Mac Java app runs as .jar but fails to properly run when bundled as .app

Question

I wrote a file copy program for my Mac using Java. When I export a runnable .jar from Eclipse everything works great. So I bundle it up as a .app and I run the app. Everything looks fine, the GUI loads, but when I tell it to copy the exact same files from the same location as earlier, it just sits there. No files are copied, but it doesn't show as unresponsive.

My source files I am trying to copy to a new folder in my desktop are under /Library/Application Support/My Files.

Since the system see's my Java application as a .app and not .jar do I need to request admin priveledges from the user?

When I run my app from Terminal using the sudo command it outputs a bunch of data.

MUS9155A271AL:~ sesa251707$ sudo /Users/sesa251707/Desktop/Notes\ Cloner\ Mac.app/Contents/MacOS/JavaApplicationStub 
Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError: org/apache/commons/io/FileUtils
    at Notes_Cloner$2.actionPerformed(Notes_Cloner.java:181)
    at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2028)
    at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2351)
    at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
    at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
    at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236)
    at java.awt.Component.processMouseEvent(Component.java:6414)
    at javax.swing.JComponent.processMouseEvent(JComponent.java:3275)
    at java.awt.Component.processEvent(Component.java:6179)
    at java.awt.Container.processEvent(Container.java:2084)
    at java.awt.Component.dispatchEventImpl(Component.java:4776)
    at java.awt.Container.dispatchEventImpl(Container.java:2142)
    at java.awt.Component.dispatchEvent(Component.java:4604)
    at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4618)
    at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4279)
    at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4209)
    at java.awt.Container.dispatchEventImpl(Container.java:2128)
    at java.awt.Window.dispatchEventImpl(Window.java:2492)
    at java.awt.Component.dispatchEvent(Component.java:4604)
    at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:717)
    at java.awt.EventQueue.access$400(EventQueue.java:82)
    at java.awt.EventQueue$2.run(EventQueue.java:676)
    at java.awt.EventQueue$2.run(EventQueue.java:674)
    at java.security.AccessController.doPrivileged(Native Method)
    at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:86)
    at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:97)
    at java.awt.EventQueue$3.run(EventQueue.java:690)
    at java.awt.EventQueue$3.run(EventQueue.java:688)
    at java.security.AccessController.doPrivileged(Native Method)
    at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:86)
    at java.awt.EventQueue.dispatchEvent(EventQueue.java:687)
    at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296)
    at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211)
    at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201)
    at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196)
    at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188)
    at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.io.FileUtils
    at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
    at java.security.AccessController.doPrivileged(Native Method)
    at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:306)
    at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:247)
    ... 37 more

Answer 1

Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError: org/apache/commons/io/FileUtils

I don't know how Mac Apps are created from Jar files but the error message shows that org/apache/commons/io/FileUtils is not in classpath. Is there a way to specify additional jars in classpath in the process to "bundle it up as an app"?