Added ion::reset method to set newly spawned ion counters to 0
Added Ehit, Eout, Eend
Added ion::reset method to set newly spawned ion counters to 0
Added Ehit, Eout, Eend
Updated file output to support new ion energy calculations.
Changed file output to handle new ion energy calculations
Modified to handle new ion energy tracking
Merge remote-tracking branch 'origin/master'