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Viewing changes to Bio/Matrix/IO/scoring.pm

  • Committer: Bazaar Package Importer
  • Author(s): Charles Plessy
  • Date: 2009-03-10 07:19:11 UTC
  • mfrom: (1.2.3 upstream)
  • Revision ID: james.westby@ubuntu.com-20090310071911-fukqzw54pyb1f0bd
Tags: 1.6.0-2
https://launchpad.net/bugs/324001
* Removed patch system (not used):
  - removed instuctions in debian/rules;
  - removed quilt from Build-Depends in debian/control.
* Re-enabled tests:
  - uncommented test command in debian/rules;
  - uncommented previously missing build-dependencies in debian/control.
  - Re-enabled tests and uncommented build-dependencies accordingly.
* Removed libmodule-build-perl and libtest-harness-perl from
  Build-Depends-Indep (provided by perl-modules).
* Better cleaning of empty directories using find -type d -empty -delete
  instead of rmdir in debian/rules (LP: #324001).

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Bio/Matrix/IO/scoring.pm
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# $Id: scoring.pm,v 1.4.4.1 2006/10/02 23:10:21 sendu Exp $
 
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# $Id: scoring.pm 11480 2007-06-14 14:16:21Z sendu $
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#
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# BioPerl module for Bio::Matrix::IO::scoring
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#
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=head1 SYNOPSIS
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  use Bio::Matrix::IO;
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  my $parser = new Bio::Matrix::IO(-format => 'scoring',
 
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  my $parser = Bio::Matrix::IO->new(-format => 'scoring',
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                                   -file   => 'BLOSUM50');
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  my $matrix = $parser->next_matrix;
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=head2 new
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 Title   : new
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 Usage   : my $obj = new Bio::Matrix::IO::scoring();
 
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 Usage   : my $obj = Bio::Matrix::IO::scoring->new();
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 Function: Builds a new Bio::Matrix::IO::scoring object 
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 Returns : an instance of Bio::Matrix::IO::scoring
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 Args    :
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           print;
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       }
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   }
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   my $matrix = new Bio::Matrix::Scoring(-values     => \@matrix,
 
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   my $matrix = Bio::Matrix::Scoring->new(-values     => \@matrix,
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                                         -rownames   => \@rows,
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                                         -colnames   => \@cols,
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                                         %extras);