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Port details
fasta Collection of programs for searching DNA and protein databases
21.1.1_1 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 View this port on Repology. pkg-fallout 21.1.1Version of this port present on the latest quarterly branch.
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: 2001-02-11 13:24:20
Last Update: 2024-01-09 15:41:04
Commit Hash: e10e202
License: FASTA
WWW:
http://fasta.bioch.virginia.edu/
Description:
Version 2 of the FASTA packages contains many programs for performing sequence comparisons, producing local alignments, and other related tasks for analysing DNA and proteins. Currently, the FASTA2 suite is in maintenance mode. This package provides the analysis tools from FASTA2. The searching programs are available in version 3 of the FASTA packages, which may be found in the port biology/fasta3. FASTA is described in: W. R. Pearson and D. J. Lipman (1988), "Improved Tools for Biological Sequence Analysis", PNAS 85:2444- 2448, and W. R. Pearson (1990) "Rapid and Sensitive Sequence Comparison with FASTP and FASTA" Methods in Enzymology 183:63- 98). The FASTA2 suite is distributed freely subject to the condition that it may not be sold or incorporated into a commercial product.
Homepage    cgit ¦ Codeberg ¦ 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 (27 items)
Collapse this list.
  1. /usr/local/share/licenses/fasta-21.1.1_1/catalog.mk
  2. /usr/local/share/licenses/fasta-21.1.1_1/LICENSE
  3. /usr/local/share/licenses/fasta-21.1.1_1/FASTA
  4. bin/align
  5. bin/align0
  6. bin/chofas
  7. bin/garnier
  8. bin/lalign
  9. bin/plalign
  10. bin/psgrease
  11. share/man/man1/align.1.gz
  12. share/man/man1/align0.1.gz
  13. share/man/man1/fasta.1.gz
  14. share/man/man1/fastx.1.gz
  15. share/man/man1/lalign.1.gz
  16. share/man/man1/lfasta.1.gz
  17. share/man/man1/plalign.1.gz
  18. share/man/man1/plfasta.1.gz
  19. share/man/man1/prdf.1.gz
  20. share/man/man1/prss.1.gz
  21. share/man/man1/randseq.1.gz
  22. share/man/man1/ssearch.1.gz
  23. share/man/man1/tfasta.1.gz
  24. share/man/man1/tfastx.1.gz
  25. @owner
  26. @group
  27. @mode
Collapse this list.
Dependency lines:
  • fasta>0:biology/fasta
Conflicts:
CONFLICTS_INSTALL:
  • align
Conflicts Matches:
There are no Conflicts Matches for this port. This is usually an error.
To install the port:
cd /usr/ports/biology/fasta/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/fasta
  • pkg install fasta
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: fasta
Flavors: there is no flavor information for this port.
distinfo:
SHA256 (fasta-21.1.1.shar.Z) = 553da3c5ef3a9e9e37784c2dcd77982b664f501e10b57ab8c4dcfe99c5039c82 SIZE (fasta-21.1.1.shar.Z) = 461511

Packages (timestamps in pop-ups are UTC):
fasta
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest21.1.1_121.1.1_121.1.121.1.1_121.1.1_1-21.1.1-
FreeBSD:13:quarterly21.1.1_121.1.1_121.1.121.1.1_121.1.1_121.1.121.1.121.1.1
FreeBSD:14:latest21.1.1_121.1.1_121.1.121.1.1_121.1.1_121.1.1-21.1.1
FreeBSD:14:quarterly21.1.121.1.1_1-21.1.121.1.1_121.1.121.1.121.1.1
FreeBSD:15:latest21.1.1_121.1.1_1n/a21.1.1_1n/a21.1.1_121.1.1_121.1.1_1
FreeBSD:15:quarterly--n/a-n/a---
This port has no dependencies.
There are no ports dependent upon this port

Configuration Options:
===> The following configuration options are available for fasta-21.1.1_1: DOCS=on: Build and/or install documentation ===> Use 'make config' to modify these settings
Options name:
biology_fasta
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (2 items)
Collapse this list.
  1. ftp://ftp.ebi.ac.uk/pub/software/unix/fasta/fasta2/
  2. http://faculty.virginia.edu/wrpearson/fasta/fasta2/
Collapse this list.

