X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=filterseqscommand.h;fp=filterseqscommand.h;h=2f318c0abbb575b6087477344199275b61305706;hb=cb9c5129766d46fa1a266f724c1ebd41047f3a03;hp=3cc007c059c63de5f28eee57ac0afcf78d00dc33;hpb=30f2d98fffb579b870c8969ddcc1dfc61ccbb70a;p=mothur.git

diff --git a/filterseqscommand.h b/filterseqscommand.h
index 3cc007c..2f318c0 100644
--- a/filterseqscommand.h
+++ b/filterseqscommand.h
@@ -30,12 +30,13 @@ private:
 		linePair(long int i, int j) : start(i), numSeqs(j) {}
 	};
 	vector<linePair*> lines;
-
+	vector<int> processIDS;
 
 	string vertical, filter, fasta, hard, outputDir, filterFileName;
 	vector<string> fastafileNames;	
 	int alignmentLength, processors;
 	vector<int> bufferSizes;
+	vector<string> outputNames;
 
 	char trump;
 	bool abort;
@@ -43,8 +44,12 @@ private:
 	int numSeqs;
 	
 	string createFilter();
+	int filterSequences();
 	int createProcessesCreateFilter(Filters&, string);
+	int createProcessesRunFilter(string, string);
 	int driverCreateFilter(Filters&, string, linePair*);
+	int driverRunFilter(string, string, string, linePair*);	
+	int driverMPIRun(istringstream&, MPI_File&);
 	int MPICreateFilter(Filters&, string);	
 	int setLines(string);
 	int parseBuffer(string, vector<string>&);