X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=chimeraperseuscommand.cpp;h=7ae5d69141979736bcb2b6fcfb25e1ba4682086d;hb=ea4f373c28543cd1002b0dd7dc6e55c526647d59;hp=0955f2dc662dc903c49b34d1fe70103ef8a2b5b0;hpb=c7e8c2d15bd7cedcfdf18675cb0ea1a0dcd0e3c0;p=mothur.git

diff --git a/chimeraperseuscommand.cpp b/chimeraperseuscommand.cpp
index 0955f2d..7ae5d69 100644
--- a/chimeraperseuscommand.cpp
+++ b/chimeraperseuscommand.cpp
@@ -16,8 +16,8 @@
 vector<string> ChimeraPerseusCommand::setParameters(){	
 	try {
 		CommandParameter pfasta("fasta", "InputTypes", "", "", "none", "none", "none",false,true); parameters.push_back(pfasta);
-		CommandParameter pname("name", "InputTypes", "", "", "NameCount", "none", "none",false,false); parameters.push_back(pname);
-        CommandParameter pcount("count", "InputTypes", "", "", "NameCount-CountGroup", "none", "none",false,false); parameters.push_back(pcount);
+		CommandParameter pname("name", "InputTypes", "", "", "NameCount", "NameCount", "none",false,false); parameters.push_back(pname);
+        CommandParameter pcount("count", "InputTypes", "", "", "NameCount-CountGroup", "NameCount", "none",false,false); parameters.push_back(pcount);
 		CommandParameter pgroup("group", "InputTypes", "", "", "CountGroup", "none", "none",false,false); parameters.push_back(pgroup);
 		CommandParameter pprocessors("processors", "Number", "", "1", "", "", "",false,false); parameters.push_back(pprocessors);
 		CommandParameter pinputdir("inputdir", "String", "", "", "", "", "",false,false); parameters.push_back(pinputdir);
@@ -295,7 +295,7 @@ ChimeraPerseusCommand::ChimeraPerseusCommand(string option)  {
 					bool ignore = false;
 					if (countfileNames[i] == "current") { 
 						countfileNames[i] = m->getCountTableFile(); 
-						if (nameFileNames[i] != "") {  m->mothurOut("Using " + countfileNames[i] + " as input file for the count parameter where you had given current."); m->mothurOutEndLine(); }
+						if (countfileNames[i] != "") {  m->mothurOut("Using " + countfileNames[i] + " as input file for the count parameter where you had given current."); m->mothurOutEndLine(); }
 						else { 	
 							m->mothurOut("You have no current count file, ignoring current."); m->mothurOutEndLine(); ignore=true; 
 							//erase from file list