private:
struct linePair {
- unsigned long int start;
- unsigned long int end;
- linePair(unsigned long int i, unsigned long int j) : start(i), end(j) {}
+ unsigned long long start;
+ unsigned long long end;
+ linePair(unsigned long long i, unsigned long long j) : start(i), end(j) {}
};
vector<int> processIDS; //processid
vector<linePair*> lines;
void appendReportFiles(string, string);
#ifdef USE_MPI
- int driverMPI(int, int, MPI_File&, MPI_File&, MPI_File&, MPI_File&, vector<unsigned long int>&);
+ int driverMPI(int, int, MPI_File&, MPI_File&, MPI_File&, MPI_File&, vector<unsigned long long>&);
#endif
string candidateFileName, templateFileName, distanceFileName, search, align, outputDir;
string align;
string search;
bool flip;
- unsigned long int start;
- unsigned long int end;
+ unsigned long long start;
+ unsigned long long end;
MothurOut* m;
//AlignmentDB* templateDB;
float match, misMatch, gapOpen, gapExtend, threshold;
int count, kmerSize, threadID;
alignData(){}
- alignData(string a, string r, string ac, string f, string al, string se, int ks, MothurOut* mout, unsigned long int st, unsigned long int en, bool fl, float ma, float misMa, float gapO, float gapE, float thr, int tid) {
+ alignData(string a, string r, string ac, string f, string al, string se, int ks, MothurOut* mout, unsigned long long st, unsigned long long en, bool fl, float ma, float misMa, float gapO, float gapE, float thr, int tid) {
alignFName = a;
reportFName = r;
accnosFName = ac;