changed read.shared to read.list and incorporated the shared and parselist commands...

[mothur.git] / readsabundfilecommand.cpp

diff --git a/readsabundfilecommand.cpp b/readsabundfilecommand.cpp
deleted file mode 100644 (file)
index 443b79e..0000000
--- a/readsabundfilecommand.cpp
+++ /dev/null
@@ -1,51 +0,0 @@
-/*
- *  readsabundfilecommand.cpp
- *  Dotur
- *
- *  Created by Sarah Westcott on 1/2/09.
- *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
- *
- */
-
-#include "readsabundfilecommand.h"
-
-//**********************************************************************************************************************
-ReadSAbundFileCommand::ReadSAbundFileCommand(){
-       try {
-               globaldata = GlobalData::getInstance();
-               filename = globaldata->inputFileName;   
-               read = new ReadPhilFile(filename);
-       }
-       catch(exception& e) {
-               cout << "Standard Error: " << e.what() << " has occurred in the ReadSAbundFileCommand class Function ReadSAbundFileCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-               exit(1);
-       }
-       catch(...) {
-               cout << "An unknown error has occurred in the ReadSAbundFileCommand class function ReadSAbundFileCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-               exit(1);
-       }
-}
-
-//**********************************************************************************************************************
-
-ReadSAbundFileCommand::~ReadSAbundFileCommand(){
-       delete read;
-}
-
-//**********************************************************************************************************************
-
-int ReadSAbundFileCommand::execute(){
-       try {
-               read->read(&*globaldata); 
-               return 0;
-       }
-       catch(exception& e) {
-               cout << "Standard Error: " << e.what() << " has occurred in the ReadSAbundFileCommand class Function execute. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-               exit(1);
-       }
-       catch(...) {
-               cout << "An unknown error has occurred in the ReadSAbundFileCommand class function execute. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-               exit(1);
-       }
-}
-//**********************************************************************************************************************