| line |
true |
false |
branch |
|
65
|
0 |
0 |
unless $self->has_ifile
|
|
67
|
0 |
0 |
unless $rnaz = can_run('RNAz')
|
|
69
|
0 |
0 |
unless ($self->has_odir)
|
|
70
|
0 |
0 |
unless ($self->has_odirn)
|
|
85
|
0 |
0 |
if ($self->has_alnfilebasename) { }
|
|
|
0 |
0 |
elsif ($self->has_basename) { }
|
|
93
|
0 |
0 |
unless ($success)
|
|
119
|
0 |
0 |
if $line =~ /Mean pairwise identity:\s*(-?\d+.\d+)/
|
|
120
|
0 |
0 |
if $line =~ /Sequences:\s*(\d+)/
|
|
121
|
0 |
0 |
if ($line =~ /Reading direction:\s*(forward|reverse)/)
|
|
122
|
0 |
0 |
$1 eq 'forward' ? :
|
|
124
|
0 |
0 |
if $line =~ /Columns:\s*(\d+)/
|
|
125
|
0 |
0 |
if $line =~ /SVM decision value:\s*(-?\d+.\d+)/
|
|
126
|
0 |
0 |
if $line =~ /SVM RNA-class probability:\s*(-?\d+.\d+)/
|
|
127
|
0 |
0 |
if $line =~ /Mean z-score:\s*(-?\d+.\d+)/
|
|
128
|
0 |
0 |
if $line =~ /Structure conservation index:\s*(-?\d+.\d+)/
|
|
129
|
0 |
0 |
if $line =~ /Energy contribution:\s*(-?\d+.\d+)/
|
|
130
|
0 |
0 |
if $line =~ /Covariance contribution:\s*(-?\d+.\d+)/
|
|
131
|
0 |
0 |
if $line =~ m[Combinations/Pair:\s*(-?\d+.\d+)]
|
|
132
|
0 |
0 |
if $line =~ /Consensus MFE:\s*(-?\d+.\d+)/
|
|
133
|
0 |
0 |
if $line =~ /Mean single sequence MFE:\s*(-?\d+.\d+)/
|
|
134
|
0 |
0 |
if $line =~ /G\+C content:\s(\d+.\d+)/
|
|
135
|
0 |
0 |
if $line =~ /Shannon entropy:\s*(\d+.\d+)/
|
|
137
|
0 |
0 |
if ($line =~ /^>/)
|
|
140
|
0 |
0 |
if ($line =~ /^>consensus/) { }
|
|
145
|
0 |
0 |
if ($line =~ />(.*?) (\d+) (\d+) (\+|\-) (\d+)/) { }
|
|
|
0 |
0 |
elsif ($line =~ m[^(.*)/(\d+)-(\d+)$]) { }
|