X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitabundcommand.cpp;h=8131fa9195f6b8d939b27891605dd862d618964b;hb=e0ce7cbc93d7d2fbb753ca694182db092a0ea0e7;hp=29ffdb44c16862994993566583393c0de9f6644a;hpb=19fcbbdba99658f5eca244803280f9ee7f9f6607;p=mothur.git

diff --git a/splitabundcommand.cpp b/splitabundcommand.cpp
index 29ffdb4..8131fa9 100644
--- a/splitabundcommand.cpp
+++ b/splitabundcommand.cpp
@@ -181,7 +181,7 @@ SplitAbundCommand::SplitAbundCommand(string option)  {
 			groups = validParameter.validFile(parameters, "groups", false);		
 			if (groups == "not found") { groups = ""; }
 			else if (groups == "all") { 
-				if (groupfile != "") {  Groups = groupMap->namesOfGroups;  } 
+				if (groupfile != "") {  Groups = groupMap->getNamesOfGroups();  } 
 				else {  m->mothurOut("You cannot select groups without a valid groupfile, I will disregard your groups selection. "); m->mothurOutEndLine(); groups = "";   }
 			}else { 
 				m->splitAtDash(groups, Groups);
@@ -213,10 +213,9 @@ SplitAbundCommand::SplitAbundCommand(string option)  {
 			accnos = m->isTrue(temp); 
 			
 			temp = validParameter.validFile(parameters, "cutoff", false);				if (temp == "not found") { temp = "0"; }
-			convert(temp, cutoff); 
+			m->mothurConvert(temp, cutoff); 
 
 			if (cutoff == 0) {  m->mothurOut("You must provide a cutoff to qualify what is abundant for the split.abund command. "); m->mothurOutEndLine(); abort = true;  }
-
 		}
 
 	}