code: def _cfgs_to_read(self):
          
          # use these files to extend/overwrite the conf_values.
          # Last red file always overwrites existing values!
          cfg = Config.DEFAULT_CONFIG_FILE_NAME
          filenames = [
              self.default_config_file,
              cfg,  # conf_values in current directory
              os.path.join(os.path.expanduser('~' + os.path.sep), cfg),  # config in user dir
              '.pyemma.cfg',
          ]
  
          # look for user defined files
          if self.cfg_dir:
              from glob import glob
              filenames.extend(glob(self.cfg_dir + os.path.sep + "*.cfg"))
          return filenames
docs: reads config files from various locations to build final config.