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Old 03-31-2010, 11:19 PM   #18
Senior Member
Location: Kuala Lumpur, Malaysia

Join Date: Mar 2008
Posts: 126
Default Colour space Alignmnet

Hi Kevin,
I had a quick look at your code for colour space and I think you need to skip the first colour as well as the leading primer base on each read as the first colour is made by primer base plus first base of the fragment. If you leave the first colour on it will add an extra error into 3/4 reads.

ColourSpaceLoader.cpp:63 t->copy(NULL,bufferForLine+2,readMyAllocator);// remove the leading T & first colour

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