Number of commits found: 32

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
21.1.1_1
09 Jan 2024 15:41:04
commit hash: e10e2022a9b32f3a8011a08e3929fa263a7bdb5dcommit hash: e10e2022a9b32f3a8011a08e3929fa263a7bdb5dcommit hash: e10e2022a9b32f3a8011a08e3929fa263a7bdb5dcommit hash: e10e2022a9b32f3a8011a08e3929fa263a7bdb5d files touched by this commit
Baptiste Daroussin (bapt) search for other commits by this committer
MAN[1-5]PREFIX: eleminate its usage  and move man to share/man
07 Sep 2022 21:58:51
commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
21.1.1
07 Sep 2022 21:10:59
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
21.1.1
20 Jul 2022 14:20:57
commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 files touched by this commit
Tobias C. Berner (tcberner) search for other commits by this committer
biology: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Aaron Dalton <aaron@FreeBSD.org>
  *  Akinori MUSHA aka knu <knu@idaemons.org>
  *  Andrey Zakhvatov
  *  Bob Zimmermann <rpz@cse.wustl.edu>
  *  Camson Huynh <chuynh@biolateral.com.au>
  *  Dan Siercks <dsiercks@uwm.edu>
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Hannes Hauswedell <h2+fbsdports@fsfe.org>
  *  J. Bacon <jwb@FreeBSD.org>
  *  Jason Bacon <jwb@FreeBSD.org>
  *  Jeremy <karlj000@unbc.ca>
(Only the first 15 lines of the commit message are shown above View all of this commit message)
21.1.1
10 Jan 2022 15:15:39
commit hash: bcaf25a8c8046b094f6b5ab5bc258333bc326ee1commit hash: bcaf25a8c8046b094f6b5ab5bc258333bc326ee1commit hash: bcaf25a8c8046b094f6b5ab5bc258333bc326ee1commit hash: bcaf25a8c8046b094f6b5ab5bc258333bc326ee1 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Fix CONFLICTS entries of multiple ports

There have been lots of missing CONFLICTS_INSTALL entries, either
because conflicting ports were added without updating existing ports,
due to name changes of generated packages, due to mis-understanding
the format and semantics of the conflicts entries, or just due to
typoes in package names.

This patch is the result of a comparison of all files contained in
the official packages with each other. This comparison was based on
packages built with default options and may therefore have missed
further conflicts with optionally installed files.

Where possible, version numbers in conflicts entries have been
generalized, some times taking advantage of the fact that a port
(Only the first 15 lines of the commit message are shown above View all of this commit message)
21.1.1
06 May 2021 11:47:48
commit hash: 3505159e72da2d8313ce2a8ddc527de700b5bc37commit hash: 3505159e72da2d8313ce2a8ddc527de700b5bc37commit hash: 3505159e72da2d8313ce2a8ddc527de700b5bc37commit hash: 3505159e72da2d8313ce2a8ddc527de700b5bc37 files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Deorbit RESTRICTED && NO_CDROM, part two.

Move ports to the licenses framework.

RESTRICTED → auto-accept (unless expressly stated otherwise)
NO_CDROM → dist-mirror pkg-mirror auto-accept

Differential Revision:  https://reviews.freebsd.org/D30010
21.1.1
06 Apr 2021 14:31:07
commit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
21.1.1
13 Aug 2019 16:00:39
Revision:508834Original commit files touched by this commit
mat search for other commits by this committer
Convert to UCL & cleanup pkg-message (categories a-c)
21.1.1
21 Oct 2016 12:51:41
Revision:424411Original commit files touched by this commit Sanity Test Failure
mat search for other commits by this committer
${RM} already has -f.

