| line |
true |
false |
branch |
|
203
|
0 |
7 |
defined $cmtchars ? : |
|
|
7 |
0 |
if not defined $self->comment_char or defined $cmtchars |
|
205
|
3 |
4 |
defined $delim ? : |
|
|
7 |
0 |
if not defined $self->delimiter or defined $delim |
|
207
|
5 |
2 |
if defined $header |
|
208
|
4 |
3 |
if defined $trim |
|
212
|
5 |
2 |
if defined $display_id |
|
213
|
5 |
2 |
if defined $accnr |
|
214
|
5 |
2 |
if defined $seq |
|
215
|
1 |
6 |
if defined $desc |
|
216
|
4 |
3 |
if (defined $taxon) |
|
217
|
0 |
4 |
if (ref $taxon or $taxon =~ /^\d+$/) { } |
|
229
|
3 |
4 |
if ($useann and not ref $useann) |
|
232
|
1 |
2 |
if ($useann =~ /^\[(.*)\]$/) { } |
|
|
0 |
2 |
elsif ($useann =~ /^{(.*)}$/) { } |
|
238
|
1 |
6 |
if (ref $useann) { } |
|
240
|
1 |
0 |
if (ref $useann eq 'ARRAY') { } |
|
244
|
5 |
0 |
$has_header ? : |
|
254
|
1 |
5 |
if ($colnames and not ref $colnames) |
|
259
|
1 |
5 |
if ref $colnames |
|
263
|
7 |
0 |
if (not defined $self->sequence_factory) |
|
287
|
5 |
37 |
if ($line_ok and not $self->_header_skipped and $self->header) |
|
293
|
4 |
42 |
unless $line_ok |
|
300
|
40 |
2 |
if ($self->trim_values) |
|
302
|
380 |
20 |
if ($cols[$i]) |
|
317
|
128 |
40 |
if (not ref $attrmap->{$attr} and $attrmap->{$attr} =~ /^\d+$/) { } |
|
328
|
40 |
2 |
if ($annmap and %$annmap) |
|
331
|
28 |
212 |
unless $cols[$col] |
|
365
|
7 |
46 |
if @_ |
|
389
|
5 |
11 |
if @_ |
|
411
|
7 |
42 |
if @_ |
|
438
|
7 |
2 |
if (@_) |
|
441
|
0 |
7 |
unless defined $arg |
|
445
|
16 |
4 |
if (not ref $attr_map->{$key} and $attr_map->{$key} =~ /^\d+$/) |
|
452
|
0 |
9 |
unless exists $self->{'_attribute_map'} |
|
456
|
22 |
6 |
if (not ref $attr_map{$key} and $attr_map{$key} =~ /^\d+$/) |
|
491
|
5 |
4 |
if (@_) |
|
494
|
0 |
5 |
unless defined $arg |
|
508
|
3 |
6 |
unless exists $self->{'_annotation_map'} |
|
539
|
11 |
5 |
if @_ |
|
565
|
1 |
3 |
if @_ |
|
585
|
4 |
46 |
if @_ |
|
672
|
5 |
42 |
if @_ |
|
756
|
4 |
1 |
if ($self->keep_annotation) |
|
759
|
4 |
0 |
if ($self->trim_values) |
|
767
|
3 |
1 |
if (not %$annmap) { } |
|
769
|
1 |
2 |
if (my $anncols = $self->annotation_columns) { } |
|
773
|
0 |
5 |
unless (exists $colmap{$col}) |
|
780
|
5 |
5 |
if (exists $colmap{$colnames[$i]}) |
|
791
|
6 |
2 |
if (not ref $attrcol and $attrcol =~ /^\d+$/) |
|
799
|
5 |
5 |
if (exists $$annmap{$i + 1} and not defined $$annmap{$i + 1}) |