[Seqan-dev] alignQualityStore score = 0

[Nauman Ahmed <n.ahmed@tudelft.nl>]

Hi,
I am using the Fragment store for the read mapping problem. I append the matches using appendAlignedRead() and then perform global alignment using convertMatchesToGlobalAlignment(), but when I print the scores using fragStore.alignQualityStore[i].score it shows 0 ("fragStore" is the FragmentStore object and "i" is the alignedRead ID). I have generated the SAM file CIGAR string and the edit distance (NM:i:) are perfectly OK.

-- 
Nauman Ahmed
PhD candidate,
Deparment of Software and Computer Technology
Computer Engineering Laboratory,
EWI, TU Delft