some bug fixes

[mothur.git] / chimeraslayercommand.cpp

diff --git a/chimeraslayercommand.cpp b/chimeraslayercommand.cpp
index 89d89e38447e620dbdc12ec8aa33da955c40c012..321883be75a2a165bfc61e3e34a97c7de95e37cb 100644 (file)
--- a/chimeraslayercommand.cpp
+++ b/chimeraslayercommand.cpp
@@ -29,7 +29,7 @@ ChimeraSlayerCommand::ChimeraSlayerCommand(string option)  {
                        OptionParser parser(option);
                        map<string,string> parameters = parser.getParameters();
                        
-                       ValidParameters validParameter;
+                       ValidParameters validParameter("chimera.slayer");
                        map<string,string>::iterator it;
                        
                        //check to make sure all parameters are valid for command
@@ -253,7 +253,7 @@ int ChimeraSlayerCommand::execute(){
                #ifdef USE_MPI  
                        int pid, end, numSeqsPerProcessor; 
                                int tag = 2001;
-                               vector<long> MPIPos;
+                               vector<unsigned long int> MPIPos;
                                
                                MPI_Status status; 
                                MPI_Comm_rank(MPI_COMM_WORLD, &pid); //find out who we are
@@ -529,7 +529,7 @@ int ChimeraSlayerCommand::driver(linePair* line, string outputFName, string file
 }
 //**********************************************************************************************************************
 #ifdef USE_MPI
-int ChimeraSlayerCommand::driverMPI(int start, int num, MPI_File& inMPI, MPI_File& outMPI, MPI_File& outAccMPI, vector<long>& MPIPos){
+int ChimeraSlayerCommand::driverMPI(int start, int num, MPI_File& inMPI, MPI_File& outMPI, MPI_File& outAccMPI, vector<unsigned long int>& MPIPos){
        try {                           
                MPI_Status status; 
                int pid;