| line |
true |
false |
branch |
|
41
|
1 |
8 |
if (defined $file_md5s{$digest}) { }
|
|
56
|
0 |
8 |
if (@{$ids_from_file;} < 1) { }
|
|
63
|
2 |
31 |
if ($gene_ids_seen_before{$gene_id})
|
|
68
|
2 |
0 |
if defined $updated_file
|
|
78
|
6 |
2 |
if ($ids_seen == 0)
|
|
93
|
6 |
0 |
if $suffix eq '.gff'
|
|
96
|
0 |
0 |
unless -d $self->output_directory
|
|
98
|
0 |
0 |
unless copy($input_file, $output_file)
|
|
106
|
3 |
0 |
unless -d $self->output_directory
|
|
125
|
3 |
660 |
if ($line =~ /^\#\#FASTA/)
|
|
129
|
645 |
18 |
if ($line =~ /\#/ or $found_fasta == 1)
|
|
138
|
10 |
42 |
if ($tags[$i] =~ /^(ID=["']?)([^;"']+)(["']?)/)
|
|
147
|
8 |
10 |
if ($found_id == 0)
|
|
155
|
0 |
3 |
if ($found_fasta == 0)
|
|
171
|
49 |
51 |
unless $feature->primary_tag =~ /$tags_regex/
|
|
173
|
51 |
0 |
if defined $gene_id
|
|
181
|
51 |
0 |
if ($feature->has_tag('ID')) { }
|
|
|
0 |
0 |
elsif ($feature->has_tag('locus_tag')) { }
|
|
191
|
0 |
51 |
if $gene_id eq ''
|