| line |
true |
false |
branch |
|
436
|
0 |
0 |
unless $ARGV[$x]
|
|
453
|
0 |
0 |
unless $self->indir or $self->vcfs
|
|
455
|
0 |
0 |
if ($self->indir)
|
|
467
|
0 |
0 |
unless -d $self->outdir
|
|
468
|
0 |
0 |
unless -d $self->outdir . '/annovar_interim'
|
|
469
|
0 |
0 |
if not -d $self->outdir . '/annovar_final'
|
|
481
|
0 |
0 |
if $self->vcfs
|
|
489
|
0 |
0 |
unless $self->vcfs
|
|
501
|
0 |
0 |
if ($#{$self->annovar_dbs;} == 0)
|
|
505
|
0 |
0 |
if ($#{$self->annovar_fun;} == 0)
|
|
510
|
0 |
0 |
unless $self->vcfs
|
|
511
|
0 |
0 |
if ($#{$self->vcfs;} == 0)
|
|
530
|
0 |
0 |
unless scalar @{$self->annovar_dbs;} == scalar @{$self->annovar_fun;}
|
|
559
|
0 |
0 |
unless $self->annotate_vcf
|
|
641
|
0 |
0 |
unless @samples
|
|
727
|
0 |
0 |
unless -d $self->outdir . '/vcf-annotate_interim'
|
|
728
|
0 |
0 |
unless -d $self->outdir . '/vcf-annotate_final'
|
|
749
|
0 |
0 |
if ($self->match_file(qr/gz$/)) { }
|
|
758
|
0 |
0 |
if (exists $self->annovar_cols->{$db}) { }
|
|
797
|
0 |
0 |
if (exists $self->annovar_cols->{$db}) { }
|
|
824
|
0 |
0 |
if scalar @{$self->samples->{$self->file};} == 1
|