| line |
true |
false |
branch |
|
139
|
0 |
2 |
unless (defined $aln and ref $aln and $aln->isa('Bio::Align::AlignI')) |
|
144
|
2 |
0 |
if (defined $m and $method =~ /$m/i) |
|
193
|
0 |
2 |
unless $self->_check_arg($aln) |
|
214
|
31488 |
10696 |
if ($m1 ne '-' and $m2 ne '-') |
|
235
|
97 |
9 |
if ($D < 0.8541) { } |
|
264
|
18672 |
12816 |
if ($t1 ne 'X' and $t1 eq $t2) { } |
|
|
0 |
12816 |
elsif ($t1 eq 'B' and $t2 =~ /[DN]/ or $t2 eq 'B' and $t1 =~ /[DN]/ or ($t1 eq 'Z' and $t2 =~ /[EQ]/ or $t2 eq 'Z' and $t1 =~ /[EQ]/)) { } |
|
|
0 |
12816 |
elsif ($t1 eq 'X' and $t2 eq 'X') { } |
|
|
0 |
12816 |
elsif ($t1 eq 'X' or $t2 eq 'X') { } |
|
297
|
2 |
0 |
if (defined $value) |
|
306
|
0 |
2 |
if (not defined $aln && $aln->isa('Bio::Align::AlignI')) { } |
|
|
0 |
2 |
elsif ($aln->get_seq_by_pos(1)->alphabet ne 'protein') { } |