X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=subsamplecommand.cpp;h=a89d191a9127065922c3d498edce5cab41030f27;hp=9e27fae51eca7ef564892e112d8a17d24eba6089;hb=499f4ac6e321f9f03d4c3aa25c3b6880892c8b83;hpb=bcb6728939694811bf6a00ae6d568f783840edfd

diff --git a/subsamplecommand.cpp b/subsamplecommand.cpp
index 9e27fae..a89d191 100644
--- a/subsamplecommand.cpp
+++ b/subsamplecommand.cpp
@@ -273,7 +273,7 @@ SubSampleCommand::SubSampleCommand(string option) {
 			else if (countfile == "not found") { countfile = "";  }	
 			else {
                 m->setCountTableFile(countfile); 
-                ct.readTable(countfile, true);
+                ct.readTable(countfile, true, false);
             }
             
             if ((namefile != "") && (countfile != "")) {
@@ -947,7 +947,7 @@ int SubSampleCommand::processShared(vector<SharedRAbundVector*>& thislookup) {
 	try {
 		
 		//save mothurOut's binLabels to restore for next label
-		vector<string> saveBinLabels = m->currentBinLabels;
+		vector<string> saveBinLabels = m->currentSharedBinLabels;
 		
 		string thisOutputDir = outputDir;
 		if (outputDir == "") {  thisOutputDir += m->hasPath(sharedfile);  }
@@ -965,7 +965,7 @@ int SubSampleCommand::processShared(vector<SharedRAbundVector*>& thislookup) {
 		m->openOutputFile(outputFileName, out);
 		outputTypes["shared"].push_back(outputFileName);  outputNames.push_back(outputFileName);
 		
-        m->currentBinLabels = subsampledLabels;
+        m->currentSharedBinLabels = subsampledLabels;
         
 		thislookup[0]->printHeaders(out);
 		
@@ -977,7 +977,7 @@ int SubSampleCommand::processShared(vector<SharedRAbundVector*>& thislookup) {
         
         
         //save mothurOut's binLabels to restore for next label
-		m->currentBinLabels = saveBinLabels;
+		m->currentSharedBinLabels = saveBinLabels;
 		
 		return 0;