Method readMateFile

src/SNPinGenome.cpp:185–188

}

void SNPinGenome::readMateFile(std::string const& mateFile, std::string const& inputFormat, int minimalTotalLetterCountPerPosition, int minimalQualityPerPosition) {
  assignValues(mateFile, inputFormat, minimalTotalLetterCountPerPosition,minimalQualityPerPosition);
  pileup_read = true;
}

void SNPinGenome::readMateFile(std::string const& mateFile, std::string const& inputFormat, int minimalTotalLetterCountPerPosition, int minimalQualityPerPosition, GenomeCopyNumber& genomeCopyNumber, std::string const& chrLenFileName, int windowSize, int step,  std::string targetBed) {
  // must perform partly GenomeCopyNumber::readCopyNumber line #114, all but fillMyHash