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Port details
ariadne Programs to compare protein sequences and profiles
1.3 biology Deleted 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 View this port on Repology. pkg-fallout 1.3Version of this port present on the latest quarterly branch.
Broken BROKEN: No public distfiles
Deprecated DEPRECATED: Broken for more than 6 months
Expired This port expired on: 2018-06-06
Ignore IGNORE: is marked as broken: No public distfiles
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 search for ports maintained by this maintainer
Port Added: 2004-06-22 14:31:00
Last Update: 2018-06-07 00:34:18
SVN Revision: 471892
License: not specified in port
WWW:
http://www.well.ox.ac.uk/ariadne/
Description:
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/
Homepage    cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (2 items)
Collapse this list.
  1. bin/ariadne
  2. bin/prospero
Collapse this list.
Dependency lines:
  • ariadne>0:biology/ariadne
No installation instructions:
This port has been deleted.
PKGNAME: ariadne
Flavors: there is no flavor information for this port.
distinfo:
SHA256 (ariadne-1.3.tar.Z) = 8b6b0acb6e8d02b1303d94b20906bf2bf1dee3de4eceeb1b927cfba7a96fd00d SIZE (ariadne-1.3.tar.Z) = 69427

No package information for this port in our database
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Dependencies
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

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
Options name:
N/A
USES:
gmake tar:Z
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. http://www.well.ox.ac.uk/ariadne/
Collapse this list.

Number of commits found: 16

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
1.3
07 Jun 2018 00:34:18
Revision:471892Original commit files touched by this commit
rene search for other commits by this committer
Remove expired ports:
2018-06-06 biology/ssaha: Broken for more than 6 months
2018-06-06 biology/crux: Broken for more than 6 months
2018-06-06 biology/ariadne: Broken for more than 6 months
2018-06-06 cad/sceptre: Broken for more than 6 months
2018-06-06 cad/cider: Broken for more than 6 months
2018-06-06 chinese/scim-array: Broken for more than 6 months
2018-06-06 chinese/xpdf: Broken for more than 6 months
2018-06-06 chinese/telnet: Broken for more than 6 months
2018-06-06 comms/java-commapi-freebsd: Depends on BROKEN and expiring
comms/java-commapi
2018-06-06 comms/soundmodem: Broken for more than 6 months
2018-06-06 comms/jsdr: Broken for more than 6 months
2018-06-06 comms/java-commapi: Broken for more than 6 months
2018-06-06 converters/pdf2djvu: Broken for more than 6 months
2018-06-06 databases/rdb: Broken for more than 6 months
(Only the first 15 lines of the commit message are shown above View all of this commit message)
1.3
05 May 2018 10:49:36
Revision:469100Original commit files touched by this commit
antoine search for other commits by this committer
Deprecate ports broken for more than 6 months
1.3
13 Oct 2017 11:14:53
Revision:451982Original commit files touched by this commit Sanity Test Failure
bapt search for other commits by this committer
Mark as broken ports with no public distfiles
1.3
20 Jul 2016 15:33:20
Revision:418840Original commit files touched by this commit
mat search for other commits by this committer
Cleanup $() variables in ports Makefiles.

Mostly replace with ${}, but sometime, replace with $$() because it is
what was intended in the first place. (I think.)

Sponsored by:	Absolight
1.3
19 May 2016 10:21:25
Revision:415498Original commit files touched by this commit
amdmi3 search for other commits by this committer
- Fix trailing whitespace in pkg-descrs, categories [a-f]*

Approved by:	portmgr blanket
1.3
24 Mar 2015 16:01:22
Revision:382111Original commit files touched by this commit
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
1.3
21 Jan 2015 18:39:12
Revision:377623Original commit files touched by this commit
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).
1.3
29 Jul 2014 19:11:53
Revision:363374Original commit files touched by this commit
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)
1.3
12 Nov 2013 21:54:36
Revision:333626Original commit files touched by this commit
bapt search for other commits by this committer
Stage support
drop USE_GMAKE
1.3
20 Sep 2013 15:55:44
Revision:327709Original commit files touched by this commit
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
1.3
19 Jun 2013 14:10:03
Revision:321252Original commit files touched by this commit
bsam search for other commits by this committer
. NOPORTDOCS -> PORT_OPTIONS:MDOCS;
. use PLIST_FILES and PORTDOCS;
. remove pkg-plist (4 lines).
1.3
01 Oct 2012 14:45:17
Revision:305130Original commit files touched by this commit
tabthorpe search for other commits by this committer
- Reassign to the heap at maintainer's request
1.3
19 Mar 2011 12:38:54
Original commit files touched by this commit
miwi search for other commits by this committer
- Get Rid MD5 support
1.3
03 May 2006 23:26:35
Original commit files touched by this commit
edwin search for other commits by this committer
Remove USE_REINPLACE from all categories starting with B
1.3
22 Jan 2006 08:20:34
Original commit files touched by this commit
edwin search for other commits by this committer
SHA256ify

Approved by:    krion@
1.3
22 Jun 2004 14:29:59
Original commit files touched by this commit
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: 16