int driverMPI(int, int, MPI_File&, MPI_File&, MPI_File&, vector<long>&);
#endif
- bool abort, filter, MPIWroteAccnos;
- string fastafile, templatefile, consfile, quanfile, maskfile, outputDir;
+ bool abort, filter;
+ string fastafile, templatefile, consfile, quanfile, maskfile, outputDir, inputDir;
int processors, window, increment, numSeqs, templateSeqsLength;
Chimera* chimera;
+ vector<string> outputNames;
+ vector<string> fastaFileNames;
};