X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitmatrix.cpp;h=1f23ec3aa48202d6516208d643c09b6928da6f47;hb=cdf9083dc32543cc640e72e9ca3aee0323cbad45;hp=ec71e5bfd0090b1172d50403a6b54903a030c3f4;hpb=cbb336d5650cfe1f83a398a837794dcfbbbd3756;p=mothur.git

diff --git a/splitmatrix.cpp b/splitmatrix.cpp
index ec71e5b..1f23ec3 100644
--- a/splitmatrix.cpp
+++ b/splitmatrix.cpp
@@ -10,6 +10,7 @@
 #include "splitmatrix.h"
 #include "phylotree.h"
 #include "distancecommand.h"
+#include "seqsummarycommand.h"
 
 /***********************************************************************/
 
@@ -182,9 +183,10 @@ int SplitMatrix::createDistanceFilesFromTax(map<string, int>& seqGroup, int numG
 		//process each distance file
 		for (int i = 0; i < numGroups; i++) { 
 			
-			string options = "fasta=" + (fastafile + "." + toString(i) + ".temp") + ", processors=" + toString(1) + ", cutoff=" + toString(distCutoff);
+			string options = "fasta=" + (fastafile + "." + toString(i) + ".temp") + ", processors=" + toString(processors) + ", cutoff=" + toString(distCutoff);
 			
 			Command* command = new DistanceCommand(options);
+			
 			command->execute();
 			delete command;
 			
@@ -193,7 +195,7 @@ int SplitMatrix::createDistanceFilesFromTax(map<string, int>& seqGroup, int numG
 			//remove old names files just in case
 			remove((namefile + "." + toString(i) + ".temp").c_str());
 		}
-		
+			
 		singleton = namefile + ".extra.temp";
 		ofstream remainingNames;
 		m->openOutputFile(singleton, remainingNames);