Improve (and fix) gallery grid rendering (#539)

* supercharge custom sphinxext

* black

Author: OriolAbril

.gitignore

@@ -4,5 +4,7 @@
 *.DS_Store
 
 _build
+build
 jupyter_execute
 _thumbnails
+examples/gallery.rst

_thumbnails/core_notebooks/dimensionality.png

@@ -1,4 +1,5 @@
-import os, sys
+import os
+import sys
 from pathlib import Path
 from sphinx.application import Sphinx
 
@@ -25,10 +26,8 @@
     "sphinxcontrib.bibtex",
     "sphinx_codeautolink",
     "notfound.extension",
-    "sphinx_gallery.load_style",
     "thumbnail_extractor",
     "sphinxext.rediraffe",
-    "sphinx_remove_toctrees",
 ]
 
 # List of patterns, relative to source directory, that match files and
@@ -46,49 +45,6 @@
 ]
 
 
-def hack_nbsphinx(app: Sphinx) -> None:
-    from nbsphinx import (
-        depart_gallery_html,
-        doctree_resolved,
-        GalleryNode,
-        NbGallery,
-        patched_toctree_resolve,
-    )
-    from sphinx.environment.adapters import toctree
-
-    from glob import glob
-
-    nb_paths = glob("*/*.ipynb")
-    nbsphinx_thumbnails = {}
-    for nb_path in nb_paths:
-        png_file = os.path.join(
-            "thumbnails", os.path.splitext(os.path.split(nb_path)[-1])[0] + ".png"
-        )
-        nb_path_rel = os.path.splitext(nb_path)[0]
-        nbsphinx_thumbnails[nb_path_rel] = png_file
-
-    def builder_inited(app: Sphinx):
-        if not hasattr(app.env, "nbsphinx_thumbnails"):
-            app.env.nbsphinx_thumbnails = {}
-
-    def do_nothing(*node):
-        pass
-
-    app.add_config_value("nbsphinx_thumbnails", nbsphinx_thumbnails, rebuild="html")
-    app.add_directive("nbgallery", NbGallery)
-    app.add_node(
-        GalleryNode,
-        html=(do_nothing, depart_gallery_html),
-        latex=(do_nothing, do_nothing),
-        text=(do_nothing, do_nothing),
-    )
-    app.connect("builder-inited", builder_inited)
-    app.connect("doctree-resolved", doctree_resolved)
-
-    # Monkey-patch Sphinx TocTree adapter
-    toctree.TocTree.resolve = patched_toctree_resolve
-
-
 def remove_index(app):
     """
     This removes the index pages so rediraffe generates the redirect placeholder
@@ -103,7 +59,6 @@ def remove_index(app):
 
 
 def setup(app: Sphinx):
-    hack_nbsphinx(app)
     app.connect("html-collect-pages", remove_index, 100)
 
 
@@ -196,22 +151,6 @@ def setup(app: Sphinx):
 rediraffe_redirects = {
     "index.md": "gallery.md",
 }
-remove_from_toctrees = [
-    "BART/*",
-    "case_studies/*",
-    "causal_inference/*",
-    "diagnostics_and_criticism/*",
-    "gaussian_processes/*",
-    "generalized_linear_models/*",
-    "mixture_models/*",
-    "ode_models/*",
-    "howto/*",
-    "samplers/*",
-    "splines/*",
-    "survival_analysis/*",
-    "time_series/*",
-    "variational_inference/*",
-]
 
 # bibtex config
 bibtex_bibfiles = ["references.bib"]

_thumbnails/core_notebooks/glm_linear.png

@@ -1,15 +1,12 @@
 myst-nb
-sphinx==5.0.2 # see https://github.com/pymc-devs/pymc-examples/issues/409
-pymc-sphinx-theme==0.1
+sphinx>=5
+pymc-sphinx-theme==0.13
 sphinx-design
 sphinx-copybutton
 sphinxcontrib-bibtex
 ablog
 sphinxext-opengraph
 sphinx-codeautolink
 sphinx-notfound-page
-nbsphinx
-sphinx-gallery==0.10.1 # see https://github.com/pymc-devs/pymc-examples/issues/409
 matplotlib
 sphinxext-rediraffe
-sphinx-remove-toctrees