cd-hit_4.6.1-2012-08-27-2_i386.deb


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Description

cd-hit - suite of programs designed to quickly group sequences

Property Value
Distribution Debian 8 (Jessie)
Repository Debian Main i386
Package name cd-hit
Package version 4.6.1
Package release 2012-08-27-2
Package architecture i386
Package type deb
Installed size 1.20 KB
Download size 402.68 KB
Official Mirror ftp.br.debian.org
cd-hit contains a number of programs designed to quickly group
sequences. cd-hit groups proteins into clusters that meet a user-defined
similarity threshold. cd-hit-est is similar to cd-hit, but designed to
group nucleotide sequences (without introns). cd-hit-est-2d is similar
to cd-hit-2d but designed to compare two nucleotide datasets. A number
of other related programs are also in this package. Please see the
cd-hit user manual, also part of this package, for further information.

Alternatives

Package Version Architecture Repository
cd-hit_4.6.1-2012-08-27-2_amd64.deb 4.6.1 amd64 Debian Main
cd-hit - - -

Requires

Name Value
libc6 >= 2.7
libgcc1 >= 1:4.1.1
libgomp1 >= 4.2.1
libstdc++6 >= 4.4.0
perl -

Download

Type URL
Binary Package cd-hit_4.6.1-2012-08-27-2_i386.deb
Source Package cd-hit

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install cd-hit deb package:
    # sudo apt-get install cd-hit

Files

Path
/usr/bin/cd-hit-2d-para
/usr/bin/cd-hit-div
/usr/bin/cd-hit-para
/usr/bin/cdhit
/usr/bin/cdhit-2d
/usr/bin/cdhit-454
/usr/bin/cdhit-est
/usr/bin/cdhit-est-2d
/usr/bin/clstr2tree
/usr/bin/clstr_merge
/usr/bin/clstr_merge_noorder
/usr/bin/clstr_reduce
/usr/bin/clstr_renumber
/usr/bin/clstr_rev
/usr/bin/clstr_sort_by
/usr/bin/clstr_sort_prot_by
/usr/bin/make_multi_seq
/usr/bin/psi-cd-hit
/usr/bin/psi-cd-hit-2d
/usr/bin/psi-cd-hit-2d-g1
/usr/bin/psi-cd-hit-local
/usr/lib/cd-hit/cd-hit
/usr/lib/cd-hit/cd-hit-2d
/usr/lib/cd-hit/cd-hit-2d-para.pl
/usr/lib/cd-hit/cd-hit-454
/usr/lib/cd-hit/cd-hit-div
/usr/lib/cd-hit/cd-hit-div.pl
/usr/lib/cd-hit/cd-hit-est
/usr/lib/cd-hit/cd-hit-est-2d
/usr/lib/cd-hit/cd-hit-para.pl
/usr/lib/cd-hit/clstr2tree.pl
/usr/lib/cd-hit/clstr2txt.pl
/usr/lib/cd-hit/clstr2xml.pl
/usr/lib/cd-hit/clstr_cut.pl
/usr/lib/cd-hit/clstr_merge.pl
/usr/lib/cd-hit/clstr_merge_noorder.pl
/usr/lib/cd-hit/clstr_quality_eval.pl
/usr/lib/cd-hit/clstr_quality_eval_by_link.pl
/usr/lib/cd-hit/clstr_reduce.pl
/usr/lib/cd-hit/clstr_renumber.pl
/usr/lib/cd-hit/clstr_rep.pl
/usr/lib/cd-hit/clstr_reps_faa_rev.pl
/usr/lib/cd-hit/clstr_rev.pl
/usr/lib/cd-hit/clstr_select.pl
/usr/lib/cd-hit/clstr_select_rep.pl
/usr/lib/cd-hit/clstr_size_histogram.pl
/usr/lib/cd-hit/clstr_size_stat.pl
/usr/lib/cd-hit/clstr_sort_by.pl
/usr/lib/cd-hit/clstr_sort_prot_by.pl
/usr/lib/cd-hit/clstr_sql_tbl.pl
/usr/lib/cd-hit/clstr_sql_tbl_sort.pl
/usr/lib/cd-hit/make_multi_seq.pl
/usr/lib/cd-hit/plot_2d.pl
/usr/lib/cd-hit/plot_len1.pl
/usr/lib/cd-hit/psi-cd-hit-2d-g1.pl
/usr/lib/cd-hit/psi-cd-hit-2d.pl
/usr/lib/cd-hit/psi-cd-hit-local.pl
/usr/lib/cd-hit/psi-cd-hit.pl
/usr/share/doc-base/cd-hit
/usr/share/doc/cd-hit/README.Debian
/usr/share/doc/cd-hit/cdhit-user-guide.pdf
/usr/share/doc/cd-hit/changelog.Debian.gz
/usr/share/doc/cd-hit/changelog.gz
/usr/share/doc/cd-hit/copyright
/usr/share/man/man1/cd-hit-2d-para.1.gz
/usr/share/man/man1/cd-hit-para.1.gz
/usr/share/man/man1/cdhit-2d.1.gz
/usr/share/man/man1/cdhit-454.1.gz
/usr/share/man/man1/cdhit-est-2d.1.gz
/usr/share/man/man1/cdhit-est.1.gz
/usr/share/man/man1/cdhit.1.gz
/usr/share/man/man1/psi-cd-hit-2d-g1.1.gz
/usr/share/man/man1/psi-cd-hit-2d.1.gz
/usr/share/man/man1/psi-cd-hit.1.gz

