| line |
!l |
l&&!r |
l&&r |
condition |
|
376
|
1 |
0 |
0 |
exists $args{-'map_coords'} and ref $args{-'map_coords'} eq 'CODE' |
|
433
|
0 |
0 |
0 |
$has_libs && $args{-'file'} |
|
436
|
0 |
0 |
0 |
-e $cachefile and (stat _)[9] >= $self->file_mtime($args{-'file'}) |
|
590
|
0 |
0 |
0 |
$panel and UNIVERSAL::isa($panel, 'Bio::Graphics::Panel') |
|
617
|
0 |
0 |
0 |
$options and ref $options eq 'HASH' |
|
640
|
0 |
0 |
0 |
defined $selector and not &$selector($self, $label) |
|
686
|
0 |
1 |
0 |
$self->{'stat'} and @{$self->{'stat'};} |
|
701
|
0 |
0 |
0 |
$feat->start <= $max && $feat->end >= $min |
|
847
|
0 |
3 |
0 |
$line =~ /^[\w:\s]+=/ and $self->{'current_config'} |
|
849
|
0 |
0 |
0 |
$line =~ /^\s+(.+)/ and $self->{'current_tag'} |
|
863
|
4 |
0 |
0 |
/^\s+(.+)/ and $self->{'current_tag'} |
|
923
|
0 |
0 |
0 |
/^\s+/ and length $tokens[0] |
|
925
|
0 |
0 |
0 |
@tokens >= 8 and $tokens[3] =~ /^-?\d+$/ |
|
|
0 |
0 |
0 |
@tokens >= 8 and $tokens[3] =~ /^-?\d+$/ and $tokens[4] =~ /^-?\d+$/ |
|
1143
|
0 |
0 |
0 |
@_ == 2 and defined $_[0] |
|
|
0 |
0 |
0 |
@_ == 2 and defined $_[0] and exists $$config{$_[0]} |
|
1225
|
0 |
0 |
0 |
$setting =~ /^sub\s*(\(\$\$\))*\s*\{/ and my $context = $self->{'safe_context'} |
|
1285
|
0 |
0 |
0 |
$self->{'safe'} and not $d |
|
1306
|
0 |
0 |
0 |
$safe and not $self->{'safe_content'} |
|
1456
|
0 |
0 |
0 |
$Bio::Root::Version::VERSION >= 1.0069 and $Bio::Root::Version::VERSION <= 1.006901 |
|
1515
|
0 |
0 |
0 |
$_[0] && $_[0] =~ /^-/ |
|
1518
|
0 |
0 |
0 |
$types and not ref $types |
|
1519
|
0 |
0 |
0 |
$types && @$types |
|
1704
|
0 |
0 |
0 |
defined $self->{'min'} and defined $self->{'max'} |
|
1817
|
0 |
0 |
0 |
defined $start and defined $stop |
|
1823
|
0 |
0 |
0 |
$options and ref $options eq 'HASH' |
|
1904
|
0 |
0 |
0 |
ref $linkrule and ref $linkrule eq 'CODE' |
|
1969
|
0 |
0 |
0 |
$feature->can('target') and my $target = $feature->target |
| line |
l |
!l |
condition |
|
620
|
0 |
0 |
$options ||= 0 |
|
637
|
0 |
0 |
$self->setting($label, 'feature') || '' |
|
865
|
0 |
0 |
$self->{'current_config'} ||= 'general' |
|
883
|
3 |
0 |
$self->{'current_config'} ||= 'general' |
|
1806
|
0 |
0 |
$self->setting('general', 'pixels') || $self->setting('general', 'width') || 600 |
|
1902
|
0 |
0 |
$panel ||= 'Bio::Graphics::Panel' |
|
1914
|
0 |
0 |
$linkrule ||= '' |
|
1933
|
0 |
0 |
($n = $seq_id) && "$n" || '' |
|
|
0 |
