| line |
true |
false |
branch |
|
75
|
0 |
0 |
if defined $help
|
|
76
|
0 |
0 |
if defined $job_runner
|
|
77
|
0 |
0 |
if defined $fasta_files
|
|
78
|
0 |
0 |
if defined $input_files
|
|
79
|
0 |
0 |
if defined $output_filename
|
|
80
|
0 |
0 |
if defined $output_pan_geneome_filename
|
|
81
|
0 |
0 |
if defined $output_statistics_filename
|
|
82
|
0 |
0 |
if defined $output_multifasta_files
|
|
83
|
0 |
0 |
if defined $clusters_filename
|
|
84
|
0 |
0 |
if defined $dont_delete_files
|
|
85
|
0 |
0 |
if defined $dont_create_rplots
|
|
86
|
0 |
0 |
if defined $dont_split_groups
|
|
87
|
0 |
0 |
if defined $verbose_stats
|
|
88
|
0 |
0 |
if defined $translation_table
|
|
89
|
0 |
0 |
if defined $cpus
|
|
90
|
0 |
0 |
if defined $group_limit
|
|
91
|
0 |
0 |
if defined $core_definition
|
|
92
|
0 |
0 |
if defined $mafft
|
|
93
|
0 |
0 |
if defined $allow_paralogs
|
|
94
|
0 |
0 |
if (defined $verbose)
|
|
103
|
0 |
0 |
if $self->help
|
|
104
|
0 |
0 |
if (defined $self->_error_message)
|
|
130
|
0 |
0 |
if ($self->dont_delete_files == 0)
|
|
136
|
0 |
0 |
if ($self->output_multifasta_files == 1)
|
|
138
|
0 |
0 |
if $self->verbose
|
|
141
|
0 |
0 |
if ($self->_is_lsf_job_runner_available and $self->job_runner eq 'LSF') { }
|
|
171
|
0 |
0 |
if (defined $rc and $rc == 1) { }
|