change graph code

notebooks/example.ipynb

@@ -746,7 +746,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.10.11"
+   "version": "3.10.12"
   }
  },
  "nbformat": 4,

notebooks/memory_profiling.ipynb

@@ -445,7 +445,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.10.11"
+   "version": "3.10.12"
   }
  },
  "nbformat": 4,

pyscal_rdf/graph.py

@@ -882,7 +882,11 @@ def query(self, inquery):
         """
         res = self.graph.query(inquery)
         if res is not None:
-            return pd.DataFrame(res)
+            for line in inquery.split('\n'):
+                if 'SELECT DISTINCT' in line:
+                    break
+            labels = [x[1:] for x in line.split()[2:]]
+            return pd.DataFrame(res, columns=labels)
         raise ValueError("SPARQL query returned None")
 
 

pyscal_rdf/network/network.py

@@ -15,12 +15,12 @@ class OntologyNetwork:
     """
     Network representation of Onto
     """
-    def __init__(self, infile=None):
+    def __init__(self, infile=None, delimiter='/'):
         if infile is None:
             infile = owlfile
 
         self.g = nx.DiGraph()
-        self.onto = OntoParser(infile)
+        self.onto = OntoParser(infile, delimiter=delimiter)
         self.data_prefix = 'value'
         self._parse_all()
 

pyscal_rdf/network/parser.py

@@ -10,6 +10,8 @@ class OntoParser:
     def __init__(self, infile, delimiter='/'):
         if os.path.exists(infile):
             self.tree = get_ontology(f'file://{infile}').load()
+        elif infile[:4] == 'http':
+            self.tree = get_ontology(infile)
         else:
             raise FileNotFoundError(f'file {infile} not found!')
         self.attributes = {}
@@ -131,10 +133,12 @@ def _parse_object_property(self):
             self.attributes['object_property'][term.name] = term
             for d in dm:
                 if d!='07:owl#Thing':
-                    self.attributes['class'][d].is_range_of.append(term.name)
+                    if d in self.attributes['class']:
+                        self.attributes['class'][d].is_range_of.append(term.name)
             for r in rn:
                 if r!='07:owl#Thing':
-                    self.attributes['class'][d].is_domain_of.append(term.name)
+                    if d in self.attributes['class']:
+                        self.attributes['class'][d].is_domain_of.append(term.name)
 
     def _parse_class_basic(self):
         classes = []