| line |
true |
false |
branch |
|
122
|
0 |
0 |
if (scalar @method_args > 0 and ref($method_args[0]) =~ /foundation/i) { } |
|
134
|
0 |
0 |
if (scalar @method_args > 0 and ref($method_args[0]) =~ /array/i) { } |
|
146
|
0 |
0 |
if (scalar @method_args > 0 and not ref $method_args[0]) { } |
|
149
|
0 |
0 |
if (defined $filename) { } |
|
166
|
0 |
0 |
if (scalar @method_args > 0) { } |
|
|
0 |
0 |
elsif (defined $self->{'db_file_name'} and not defined $self->open($self->{'db_file_name'})) { } |
|
176
|
0 |
0 |
$error_condition == 0 ? : |
|
197
|
0 |
0 |
if (defined $self->{'db_handle'}) |
|
204
|
0 |
0 |
if (not defined $db_file_name && ($self->{'db_file_name'} = $db_file_name) && defined $self->{'db_file_name'}) { } |
|
|
0 |
0 |
elsif (not defined($self->{'db_handle'} = 'IO::File'->new($self->{'db_file_name'}))) { } |
|
223
|
0 |
0 |
if ($error_condition == 1) |
|
227
|
0 |
0 |
$error_condition == 1 ? : |
|
245
|
0 |
0 |
if (defined $self->{'db_handle'}) |
|
247
|
0 |
0 |
unless ($return_val) |
|
275
|
0 |
0 |
if ($line_number == 0) |
|
280
|
0 |
0 |
defined $self->{'db_handle'} ? : |
|
282
|
0 |
0 |
if (defined $db_handle) |
|
286
|
0 |
0 |
if (defined $newline) |
|
298
|
0 |
0 |
if (defined $next_header and $next_header ne '') |
|
316
|
0 |
0 |
if ($self->_parse == 1) |
|
323
|
0 |
0 |
if (defined $recordarray_ref and ref($recordarray_ref) =~ /array/i) |
|
329
|
0 |
0 |
if (defined $recordarray_ref and $array_length = @recordarray and $array_length > 0) |
|
338
|
0 |
0 |
if (scalar @recordarray > 0) |
|
347
|
0 |
0 |
if (defined $record) |
|
371
|
0 |
0 |
if (defined $recordarray_ref and ref($recordarray_ref) =~ /array/i) |
|
376
|
0 |
0 |
if (defined $recordarray_ref and $array_length = @recordarray and $array_length > 0) |
|
385
|
0 |
0 |
if (scalar @recordarray > 0) |
|
393
|
0 |
0 |
if (defined $record) |
|
444
|
0 |
0 |
defined $self->{'db_handle'} ? : |
|
450
|
0 |
0 |
unless (defined $header) |
|
452
|
0 |
0 |
if (defined $newline and $newline ne '') |
|
458
|
0 |
0 |
if (&isValidFASTAheader($header) != 0) { } |
|
471
|
0 |
0 |
if (defined $header and defined $line_number) |
|
486
|
0 |
0 |
if (defined $record_identifier and not $record_identifier =~ // and &isValidFASTAdata($line) != 0) { } |
|
|
0 |
0 |
elsif ($line =~ /^>/) { } |
|
491
|
0 |
0 |
if ($preceding_header_flag == 1) |
|
497
|
0 |
0 |
if (defined $first_data_line_length) |
|
498
|
0 |
0 |
if ($last_line_length_lt_std_flag == 1) |
|
512
|
0 |
0 |
if (length $line > $first_data_line_length) { } |
|
|
0 |
0 |
elsif (length $line < $first_data_line_length) { } |
|
534
|
0 |
0 |
if ($preceding_record_flag == 1) |
|
547
|
0 |
0 |
if ($line =~ /$UNBOUND_FASTA_SEPARATOR/) { } |
|
|
0 |
0 |
elsif ($last_line_length_lt_std_flag == 1) { } |
|
|
0 |
0 |
elsif (defined $record_identifier and not $record_identifier =~ //) { } |
|
577
|
0 |
0 |
if ($preceding_header_flag == 1) |
|
582
|
0 |
0 |
$self->{'error_cnt'} == 0 ? : |
|
597
|
0 |
0 |
unless (defined $line_number) |
|
602
|
0 |
0 |
if ($self->{'db_handle'}->eof == 1) { } |
|
636
|
0 |
0 |
if (defined $message and defined $tf_level and defined $log_facility) |
|
640
|
0 |
0 |
if (defined $self->{'foundation'}) |
|
641
|
0 |
0 |
if ($log_facility != $USR_ERR) { } |
|
649
|
0 |
0 |
if (defined $self->{'error_ref'} and $log_facility == $USR_ERR) |