--- a/BEDTools-Version-2.14.3/src/utils/tabFile/tabFile.cpp	Thu Nov 03 10:25:04 2011 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,99 +0,0 @@
-/*****************************************************************************
-  tabFile.cpp
-
-  (c) 2009 - Aaron Quinlan
-  Hall Laboratory
-  Department of Biochemistry and Molecular Genetics
-  University of Virginia
-  aaronquinlan@gmail.com
-
-  Licensed under the GNU General Public License 2.0 license.
-******************************************************************************/
-#include "lineFileUtilities.h"
-#include "tabFile.h"
-
-/*******************************************
-Class methods
-*******************************************/
-
-// Constructor
-TabFile::TabFile(const string &tabFile)
-: _tabFile(tabFile)
-{}
-
-// Destructor
-TabFile::~TabFile(void) {
-}
-
-
-void TabFile::Open(void) {
-    if (_tabFile == "stdin") {
-        _tabStream = &cin;
-    }
-    else {
-        size_t foundPos;
-        foundPos = _tabFile.find_last_of(".gz");
-        // is this a GZIPPED TAB file?
-        if (foundPos == _tabFile.size() - 1) {
-            igzstream tabs(_tabFile.c_str(), ios::in);
-            if ( !tabs ) {
-                cerr << "Error: The requested file (" << _tabFile << ") could not be opened. Exiting!" << endl;
-                exit (1);
-            }
-            else {
-                // if so, close it (this was just a test)
-                tabs.close();
-                // now set a pointer to the stream so that we
-                // can read the file later on.
-                _tabStream = new igzstream(_tabFile.c_str(), ios::in);
-            }
-        }
-        // not GZIPPED.
-        else {
-
-            ifstream tabs(_tabFile.c_str(), ios::in);
-            // can we open the file?
-            if ( !tabs ) {
-                cerr << "Error: The requested file (" << _tabFile << ") could not be opened. Exiting!" << endl;
-                exit (1);
-            }
-            else {
-                // if so, close it (this was just a test)
-                tabs.close();
-                // now set a pointer to the stream so that we
-                // can read the file later on.
-                _tabStream = new ifstream(_tabFile.c_str(), ios::in);
-            }
-        }
-    }
-}
-
-
-// Close the TAB file
-void TabFile::Close(void) {
-    if (_tabFile != "stdin") delete _tabStream;
-}
-
-
-TabLineStatus TabFile::GetNextTabLine(TAB_FIELDS &tabFields, int &lineNum) {
-
-    // make sure there are still lines to process.
-    // if so, tokenize, return the TAB_FIELDS.
-    if (_tabStream->good() == true) {
-        string tabLine;
-        tabFields.reserve(20);
-
-        // parse the tabStream pointer
-        getline(*_tabStream, tabLine);
-        lineNum++;
-
-        // split into a string vector.
-        Tokenize(tabLine, tabFields);
-
-        // parse the line and validate it
-        return parseTabLine(tabFields, lineNum);
-    }
-
-    // default if file is closed or EOF
-    return TAB_INVALID;
-}