Merge branch 'main' into ppdp_aryan

.pre-commit-config.yaml

@@ -3,25 +3,25 @@
 
 repos:
   - repo: https://github.com/psf/black
-    rev: 22.12.0
+    rev: 24.8.0
     hooks:
       - id: black
   - repo: https://github.com/pycqa/isort
-    rev: 5.12.0
+    rev: 5.13.2
     hooks:
       - id: isort
         name: isort (python)
         args: ["--profile", "black", "--filter-files", "--skip", "__init__.py"]
         files: ^dodiscover/
   - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: "v0.971"
+    rev: "v1.11.1"
     hooks:
       - id: mypy
         name: mypy (dodiscover)
         args: ["--config-file", "pyproject.toml"]
         files: ^dodiscover/
   - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: "v0.971"
+    rev: "v1.11.1"
     hooks:
       - id: mypy
         name: mypy (tests)

doc/_static/versions.json

@@ -0,0 +1,12 @@
+[
+    {
+        "name": "0.2 (devel)",
+        "version": "dev",
+        "url": "https://www.pywhy.org/pywhy-graphs/dev/index.html"
+    },
+    {
+        "name": "0.1",
+        "version": "stable",
+        "url": "https://www.pywhy.org/pywhy-graphs/stable/index.html"
+    }
+]

doc/conf.py

@@ -36,6 +36,7 @@
 copyright = f"{datetime.today().year}, Adam Li"
 author = "Adam Li"
 version = pywhy_graphs.__version__
+release = version
 
 # -- General configuration ---------------------------------------------------
 
@@ -270,6 +271,7 @@ def setup(app):
 html_css_files = ["css/custom.css"]
 html_favicon = "_static/favicon_url.ico"
 
+switcher_version_match = "dev" if "dev" in release else version
 html_theme_options = {
     "icon_links": [
         dict(
@@ -281,7 +283,11 @@ def setup(app):
     "use_edit_page_button": False,
     "navigation_with_keys": False,
     "show_toc_level": 1,
-    "navbar_end": ["version-switcher", "navbar-icon-links"],
+    "navbar_end": ["theme-switcher", "version-switcher", "navbar-icon-links"],
+    "switcher": {
+        "json_url": "https://raw.githubusercontent.com/neurodata/treeple/main/doc/_static/versions.json",  # noqa: E501
+        "version_match": switcher_version_match,
+    },
 }
 
 scrapers = ("matplotlib",)

examples/intro/intro_causal_graphs.py

@@ -9,6 +9,7 @@
 and missing edge. We will review some of the fundamental causal graphs used
 in causal inference, and their differences from traditional graphs.
 """
+
 import networkx as nx
 import numpy as np
 import pandas as pd

examples/visualization/plot_timeseries_graphs.py

@@ -13,6 +13,7 @@
 
 For comparing different graphs with the same layout, see :ref:`ex-draw-graphs`
 """
+
 from pywhy_graphs import StationaryTimeSeriesDiGraph
 from pywhy_graphs.viz import draw, timeseries_layout
 

pywhy_graphs/_version.py

@@ -1,4 +1,5 @@
 """Version number."""
+
 from importlib.metadata import version  # type: ignore
 
 __version__ = version(__package__)

pywhy_graphs/classes/networkxprotocol.py

@@ -10,17 +10,13 @@ class NetworkXProtocol(Protocol):
     _adj: Dict
 
     @property
-    def nodes(self):
-        ...
+    def nodes(self): ...
 
     @property
-    def edges(self):
-        ...
+    def edges(self): ...
 
     @abstractmethod
-    def add_node(self, node):
-        ...
+    def add_node(self, node): ...
 
     @abstractmethod
-    def remove_edge(self, u, v):
-        ...
+    def remove_edge(self, u, v): ...