Branch Coverage

Bio/Tools/Alignment/Trim.pm
Criterion Covered Total %
branch 0 64 0.0


line true false branch
318 0 0 if ($qual[$current] != 0)
325 0 0 if ($start_base > $sequence_length - 100)
372 0 0 unless ($points[0] or $points[1])
376 0 0 if ($class eq 'singlet' and $name =~ /$fdesig$/) { }
0 0 elsif ($class eq 'singlet' and $name =~ /$rdesig$/) { }
0 0 elsif ($class eq 'singleton' and $name =~ /$fdesig$/) { }
0 0 elsif ($class eq 'singleton' and $name =~ /$rdesig$/) { }
0 0 elsif ($class eq 'doublet') { }
396 0 0 if ($subs_Xs)
403 0 0 if ($subs_Ns)
433 0 0 if $self->verbose > 0
437 0 0 if ($offset) { }
443 0 0 if (not $quals[$count2]) { }
454 0 0 if ($qualsum and $qualsum >= $windowsize * $phreds)
483 0 0 unless ($count)
490 0 0 if ($count2 == $total_bases - 1) { }
0 0 elsif ($bases_counted == $windowsize) { }
497 0 0 if ($qualsum < $bases_counted * $phreds)
506 0 0 if ($qualsum < $bases_counted * $phreds) { }
512 0 0 if ($end_of_quals) { }
517 0 0 if ($qualsum)
540 0 0 if ($qualities[$current] and $qualities[$current] != 0)
575 0 0 if ($count2 == $size_of_quality) { }
0 0 elsif ($bases_counted == $windowsize) { }
585 0 0 unless (not $quals[$count2])
589 0 0 unless (not $qualsum && $windowsize)
591 0 0 unless ($average)
617 0 0 if ($count % 10 == 0)
618 0 0 if ($qual[$count]) { }
641 0 0 unless ($count)
644 0 0 if ($count2 == scalar(@quals) - 1)
652 0 0 if ($qualsum < $windowsize * $phreds)