update docs config

docs/environment.yaml

@@ -6,11 +6,9 @@ dependencies:
   - python
   - myst-parser
   - sphinx
-  - pandas
   - sphinx_rtd_theme
+  - pandas
   - anndata
-  - scanpy
   - pip
   - pip:
-    - nbsphinx
     - pydeseq2

docs/source/conf.py

@@ -8,19 +8,15 @@
 # -- General configuration ---------------------------------------------
 # Add any Sphinx extension module names here, as strings. They can be
 # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom ones.
-extensions = ['myst_parser', 'sphinx.ext.autodoc', 'sphinx.ext.viewcode']
+extensions = ['sphinx.ext.autodoc', 'sphinx.ext.viewcode', 'myst_parser']
 
 # Add any paths that contain templates here, relative to this directory.
 templates_path = ['_templates']
 
 # The suffix(es) of source filenames.
 # You can specify multiple suffix as a list of string:
 #
-source_suffix = {
-    '.rst': 'restructuredtext',
-    '.txt': 'markdown',
-    '.md': 'markdown',
-}
+source_suffix = ['.rst', '.md']
 # source_suffix = '.md'
 
 # The master toctree document.
@@ -62,6 +58,7 @@
 # -- Options for HTML output -------------------------------------------
 # Activate the theme.
 html_theme = 'sphinx_rtd_theme'
+# html_theme = "furo"
 
 # Theme options are theme-specific and customize the look and feel of a
 # theme further.  For a list of options available for each theme, see the