refactored writing of feature locations in a seaprate method
Added dicty specific Featurewriter to handle the incorrect coordinate
command line option for fixing dictyBase specific incorrect coordinates in EST alignment
loads dictyBase specific alignment class only when the option is provided
use the refactored method to get the coordinates
Added setup_subfeature_location method to separate coordinate logic for feature and
subfeature
Now subfeatures uses a separate method for setting up coordinates