added read.shared, broke up globaldata a bit

[mothur.git] / readsharedcommand.cpp

diff --git a/readsharedcommand.cpp b/readsharedcommand.cpp
new file mode 100644 (file)
index 0000000..0035156
--- /dev/null
+++ b/readsharedcommand.cpp
@@ -0,0 +1,52 @@
+/*
+ *  readsharedcommand.cpp
+ *  Mothur
+ *
+ *  Created by Sarah Westcott on 2/12/09.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include "readsharedcommand.h"
+
+//**********************************************************************************************************************
+ReadSharedCommand::ReadSharedCommand(){
+       try {
+               globaldata = GlobalData::getInstance();
+               filename = globaldata->inputFileName;
+               read = new ReadPhilFile(filename);
+       }
+       catch(exception& e) {
+               cout << "Standard Error: " << e.what() << " has occurred in the ReadSharedCommand class Function ReadSharedCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+       catch(...) {
+               cout << "An unknown error has occurred in the ReadSharedCommand class function ReadSharedCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+}
+
+//**********************************************************************************************************************
+
+ReadSharedCommand::~ReadSharedCommand(){
+       delete read;
+}
+
+//**********************************************************************************************************************
+
+int ReadSharedCommand::execute(){
+       try {
+               read->read(&*globaldata); 
+       
+               return 0;
+       }
+       catch(exception& e) {
+               cout << "Standard Error: " << e.what() << " has occurred in the ReadSharedCommand class Function execute. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+       catch(...) {
+               cout << "An unknown error has occurred in the ReadSharedCommand class function execute. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+}
+//**********************************************************************************************************************
\ No newline at end of file