apply

doc/conf.py

@@ -1,7 +1,6 @@
 import os
 import sys
-
-import mock
+from unittest import mock
 
 # Configuration file for the Sphinx documentation builder.
 #
@@ -61,8 +60,12 @@
 
 
 autodoc_mock_imports = [
-    "amici", "amici.amici", "amici.petab", "amici.petab.simulations",
-    "amici.petab.parameter_mapping", "amici.petab.conditions"
+    "amici",
+    "amici.amici",
+    "amici.petab",
+    "amici.petab.simulations",
+    "amici.petab.parameter_mapping",
+    "amici.petab.conditions",
 ]
 for mod_name in autodoc_mock_imports:
     sys.modules[mod_name] = mock.MagicMock()

examples/derivative.ipynb

@@ -30,7 +30,6 @@
    ],
    "source": [
     "import numpy as np\n",
-    "import pandas as pd\n",
     "from scipy.optimize import rosen, rosen_der\n",
     "\n",
     "from fiddy import MethodId, get_derivative\n",

fiddy/derivative.py

@@ -45,6 +45,7 @@ class Derivative:
         success:
             Whether the derivative was successfully computed.
     """
+
     hide_columns = [
         "pending_computers",
         "computers",

fiddy/extensions/amici/amici.py

@@ -6,9 +6,9 @@
 import amici.petab.simulations
 import numpy as np
 import petab.v1 as petab
+from amici.petab.conditions import create_edatas
 from amici.petab.parameter_mapping import create_parameter_mapping
 from amici.petab.simulations import LLH, SLLH
-from amici.petab.conditions import create_edatas
 from petab.v1.C import LIN, LOG, LOG10
 
 from ...constants import Type

tests/test_derivative.py

@@ -142,9 +142,9 @@ def test_get_derivative_relative():
     )  # cardinal direction, simplifies to this, but usually need dot product
 
     g_a = (f_a - f_0) / size
-    g_r = (f_r - f_0) / (
-        point * direction * size
-    ).sum()  # cardinal direction, simplifies to this, but usually need dot product
+    g_r = (
+        (f_r - f_0) / (point * direction * size).sum()
+    )  # cardinal direction, simplifies to this, but usually need dot product
 
     # Fiddy finite difference derivatives
     kwargs = {