[pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

docs/source/conf.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python3
-# -*- coding: utf-8 -*-
 #
 # ipycytoscape documentation build configuration file
 #
@@ -35,7 +34,8 @@
 
 # Ensure our extension is available:
 import sys
-from os.path import dirname, join as pjoin
+from os.path import dirname
+from os.path import join as pjoin
 
 docs = dirname(dirname(__file__))
 root = dirname(docs)

dodo.py

@@ -1,10 +1,10 @@
 # this uses https://pydoit.org/ to run tasks/chores
 # pip install doit
 # $ doit
-import pkg_resources
-from ipycytoscape._version import __version__ as version
 import re
 
+from ipycytoscape._version import __version__ as version
+
 
 def task_mybinder():
     """Make the mybinder files up to date"""
@@ -14,7 +14,7 @@ def action(targets):
             with open(filename) as f:
                 content = f.read()
             content = re.sub(
-                "cytoscape(?P<cmp>[^0-9]*)([0-9\.].*)",
+                r"cytoscape(?P<cmp>[^0-9]*)([0-9\.].*)",
                 rf"cytoscape\g<cmp>{version}",
                 content,
             )

ipycytoscape/__init__.py

@@ -1,16 +1,13 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #
 # Distributed under the terms of the Modified BSD License.
 #
 # The full license is in the file LICENSE, distributed with this software.
 
-from .cytoscape import *
-
 from ._version import __version__, version_info
-
+from .cytoscape import *
 from .nbextension import _jupyter_nbextension_paths
 
 npm_pkg_name = "jupyter-cytoscape"

ipycytoscape/_frontend.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #

ipycytoscape/_version.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #

ipycytoscape/cytoscape.py

@@ -1,33 +1,31 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #
 # Distributed under the terms of the Modified BSD License.
 #
 # The full license is in the file LICENSE, distributed with this software.
 
-from os import path
-
 import copy
 import json
+from os import path
 
-
+from ipywidgets import CallbackDispatcher, DOMWidget, Widget, widget_serialization
 from spectate import mvc
-from traitlets import TraitType, TraitError
-
-from ipywidgets import DOMWidget, Widget, widget_serialization, CallbackDispatcher
 from traitlets import (
-    Unicode,
     Bool,
+    CaselessStrEnum,
     CFloat,
-    Integer,
-    Instance,
     Dict,
+    Instance,
+    Integer,
     List,
+    TraitError,
+    TraitType,
+    Unicode,
     Union,
-    CaselessStrEnum,
 )
+
 from ._frontend import module_name, module_version
 
 try:
@@ -587,7 +585,7 @@ def add_graph_from_df(
         for i, name in enumerate(grouped.groups):
             if not isinstance(name, tuple):
                 name = (name,)
-            group_nodes[name] = Node(data={"id": "parent-{}".format(i), "name": name})
+            group_nodes[name] = Node(data={"id": f"parent-{i}", "name": name})
 
         graph_nodes = []
         graph_edges = []
@@ -597,7 +595,7 @@ def add_graph_from_df(
             # Includes content to tips
             tip_content = ""
             for attribute in attribute_list:
-                tip_content += "{}: {}\n".format(attribute, row[attribute])
+                tip_content += f"{attribute}: {row[attribute]}\n"
 
             # Creates a list with all nodes adding them in the correct node parents
             graph_nodes.append(
@@ -853,7 +851,7 @@ def __init__(self, graph=None, **kwargs):
                The graph to initialize with. Equivalent to calling the
                appropriate ``CytoscapeWidget.graph.add_graph_from_` method.
         """
-        super(CytoscapeWidget, self).__init__(**kwargs)
+        super().__init__(**kwargs)
 
         self.on_msg(self._handle_interaction)
         self.graph = Graph()

ipycytoscape/nbextension/__init__.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #

ipycytoscape/tests/conftest.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #
@@ -8,7 +7,6 @@
 # The full license is in the file LICENSE, distributed with this software.
 
 import pytest
-
 from ipykernel.comm import Comm
 from ipywidgets import Widget
 
@@ -26,7 +24,7 @@ def __init__(self, *args, **kwargs):
         self.log_open = []
         self.log_send = []
         self.log_close = []
-        super(MockComm, self).__init__(*args, **kwargs)
+        super().__init__(*args, **kwargs)
 
     def open(self, *args, **kwargs):
         self.log_open.append((args, kwargs))

ipycytoscape/tests/test_graph_creation.py

@@ -1,17 +1,16 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #
 # Distributed under the terms of the Modified BSD License.
 #
 # The full license is in the file LICENSE, distributed with this software.
 
-import pytest
 
-from ipycytoscape.cytoscape import Graph, Node, Edge
 import networkx as nx
 
+from ipycytoscape.cytoscape import Edge, Graph, Node
+
 
 def compare_nodes(expected_nodes, actual_nodes):
     for expected, actual in zip(expected_nodes, actual_nodes):

ipycytoscape/tests/test_graph_deletion.py

@@ -1,17 +1,16 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #
 # Distributed under the terms of the Modified BSD License.
 #
 # The full license is in the file LICENSE, distributed with this software.
 
-import pytest
 
-from ipycytoscape.cytoscape import Graph, Node, Edge
 import networkx as nx
 
+from ipycytoscape.cytoscape import Graph, Node
+
 
 class TestNetworkx:
     def test_lonely_nodes(self):
@@ -58,4 +57,3 @@ def test_lonely_nodes(self):
 
         # remove all nodes of the graph
         graph.clear()
-        expected_nodes = []

ipycytoscape/tests/test_graph_methods.py

@@ -1,16 +1,15 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2021, QuantStack and ipycytoscape Contributors
 #
 # Distributed under the terms of the Modified BSD License.
 #
 # The full license is in the file LICENSE, distributed with this software.
 
-import pytest
 
 import copy
-from ipycytoscape.cytoscape import Graph, Node, Edge
+
+from ipycytoscape.cytoscape import Edge, Graph, Node
 
 
 def compare_nodes(expected_nodes, actual_nodes):

ipycytoscape/tests/test_nbextension_path.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #

setup.py

@@ -1,26 +1,23 @@
 #!/usr/bin/env python
-# coding: utf-8
 
 # Copyright (c) 2020, QuantStack, Mariana Meireles and ipycytoscape Contributors
 #
 # Distributed under the terms of the Modified BSD License.
 #
 # The full license is in the file LICENSE, distributed with this software.
 
-from glob import glob
 import os
+from glob import glob
 from os import path
 
 from jupyter_packaging import (
+    combine_commands,
     create_cmdclass,
-    install_npm,
     ensure_targets,
-    combine_commands,
     get_version,
+    install_npm,
 )
-
-from setuptools import setup, find_packages
-
+from setuptools import find_packages, setup
 
 # The name of the project
 name = "ipycytoscape"