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Port details
exonerate Generic tool for sequence alignment
2.4.0_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 2.4.0Version of this port present on the latest quarterly branch.
Maintainer: mzaki@niid.go.jp search for ports maintained by this maintainer
Port Added: 2018-07-13 07:02:53
Last Update: 2024-02-22 13:23:45
Commit Hash: 2044d70
License: GPLv3
WWW:
https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate
Description:
Exonerate is a tool for various types of pairwise sequence comparison. It allows us to align sequences using many alignment models including est2genome, protein2genome, and so on. Citation: Slater, G. S. C. and Birney, E. (2005) Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics 6:31.
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 (37 items)
Collapse this list.
  1. /usr/local/share/licenses/exonerate-2.4.0_1/catalog.mk
  2. /usr/local/share/licenses/exonerate-2.4.0_1/LICENSE
  3. /usr/local/share/licenses/exonerate-2.4.0_1/GPLv3
  4. bin/exonerate
  5. bin/ipcress
  6. bin/exonerate-server
  7. bin/fastaclean
  8. bin/fastaclip
  9. bin/fastachecksum
  10. bin/fastacomposition
  11. bin/fastadiff
  12. bin/fastaexplode
  13. bin/fastafetch
  14. bin/fastahardmask
  15. bin/fastaindex
  16. bin/fastalength
  17. bin/fastanrdb
  18. bin/fastaoverlap
  19. bin/fastareformat
  20. bin/fastaremove
  21. bin/fastarevcomp
  22. bin/fastasoftmask
  23. bin/fastasort
  24. bin/fastasplit
  25. bin/fastasubseq
  26. bin/fastatranslate
  27. bin/fastavalidcds
  28. bin/fasta2esd
  29. bin/fastaannotatecdna
  30. bin/esd2esi
  31. share/man/man1/exonerate-server.1.gz
  32. share/man/man1/fastautils.1.gz
  33. share/man/man1/exonerate.1.gz
  34. share/man/man1/ipcress.1.gz
  35. @owner
  36. @group
  37. @mode
Collapse this list.
Dependency lines:
  • exonerate>0:biology/exonerate
To install the port:
cd /usr/ports/biology/exonerate/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/exonerate
  • pkg install exonerate
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: exonerate
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1529394154 SHA256 (exonerate-2.4.0.tar.gz) = f849261dc7c97ef1f15f222e955b0d3daf994ec13c9db7766f1ac7e77baa4042 SIZE (exonerate-2.4.0.tar.gz) = 520899

Packages (timestamps in pop-ups are UTC):
exonerate
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest2.4.0_12.4.0_12.4.02.4.0_12.4.0_1---
FreeBSD:13:quarterly2.4.0_12.4.0_1-2.4.02.4.0_12.4.02.4.02.4.0
FreeBSD:14:latest2.4.0_12.4.0_12.4.02.4.0_12.4.0_12.4.0-2.4.0
FreeBSD:14:quarterly2.4.02.4.0_1-2.4.02.4.0_12.4.02.4.02.4.0
FreeBSD:15:latest2.4.0_12.4.0_1n/a2.4.0n/a2.4.02.4.02.4.0_1
FreeBSD:15:quarterly--n/a-n/a---
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. pkgconf>=1.3.0_1 : devel/pkgconf
Library dependencies:
  1. libglib-2.0.so : devel/glib20
  2. libintl.so : devel/gettext-runtime
There are no ports dependent upon this port

Configuration Options:
No options to configure
Options name:
biology_exonerate
USES:
gnome pkgconfig
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. http://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/
Collapse this list.

Number of commits found: 6

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
2.4.0_1
22 Feb 2024 13:23:45
commit hash: 2044d70d1f8ef20a2c22e2bc5d1d986cbd2f9961commit hash: 2044d70d1f8ef20a2c22e2bc5d1d986cbd2f9961commit hash: 2044d70d1f8ef20a2c22e2bc5d1d986cbd2f9961commit hash: 2044d70d1f8ef20a2c22e2bc5d1d986cbd2f9961 files touched by this commit
Muhammad Moinur Rahman (bofh) search for other commits by this committer
biology/exonerate: Moved man to share/man

Approved by:    portmgr (blanket)
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)
2.4.0
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)
2.4.0
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)
2.4.0
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.
2.4.0
13 Jul 2018 07:02:17
Revision:474558Original commit files touched by this commit
yuri search for other commits by this committer
New port: biology/exonerate: Generic tool for sequence alignment

PR:		229180
Submitted by:	Motomichi Matsuzaki <mzaki@niid.go.jp>

Number of commits found: 6