- string candidateFileName, templateFileName, distanceFileName, search, align;
- float match, misMatch, gapOpen, gapExtend;
+ #ifdef USE_MPI
+ int driverMPI(int, int, MPI_File&, MPI_File&, MPI_File&, MPI_File&, vector<long>&);
+ #endif
+
+ string candidateFileName, templateFileName, distanceFileName, search, align, outputDir;
+ float match, misMatch, gapOpen, gapExtend, threshold;