit files touched by this commit  1.3
Revision:382111
marino search for other commits by this committer
6 ports categories: Remove $PTHREAD_LIBS

Categories: cad, devel, java, x11-fm, biology, deskutils

approved by:	PTHREAD blanket
21 Jan 2015 18:39:12
Original commit files touched by this commit  1.3
Revision:377623
marino search for other commits by this committer
misc/otter & biology/ariadne: Not jobs safe

The otter port tries to build libotter.a before an object is completely
built (share.o in my case) and ariadne tries to start building in a
directory before it is created (under multiple jobs).
29 Jul 2014 19:11:53
Original commit files touched by this commit  1.3
Revision:363374
adamw search for other commits by this committer
Convert a bunch of EXTRACT_SUFX=... into USES=tar:...

Approved by:	portmgr (not really, but touches unstaged ports)
12 Nov 2013 21:54:36
Original commit files touched by this commit  1.3
Revision:333626
bapt search for other commits by this committer
Stage support
drop USE_GMAKE
20 Sep 2013 15:55:44
Original commit files touched by this commit  1.3
Revision:327709
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
19 Jun 2013 14:10:03
Original commit files touched by this commit  1.3
Revision:321252
bsam search for other commits by this committer
. NOPORTDOCS -> PORT_OPTIONS:MDOCS;
. use PLIST_FILES and PORTDOCS;
. remove pkg-plist (4 lines).
01 Oct 2012 14:45:17
Original commit files touched by this commit  1.3
Revision:305130
tabthorpe search for other commits by this committer
- Reassign to the heap at maintainer's request
19 Mar 2011 12:38:54
Original commit files touched by this commit  1.3
miwi search for other commits by this committer
- Get Rid MD5 support
03 May 2006 23:26:35
Original commit files touched by this commit  1.3
edwin search for other commits by this committer
Remove USE_REINPLACE from all categories starting with B
22 Jan 2006 08:20:34
Original commit files touched by this commit  1.3
edwin search for other commits by this committer
SHA256ify

Approved by:    krion@
22 Jun 2004 14:29:59
Original commit files touched by this commit  1.3
krion search for other commits by this committer
Add ariadne 1.3, programs to compare protein sequences and
profiles, using the Smith-Waterman algorithm.

PR:             ports/67811
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar>

Number of commits found: 11

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