| Port details |
- ariadne Programs to compare protein sequences and profiles
- 1.3 biology
 =0      1.3Version of this port present on the latest quarterly branch.  BROKEN: No public distfiles
 DEPRECATED: Broken for more than 6 months
 This port expired on: 2018-06-06
 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
- 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/
 cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - 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- Sometimes this happens. Not all ports have packages. Perhaps there is a build error. Check the fallout link:
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- 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:
|
Number of commits found: 16
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
1.3
07 Jun 2018 00:34:18
  |
rene |
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  ) |
1.3
05 May 2018 10:49:36
|
antoine |
Deprecate ports broken for more than 6 months |
1.3
13 Oct 2017 11:14:53
 |
bapt |
Mark as broken ports with no public distfiles |
1.3
20 Jul 2016 15:33:20
|
mat |
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
|
amdmi3 |
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
Approved by: portmgr blanket |
1.3
24 Mar 2015 16:01:22
|
marino |
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
|
marino |
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
|
adamw |
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
|
bapt |
Stage support
drop USE_GMAKE |
1.3
20 Sep 2013 15:55:44
|
bapt |
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology) |
1.3
19 Jun 2013 14:10:03
|
bsam |
. NOPORTDOCS -> PORT_OPTIONS:MDOCS;
. use PLIST_FILES and PORTDOCS;
. remove pkg-plist (4 lines). |
1.3
01 Oct 2012 14:45:17
|
tabthorpe |
- Reassign to the heap at maintainer's request |
1.3
19 Mar 2011 12:38:54
|
miwi |
- Get Rid MD5 support |
1.3
03 May 2006 23:26:35
|
edwin |
Remove USE_REINPLACE from all categories starting with B |
1.3
22 Jan 2006 08:20:34
|
edwin |
SHA256ify
Approved by: krion@ |
1.3
22 Jun 2004 14:29:59
|
krion |
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
|
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