0 |
($n = $feature->display_name) && "$n" || '' |
|
|
0 |
0 |
eval {
do {
$feature->class
}
} || '' |
|
|
0 |
0 |
eval {
do {
$feature->method
}
} || $feature->primary_tag || '' |
|
|
0 |
0 |
eval {
do {
$feature->method
}
} || $feature->primary_tag || '' |
|
|
0 |
0 |
eval {
do {
$feature->source
}
} || $feature->source_tag || '' |
|
|
0 |
0 |
eval {
do {
$feature->seq_id
}
} || eval {
do {
$feature->location->seq_id
}
} || '' |
|
|
0 |
0 |
$feature->start || '' |
|
|
0 |
0 |
$feature->end || '' |
|
|
0 |
0 |
$feature->end || '' |
|
|
0 |
0 |
$panel->start || '' |
|
|
0 |
0 |
$panel->end || '' |
|
|
0 |
0 |
$feature->length || 0 |
|
|
0 |
0 |
eval {
do {
join '', $feature->notes
}
} || '' |
|
|
0 |
0 |
eval {
do {
$feature->feature_id
}
} || eval {
do {
$feature->primary_id
}
} || '' |
|
1977
|
0 |
0 |
$feature->start || '?' |
|
|
0 |
0 |
$feature->end || '?' |
|
2004
|
0 |
0 |
$feature || '' |
|
2027
|
0 |
0 |
shift() || 'general' |
| line |
l |
!l&&r |
!l&&!r |
condition |
|
603
|
0 |
0 |
0 |
$self->setting($_, 'feature') || $_ |
|
607
|
0 |
0 |
0 |
exists $lc_types{lc $_} || exists $lc_types{lc $_->method} |
|
660
|
0 |
0 |
0 |
$features[0]->type || $label |
|
861
|
0 |
0 |
4 |
/\#[0-9a-f]{6,8}\s*$/i or /\w+\#\w+/ |
|
|
0 |
0 |
4 |
/\#[0-9a-f]{6,8}\s*$/i or /\w+\#\w+/ or /\w+\"*\s*\#\d+$/ |
|
903
|
0 |
0 |
1 |
$self->{'loader'} ||= $self->_make_loader($line) |
|
947
|
0 |
0 |
1 |
$self->{'db'} ||= 'Bio::DB::SeqFeature::Store'->new(-'adaptor', 'memory', -'write', 1) |
|
1017
|
0 |
0 |
0 |
$cc eq 'general' or $self->{'config'}{$cc} |
|
1553
|
0 |
0 |
0 |
$_[0] =~ /^\+/ or $_[0] > 0 |
|
1554
|
0 |
0 |
0 |
$_[0] =~ /^\-/ or $_[0] < 0 |
|
1715
|
0 |
0 |
0 |
not defined $min or $min > $f->start |
|
1716
|
0 |
0 |
0 |
not defined $max or $max < $f->start |
|
1794
|
0 |
0 |
0 |
$self->{'gff'} ||= 'Bio::DB::GFF'->new(-'adaptor', 'memory') |
|
1853
|
0 |
0 |
0 |
$self->{'m_time'} || $self->{'stat'}[9] |
|
1916
|
0 |
0 |
0 |
$seq_id ||= $feature->seq_id |
|
1948
|
0 |
0 |
0 |
$linkrule ||= $self->setting($label, 'link') |
|
1949
|
0 |
0 |
0 |
$linkrule ||= $self->setting('general', 'link') |
|
1961
|
0 |
0 |
0 |
$linkrule ||= $self->setting('general', 'title') |
|
1966
|
0 |
0 |
0 |
eval {
do {
$feature->method
}
} || $feature->primary_tag |
|
1993
|
0 |
0 |
0 |
$self->{'_type2label'} ||= $self->invert_types |
|
2003
|
0 |
0 |
0 |
$config->{$label}{'feature'} || $label |