Fix: Fix example

emodel_generalisation/model/evaluation.py

@@ -240,22 +240,23 @@ def _define_morphology(
     Returns:
         bluepyopt.ephys.morphologies.NrnFileMorphology: a morphology object
     """
-    if not morph_modifiers or morph_modifiers is None:
-        morph_modifiers = [modifiers.replace_axon_with_taper]
-        logger.debug("No morphology modifiers provided, replace_axon_with_taper will be used.")
-    else:
-        if isinstance(morph_modifiers, str):
-            morph_modifiers = [morph_modifiers]
-        for i, morph_modifier in enumerate(morph_modifiers):
-            if isinstance(morph_modifier, list):
-                modifier_module = importlib.import_module(morph_modifier[0])
-                morph_modifiers[i] = getattr(modifier_module, morph_modifier[1])
-            elif isinstance(morph_modifier, str):
-                morph_modifiers[i] = getattr(modifiers, morph_modifier)
-            elif not callable(morph_modifier):
-                raise TypeError(
-                    "A morph modifier is not callable nor a string nor a list of two str"
-                )
+    if morph_modifiers != []:
+        if not morph_modifiers or morph_modifiers is None:
+            morph_modifiers = [modifiers.replace_axon_with_taper]
+            logger.debug("No morphology modifiers provided, replace_axon_with_taper will be used.")
+        else:
+            if isinstance(morph_modifiers, str):
+                morph_modifiers = [morph_modifiers]
+            for i, morph_modifier in enumerate(morph_modifiers):
+                if isinstance(morph_modifier, list):
+                    modifier_module = importlib.import_module(morph_modifier[0])
+                    morph_modifiers[i] = getattr(modifier_module, morph_modifier[1])
+                elif isinstance(morph_modifier, str):
+                    morph_modifiers[i] = getattr(modifiers, morph_modifier)
+                elif not callable(morph_modifier):
+                    raise TypeError(
+                        "A morph modifier is not callable nor a string nor a list of two str"
+                    )
     return NrnFileMorphology(
         morphology_path=model_configuration.morphology.path,
         do_replace_axon=False,

examples/mcmc/mcmc_singlecomp/plot_results.py

@@ -2,7 +2,7 @@
 
 import matplotlib.pyplot as plt
 
-from emodel_generalisation.information import plot_corner
+from emodel_generalisation.mcmc import plot_corner
 from emodel_generalisation.mcmc import load_chains
 from emodel_generalisation.mcmc import plot_cost
 from emodel_generalisation.mcmc import plot_cost_convergence

examples/mcmc/mcmc_singlecomp/run.py

@@ -1,6 +1,6 @@
 """Run MCMC on a simple single compartment model."""
 from emodel_generalisation.mcmc import run_several_chains
-from emodel_generalisation.parallel import init_parallel_factory
+from bluepyparallel import init_parallel_factory
 
 if __name__ == "__main__":
     parallel_factory = init_parallel_factory("multiprocessing")

tests/data/config/recipes.json

@@ -4,7 +4,7 @@
         "morphology": "simple.asc",
         "params": "config/parameters.json",
         "features": "config/features.json",
-        "morph_modifiers": [],
+        "morph_modifiers": "",
         "pipeline_settings": {
             "efel_settings":{
                 "strict_stiminterval": true,

tests/test_access_point.py

@@ -44,7 +44,7 @@ def test_get_recipes(access_point):
         "morphology": "simple.asc",
         "params": "config/parameters.json",
         "features": "config/features.json",
-        "morph_modifiers": [],
+        "morph_modifiers": "",
         "pipeline_settings": {
             "efel_settings": {
                 "strict_stiminterval": True,
@@ -65,7 +65,7 @@ def test_get_settings(access_point):
         "name_rmp_protocol": "IV_0",
         "name_Rin_protocol": "IV_-20",
         "test": 0,
-        "morph_modifiers": [],
+        "morph_modifiers": "",
     }