| line |
true |
false |
branch |
|
471
|
0 |
0 |
unless $ARGV[$x]
|
|
488
|
0 |
0 |
unless $self->indir or $self->vcfs
|
|
490
|
0 |
0 |
if ($self->indir)
|
|
502
|
0 |
0 |
unless -d $self->outdir
|
|
503
|
0 |
0 |
unless -d $self->outdir . '/annovar_interim'
|
|
504
|
0 |
0 |
if not -d $self->outdir . '/annovar_final'
|
|
516
|
0 |
0 |
if $self->vcfs
|
|
524
|
0 |
0 |
unless $self->vcfs
|
|
536
|
0 |
0 |
if ($#{$self->annovar_dbs;} == 0)
|
|
540
|
0 |
0 |
if ($#{$self->annovar_fun;} == 0)
|
|
545
|
0 |
0 |
unless $self->vcfs
|
|
546
|
0 |
0 |
if ($#{$self->vcfs;} == 0)
|
|
565
|
0 |
0 |
unless scalar @{$self->annovar_dbs;} == scalar @{$self->annovar_fun;}
|
|
594
|
0 |
0 |
unless $self->annotate_vcf
|
|
676
|
0 |
0 |
unless @samples
|
|
762
|
0 |
0 |
unless -d $self->outdir . '/vcf-annotate_interim'
|
|
763
|
0 |
0 |
unless -d $self->outdir . '/vcf-annotate_final'
|
|
784
|
0 |
0 |
if ($self->match_file(qr/gz$/)) { }
|
|
793
|
0 |
0 |
if (exists $self->annovar_cols->{$db}) { }
|
|
832
|
0 |
0 |
if (exists $self->annovar_cols->{$db}) { }
|
|
859
|
0 |
0 |
if scalar @{$self->samples->{$self->file};} == 1
|