| blib/lib/Bio/Tools/Run/Phylo/Phyml.pm | |||
|---|---|---|---|
| Criterion | Covered | Total | % |
| condition | 19 | 79 | 24.0 |
| line | !l | l&&!r | l&&r | condition |
|---|---|---|---|---|
| 342 | 0 | 0 | 0 | $1 and $1 >= 20080801 |
| 364 | 0 | 0 | 0 | ref $in and $in->isa('Bio::Align::AlignI') |
| 429 | 0 | 0 | 0 | $self->version and $self->version >= 3 |
| 489 | 0 | 0 | 1 | $value =~ /^[-+]?\d*$/ and $value > 0 |
| 520 | 0 | 0 | 0 | $self->version and $self->version >= 3 |
| 539 | 0 | 0 | 0 | $self->version and $self->version >= 3 |
| 616 | 0 | 0 | 1 | $value =~ /^[+]?\d*$/ and $value > 0 |
| 684 | 0 | 0 | 0 | $self->version and $self->version >= 3 |
| 712 | 0 | 0 | 0 | $self->version and $self->version >= 3 |
| line | l | !l | condition |
|---|---|---|---|
| 335 | 0 | 0 | $self->executable || (return) |
| 473 | 2 | 1 | $self->{'_data_format'} || 'i' |
| 493 | 1 | 1 | $self->{'_dataset_count'} || 1 |
| 620 | 1 | 1 | $self->{'_category_number'} || 1 |
| 643 | 1 | 0 | sprintf('%.1f', $self->{'_alpha'}) || 'e' |
| 663 | 2 | 1 | $self->{'_tree'} || 'BIONJ' |
| 694 | 0 | 0 | $self->{'_opt_topology'} || 1 |
| 722 | 0 | 0 | $self->{'_opt_lengths'} || 1 |
| 775 | 0 | 0 | $self->{'_opt'} || 'n' |
| 797 | 0 | 0 | $self->{'_search'} || 'NNI' |
| 848 | 0 | 0 | $self->{'_rand_starts'} || 1 |
| 899 | 0 | 0 | $self->{'_no_memory_check'} || 0 |
| 943 | 0 | 0 | $self->{'_command'} || '' |
| 955 | 0 | 0 | $self->executable || (return) |
| line | l | !l&&r | !l&&!r | condition |
|---|---|---|---|---|
| 468 | 1 | 1 | 0 | $value eq 'i' or $value eq 's' |
| 570 | 1 | 0 | 0 | $value =~ /^[-+]?\d*\.?\d*$/ or $value eq 'e' |
| 593 | 1 | 0 | 0 | $value =~ /^[-+]?\d*\.\d*$/ or $value eq 'e' |
| 636 | 1 | 1 | 0 | $value =~ /^[-+]?\d*\.?\d*$/ or $value eq 'e' |
| 659 | 1 | 1 | 0 | -e $value or $value eq 'BIONJ' |
| 747 | 0 | 0 | 0 | $value =~ /^[\d\. ]$/ or $value eq 'e' |
| 0 | 0 | 0 | $value =~ /^[\d\. ]$/ or $value eq 'e' or $value eq 'd' | |
| 874 | 0 | 0 | 0 | $self->{'_rand_seed'} || int rand 1000000 |