| line |
true |
false |
branch |
|
137
|
0 |
1 |
if ($@) |
|
168
|
0 |
1 |
if (defined $filters) |
|
169
|
0 |
0 |
if (!ref($filters) =~ /HASH/i) { } |
|
178
|
1 |
0 |
if ($Bio::SearchIO::Writer::TextResultWriter::TextWrapLoaded) { } |
|
205
|
0 |
1 |
unless defined $result |
|
210
|
0 |
1 |
if defined $resultfilter and not &{$resultfilter;}($result) |
|
215
|
0 |
1 |
$result->algorithm_version =~ /WashU/ ? : |
|
218
|
1 |
0 |
if ($alg =~ /T(FAST|BLAST)([XY])/i) { } |
|
|
0 |
0 |
elsif ($alg =~ /T(FAST|BLAST)N/i) { } |
|
|
0 |
0 |
elsif ($alg =~ /(FAST|BLAST)N/i or $alg =~ /(WABA|EXONERATE)/i) { } |
|
|
0 |
0 |
elsif ($alg =~ /(FAST|BLAST)P/ or $alg =~ /SSEARCH|(HMM|SEARCH|PFAM)/i) { } |
|
|
0 |
0 |
elsif ($alg =~ /(FAST|BLAST)[XY]/i) { } |
|
243
|
1 |
0 |
$dbtype eq 'translated' ? : |
|
|
1 |
0 |
$qtype eq 'translated' ? : |
|
247
|
1 |
0 |
if (not defined $num or $num <= 1) |
|
262
|
1 |
0 |
if ($result->can('rewind')) |
|
266
|
0 |
20 |
if defined $hitfilter and not &{$hitfilter;}($hit) |
|
268
|
0 |
20 |
unless $nm |
|
274
|
20 |
0 |
if (length($desc) - 3 > $Bio::SearchIO::Writer::TextResultWriter::MaxDescLen) { } |
|
281
|
0 |
0 |
defined $hit->raw_score ? : |
|
|
0 |
0 |
defined $hit->significance ? : |
|
|
20 |
0 |
defined $hit->bits ? : |
|
|
20 |
0 |
defined $hit->significance ? : |
|
|
0 |
20 |
$wublast ? : |
|
290
|
20 |
0 |
if (@hsps) |
|
291
|
20 |
0 |
defined $hit->description ? : |
|
298
|
0 |
21 |
if defined $hspfilter and not &{$hspfilter;}($hsp) |
|
301
|
0 |
21 |
if ($hsp->pvalue) |
|
312
|
21 |
0 |
if ($type eq 'PROTEIN') |
|
320
|
0 |
21 |
if ($hsp->gaps) |
|
334
|
21 |
0 |
if ($hstrand or $qstrand) |
|
337
|
21 |
0 |
if ($hstrand) { } |
|
342
|
5 |
16 |
$hstrand < 0 ? : |
|
344
|
21 |
0 |
if ($qstrand) { } |
|
348
|
7 |
14 |
$qstrand < 0 ? : |
|
353
|
0 |
21 |
if (defined $hframe and not defined $qframe) { } |
|
|
0 |
21 |
elsif (defined $qframe and not defined $hframe) { } |
|
364
|
0 |
21 |
if ($links and $hsp->can('links') and defined(my $lnks = $hsp->links)) |
|
370
|
14 |
7 |
$qstrand >= 0 ? : |
|
|
14 |
7 |
$qstrand >= 0 ? : |
|
|
16 |
5 |
$hstrand >= 0 ? : |
|
|
16 |
5 |
$hstrand >= 0 ? : |
|
416
|
42 |
21 |
if (defined $v->{'start'}) |
|
422
|
42 |
0 |
if (length $piece < $Bio::SearchIO::Writer::TextResultWriter::AlignmentLineWidth) |
|
459
|
0 |
1 |
if (defined(my $open = $result->get_parameter('gapopen'))) |
|
476
|
18 |
8 |
if ($v =~ /^\d+$/) |
|
479
|
1 |
25 |
if (defined $expect and $stat eq 'seqs_better_than_cutoff') { } |
|
513
|
0 |
1 |
if ($code) |
|
553
|
0 |
1 |
if ($code) |
|
601
|
0 |
1 |
if ($code) |
|
682
|
0 |
20 |
if ($code) |
|
705
|
0 |
20 |
if ($string =~ s/gi\|(\d+)\|?//) |
|
708
|
20 |
0 |
if ($string =~ /(\w+)\|([A-Z\d\.\_]+)(\|[A-Z\d\_]+)?/) { } |
|
709
|
20 |
0 |
defined $2 ? : |
|
718
|
0 |
0 |
$a <=> $b ? : |
|
719
|
0 |
0 |
$a <=> $b ? : |
|
736
|
0 |
0 |
unless defined $result and ref $result and $result->isa('Bio::Search::Result::ResultI') |
|
738
|
0 |
0 |
if ($result->algorithm =~ /BLAST/i) { } |
|
|
0 |
0 |
elsif ($result->algorithm =~ /FAST/i) { } |
|
740
|
0 |
0 |
if ($result->algorithm_version =~ /WashU/i) { } |
|
772
|
1 |
0 |
if ($Bio::SearchIO::Writer::TextResultWriter::TextWrapLoaded) { } |
|
808
|
1 |
1 |
if @_ |