fixing quick and super start options

Former-commit-id: f9b708c980c22a69d8d278b18746fa6e4dc0926f [formerly d723b2b2a56250e28389f51e00aa7b1cf3fec4e4]
Former-commit-id: b8187f101c13fe2852638cf69cf188fd52031b63

drugstone/backend_tasks.py

 import json
+import traceback
 from datetime import datetime
 
 import redis
@@ -69,9 +70,10 @@ def run_task(token, algorithm, parameters):
         elif algorithm in ['quick', 'super']:
             from tasks.quick_task import quick_task
             quick_task(task_hook)
-    except Exception as e:
-        r.set(f'{token}_status', f'{e}')
+    except Exception as ex:
+        r.set(f'{token}_status', f'{ex}')
         r.set(f'{token}_failed', '1')
+        print(''.join(traceback.format_exception(etype=type(ex), value=ex, tb=ex.__traceback__)))
 
 
 def refresh_from_redis(task):

scripts/docker-entrypoint.sh

@@ -4,7 +4,7 @@ python3 manage.py makemigrations drugstone
 python3 manage.py migrate
 python3 manage.py createfixtures
 python3 manage.py cleanuptasks
-#python3 manage.py populate_db --update -a
+python3 manage.py populate_db --update -a
 #python3 manage.py make_graphs
 
 /usr/bin/supervisord -c "/etc/supervisor/conf.d/supervisord.conf"

tasks/quick_task.py

@@ -31,6 +31,25 @@ def quick_task(task_hook: TaskHook):
         # Run closeness centrality
         closeness_centrality(closeness_task_hook)
 
+    def run_trust_rank(parameters, seeds):
+        from .trust_rank import trust_rank
+
+        def progress(progress, status):
+            task_hook.set_progress(2 / 3 + 1 / 3 * progress, status)
+
+        def set_result(result):
+            task_hook.set_results(result)
+
+        parameters.update({
+            "seeds": seeds,
+            "result_size": 20,
+            "include_non_approved_drugs": True,
+            "include_indirect_drugs": False,
+        })
+
+        tr_task_hook = TaskHook(parameters, task_hook.data_directory, progress, set_result)
+        trust_rank(tr_task_hook)
+
     def run_multi_steiner(parameters):
         from .multi_steiner import multi_steiner
 
@@ -47,14 +66,8 @@ def quick_task(task_hook: TaskHook):
             if len(seeds) == 0:
                 task_hook.set_results({"network": {"nodes": [], "edges": []}})
                 return
-            closeness_parameters = {
-                "seeds": seeds,
-                "result_size": 10,
-                "hub_penalty": 1,
-                "strain_or_drugs": "drugs",
-                "include_non_approved_drugs": True,
-            }
-            run_closeness(closeness_parameters)
+
+            run_trust_rank(parameters, seeds)
 
         parameters["num_trees"] = 1
         parameters["hub_penalty"] = 1

tasks/util/scores_to_results.py

@@ -86,7 +86,6 @@ def scores_to_results(
         "nodes": [g.vertex_properties[node_name_attribute][node] for node in returned_nodes],
         "edges": [{"from": g.vertex_properties[node_name_attribute][source], "to": g.vertex_properties[node_name_attribute][target]} for source, target in returned_edges],
         }
-    print(subgraph)
 
     # Compute node attributes.
     node_types = {g.vertex_properties[node_name_attribute][node]: g.vertex_properties["type"][node] for node in returned_nodes}