Cleanup (#52)

Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#52

epdb/models.py

@@ -944,7 +944,7 @@ class SimpleAmbitRule(SimpleRule):
 
     @property
     def as_svg(self):
-        return IndigoUtils.smirks_to_svg(self.smirks, True)
+        return IndigoUtils.smirks_to_svg(self.smirks, True, width=800, height=400)
 
 
 class SimpleRDKitRule(SimpleRule):
@@ -1203,6 +1203,12 @@ class Pathway(EnviPathModel, AliasMixin, ScenarioMixin):
         for n in self.root_nodes:
             queue.append(n)
 
+        # Add unconnected nodes
+        for n in self.nodes:
+            if len(n.out_edges.all()) == 0:
+                if n not in queue:
+                    queue.append(n)
+
         while len(queue):
             current = queue.pop()
             processed.add(current)
@@ -1341,12 +1347,12 @@ class Pathway(EnviPathModel, AliasMixin, ScenarioMixin):
         pw = Pathway()
         pw.package = package
 
-        if name is None:
+        if name is None or name.strip() == '':
             name = f"Pathway {Pathway.objects.filter(package=package).count() + 1}"
 
         pw.name = name
 
-        if description is not None:
+        if description is not None and description.strip() != '':
             pw.description = description
 
         pw.save()