| line |
!l |
l&&!r |
l&&r |
condition |
|
225
|
5 |
0 |
0 |
$options{'threads'} > 1 and not $Bio::Phylo::EvolutionaryModels::Config{'useithreads'}
|
|
252
|
5 |
0 |
0 |
defined $options{'incomplete_sampling'} and $options{'incomplete_sampling'}
|
|
|
0 |
0 |
0 |
defined $options{'incomplete_sampling'} and $options{'incomplete_sampling'} and not defined $options{'algorithm_options'}{'sampling_probability'}
|
|
307
|
0 |
0 |
0 |
defined $options{'output_format'} and $options{'output_format'} eq 'newick'
|
|
326
|
1 |
4 |
0 |
defined $options{'output_format'} and $options{'output_format'} eq 'newick'
|
|
|
1 |
0 |
4 |
defined $options{'output_format'} and $options{'output_format'} eq 'forest'
|
|
616
|
0 |
1 |
0 |
ref $sampling_probability and scalar @{$sampling_probability;} != $mstar - $options{'tree_size'} + 1
|
|
1069
|
0 |
48 |
18 |
defined $options{'death_rate'} and $options{'death_rate'} == 0
|
|
1086
|
66 |
0 |
0 |
defined $options{'root_edge'} and $options{'root_edge'}
|
|
1108
|
0 |
36 |
3938 |
$tree_size > 0 and $tree_size < $options{'tree_size'}
|
|
|
36 |
0 |
3938 |
$tree_size > 0 and $tree_size < $options{'tree_size'} and $time < $options{'tree_age'}
|
|
1227
|
0 |
0 |
0 |
defined $options{'death_rate'} and $options{'death_rate'} == 0
|
|
1248
|
0 |
0 |
0 |
defined $options{'root_edge'} and $options{'root_edge'}
|
|
1270
|
0 |
0 |
0 |
$tree_size > 0 and $tree_size < $options{'tree_size'}
|
|
|
0 |
0 |
0 |
$tree_size > 0 and $tree_size < $options{'tree_size'} and $time < $options{'tree_age'}
|
|
1406
|
0 |
0 |
0 |
defined $options{'root_edge'} and $options{'root_edge'}
|
|
1424
|
0 |
0 |
0 |
$tree_size > 0 and $tree_size < $options{'tree_size'}
|
|
|
0 |
0 |
0 |
$tree_size > 0 and $tree_size < $options{'tree_size'} and $time < $options{'tree_age'}
|
|
1566
|
0 |
0 |
0 |
defined $options{'root_edge'} and $options{'root_edge'}
|
|
1578
|
0 |
0 |
0 |
$tree_size < $options{'tree_size'} and $time < $options{'tree_age'}
|
|
1595
|
0 |
0 |
0 |
$selected < scalar @terminals and $rand_select > $birth_rates[$selected]
|
|
1741
|
0 |
0 |
0 |
defined $options{'root_edge'} and $options{'root_edge'}
|
|
1773
|
0 |
0 |
0 |
$tree_size > 0 and $tree_size < $options{'tree_size'}
|
|
|
0 |
0 |
0 |
$tree_size > 0 and $tree_size < $options{'tree_size'} and $time < $options{'tree_age'}
|
|
1831
|
0 |
0 |
0 |
$selected < scalar @terminals and $rand_select > $birth_rates[$selected]
|
|
1843
|
0 |
0 |
0 |
$selected < scalar @terminals and $rand_select > $death_rates[$selected]
|
|
1985
|
0 |
0 |
0 |
defined $options{'root_edge'} and $options{'root_edge'}
|
|
1997
|
0 |
0 |
0 |
$tree_size < $options{'tree_size'} and $time < $options{'tree_age'}
|
|
2014
|
0 |
0 |
0 |
$selected < scalar @terminals and $rand_select > $birth_rates[$selected]
|
|
2334
|
12 |
48 |
690 |
scalar @extinction and ($end_time - $extinction[-1]) / $end_time < 1e-06
|
|
2340
|
64 |
1548 |
2061 |
scalar @speciation and $speciation[0] < $extinction[0]
|
| line |
l |
!l&&r |
!l&&!r |
condition |
|
262
|
4 |
1 |
0 |
defined $options{'model'} or $options{'algorithm'} eq 'constant_rate_bd'
|
|
443
|
0 |
5 |
7 |
$expected_samples > 1 or rand 1 < $expected_samples
|
|
537
|
2 |
3 |
7 |
$expected_samples > 1 or rand 1 < $expected_samples
|
|
712
|
0 |
5 |
4 |
$expected_samples > 1 or rand 1 < $expected_samples
|
|
1056
|
66 |
0 |
0 |
defined $options{'tree_size'} or defined $options{'tree_age'}
|
|
1134
|
2296 |
0 |
1642 |
$next_speciation < $next_extinction or not defined $next_extinction
|
|
1209
|
0 |
0 |
0 |
defined $options{'tree_size'} or defined $options{'tree_age'}
|
|
1296
|
0 |
0 |
0 |
$next_speciation < $next_extinction or not defined $next_extinction
|
|
1372
|
0 |
0 |
0 |
defined $options{'tree_size'} or defined $options{'tree_age'}
|
|
1464
|
0 |
0 |
0 |
$next_speciation < $next_extinction or not defined $next_extinction
|
|
1535
|
0 |
0 |
0 |
defined $options{'tree_size'} or defined $options{'tree_age'}
|
|
1685
|
0 |
0 |
0 |
defined $options{'tree_size'} or defined $options{'tree_age'}
|
|
1867
|
0 |
0 |
0 |
$next_speciation < $next_extinction or not defined $next_extinction
|
|
1954
|
0 |
0 |
0 |
defined $options{'tree_size'} or defined $options{'tree_age'}
|
|
2340
|
181 |
2061 |
1612 |
scalar @extinction == 0 or scalar @speciation and $speciation[0] < $extinction[0]
|
|
2449
|
0 |
0 |
0 |
$k > $n or $k < 0
|