Integrated ssides's changes to isismake.apps and updated isismake.objs to get...

Integrated ssides's changes to isismake.apps and updated isismake.objs to get Squish Coco working for developers. There are few remaining issues, but this should not impact developers' abilities to examine code coverage. References #2402.

git-svn-id: http://subversion.wr.usgs.gov/repos/prog/isis3/branches/ipce@7172 41f8697f-d340-4b68-9986-7bafba869bb8