| line |
true |
false |
branch |
|
170
|
0 |
3 |
if $ENV{'PROBALIGNDIR'} |
|
195
|
0 |
0 |
if $attr =~ /^-/ |
|
207
|
0 |
0 |
unless $Bio::Tools::Run::Alignment::Probalign::OK_FIELD{$attr} |
|
209
|
0 |
0 |
if @_ |
|
226
|
0 |
0 |
if (defined $value) |
|
247
|
0 |
0 |
unless $exe = $self->executable |
|
299
|
0 |
0 |
unless ($infilename) |
|
332
|
0 |
0 |
if (not -e $outfile or -z $outfile) |
|
359
|
0 |
0 |
if (not ref $input) { } |
|
|
0 |
0 |
elsif (ref($input) =~ /ARRAY/i) { } |
|
362
|
0 |
0 |
unless (-e $input) |
|
364
|
0 |
0 |
unless open IN, $infilename |
|
367
|
0 |
0 |
unless $header =~ /^\s+$/ |
|
370
|
0 |
0 |
unless ($header =~ /^>\s*\S+/) |
|
378
|
0 |
0 |
if (not ref $input->[0]) { } |
|
|
0 |
0 |
elsif ($input->[0]->isa('Bio::PrimarySeqI')) { } |
|
386
|
0 |
0 |
unless ref $seq and $seq->isa('Bio::PrimarySeqI') |
|
388
|
0 |
0 |
if (not defined $seq->display_id or $seq->display_id =~ /^\s+$/) |
|
430
|
0 |
0 |
unless defined $value |
|
432
|
0 |
0 |
unless $attr eq 'ANNOT' |
|
433
|
0 |
0 |
if $attr eq 'ANNOT' |
|
439
|
0 |
0 |
unless $value |
|
445
|
0 |
0 |
unless ($self->outfile_name) |
|
454
|
0 |
0 |
if ($self->verbose < 0) |
|
455
|
0 |
0 |
$^O =~ /mswin/i ? : |
|
474
|
1 |
0 |
if @_ |