FreshPorts -- The Place For Ports If you buy from Amazon USA, please support us by using this link.
Follow us
Blog
Twitter

I am looking for an LTO tape library. Do you have one to spare?
Port details
fasta3 36.3.6d_1 biology on this many watch lists=0 search for ports that depend on this port
NO CDROM NO CDROM: May not be sold or incorporated into a commercial product
Collection of programs for searching DNA and protein databases

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: 11 Feb 2001 13:29:00
License: Fasta


Version 3 of the FASTA packages contains many programs for searching DNA and
protein databases and one program (prss3) for evaluating statistical
significance from randomly shuffled sequences.  Several additional analysis
programs, including programs that produce local alignments, are available as
part of version 2 of the FASTA package, which is available as the port
biology/fasta.

FASTA is described in:  W. R. Pearson and D. J. Lipman (1988), "Improved
Tools for Biological Sequence Analysis", PNAS 85:2444-2448; W. R.  Pearson
(1996) "Effective protein sequence comparison" Meth. Enzymol.  266:227-258;
Pearson et. al.  (1997) Genomics 46:24-36;  Pearson, (1999) Meth. in
Molecular Biology 132:185-219.

The FASTA3 suite is distributed freely subject to the condition that it may
not be sold or incorporated into a commercial product.

WWW: http://fasta.bioch.virginia.edu/
SVNWeb : Main Web Site : Distfiles Availability : PortsMon

This port is required by:

for Run * - deleted ports are only shown under the This port is required by section. It was harder to do for the Required section. Perhaps later...

To install the port: cd /usr/ports/biology/fasta3/ && make install clean
To add the package: pkg install biology/fasta3


Configuration Options
===> The following configuration options are available for fasta3-36.3.6d_1:
     DOCS=on: Build and/or install documentation
     EXAMPLES=on: Build and/or install examples
===> Use 'make config' to modify these settings

Master Sites:
  1. ftp://ftp.FreeBSD.org/pub/FreeBSD/ports/distfiles/fasta3/2014-01-29/
  2. http://faculty.virginia.edu/wrpearson/fasta/fasta36/

Number of commits found: 41

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
02 Mar 2014 10:58:50
Original commit files touched by this commit  36.3.6d_1
Revision:346755
marino search for other commits by this committer
biology/fasta3: Checked new distfile and regenerated distinfo to unbreak

Fasta3 distfile was significantly changed.  This should have been released
as a new version (e.g. 36.3.6e), so it's not clear why the distfile was
rerolled.  There are significant changes to makefiles, conf files and even
a few .c and .h files.  They all look like legitimate updates to me
though.

Set DIST_SUBDIR since this port is now known for rerolling, then
regenerate distinfo.  Also add Fasta license and bump revision.
03 Jan 2014 19:46:05
Original commit files touched by this commit  36.3.6d
Revision:338577
bapt search for other commits by this committer
Mark as broken: Invalid checksum, seems like the software was rerolled
29 Oct 2013 19:32:16
Original commit files touched by this commit  36.3.6d
Revision:331982
pawel search for other commits by this committer
Update to version 36.3.6d

PR:		ports/181883
Submitted by:	KATO Tsuguru <tkato432@yahoo.com>
20 Sep 2013 15:55:44
Original commit files touched by this commit  36.3.6
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)
07 Sep 2013 17:20:21
Original commit files touched by this commit  36.3.6
Revision:326658
sunpoet search for other commits by this committer
- Use single space after WWW:
19 Jul 2013 14:08:02
Original commit files touched by this commit  36.3.6
Revision:323293
wen search for other commits by this committer
- Update to 36.3.6
- Drop maintainership
01 Oct 2012 14:55:55
Original commit files touched by this commit  36.3.2
Revision:305131
wen search for other commits by this committer
- Take maintainership
01 Oct 2012 14:45:17
Original commit files touched by this commit  36.3.2
Revision:305130
tabthorpe search for other commits by this committer
- Reassign to the heap at maintainer's request
22 Oct 2011 23:50:23
Original commit files touched by this commit  36.3.2
eadler search for other commits by this committer
- remove maintainer tags from pkg-descr

