format notebooks with isort

HOW_TO_CONTRIBUTE.md

@@ -12,7 +12,7 @@ Please note we have a [code of conduct](/CODE_OF_CONDUCT.md), please follow it i
 4. [Optional, but STRONGLY preferred] Include any new method/function in the corresponding docs file.
 5. Run `pytest` to verify all unit tests pass.
 6. [Optional, but STRONGLY preferred] Run `pylint xgi/ --disable all --enable W0611` and remove any unnecessary dependencies.
-7. [Optional, but STRONGLY preferred] Run `isort .` to sort any new import statements.
+7. [Optional, but STRONGLY preferred] Run `isort .` and `nbqa isort .` to sort any new import statements in the source code and tutorials.
 8. [Optional, but STRONGLY preferred] Run `black .` for consistent styling.
 9. Update the "Current Version" section of CHANGELOG.md with overview of changes to the interface and add the usernames of all contributors.
 10. Submit Pull Request with a list of changes, links to issues that it addresses (if applicable)

docs/source/api/tutorials/In Depth 1 - Drawing nodes.ipynb

@@ -19,6 +19,7 @@
    "source": [
     "import matplotlib.pyplot as plt\n",
     "import numpy as np\n",
+    "\n",
     "import xgi"
    ]
   },

docs/source/api/tutorials/In Depth 2 - Drawing hyperedges.ipynb

@@ -23,9 +23,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import matplotlib.pyplot as plt\n",
     "import numpy as np\n",
-    "import matplotlib.pyplot as plt"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/In Depth 3 - Drawing DiHypergraphs.ipynb

@@ -23,9 +23,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import matplotlib.pyplot as plt\n",
     "import numpy as np\n",
-    "import matplotlib.pyplot as plt"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/In Depth 4 - Drawing multilayer-style.ipynb

@@ -23,9 +23,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import matplotlib.pyplot as plt\n",
     "import numpy as np\n",
-    "import matplotlib.pyplot as plt"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/Tutorial 1 - Basic Hypergraph Functionality.ipynb

@@ -21,10 +21,12 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
     "import random\n",
+    "\n",
+    "import numpy as np\n",
     "import pandas as pd\n",
-    "import numpy as np"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/Tutorial 2 - Read and Write.ipynb

@@ -14,8 +14,9 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
-    "import random"
+    "import random\n",
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/Tutorial 3 - Basic simplicial complex usage.ipynb

@@ -19,10 +19,12 @@
    },
    "outputs": [],
    "source": [
-    "import xgi\n",
     "import random\n",
+    "\n",
+    "import numpy as np\n",
     "import pandas as pd\n",
-    "import numpy as np"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/Tutorial 4 - Generative_Models.ipynb

@@ -20,9 +20,11 @@
    },
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import random\n",
+    "\n",
     "import numpy as np\n",
-    "import random"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/Tutorial 5 - Plotting.ipynb

@@ -23,10 +23,12 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import matplotlib.pyplot as plt\n",
     "import itertools\n",
-    "import numpy as np\n",
     "import random\n",
+    "\n",
+    "import matplotlib.pyplot as plt\n",
+    "import numpy as np\n",
+    "\n",
     "import xgi"
    ]
   },

docs/source/api/tutorials/Tutorial 7 - Directed Hypergraphs.ipynb

@@ -14,6 +14,7 @@
    "outputs": [],
    "source": [
     "import matplotlib.pyplot as plt\n",
+    "\n",
     "import xgi"
    ]
   },

docs/source/api/tutorials/XGI in 15 minutes.ipynb

@@ -17,9 +17,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import matplotlib.pyplot as plt\n",
     "import numpy as np\n",
-    "import matplotlib.pyplot as plt"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/XGI in 5 minutes.ipynb

@@ -21,9 +21,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import matplotlib.pyplot as plt\n",
     "import numpy as np\n",
-    "import matplotlib.pyplot as plt"
+    "\n",
+    "import xgi"
    ]
   },
   {

docs/source/api/tutorials/case_study_zhang2022.ipynb

@@ -46,6 +46,8 @@
    "outputs": [],
    "source": [
     "# utility functions to compute the Lyapunov exponents from the Laplacians\n",
+    "\n",
+    "\n",
     "def compute_eigenvalues(H, order, weight, rescale_per_node=True):\n",
     "    \"\"\"Returns the Lyapunov exponents of corresponding to the Laplacian of order d.\n",
     "\n",

docs/source/api/tutorials/quickstart.ipynb

@@ -26,13 +26,14 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import matplotlib.pyplot as plt\n",
+    "import networkx as nx\n",
     "import numpy as np\n",
     "import pandas as pd\n",
     "from IPython.display import display\n",
     "from matplotlib.pyplot import cm\n",
-    "import matplotlib.pyplot as plt\n",
-    "import networkx as nx"
+    "\n",
+    "import xgi"
    ]
   },
   {
@@ -849,10 +850,11 @@
     }
    ],
    "source": [
-    "import xgi\n",
     "import numpy as np\n",
     "import pandas as pd\n",
     "\n",
+    "import xgi\n",
+    "\n",
     "H_stats = xgi.Hypergraph([[1, 2, 3], [2, 3, 4, 5], [3, 4, 5]])\n",
     "H_stats.degree()"
    ]

docs/source/api/tutorials/simplicial_kuramoto_example.ipynb

@@ -14,9 +14,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import xgi\n",
+    "import matplotlib.pyplot as plt\n",
     "import numpy as np\n",
-    "import matplotlib.pyplot as plt"
+    "\n",
+    "import xgi"
    ]
   },
   {

requirements/developer.txt

@@ -1,4 +1,5 @@
 black[jupyter]==22.3.0
 pre-commit>=2.12
 isort==5.10.1
-pylint>=2.10
+pylint>=2.10
+nbqa