Resolve issue #36

scripts/hivnetworkannotate

@@ -71,6 +71,8 @@ import_settings = arguments.parse_args()
 
 results_json = json.load (import_settings.network)
 
+root_trace_results = False
+
 if('trace_results' in results_json.keys()):
     root_trace_results = True
 
@@ -197,7 +199,7 @@ if inject_missing_value:
 if import_settings.inplace and import_settings.network is not sys.stdin:
     import_settings.output = open (import_settings.network.name, "w")
 
-if 'Settings' in network_json and 'compact_json' in network_json['Settings']:
+if 'Settings' in network_json and 'compact_json' in network_json['Settings'] and network_json['Settings']['compact_json']:
      ht_compress_network_json (network_json)
 
 # Return with trace_results key

scripts/hivnetworkcsv

@@ -101,7 +101,8 @@ def make_hiv_network():
 
 
         cluster_summary_info = None
-
+        prior_network_subclusters = None
+
         if settings().prior is not None:
             try:
                 existing_nodes      = {} # node ID -> cluster ID