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#include "SummaryPrinter.hpp"
void SummaryOutput::Print(
AlignmentCandidate<DNASequence,FASTQSequence> &alignment,
std::ostream &outFile) {
int lastBlock = alignment.blocks.size()-1;
outFile << alignment.qName << " "
<< alignment.tName << " "
<< alignment.qStrand << " "
<< alignment.tStrand << " "
<< alignment.score << " "
<< alignment.pctSimilarity << " "
<< alignment.tAlignedSeqPos + alignment.blocks[0].tPos << " "
<< alignment.tAlignedSeqPos + alignment.blocks[lastBlock].tPos + alignment.blocks[lastBlock].length << " "
<< alignment.tLength << " "
<< alignment.qAlignedSeqPos + alignment.blocks[0].qPos << " "
<< alignment.qAlignedSeqPos + alignment.blocks[lastBlock].qPos + alignment.blocks[lastBlock].length << " "
<< alignment.qLength << " " << alignment.nCells << std::endl;
}
void SummaryOutput::PrintHeader(std::ostream &out) {
out << "qName tName qStrand tStrand score percentSimilarity tStart tEnd tLength qStart qEnd qLength nCells"
<< std::endl;
}
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