BSD Ports

biology/exonerate 2.4.0_2 FreeBSD

Generic tool for biological sequence alignment

System
FreeBSD
Repository
FreeBSD ports
Maintainer
[email protected]
Last update
Commit
f56b754852
License
GPLv3
Categories
biology
Package size
914.1 KiB, 7151.4 KiB installed

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.

In the other systems

SystemPortVersion
FreeBSDbiology/exonerate2.4.0_2
NetBSDwip/exonerate2.2.0
DragonFlybiology/exonerate2.4.0_1
HardenedBSDbiology/exonerate2.4.0_2
GhostBSDbiology/exonerate2.4.0_2

Install

Binary package:

pkg install exonerate

From the ports tree:

cd /usr/ports/biology/exonerate/ && make install clean

To depend on this port in another port's Makefile:

RUN_DEPENDS=	exonerate>0:biology/exonerate

Packages

The version each package repository carries. “-” means the repository builds no package of it, “n/a” that there is no such repository.

Repositoryaarch64amd64armv6armv7i386
FreeBSD:14:latest2.4.0_22.4.0_22.4.02.4.0_12.4.0_2
FreeBSD:14:quarterly2.4.0_22.4.0_2n/a2.4.0_12.4.0_2
FreeBSD:15:latest2.4.0_22.4.0_2n/a2.4.0_12.4.0_1
FreeBSD:15:quarterly2.4.0_22.4.0_2n/an/an/a
FreeBSD:16:latest2.4.0_22.4.0_2n/an/an/a
FreeBSD:16:quarterlyn/an/an/an/an/a

Dependencies

The Makefile names none itself; they come from USES and USE_*.

The full lists below include those, and their dependencies in turn.

Build dependencies 16
Run dependencies 15

No port depends on this one.

Configuration

No options to configure.

USES
gnome pkgconfig
Service scripts
none

Files

Manual pages 4
  • exonerate(1)
  • exonerate-server(1)
  • fastautils(1)
  • ipcress(1)
pkg-plist 31
  • bin/esd2esi
  • bin/exonerate
  • bin/exonerate-server
  • bin/fasta2esd
  • bin/fastaannotatecdna
  • bin/fastachecksum
  • bin/fastaclean
  • bin/fastaclip
  • bin/fastacomposition
  • bin/fastadiff
  • bin/fastaexplode
  • bin/fastafetch
  • bin/fastahardmask
  • bin/fastaindex
  • bin/fastalength
  • bin/fastanrdb
  • bin/fastaoverlap
  • bin/fastareformat
  • bin/fastaremove
  • bin/fastarevcomp
  • bin/fastasoftmask
  • bin/fastasort
  • bin/fastasplit
  • bin/fastasubseq
  • bin/fastatranslate
  • bin/fastavalidcds
  • bin/ipcress
  • share/man/man1/exonerate-server.1.gz
  • share/man/man1/exonerate.1.gz
  • share/man/man1/fastautils.1.gz
  • share/man/man1/ipcress.1.gz
distinfo 1
FileSizeSHA256
exonerate-2.4.0.tar.gz520899f849261dc7c97ef1f15f222e955b0d3daf994ec13c9db7766f1ac7e77baa4042
Master sites 1
  • https://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/

Commit history 1

DateCommitCreditsLog message
f56b754852 Älven biology/exonerate: Improve port, take maintainership
* Use https:// scheme for MASTER_SITES * Improve COMMENT * Pet portclippy(1) and portfmt(1) * Sort pkg-plist Approved by: db@, yuri@ (Mentors, implicit)