#include <fstream>
/*******************************************************************************/
-ReadNexus::ReadNexus(string file) {
+ReadNexus::ReadNexus(string file) : ReadSeqs(file) {
try {
- openInputFile(file, filehandle);
- nexusFile = file;
- globaldata = GlobalData::getInstance();
}
catch(exception& e) {
cout << "Standard Error: " << e.what() << " has occurred in the ReadTree class Function ReadTree. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
sequencedb.add(newSeq);
}
else
- sequencedb.set(count, sequencedb.get(count).getAligned() + sequence);
+ sequencedb.set(count, sequencedb.get(count).getUnaligned() + sequence);
count++;
if(count == numSeqs) {