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#include <pbdata/loadpulses/MovieAlnIndexLookupTable.hpp>
MovieAlnIndexLookupTable::MovieAlnIndexLookupTable()
{
skip = true;
//skip this alignment unless we can find all the information
}
void MovieAlnIndexLookupTable::SetValue(const bool& skipP, const size_t& movieAlignmentIndexP,
const UInt& alignmentIndexP, const size_t& refGroupIndexP,
const size_t& readGroupIndexP, const UInt& holeNumberP,
const UInt& offsetBeginP, const UInt& offsetEndP,
const UInt& queryStartP, const UInt& queryEndP,
const size_t& readIndexP, const size_t& readStartP,
const int& readLengthP, const size_t& plsReadIndexP)
{
skip = skipP;
movieAlignmentIndex = movieAlignmentIndexP;
alignmentIndex = alignmentIndexP;
refGroupIndex = refGroupIndexP;
readGroupIndex = readGroupIndexP;
holeNumber = holeNumberP;
offsetBegin = offsetBeginP;
offsetEnd = offsetEndP;
queryStart = queryStartP;
queryEnd = queryEndP;
readIndex = readIndexP;
readStart = readStartP;
readLength = readLengthP;
plsReadIndex = plsReadIndexP;
}
void MovieAlnIndexLookupTable::print()
{
// Print this lookup table for debugging .
if (skip)
std::cout << "skip = True, ";
else
std::cout << "skip = False, ";
std::cout << "movieAlnIndex = " << alignmentIndex << ", refGroupIndex = " << refGroupIndex
<< ", readGroupIndex = " << readGroupIndex << ", holeNumber = " << holeNumber
<< ", offsetBegin = " << offsetBegin << ", offsetEnd = " << offsetEnd
<< ", queryStart = " << queryStart << ", queryEnd = " << queryEnd
<< ", readIndex = " << readIndex << ", readStart = " << readStart
<< ", readLength = " << readLength << ", plsReadIndex = " << plsReadIndex
<< std::endl;
}
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