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192       my ($first_site, $last_site) = $use_filtered ? @{$thresholds
+->{$dye}{'indices'}} : (0, $nchar-1);

188       my $nchar = ${$tax_sample->{'NChar'}}[0];

186 my $tax_sample = $data->{$taxon_label}{'Samples'}{$dye};

158 my ($thresholds, $data, $comments);
159 {
...
167   ($thresholds, $data, $comments) = readGTR *GTR_IN;
168   close GTR_IN;
169 }

34 use genotyping_utilities qw( &canonpath &openForWriting &readGTR &g
+etRepsTable &transpose &isReal &getReplicateGroups );