X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=filterseqscommand.cpp;h=7ab00a7822f7a7fc7ddd1ef0de00d2d24b8c51de;hb=9013e13ecfb2fda3c2664a76f76cc99b8c7fa74c;hp=3784c3deab49a0c4302101372247f48f5ec3e89b;hpb=80c3fe03a8fd1635d3ad7918ff00beb973449f50;p=mothur.git

diff --git a/filterseqscommand.cpp b/filterseqscommand.cpp
index 3784c3d..7ab00a7 100644
--- a/filterseqscommand.cpp
+++ b/filterseqscommand.cpp
@@ -28,7 +28,7 @@ FilterSeqsCommand::FilterSeqsCommand(string option)  {
 			OptionParser parser(option);
 			map<string,string> parameters = parser.getParameters();
 			
-			ValidParameters validParameter;
+			ValidParameters validParameter("filter.seqs");
 			map<string,string>::iterator it;
 			
 			//check to make sure all parameters are valid for command
@@ -258,12 +258,12 @@ int FilterSeqsCommand::filterSequences() {
 #ifdef USE_MPI	
 				int pid, start, end, numSeqsPerProcessor, num; 
 				int tag = 2001;
-				vector<long>MPIPos;
+				vector<unsigned long int>MPIPos;
 						
 				MPI_Status status; 
 				MPI_Comm_size(MPI_COMM_WORLD, &processors); //set processors to the number of mpi processes running
 				MPI_Comm_rank(MPI_COMM_WORLD, &pid); //find out who we are
-				
+	cout << pid << "is in create filter " << endl;			
 				MPI_File outMPI;
 				MPI_File tempMPI;
 				MPI_File inMPI;
@@ -393,7 +393,7 @@ int FilterSeqsCommand::filterSequences() {
 }
 #ifdef USE_MPI
 /**************************************************************************************/
-int FilterSeqsCommand::driverMPIRun(int start, int num, MPI_File& inMPI, MPI_File& outMPI, vector<long>& MPIPos) {	
+int FilterSeqsCommand::driverMPIRun(int start, int num, MPI_File& inMPI, MPI_File& outMPI, vector<unsigned long int>& MPIPos) {	
 	try {
 		string outputString = "";
 		int count = 0;
@@ -569,7 +569,7 @@ string FilterSeqsCommand::createFilter() {
 #ifdef USE_MPI	
 				int pid, numSeqsPerProcessor, num; 
 				int tag = 2001;
-				vector<long> MPIPos;
+				vector<unsigned long int> MPIPos;
 				
 				MPI_Status status; 
 				MPI_File inMPI; 
@@ -797,7 +797,7 @@ int FilterSeqsCommand::driverCreateFilter(Filters& F, string filename, linePair*
 }
 #ifdef USE_MPI
 /**************************************************************************************/
-int FilterSeqsCommand::MPICreateFilter(int start, int num, Filters& F, MPI_File& inMPI, vector<long>& MPIPos) {	
+int FilterSeqsCommand::MPICreateFilter(int start, int num, Filters& F, MPI_File& inMPI, vector<unsigned long int>& MPIPos) {	
 	try {
 		
 		MPI_Status status;