fixed some bugs

[mothur.git] / readtreecommand.cpp

diff --git a/readtreecommand.cpp b/readtreecommand.cpp
index 88e34ff5c7e3f2c243eb7e0dac56b7d11fcb39b4..d301b1366d5f8965a2c84151940d5773b5d71854 100644 (file)
--- a/readtreecommand.cpp
+++ b/readtreecommand.cpp
@@ -33,14 +33,13 @@ ReadTreeCommand::ReadTreeCommand(string option){
                                if (validParameter.isValidParameter(it->first, myArray, it->second) != true) {  abort = true;  }
                        }
                        
-                       globaldata->runParse = true;
                        globaldata->newRead();
                        
                        //check for required parameters
                        treefile = validParameter.validFile(parameters, "tree", true);
                        if (treefile == "not open") { abort = true; }
                        else if (treefile == "not found") { treefile = ""; cout << "tree is a required parameter for the read.tree command." << endl; abort = true;  }  
-//                     else {  globaldata->setTreeFile(treefile);  globaldata->setFormat("tree");      }
+                       else {  globaldata->setTreeFile(treefile);  globaldata->setFormat("tree");      }
                        
                        groupfile = validParameter.validFile(parameters, "group", true);
                        if (groupfile == "not open") { abort = true; }