PR:		213570
Submitted by:	mat
Exp-run by:	antoine
Sponsored by:	Absolight
21.1.1
02 Sep 2015 10:35:26
Revision:395829Original commit files touched by this commit
danfe search for other commits by this committer
- Do not falsely advertise that PowerPC build runs out of space and fails
- Remove redundant PKGMESSAGE assignment and sanitize symlinks while here
21.1.1
24 Mar 2014 09:01:39
Revision:348924Original commit files touched by this commit
pawel search for other commits by this committer
- Add staging support
- Switch to PORTDOCS
21.1.1
15 Jan 2014 22:50:19
Revision:339843Original commit files touched by this commit
bapt search for other commits by this committer
Reduce over inclusion of bsd.port.mk
21.1.1
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)
21.1.1
30 Jun 2013 20:53:06
Revision:322100Original commit files touched by this commit
antoine search for other commits by this committer
Fix some PORT_OPTIONS conversions
21.1.1
19 Jun 2013 18:51:17
Revision:321306Original commit files touched by this commit
bsam search for other commits by this committer
. NOPORTDOCS -> PORT_OPTIONS:MDOCS;
. use f instead of file for a variable (portlint warns against file);
. do not mute install commands;
. remove article from COMMENT;
. trim Makefile headers;
. pet portlint: use one space after WWW: at pkg-descr.
21.1.1
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
21.1.1
01 Apr 2010 05:16:19
Original commit files touched by this commit
linimon search for other commits by this committer
Mark various ports as broken or ignore on powerpc.

While here, remove remnants of alpha.
21.1.1
21 Dec 2009 02:19:12
Original commit files touched by this commit
dougb search for other commits by this committer
For ports maintained by ports@FreeBSD.org, remove names and/or
e-mail addresses from the pkg-descr file that could reasonably
be mistaken for maintainer contact information in order to avoid
confusion on the part of users looking for support. As a pleasant
side effect this also avoids confusion and/or frustration for people
who are no longer maintaining those ports.
21.1.1
18 Nov 2009 05:33:10
Original commit files touched by this commit
wen search for other commits by this committer
- Update to 21.1.1
21.u1.d1
31 Jan 2009 22:45:38
Original commit files touched by this commit
pav search for other commits by this committer
- Update download location
21.u1.d1
18 Apr 2008 15:36:54
Original commit files touched by this commit
jmelo search for other commits by this committer
- Update mastersite.

PR:             ports/122130
Submitted by:   Ganael Laplanche <ganael.laplanche@martymac.com>
21.u1.d1
07 May 2006 13:04:20
Original commit files touched by this commit
lawrance search for other commits by this committer
Update to 21.u1.d1 (fixes fetch).

Reported by:    fenner's distfile survey
21.u1.d0
01 Apr 2006 12:34:24
Original commit files touched by this commit
edwin search for other commits by this committer
Use SUB_FILES for pkg-message
21.u1.d0
24 Nov 2005 00:04:00
Original commit files touched by this commit
pav search for other commits by this committer
- Add SHA256
21.u1.d0
20 Nov 2004 08:09:49
Original commit files touched by this commit
linimon search for other commits by this committer
With portmgr hat on, reset inactive maintainer.  These ports are now up
for adoption.
21.u1.d0
01 Jul 2004 06:24:01
Original commit files touched by this commit
linimon search for other commits by this committer
Update to fix fetch.  Rework PORTVERSION to be more like biology/fasta3
and pacify portlint.

PR:             ports/67428
Submitted by:   Roman Neuhauser <neuhauser at chello dot cz>
Approved by:    maintainer timeout (one month)
20.u66
31 Mar 2004 03:12:58
Original commit files touched by this commit
trevor search for other commits by this committer
SIZEify (maintainer timeout)
20.u66
22 Oct 2003 09:29:55
Original commit files touched by this commit
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
20.u66
07 Mar 2003 05:56:43
Original commit files touched by this commit
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.
03 Jul 2001 10:07:35
commit hash: fp1.15741@dev.null.freshports.orgcommit hash: fp1.15741@dev.null.freshports.orgcommit hash: fp1.15741@dev.null.freshports.orgcommit hash: fp1.15741@dev.null.freshports.org 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
commit hash: fp1.15557@dev.null.freshports.orgcommit hash: fp1.15557@dev.null.freshports.orgcommit hash: fp1.15557@dev.null.freshports.orgcommit hash: fp1.15557@dev.null.freshports.org files touched by this commit
wjv search for other commits by this committer
Updating my email address in my remaining ports.    
11 Feb 2001 16:24:20
commit hash: fp1.9462@dev.null.freshports.orgcommit hash: fp1.9462@dev.null.freshports.orgcommit hash: fp1.9462@dev.null.freshports.orgcommit hash: fp1.9462@dev.null.freshports.org files touched by this commit
jeh search for other commits by this committer
New port: biology/fasta, the FASTA2 suite of DNA and protein sequence   search
tools    

Number of commits found: 32