Refactor InfoBoxComponent to add JournalArticle as a valid type for a…

…dding objects to workspace Refactor ExportWorkspaceHandler to include options for exporting bifurcation analysis code in Julia with specified parameters Refactor handlers.py to simplify construct_metadata function and remove unnecessary code
the-virtual-brain · Sep 30, 2024 · 824992b · 824992b
1 parent df99b53
commit 824992b
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Showing 2 changed files with 15 additions and 5 deletions.
diff --git a/src/components/InfoBox.tsx b/src/components/InfoBox.tsx
@@ -21,7 +21,13 @@ const InfoBoxComponent: React.FC<IInfoBoxProps> = ({
 }) => {
   // Valid types for adding objects to workspace
   // TODO: add valid type for connectivity
-  const validTypes = ['Neural Mass Model', 'Noise', 'Coupling', 'Integrator'];
+  const validTypes = [
+    'Neural Mass Model',
+    'Noise',
+    'Coupling',
+    'Integrator',
+    'JournalArticle'
+  ];
 
   const isAddable = selectedNode && validTypes.includes(selectedNode.type);
 

diff --git a/tvb_ext_ontology/handlers.py b/tvb_ext_ontology/handlers.py
@@ -144,11 +144,17 @@ def post(self):
             if export_type == "py":
                 onto_api.experiment.save_code(directory)
                 LOGGER.info("Saved code")
+
             elif export_type == "jl":
-                onto_api.experiment.save_model_bifurcation_analysis_code(directory)
+                p = list(onto_api.experiment.model.metadata.parameters.values())[0].name
+                onto_api.experiment.save_model_bifurcation_analysis_code(
+                    directory, ICS=p, p_min=-10, p_max=10
+                )  # TODO: remove hardcoding and add option to type in parameters in frontend
+
             elif export_type == "xml":
                 onto_api.experiment.save_model_specification(directory)
                 LOGGER.info("Saved model specification")
+
             elif export_type == "yaml":
                 onto_api.experiment.save_metadata(directory)
                 LOGGER.info("Saved metadata")
@@ -258,9 +264,7 @@ def construct_metadata(nodes_data):
                     "name": custom_get(nodes_data, "parcellation", "DesikanKilliany"),
                 }
             },
-            "tractogram": {
-                "label": custom_get(nodes_data, "tractogram", "dTOR"),
-            },
+            "tractogram": custom_get(nodes_data, "tractogram", "dTOR"),
         },
         "coupling": {
             "name": custom_get(nodes_data, "coupling", "Linear"),