Method checkCoordinatesAgainstChromLength

src/complementFile/complementFile.cpp:63–70

}

void ComplementFile::checkCoordinatesAgainstChromLength(const Record *rec) {
  CHRPOS maxChromSize = _genomeFile->getChromSize(_currChrom);
  if (rec->getStartPos() > maxChromSize || rec->getEndPos() > maxChromSize) {
    cerr << "***** WARNING: " << rec->getChrName() << ":" << rec->getStartPos()
         << "-" << rec->getEndPos() << " exceeds the length of chromosome ("
         << _currChrom << ")" << endl;
  }
}

void ComplementFile::cleanupHits(RecordKeyVector &hits) {
  _frm->deleteMergedRecord(hits);