NAME

SYNOPSIS

            

              
              
#wenn export, dann hier im qw()
my $idx = Bio::Grid::Run::SGE::Index::General->new(
  'idx_file' => $idx_file,
  'sep'      => '^>'
  'sep_pos' => '^',
  'sep_remove' => 1,
  'ignore_first_sep' => 1,
);
            
          

DESCRIPTION

sep_remove

remove the separators between the data records. For sep remove sth. like

            

              
              
<FILE_START>
<entry1>
<sep>
<entry2>
<sep>
...
<sep>
<entryN>
<FILE_END>
            
          

is expected, so no separator at begin or end of file, otherwise it will break! If you have a separator before the first data record, you can use the ignore_first_sep option to skip over it.

sep_pos

Can be '^' or '$'. '^' corresponds to a file layout

            

              
              
<FILE_START>
<sep> <--- NOTE: the first sep
<entry1>
<sep>
<entry2>
<sep>
...
<sep>
<entryN> <--- NOTE: no last sep
<FILE_END>
            
          

'$' corresponds to a file layout:

            

              
              
<FILE_START>
<entry1><--- NOTE: no first sep
<sep>
<entry2>
<sep>
...
<sep>
<entryN>
<sep> <--- NOTE: the last sep
<FILE_END>
            
          

OPTIONS

SUBROUTINES =head1 METHODS

SEE ALSO

AUTHOR

jw bargsten, <jwb at cpan dot org>