Executing .bat file using fileObj.execute () returing the result by completely deleting the Lines of code in extend script???

Hi guys

i have created a dynamic .bat file created inside java and it copies to a location and run thru fileObj.execute ();

Example

-------------------

var line1="some code";

var line2="some code";

var myCode= line1+line2;

var myFileC=new File

myFileC.open('w');

myFileC.write(myCode);

myFileC.copy("some location\file.bat");

myFileC.close();

//Execute .bat file

var batFile = new File("some location\file.bat); 

batFile.execute();

Now .bat file is successful executed but the contents of that bat file created is showing up in extend script by deleting all my above code..

i have to Undo it to get it back everytime i execute and sometime accidentally i saved it loosing all the code.

can someone help to solve this?