Approved by:    portmgr
Approved by:    bapt (mentor)
26 Jan 2011 20:26:36
Original commit files touched by this commit  36.3.2
beat search for other commits by this committer
- Update to 36.3.2 to fix distfile fetching on pointyhat

PR:             ports/154267
Submitted by:   Fernan Aguero <fernan AT iib.unsam.edu.ar> (maintainer)
Feature safe:   yes
23 Aug 2009 15:47:37
Original commit files touched by this commit  35.4.9
makc search for other commits by this committer
Update to 35.4.9

PR:             ports/137991
Submitted by:   Fernan Aguero (maintainer)
09 Jun 2009 07:53:37
Original commit files touched by this commit  35.4.7
itetcu search for other commits by this committer
- Update to 35.4.7 [1]
- Obey PREFIX [2]

Submitted by:   maintainer [1] [2]
Reported by:    QATty [2]
23 Feb 2009 16:13:19
Original commit files touched by this commit  35.4.4
amdmi3 search for other commits by this committer
- Add forgotten patch
23 Feb 2009 16:12:23
Original commit files touched by this commit  35.4.4
amdmi3 search for other commits by this committer
- Update to 35.4.4

PR:             132007
Submitted by:   Fernan Aguero <fernan at iib dot unsam dot edu dot ar>
(maintainer)
10 Apr 2008 08:09:10
Original commit files touched by this commit  35.3.6
clsung search for other commits by this committer
- Update to 35.3.6

PR:             ports/122607
Submitted by:   maintainer (Fernan Aguero)
30 Mar 2008 05:07:37
Original commit files touched by this commit  35.3.5
rafan search for other commits by this committer
- Update to 35.3.5
- Switch to .tar.gz distfile so that we don't define our do-extract
- While I'm here, using substitution for version numbers in pkg-plist
  for easier upgrade

PR:             ports/121690
Submitted by:   Wen heping <wenheping at gmail.com>
Approved by:    maintainer timeout (2 weeks)
09 Mar 2007 11:26:13
Original commit files touched by this commit  34.26.2
miwi search for other commits by this committer
- Update to 34.26.2

PR:             110079
Submitted by:   Fernan Aguero<fernan@iib.unsam.edu.ar> (maintainer)
31 Oct 2006 09:02:04
Original commit files touched by this commit  34.t26.b3
miwi search for other commits by this committer
- Update to 34.t26.b3

PR:             ports/104508
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
09 Jun 2006 19:18:08
Original commit files touched by this commit  34.t25.d9
pav search for other commits by this committer
- Update to 34.t25.d9

PR:             ports/98761
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
05 Jun 2006 21:18:24
Original commit files touched by this commit  34.t25.d8
erwin search for other commits by this committer
- Update to 34.t25.d8 [1]
- While I'm here, pet portlint [2]

PR:             98398 [1]
Submitted by:   miwi [1], self [2]
Approved by:    maintainer [1]
24 May 2006 16:55:46
Original commit files touched by this commit  34.t25.d7
sem search for other commits by this committer
- update to 34.t25.d7
- add MASTER_SITE_LOCAL as a second master site

PR:             ports/97310
Submitted by:   maintainer
21 May 2006 21:32:08
Original commit files touched by this commit  34.t25.d6
kris search for other commits by this committer
BROKEN: Unfetchable
07 May 2006 16:52:33
Original commit files touched by this commit  34.t25.d6
sem search for other commits by this committer
- Update to 34.t25.d6

PR:             ports/96063
Submitted by:   maintainer
20 Mar 2006 22:23:24
Original commit files touched by this commit  34.t25.d5
pav search for other commits by this committer
- Update to 34.t25.d5

PR:             ports/94741
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
10 Feb 2006 09:37:02
Original commit files touched by this commit  34.t25.d4
lawrance search for other commits by this committer
Update to 34.t25.d4.

PR:             ports/93052
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
22 Jan 2006 08:20:34
Original commit files touched by this commit  33.t08.d4
edwin search for other commits by this committer
SHA256ify

Approved by:    krion@
01 Jul 2004 03:02:23
Original commit files touched by this commit  33.t08.d4
linimon search for other commits by this committer
Chase mastersite and fix checksum to unbreak.  (Changes are inclusion of a
logfile, one Linux-only change, and one change in a test script).  Assign
submitter as new maintainer as current one has not responded to PRs for
some time.

