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  • Committer: Package Import Robot
  • Author(s): Charles Plessy
  • Date: 2013-09-22 13:39:48 UTC
  • mfrom: (3.1.11 sid)
  • Revision ID: package-import@ubuntu.com-20130922133948-c6z62zegjyp7ztou
Tags: 1.6.922-1
http://bugs.debian.org/722910
* New upstream release.
* Replaces and Breaks grinder (<< 0.5.3-3~) because of overlaping contents.
  Closes: #722910
* Stop Replacing and Breaking bioperl ( << 1.6.9 ): not needed anymore. 

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Bio/SearchIO/exonerate.pm
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                 (\d+)\s+(\d+)\s+([\-\+\.])\s+ # query start-end-strand
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                 (\S+)\s+                      # target sequence id
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                 (\d+)\s+(\d+)\s+([\-\+])\s+   # target start-end-strand
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                 (\d+)\s+                      # score
 
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                 (-?\d+)\s+                    # score
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                 //ox ) {
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           next if( $self->cigar || $self->{'_seencigar'});
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           $self->{'_vulgar'}++;
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                 (\d+)\s+(\d+)\s+([\-\+])\s+   # query start-end-strand
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                 (\S+)\s+                      # target sequence id
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                 (\d+)\s+(\d+)\s+([\-\+])\s+   # target start-end-strand
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                 (\d+)\s+                      # score
 
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                 (-?\d+)\s+                    # score
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                 //ox ) {
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           next if( $self->vulgar || $self->{'_seenvulgar'});
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           $self->{'_cigar'}++;