wise_2.4.1-10_amd64.deb


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Description

wise - comparison of biopolymers, commonly DNA and protein sequences

Property Value
Distribution Debian 7 (Wheezy)
Repository Debian Main amd64
Package name wise
Package version 2.4.1
Package release 10
Package architecture amd64
Package type deb
Installed size 10.99 KB
Download size 1.03 MB
Official Mirror ftp.br.debian.org
Wise2 is a package focused on comparisons of biopolymers, commonly DNA
and protein sequences. There are many other packages which do
this, probably the best known being BLAST package (from NCBI) and the
Fasta package (from Bill Pearson). There are other packages, such as
the HMMER package (Sean Eddy) or SAM package (UC Santa Cruz) focused
on hidden Markov models (HMMs) of biopolymers.
Wise2's particular forte is the comparison of DNA sequence at the level
of its protein translation. This comparison allows the simultaneous
prediction of say gene structure with homology based alignment.
Wise2 also contains other algorithms, such as the venerable Smith-Waterman
algorithm, or more modern ones such as Stephen Altschul's generalised
gap penalties, or even experimental ones developed in house, such as
dba. The development of these algorithms is due to the ease of developing
such algorithms in the environment used by Wise2.
Wise2 has also been written with an eye for reuse and maintainability.
Although it is a pure C package you can access its functionality
directly in Perl. Parts of the package (or the entire package) can
be used by other C or C++ programs without namespace clashes as all
externally linked variables have the unique identifier Wise2 prepended.

Alternatives

Package Version Architecture Repository
wise_2.4.1-10_i386.deb 2.4.1 i386 Debian Main
wise - - -

Requires

Name Value
dpkg >= 1.15.6~
libc6 >= 2.7
libglib2.0-0 >= 2.12.0

Download

Type URL
Binary Package wise_2.4.1-10_amd64.deb
Source Package wise

Install Howto

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

Files

Path
/usr/bin/dba
/usr/bin/dnal
/usr/bin/estwise
/usr/bin/estwisedb
/usr/bin/genewise
/usr/bin/genewisedb
/usr/bin/genomewise
/usr/bin/promoterwise
/usr/bin/psw
/usr/bin/pswdb
/usr/bin/scanwise
/usr/bin/scanwise_server
/usr/share/doc/wise/README
/usr/share/doc/wise/README.Debian
/usr/share/doc/wise/changelog.Debian.gz
/usr/share/doc/wise/copyright
/usr/share/man/man1/dba.1.gz
/usr/share/man/man1/dnal.1.gz
/usr/share/man/man1/estwise.1.gz
/usr/share/man/man1/estwisedb.1.gz
/usr/share/man/man1/genewise.1.gz
/usr/share/man/man1/genewisedb.1.gz
/usr/share/man/man1/genomewise.1.gz
/usr/share/man/man1/promoterwise.1.gz
/usr/share/man/man1/psw.1.gz
/usr/share/man/man1/pswdb.1.gz
/usr/share/man/man1/scanwise.1.gz
/usr/share/man/man1/scanwise_server.1.gz

Changelog

2012-03-30 - Charles Plessy <plessy@debian.org>
wise (2.4.1-10) unstable; urgency=low
* Convert debian/rules to dh, Closes: #666319, as it restores build flags.
* Verbose debhelper in debian/rules.
* Normalised and upgraded debian/copyright file with ‘cme fix’.
* Pre-Depends on dpkg (>= 1.15.6~) (debian/control).
* Conforms to Debian policy 3.9.3 (debian/control, no other changes needed).
* Convert debian/rules to dh, Closes: #666319, as it restores build flags.
* Documented metadata in debian/upstream.
2011-09-14 - Charles Plessy <plessy@debian.org>
wise (2.4.1-9) unstable; urgency=low
* Correct src/models/makefile to link --as-needed (Closes: #641333).
* Conforms with Policy 3.9.2 (debian/control, no other changes needed).
* Corrected VCS URLs (debian/control).
* Use Debhelper 8 (debian/compat, debian/control).
* Added build-arch and build-indep targets to debian/rules.
* Machine-readable debian/copryight file conforms to DEP 5.
* Compress binary package with xz (debian/rules).
2009-10-31 - Philipp Benner <philipp@debian.org>
wise (2.4.1-8) unstable; urgency=low
* Fixed conflicting definitions of getline(). (Closes: #552821)
* Added README.source.
* Standards version 3.8.3.
* Fixed spelling error in package description.
2009-06-15 - Charles Plessy <plessy@debian.org>
wise (2.4.1-7) unstable; urgency=low
[ Steffen Moeller ]
* Now builds with glib-2. (Closes: #523715). Special thank to Barry deFreese.
* Updated policy to 3.8.1 (no changes required).
* fixed api->API lintian warning.
[ Charles Plessy ]
* debian/control:
- Added myself to the Uploaders.
- Added ${misc:Depends} to the package dependencies.
- Using Debhelper 7 (also debian/compat).
- Eliminated redundancy between the long descriptions of wise and wise-doc.
* Replaced ‘dh_clean -k’ by ‘dh_prep’ in debian/rules.
2009-01-25 - Philipp Benner <pbenner@uni-osnabrueck.de>
wise (2.4.1-6) unstable; urgency=low
* Updated policy to 3.8.0 (no changes required).
* wise now suggests wise-doc (downgraded from 'recommends').
[ Steffen Moeller ]
* Using quilt instead of dpatch.
[ Philipp Benner ]
2008-05-04 - Charles Plessy <plessy@debian.org>
wise (2.4.1-5) unstable; urgency=low
* Removed a bashism in debian/rules (Closes: #478639).
2008-03-31 - Philipp Benner <pbenner@uni-osnabrueck.de>
wise (2.4.1-4) unstable; urgency=low
* Changed the doc-base section according to the new policy
[Charles Plessy].
2008-01-14 - Philipp Benner <pbenner@uni-osnabrueck.de>
wise (2.4.1-3) unstable; urgency=low
* New maintainer e-mail address.
* debian/control: Added DM-Upload-Allowed: yes.
2007-12-02 - Philipp Benner <mail@philipp-benner.de>
wise (2.4.1-2) unstable; urgency=low
* Using official Vcs-Browser and Vcs-Svn fields (debian/control).
* Moved the Homepage: field out from the package's description
+ (Charles Plessy).
* Converted copyright file to machine interpretable format.
* Changed maintainer to Debian-Med Packaging Team.
2007-09-15 - Philipp Benner <mail@philipp-benner.de>
wise (2.4.1-1) unstable; urgency=low
* New upstream release.

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