| line |
!l |
l&&!r |
l&&r |
condition |
|
221
|
180 |
0 |
0 |
defined $data->{'runid'} and not $data->{'runid'} =~ /^\s+$/ |
|
290
|
7792 |
0 |
0 |
defined $data->{'runid'} and not $data->{'runid'} =~ /^\s+$/ |
|
315
|
6420 |
1372 |
0 |
defined $data->{'HSP-query_frame'} and $data->{'HSP-query_frame'} < 0 && $data->{'HSP-query_start'} < $data->{'HSP-query_end'} || $data->{'HSP-query_frame'} > 0 && $data->{'HSP-query_start'} > $data->{'HSP-query_end'} |
|
327
|
6420 |
1372 |
0 |
defined $data->{'HSP-hit_frame'} and defined $data->{'HSP-hit_frame'} && $data->{'HSP-hit_frame'} < 0 && $data->{'HSP-hit_start'} < $data->{'HSP-hit_end'} || defined $data->{'HSP-hit_frame'} && $data->{'HSP-hit_frame'} > 0 && $data->{'HSP-hit_start'} > $data->{'HSP-hit_end'} |
|
427
|
0 |
8391 |
0 |
exists $args{'-name'} and $args{'-name'} =~ /BL_ORD_ID/ |
|
436
|
0 |
0 |
979 |
defined $args{'-hsps'} and $args{'-hsps'}[0] |
|
504
|
0 |
0 |
1502 |
defined $f and ref $f |
|
|
0 |
0 |
1502 |
defined $f and ref $f and $f->isa('Bio::Factory::ObjectFactoryI') |
| line |
l |
!l&&r |
!l&&!r |
condition |
|
129
|
0 |
293 |
0 |
$resultF || 'Bio::Factory::ObjectFactory'->new('-type', 'Bio::Search::Result::GenericResult', '-interface', 'Bio::Search::Result::ResultI') |
|
134
|
0 |
293 |
0 |
$hitF || 'Bio::Factory::ObjectFactory'->new('-type', 'Bio::Search::Hit::GenericHit', '-interface', 'Bio::Search::Hit::HitI') |
|
139
|
0 |
293 |
0 |
$hspF || 'Bio::Factory::ObjectFactory'->new('-type', 'Bio::Search::HSP::GenericHSP', '-interface', 'Bio::Search::HSP::HSPI') |
|
159
|
5 |
0 |
380 |
$hit_filter || $filt_func |
|
179
|
20822 |
136 |
0 |
$type eq 'hsp' || $type eq 'hit' || $type eq 'result' |
|
235
|
0 |
0 |
0 |
not defined $acc or $acc =~ /^\s+$/ |
|
244
|
0 |
12 |
1 |
$args{'-algorithm_name'} || $data->{'RESULT-algorithm_name'} || $type |
|
304
|
0 |
0 |
0 |
not defined $acc or $acc =~ /^\s+$/ |
|
315
|
0 |
0 |
1372 |
$data->{'HSP-query_frame'} < 0 && $data->{'HSP-query_start'} < $data->{'HSP-query_end'} || $data->{'HSP-query_frame'} > 0 && $data->{'HSP-query_start'} > $data->{'HSP-query_end'} |
|
327
|
0 |
0 |
1372 |
defined $data->{'HSP-hit_frame'} && $data->{'HSP-hit_frame'} < 0 && $data->{'HSP-hit_start'} < $data->{'HSP-hit_end'} || defined $data->{'HSP-hit_frame'} && $data->{'HSP-hit_frame'} > 0 && $data->{'HSP-hit_start'} > $data->{'HSP-hit_end'} |
|
342
|
238 |
6583 |
971 |
$data->{'HSP-query_length'} ||= $data->{'RESULT-query_length'} |
|
343
|
322 |
1792 |
5678 |
$data->{'HSP-hit_length'} ||= $data->{'HIT-length'} |
|
364
|
2884 |
7 |
4901 |
$data->{'HSP-hsp_length'} ||= length($data->{'HSP-homology_seq'} || '') |
|
370
|
7671 |
120 |
1 |
$args{'-algorithm_name'} || $data->{'RESULT-algorithm_name'} || $type |
|
421
|
2501 |
5890 |
0 |
scalar @hsp_data > 0 or exists $data->{'HIT-significance'} |
|
431
|
8365 |
25 |
1 |
$args{'-algorithm_name'} || $data->{'RESULT-algorithm_name'} || $type |
|
439
|
95 |
829 |
55 |
$args{'-hsps'}[0]{'-pvalue'} || $args{'-hsps'}[0]{'-evalue'} |
|
472
|
1215 |
0 |
0 |
$hit->{'-score'} || $hit->{'-hsps'}[0]{'-score'} |
|
526
|
8943 |
0 |
0 |
$self->{'_factories'}{lc $type} || $self->throw('-class', 'Bio::Root::BadParameter', '-text', "No factory registered for $type") |
|
563
|
0 |
0 |
5 |
$sig =~ /[^\d.e-]/ or $sig <= 0 |
|
603
|
0 |
0 |
5 |
$score =~ /[^\de+]/ or $score <= 0 |
|
634
|
0 |
0 |
5 |
$bits =~ /[^\de+]/ or $bits <= 0 |