Changelog

2013-08-15 - Andreas Tille <tille@debian.org>
cd-hit (4.6.1-2012-08-27-2) unstable; urgency=low
* Take over changes from BioLinux
2013-08-15 - Tim Booth <tbooth@ceh.ac.uk>
cd-hit (4.6.1-2012-08-27-1biolinux1) precise; urgency=low
* Rebuild for Precice
* Add new cdhit-454 to /usr/bin, including help2man manpage
* Remove dependency on openmpi, as cd-hit doesn't use it at all.
(It uses the -fopenmp compiler flag; maybe there was some confusion?)
2013-08-11 - Andreas Tille <tille@debian.org>
cd-hit (4.6.1-2012-08-27-1) unstable; urgency=low
* New upstream version (adapted patches)
* debian/control: 
- cme fix dpkg-control
- use anonscm in Vcs fields
2012-04-26 - Andreas Tille <tille@debian.org>
cd-hit (4.6-2012-04-25-1) unstable; urgency=low
* New upstream version incorporating the previous patches as
well as the LaTeX source of the documentation
* debian/patches/use-dpkg-buildflags.patch: Make sure hardening
flags will really propagate
* debian/{control,rules}: Use mpi version of cd-hit
* README.Debian: Tell users that we are using mpi and they should
ask for an alternative if needed
* debian/*.1, debian/manpages: Deleted in favour of autogenerated
manpages using help2man; Remark: the manually edited pages were
slightly better regarding "SEE ALSO" and "AUTHORS" sections but
it is better to auto-generate the pages to stay with changes of
future versions
* debian/rules: Use help2man 2 create manpages whereever possible
* debian/patches/enable_help2man.patch: Fix some minor issues to
get less error output in man pages
2012-04-22 - Andreas Tille <tille@debian.org>
cd-hit (4.5.8-2012-03-24-1) unstable; urgency=low
[ Charles Plessy ]
* renamed debian/upstream-metadata.yaml to debian/upstream
[ Andreas Tille ]
* New upstream version
* debian/watch: Fixed to reflect the change on code.google.com
* debian/control: Standards-Version: 3.9.3 (no changes needed)
* debian/copyright: Fixed DEP5 and verified using
cme fix dpkg-copyright
* debian/patches/gcc-4.7.patch: Enable building with g++-4.7
Closes: #667134
* debian/upstream:
- use BibTeX format to specify author
- Move DOI+PMID to References
- Differentiate between URl and eprint
* debhelper 9 (control+compat)
2011-12-14 - Andreas Tille <tille@debian.org>
cd-hit (4.5.7-1) unstable; urgency=low
* Initial release (Closes: #652074)
* This package is recommended by the package qiime and thus it also
Closes: #651983

See Also

Package Description
cd5_0.1-3_i386.deb Compute checksum of individual track on CD-ROMS
cdargs_1.35-10_i386.deb bookmarks and browsing for the cd command
cdbackup_0.7.0-5_i386.deb CD-R(W) backup utility
cdbfasta_0.99-20100722-1_i386.deb Constant DataBase indexing and retrieval tools for multi-FASTA files
cdbs_0.4.130+deb8u1_all.deb common build system for Debian packages
cdcat_1.8-1_i386.deb media catalog program
cdcd_0.6.6-13.1_i386.deb command line or console based CD player
cdck_0.7.0-5_i386.deb tool for verifying the quality of written CDs/DVDs
cdcover_0.9.1-11_i386.deb Creating Data-CD Covers
cdde_0.3.1-1_i386.deb CD Detect & Execute utility
cde_0.1+git9-g551e54d-1_i386.deb package everything required to execute a Linux command on another computer
cdebconf-gtk_0.192_i386.deb Gtk+ frontend for Debian Configuration Management System
cdebconf_0.192_i386.deb Debian Configuration Management System (C-implementation)
cdebootstrap-static_0.6.4_i386.deb Bootstrap a Debian system - static binary
cdebootstrap_0.6.4_i386.deb Bootstrap a Debian system
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