| blib/lib/Bio/Tools/Run/Alignment/TCoffee.pm | |||
|---|---|---|---|
| Criterion | Covered | Total | % |
| condition | 0 | 41 | 0.0 |
| line | !l | l&&!r | l&&r | condition |
|---|---|---|---|---|
| 794 | 0 | 0 | 0 | $infilename1 and $infilename2 |
| 842 | 0 | 0 | 0 | $self->version and $self->version < 5 |
| 986 | 0 | 0 | 0 | ref $seq and $seq->isa('Bio::PrimarySeqI') |
| 1003 | 0 | 0 | 0 | ref $aln and $aln->isa('Bio::Align::AlignI') |
| 1099 | 0 | 0 | 0 | $self->version >= 4 and $self->version < 4.7 |
| line | l | !l | condition |
|---|---|---|---|
| 678 | 0 | 0 | $1 || undef |
| line | l | !l&&r | !l&&!r | condition |
|---|---|---|---|---|
| 844 | 0 | 0 | 0 | $self->matrix =~ /none/i || $self->matrix =~ /null/i |
| 867 | 0 | 0 | 0 | $self->matrix =~ /none/i or $self->matrix =~ /null/i |
| 884 | 0 | 0 | 0 | not -e $outfile or -z $outfile |
| 899 | 0 | 0 | 0 | not defined $f or $f eq '' |
| 942 | 0 | 0 | 0 | $header =~ /^\s+\d+\s+\d+/ or $header =~ /Pileup/i |
| 0 | 0 | 0 | $header =~ /^\s+\d+\s+\d+/ or $header =~ /Pileup/i or $header =~ /clustal/i | |
| 988 | 0 | 0 | 0 | not defined $seq->display_id or $seq->display_id =~ /^\s+$/ |
| 1095 | 0 | 0 | 0 | $self->quiet or $self->verbose < 0 |