Re: [Seqan-dev] SAM issue?

[Mat <matthias.dodt@mdc-berlin.de>]

Ahh okay - well that might be a problem. But still i think the output shouldn't change with the number of lines in the sam file?!

thanks!

Am 3/21/11 12:14 PM, schrieb Holtgrewe, Manuel:

ontigStore                        TContigStore;
typedef typename Value<TContigStore>::Type                           TContig;
typedef typename TFragmentStore::TContigSeq                          TContigSeq;
typedef Gaps<TContigSeq, AnchorGaps<typename TContig::TGapAnchors> > TContigGaps;

typedef typename TFragmentStore::TAlignedReadStore                   TAlignedReadStore;
typedef typename Value<TAlignedReadStore>::Type                      TAlignedRead;
typedef typename TAlignedRead::TPos                                  TAlignedReadPos;

TContigGaps contigGaps(contigStore[contigId].seq, contigStore[contigId].gaps);
TAlignedRead const & alignedRead = alignedReadStore[idx];
// Translate end position from aligne