| line |
true |
false |
branch |
|
77
|
0 |
1 |
if (not defined $smalt_r || defined $map_score and defined $essentiality)
|
|
79
|
0 |
0 |
if defined $essentiality
|
|
84
|
1 |
0 |
if defined $fastqfile
|
|
85
|
1 |
0 |
if defined $tag
|
|
86
|
0 |
1 |
if defined $td
|
|
87
|
0 |
1 |
if defined $mismatch
|
|
88
|
1 |
0 |
if defined $ref
|
|
89
|
0 |
1 |
if defined $map_score
|
|
90
|
0 |
1 |
if defined $smalt_k
|
|
91
|
0 |
1 |
if defined $smalt_s
|
|
92
|
0 |
1 |
if defined $smalt_y
|
|
93
|
0 |
1 |
if defined $smalt_r
|
|
94
|
0 |
1 |
if defined $smalt_n
|
|
95
|
0 |
1 |
if defined $help
|
|
96
|
0 |
1 |
if defined $verbose
|
|
97
|
0 |
1 |
if defined $samtools_exec
|
|
100
|
0 |
1 |
unless $fastqfile and $tag and $ref
|
|
106
|
0 |
1 |
if (defined $self->help)
|
|
114
|
0 |
1 |
unless open FILES, '<', $fq
|
|
124
|
0 |
2 |
if ($f1 =~ m[^/]) { }
|
|
126
|
0 |
2 |
unless (-e $full_path)
|
|
135
|
0 |
1 |
if ($f2 =~ m[^/]) { }
|
|
158
|
0 |
0 |
if ('TryCatch'->check_tc('Bio::Tradis::Exception::TagFilterError')) { }
|
|
|
0 |
0 |
if ($TryCatch::Error)
|
|
163
|
0 |
0 |
unless ($at_least_one_good_fastq)
|
|
203
|
0 |
0 |
if ($line =~ /^File/) { }
|
|
204
|
0 |
0 |
if ($header == 0)
|