edit docs

README.md

@@ -84,14 +84,24 @@ parameters to include inferred axiom generators:
 
 ### Validate OWL2 profiles
 
-Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full). The ontology is annotated in the output graph. 
+Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full) and annotate the result graph. 
 
 ### Process valid OWL profiles from input
 
-If enabled along with the "Validate OWL2 profiles" parameter, the ontology IRI and list of valid profiles is taken from the config port input, 
-without validating the ontology against the profiles in the plugin. If the "Validate OWL2 profiles" parameter is enabled in the "Validate" plugin, it can be directly connected to the input
-of the "Reason" plugin.
+If enabled along with the "Validate OWL2 profiles" parameter, the valid profiles and ontology IRI is taken from the
+config port input (parameters "valid_profiles" and "ontology_graph_iri") instead of from running the validation in the 
+plugin. The valid profiles input is a comma-separated string (e.g. "Full,DL").the ontology IRI and list of valid
+profiles is taken from the config port input, without validating the ontology against the profiles in the plugin. If the
+"Validate OWL2 profiles" parameter is enabled in the "Validate" plugin, it can be directly connected to the input of the
+"Reason" plugin.
 
+### Add ontology graph import to result graph
+
+Add the triple `<output_graph_iri> owl:imports <ontology_graph_iri>` to the output graph.
+
+### Add result graph import to ontology graph
+
+Add the triple `<ontology_graph_iri> owl:imports <output_graph_iri>` to the ontology graph
 
 ### Maximum RAM Percentage
 
@@ -146,9 +156,12 @@ Raise an error if inconsistencies are found. If enabled, the plugin does not out
 
 ### Validate OWL2 profiles
 
-Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full). The valid profiles are added to the output 
-Markdown file and the ontology is annotated in the output graph. The plugin outputs the profiles with path "profile",
-and the ontology IRI with path "ontology".
+Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full) and annotate the result graph.
+
+### Output entities
+
+Output entities. The plugin outputs the explanation as text in Markdown format on the path "markdown", the ontology IRI
+on the path "ontology_graph_iri", and, if enabled, the valid OWL2 profiles on the path "valid_profiles
 
 ### Maximum RAM Percentage
 

cmem_plugin_reason/plugin_reason.py

@@ -174,10 +174,10 @@
             param_type=BoolParameterType(),
             name="input_profiles",
             label="Process valid OWL profiles from input",
-            description="""If the "validate OWL profiles" parameter is enabled, the valid profiles
-            and ontology IRI is taken from the config port input (parameters "valid_profiles" and
-            "ontology_graph_iri") instead of from running the validation in the plugin. The valid
-            profiles input is a comma-separated string (e.g. "Full,DL").""",
+            description="""If enabled along with the "Validate OWL2 profiles" parameter, the valid
+            profiles and ontology IRI is taken from the config port input (parameters
+            "valid_profiles" and "ontology_graph_iri") instead of from running the validation in the
+            plugin. The valid profiles input is a comma-separated string (e.g. "Full,DL").""",
             default_value=False,
             advanced=True,
         ),
@@ -316,7 +316,7 @@ def get_graphs(self, graphs: dict, context: ExecutionContext) -> None:
                         file.write(line + "\n")
                     if iri == self.data_graph_iri:
                         file.write(
-                            f"\n<{iri}> "
+                            f"<{iri}> "
                             f"<http://www.w3.org/2002/07/owl#imports> <{self.ontology_graph_iri}> ."
                         )
 
@@ -368,7 +368,7 @@ def add_result_import(self) -> None:
         post(query=query)
 
     def remove_ontology_import(self) -> None:
-        """Add result graph import to ontology graph"""
+        """remove ontology graph import from output graph"""
         query = f"""
             DELETE DATA {{
                 GRAPH <{self.output_graph_iri}> {{

cmem_plugin_reason/reason_doc.md

@@ -56,17 +56,27 @@ parameters to include inferred axiom generators:
 
 ### Validate OWL2 profiles
 
-Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full). The ontology is annotated in the output graph. 
+Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full) and annotate the result graph. 
 
 ### Process valid OWL profiles from input
 
-If enabled along with the "Validate OWL2 profiles" parameter, the ontology IRI and list of valid profiles is taken from the config port input, 
-without validating the ontology against the profiles in the plugin. If the "Validate OWL2 profiles" parameter is enabled in the "Validate" plugin, it can be directly connected to the input
-of the "Reason" plugin.
+If enabled along with the "Validate OWL2 profiles" parameter, the valid profiles and ontology IRI is taken from the
+config port input (parameters "valid_profiles" and "ontology_graph_iri") instead of from running the validation in the 
+plugin. The valid profiles input is a comma-separated string (e.g. "Full,DL").the ontology IRI and list of valid
+profiles is taken from the config port input, without validating the ontology against the profiles in the plugin. If the
+"Validate OWL2 profiles" parameter is enabled in the "Validate" plugin, it can be directly connected to the input of the
+"Reason" plugin.
 
+### Add ontology graph import to result graph
+
+Add the triple `<output_graph_iri> owl:imports <ontology_graph_iri>` to the output graph.
+
+### Add result graph import to ontology graph
+
+Add the triple `<ontology_graph_iri> owl:imports <output_graph_iri>` to the ontology graph
 
 ### Maximum RAM Percentage
 
 Maximum heap size for the Java virtual machine in the DI container running the reasoning process.
 
-⚠️ Setting the percentage too high may result in an out of memory error.
+:warning: Setting the percentage too high may result in an out of memory error.

cmem_plugin_reason/validate_doc.md

@@ -43,12 +43,15 @@ Raise an error if inconsistencies are found. If enabled, the plugin does not out
 
 ### Validate OWL2 profiles
 
-Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full). The valid profiles are added to the output 
-Markdown file and the ontology is annotated in the output graph. The plugin outputs the profiles with path "valid_profiles",
-and the ontology IRI with path "ontology_graph_iri".
+Validate the input ontology against OWL profiles (DL, EL, QL, RL, and Full) and annotate the result graph.
+
+### Output entities
+
+Output entities. The plugin outputs the explanation as text in Markdown format on the path "markdown", the ontology IRI
+on the path "ontology_graph_iri", and, if enabled, the valid OWL2 profiles on the path "valid_profiles
 
 ### Maximum RAM Percentage
 
 Maximum heap size for the Java virtual machine in the DI container running the reasoning process.
 
-⚠️ Setting the percentage too high may result in an out of memory error.
+:warning: Setting the percentage too high may result in an out of memory error.