| line |
true |
false |
branch |
|
124
|
0 |
2 |
if ($file =~ /^STDIN$/i) { } |
|
|
2 |
0 |
elsif (ref $file eq '' or ref $file eq 'SCALAR') { } |
|
128
|
0 |
2 |
unless open $fh, '<', $file |
|
137
|
2 |
0 |
if $_ eq '>' |
|
140
|
0 |
6 |
if $finished |
|
145
|
2 |
2 |
if substr($_, -1, 1) eq '>' |
|
157
|
0 |
4 |
if substr($head, -1, 1) eq "\r" |
|
159
|
4 |
0 |
if (length $head > 0) |
|
163
|
4 |
0 |
unless $not_trim |
|
168
|
2 |
0 |
if $open_flg |
|
182
|
0 |
0 |
if ($file =~ /^STDIN$/i) { } |
|
186
|
0 |
0 |
unless open $fh, '<', $file |
|
190
|
0 |
0 |
if $finished |
|
195
|
0 |
0 |
if (/^>(.*)/) { } |
|
200
|
0 |
0 |
if ($header ne '') |
|
201
|
0 |
0 |
unless $not_trim |
|
209
|
0 |
0 |
unless $is_stdin |
|
213
|
0 |
0 |
if ($last_header ne '') |
|
214
|
0 |
0 |
unless $not_trim |
|
259
|
0 |
1 |
unless (ref $seqs eq 'HASH') |
|
263
|
1 |
0 |
unless defined $n |
|
265
|
0 |
1 |
unless open my $fh2, ">$file" |
|
284
|
0 |
2 |
unless defined $n |
|
285
|
0 |
2 |
unless ($n =~ /^\d+$/ and $n > 0) |
|
320
|
1 |
1 |
if $seq =~ /[^\.\-\s_*ABCDEFGHIKLMNPQRSTUVWY]/i |
|
387
|
0 |
1 |
if ($seq eq '') |
|
542
|
0 |
0 |
if (exists $genetic_code{$codon}) { } |
|
562
|
0 |
0 |
unless (ref $alphabet eq 'ARRAY') |
|
586
|
0 |
0 |
unless defined $file_out |
|
587
|
0 |
0 |
unless open my $fh2, ">$file_out" |
|
609
|
0 |
0 |
unless open my $fh, '<', $file |
|
610
|
0 |
0 |
unless open my $fh2, '>', $outfile |
|
615
|
0 |
0 |
if (/^\s*>(.*)\r?\n/) { } |
|
617
|
0 |
0 |
if ($head =~ /$regex/) |
|
650
|
0 |
0 |
unless defined $replacement |
|
653
|
0 |
0 |
unless defined $symbols |
|
654
|
0 |
0 |
unless (ref $symbols eq 'ARRAY') |
|
659
|
0 |
0 |
unless open my $fh, '<', $file |
|
660
|
0 |
0 |
unless open my $fh2, '>', $outfile |
|
665
|
0 |
0 |
if (/^\s*>(.*)\r?\n/) { } |
|
667
|
0 |
0 |
if ($head =~ /[$re]/) |