Fix sure all paths work on Windows

[gregelin]

File paths need to be checked for working on windows.

For example, in opencontrolfiles, the logging path may assume Unix systems. See around line 110:

# create logger with 'opencontrolfiles'
logger = logging.getLogger('opencontrolfiles')
logger.setLevel(logging.DEBUG)
# create file handler which logs even debug messages
# TODO - make this work for windows machines
fh = logging.FileHandler("{}/{}".format(os.path.dirname(os.path.realpath(__file__)), "../output/logs/opencontrolfiles.log"))
fh.setLevel(logging.DEBUG)