From c947ad6c4da4fa36c3937b9263d72aa9cb8ab2d1 Mon Sep 17 00:00:00 2001
From: Daniel Weindl <daniel.weindl@uni-bonn.de>
Date: Tue, 8 Oct 2024 18:38:07 +0200
Subject: [PATCH] apply

---
 doc/conf.py                     | 11 +++++++----
 examples/derivative.ipynb       |  1 -
 fiddy/derivative.py             |  1 +
 fiddy/extensions/amici/amici.py |  2 +-
 tests/test_derivative.py        |  6 +++---
 5 files changed, 12 insertions(+), 9 deletions(-)

diff --git a/doc/conf.py b/doc/conf.py
index 0f5cb71..a06bba4 100644
--- a/doc/conf.py
+++ b/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()
diff --git a/examples/derivative.ipynb b/examples/derivative.ipynb
index d28686f..3ba790b 100644
--- a/examples/derivative.ipynb
+++ b/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",
diff --git a/fiddy/derivative.py b/fiddy/derivative.py
index 4b03406..65508ac 100644
--- a/fiddy/derivative.py
+++ b/fiddy/derivative.py
@@ -45,6 +45,7 @@ class Derivative:
         success:
             Whether the derivative was successfully computed.
     """
+
     hide_columns = [
         "pending_computers",
         "computers",
diff --git a/fiddy/extensions/amici/amici.py b/fiddy/extensions/amici/amici.py
index aeb2e31..0ff6192 100644
--- a/fiddy/extensions/amici/amici.py
+++ b/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
diff --git a/tests/test_derivative.py b/tests/test_derivative.py
index e5ab637..37bc9a4 100644
--- a/tests/test_derivative.py
+++ b/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 = {