PR:             ports/68199
Submitted by:   Fernan Aguero <fernan at iib dot unsam dot edu dot ar>
21 Jun 2004 21:27:46
Original commit files touched by this commit  33.t08.d4
kris search for other commits by this committer
Set an expiry date of 2004-08-20 for these BROKEN/IGNORE/FORBIDDEN
ports.  They will be removed on or after that date if they are still
broken and no fix has been submitted to GNATS.
31 Mar 2004 03:12:58
Original commit files touched by this commit  33.t08.d4
trevor search for other commits by this committer
SIZEify (maintainer timeout)
21 Feb 2004 19:31:10
Original commit files touched by this commit  33.t08.d4
kris search for other commits by this committer
BROKEN: Checksum mismatch
15 Nov 2003 20:13:21
Original commit files touched by this commit  33.t08.d4
marcus search for other commits by this committer
unPERLify by using REINPLACE_CMD and SED where appropriate.

PR:             47654
Submitted by:   Simon 'portlint' Schubert <corecode@corecode.ath.cx>
22 Oct 2003 09:29:55
Original commit files touched by this commit  33.t08.d4
osa search for other commits by this committer
Cosmetic fix: use %%DOCSDIR%% macro.
No functionally changes.

Submitted by:   Oleg Karachevtsev <ok@etrust.ru>
A part of PR:   57992
07 Mar 2003 05:56:43
Original commit files touched by this commit  33.t08.d4
ade search for other commits by this committer
Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.
23 Aug 2002 03:36:33
Original commit files touched by this commit  33.t08.d4
kris search for other commits by this committer
Prefer <limits.h> over <values.h> as the latter has been removed from
-current.

Noticed by:     bento
03 Jul 2001 10:08:26
files touched by this commit
wjv search for other commits by this committer
Replace erroneous usage of INSTALL_MAN with INSTALL_DATA.    
27 Jun 2001 11:15:02
files touched by this commit
wjv search for other commits by this committer
Updating my email address in my remaining ports.    
07 May 2001 13:16:33
files touched by this commit
jeh search for other commits by this committer
Updata biology/fasta3 to version 33.t08.d4    
22 Mar 2001 09:04:47
files touched by this commit
sobomax search for other commits by this committer
Update to 33.t08.d3.    
12 Mar 2001 10:24:38
files touched by this commit
nbm search for other commits by this committer
- A small bugfix lead to a rerelease without a version number change.   - Bumped
PORTREVISION.    
08 Mar 2001 14:39:17
files touched by this commit
sf search for other commits by this committer
update to 33.t08.d2.    
11 Feb 2001 16:29:00
files touched by this commit
jeh search for other commits by this committer
- New port: biology/fasta3, which comprises the FASTA3 suite of DNA and    
protein sequence search programs   - FASTA3 updates only some of the elements of
FASTA2, which is why I have     submitted ports of both versions (as
biology/fasta and biology/fasta3)    

Number of commits found: 41

Login
User Login
Create account

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD

This site
What is FreshPorts?
About the authors
FAQ
How big is it?
The latest upgrade!
Privacy
Forums
Blog
Contact

Search
Enter Keywords:
 
more...

Latest Vulnerabilities
fishSep 29
bash*Sep 25
bash-static*Sep 25
chromiumSep 25
krfbSep 25
linux-c6-nssSep 25
linux-firefoxSep 25
linux-seamonkeySep 25
linux-thunderbirdSep 25
linux_base-c6*Sep 25
nssSep 25
asterisk11Sep 18
squidSep 18
squid33Sep 18
dbusSep 17

9 vulnerabilities affecting 24 ports have been reported in the past 14 days

* - modified, not new

All vulnerabilities


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds


Statistics
Graphs
NEW Graphs (Javascript)
Traffic

Calculated hourly:
Port count 24161
Broken 104
Deprecated 27
Ignore 359
Forbidden 3
Restricted 205
No CDROM 93
Vulnerable 20
Expired 1
Set to expire 22
Interactive 0
new 24 hours 10
new 48 hours11
new 7 days53
new fortnight146
new month293

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD
Valid HTML, CSS, and RSS.
Copyright © 2000-2014 Dan Langille. All rights reserved.