Subroutine Coverage
| blib/lib/Bio/Tools/Phylo/PAML/Result.pm |
|
| Criterion |
Covered |
Total |
% |
| subroutine |
47 |
52 |
90.3
|
| pod |
48 |
48 |
100.0
|
| line |
count |
pod |
subroutine |
|
3
|
2 |
n/a |
BEGIN |
|
4
|
2 |
n/a |
BEGIN |
|
5
|
2 |
n/a |
BEGIN |
|
7
|
2 |
n/a |
BEGIN |
|
21
|
20 |
Yes |
new |
|
192
|
0 |
Yes |
next_tree |
|
198
|
2 |
Yes |
get_trees |
|
204
|
0 |
Yes |
rewind_tree_iterator |
|
209
|
3 |
Yes |
add_tree |
|
219
|
10 |
Yes |
set_MLmatrix |
|
230
|
8 |
Yes |
get_MLmatrix |
|
236
|
16 |
Yes |
set_NGmatrix |
|
247
|
9 |
Yes |
get_NGmatrix |
|
254
|
80 |
Yes |
add_seq |
|
267
|
20 |
Yes |
reset_seqs |
|
273
|
5 |
Yes |
get_seqs |
|
279
|
14 |
Yes |
set_codon_pos_basefreq |
|
295
|
1 |
Yes |
get_codon_pos_basefreq |
|
301
|
24 |
Yes |
version |
|
308
|
20 |
Yes |
seqfile |
|
315
|
27 |
Yes |
model |
|
324
|
20 |
Yes |
patterns |
|
331
|
2 |
Yes |
set_AAFreqs |
|
342
|
6 |
Yes |
get_AAFreqs |
|
352
|
2 |
Yes |
set_NTFreqs |
|
363
|
1 |
Yes |
get_NTFreqs |
|
373
|
11 |
Yes |
add_stat |
|
381
|
8 |
Yes |
get_stat |
|
387
|
1 |
Yes |
get_stat_names |
|
393
|
2 |
Yes |
get_AADistMatrix |
|
399
|
2 |
Yes |
set_AADistMatrix |
|
411
|
1 |
Yes |
get_AAMLDistMatrix |
|
417
|
1 |
Yes |
set_AAMLDistMatrix |
|
429
|
9 |
Yes |
add_NSSite_result |
|
438
|
5 |
Yes |
get_NSSite_results |
|
444
|
8 |
Yes |
set_CodonFreqs |
|
452
|
0 |
Yes |
get_CodonFreqs |
|
459
|
1 |
Yes |
get_KappaMatrix |
|
465
|
2 |
Yes |
set_KappaMatrix |
|
478
|
1 |
Yes |
get_AlphaMatrix |
|
484
|
2 |
Yes |
set_AlphaMatrix |
|
496
|
10 |
Yes |
set_input_parameter |
|
503
|
0 |
Yes |
get_input_parameters |
|
509
|
0 |
Yes |
reset_input_parameters |
|
515
|
20 |
Yes |
add_rst_seq |
|
528
|
20 |
Yes |
reset_rst_seqs |
|
534
|
1 |
Yes |
get_rst_seqs |
|
541
|
1 |
Yes |
add_rst_tree |
|
553
|
20 |
Yes |
reset_rst_trees |
|
559
|
1 |
Yes |
get_rst_trees |
|
565
|
1 |
Yes |
set_rst_persite |
|
573
|
1 |
Yes |
get_rst_persite |