Subroutine Coverage
| blib/lib/CracTools/SAMReader/SAMline.pm |
|
| Criterion |
Covered |
Total |
% |
| subroutine |
38 |
44 |
86.3
|
| pod |
39 |
39 |
100.0
|
| line |
count |
pod |
subroutine |
|
101
|
2 |
n/a |
BEGIN |
|
102
|
2 |
n/a |
BEGIN |
|
103
|
2 |
n/a |
BEGIN |
|
105
|
2 |
n/a |
BEGIN |
|
173
|
2 |
Yes |
hasEvent |
|
192
|
7 |
Yes |
new |
|
238
|
3 |
Yes |
isFlagged |
|
255
|
0 |
Yes |
getStrand |
|
271
|
0 |
Yes |
getOriginalSeq |
|
290
|
0 |
Yes |
getLocAsCracFormat |
|
304
|
0 |
Yes |
getPatch |
|
331
|
2 |
Yes |
line |
|
345
|
3 |
Yes |
updatedLine |
|
366
|
3 |
Yes |
qname |
|
383
|
6 |
Yes |
flag |
|
400
|
6 |
Yes |
rname |
|
417
|
3 |
Yes |
chr |
|
430
|
3 |
Yes |
pos |
|
447
|
3 |
Yes |
mapq |
|
464
|
4 |
Yes |
cigar |
|
481
|
3 |
Yes |
rnext |
|
498
|
3 |
Yes |
pnext |
|
515
|
3 |
Yes |
tlen |
|
534
|
4 |
Yes |
seq |
|
551
|
3 |
Yes |
qual |
|
568
|
0 |
Yes |
getOptionalField |
|
590
|
1 |
Yes |
getChimericAlignments |
|
631
|
1 |
Yes |
getCigarOperatorsCount |
|
651
|
1 |
Yes |
pSupport |
|
665
|
1 |
Yes |
pLoc |
|
679
|
1 |
Yes |
pairedChimera |
|
703
|
3 |
Yes |
isPairedClassified |
|
734
|
2 |
Yes |
genericInfo |
|
763
|
2 |
Yes |
isClassified |
|
806
|
3 |
Yes |
events |
|
828
|
3 |
Yes |
loadEvents |
|
922
|
2 |
Yes |
addEvent |
|
941
|
2 |
Yes |
removeEvent |
|
963
|
1 |
Yes |
updateEvent |
|
976
|
0 |
n/a |
__ANON__ |
|
1045
|
2 |
Yes |
loadSamDetailed |
|
1074
|
4 |
Yes |
loadPaired |
|
1098
|
3 |
Yes |
expandCracLoc |
|
1115
|
1 |
Yes |
compressCracLoc |