| line |
true |
false |
branch |
|
140
|
4 |
6 |
if ($factors and scalar @$factors) { } |
|
146
|
10 |
0 |
if $factors |
|
166
|
44 |
0 |
unless ($self->_parsed) |
|
193
|
0 |
88 |
unless keys %{$$self{'_factors'};} |
|
198
|
96 |
50 |
if (exists $hash->{$fact} and $hash->{$fact} =~ /^N/) |
|
222
|
10 |
88 |
if ($array) |
|
225
|
17 |
0 |
if (exists $FACTS->{$f}) { } |
|
253
|
0 |
44 |
if (defined $parsed) |
|
282
|
20 |
10 |
unless $line =~ /^>(\S+)|^# SignalP-[NHM]+ \S+ predictions/ |
|
284
|
5 |
5 |
if ($line =~ /^>(\S+)/) { } |
|
|
5 |
0 |
elsif ($line =~ /^# SignalP-[NHM]+ \S+ predictions/) { } |
|
322
|
38 |
207 |
if ($line =~ /^SignalP-NN result:/) |
|
326
|
27 |
218 |
if ($line =~ /^SignalP-HMM result:/) |
|
331
|
42 |
203 |
if ($line =~ /^---------/ and $feature) |
|
333
|
16 |
26 |
if $new_feature |
|
373
|
38 |
312 |
if ($line =~ /^SignalP-NN result:/) |
|
378
|
0 |
312 |
unless $ok |
|
380
|
38 |
274 |
if ($line =~ /^\>(\S+)\s+length/) { } |
|
|
38 |
236 |
elsif ($line =~ /max\.\s+C\s+(\S+)\s+\S+\s+\S+\s+(\S+)/) { } |
|
|
38 |
198 |
elsif ($line =~ /max\.\s+Y\s+(\S+)\s+\S+\s+\S+\s+(\S+)/) { } |
|
|
38 |
160 |
elsif ($line =~ /max\.\s+S\s+(\S+)\s+\S+\s+\S+\s+(\S+)/) { } |
|
|
38 |
122 |
elsif ($line =~ /mean\s+S\s+(\S+)\s+\S+\s+\S+\s+(\S+)/) { } |
|
|
38 |
84 |
elsif ($line =~ /\s+D\s+(\S+)\s+\S+\s+\S+\s+(\S+)/) { } |
|
|
8 |
76 |
elsif ($line =~ /Most likely cleavage site between pos\.\s+(\d+)/) { } |
|
|
38 |
38 |
elsif ($line =~ /^\s*$/) { } |
|
424
|
10 |
28 |
if ($self->_filterok(\%facts)) |
|
460
|
11 |
202 |
if $line =~ /^\s*$/o |
|
462
|
30 |
172 |
if ($line =~ /^SignalP-HMM result:/) |
|
467
|
0 |
172 |
unless $ok |
|
469
|
35 |
137 |
if ($line =~ /^>(\S+)/) { } |
|
|
30 |
107 |
elsif ($line =~ /Prediction: (.+)$/) { } |
|
|
30 |
77 |
elsif ($line =~ /Signal peptide probability: ([0-9\.]+)/) { } |
|
|
30 |
47 |
elsif ($line =~ /Signal anchor probability: ([0-9\.]+)/) { } |
|
|
24 |
23 |
elsif ($line =~ /Max cleavage site probability: (\S+) between pos. \S+ and (\S+)/) { } |
|
471
|
11 |
24 |
unless $self->seqname |
|
487
|
20 |
4 |
if $2 > 1 and not $feature_hash->{'end'} |
|
488
|
20 |
4 |
unless $feature_hash->{'start'} |
|
526
|
5 |
55 |
if $line =~ /^\s*$|^# name/ |
|
528
|
5 |
50 |
if ($line =~ /^#/) |
|
529
|
2 |
1 |
$line =~ /SignalP-NN/ ? : |
|
|
2 |
3 |
$line =~ /SignalP-NN .+ SignalP-HMM/ ? : |
|
544
|
40 |
10 |
if ($method eq 'both' or $method eq 'nn') { } |
|
|
10 |
0 |
elsif ($method eq 'hmm') { } |
|
560
|
20 |
20 |
if ($method eq 'both') |
|
561
|
18 |
2 |
$data[15] eq 'Q' ? : |
|
568
|
9 |
1 |
$data[1] eq 'Q' ? : |
|
576
|
20 |
30 |
if ($self->_filterok($factors)) |
|
585
|
18 |
2 |
if $new_feat |
|
608
|
3 |
34 |
unless ($feat->{'name'} and $feat->{'start'} and $feat->{'end'}) |
|
617
|
26 |
8 |
defined $feat->{'peptideProb'} ? : |
|
629
|
26 |
8 |
if $feat->{'cleavageSiteProb'} |
|
630
|
18 |
16 |
if $feat->{'nnPrediction'} |
|
631
|
18 |
16 |
if defined $feat->{'maxCprob'} |
|
632
|
18 |
16 |
if defined $feat->{'maxSprob'} |
|
633
|
18 |
16 |
if defined $feat->{'maxYprob'} |
|
634
|
18 |
16 |
if defined $feat->{'meanSprob'} |
|
635
|
18 |
16 |
if defined $feat->{'Dprob'} |
|
655
|
88 |
65 |
if (defined $seqname) |