Resolve "Adjust input run.yaml format"

Closes #2 (closed) Updates the run_parser to create new run class / genome class objects. #9 (closed) still not resolved, dummy class was used for testing.

chipathlon/test/run/config.yaml

-notify:
-  pegasus_home: "/usr/share/pegasus/"
-  email: "avi@kurtknecht.com"
-profile:
-  pegasus:
-    style: "glite"
-  condor:
-    grid_resource: "pbs"
-    universe: "vanilla"
-  env:
-    PATH: "/work/walia/common/pymodules/anaconda/bin"
-    PYTHONPATH: "/work/walia/common/pymodules/anaconda/lib/python2.7/site-packages/"