// get next alignment (with character data fully parsed)
bool BamReaderPrivate::GetNextAlignment(BamAlignment& alignment) {
// if valid alignment found
if ( GetNextAlignmentCore(alignment) ) {
// store alignment's "source" filename
alignment.Filename = m_filename;
// return success/failure of parsing char data
return alignment.BuildCharData();
}
// no valid alignment found
return false;
}
// get next alignment (with character data fully parsed)
bool BamReaderPrivate::GetNextAlignment(BamAlignment& alignment) {
// if valid alignment found
if ( GetNextAlignmentCore(alignment) ) {
// store alignment's "source" filename
alignment.Filename = m_filename;
// return success/failure of parsing char data
if ( alignment.BuildCharData() )
return true;
else {
const string alError = alignment.GetErrorString();
const string message = string("could not populate alignment data: \n\t") + alError;
SetErrorString("BamReader::GetNextAlignment", message);
return false;
}
}
// no valid alignment found
return false;
}
