Modified conf.py to enable external project links in docstrings

docs/conf.py

@@ -50,6 +50,7 @@
     'sphinx.ext.napoleon',
     'sphinx.ext.intersphinx',
     'sphinx.ext.extlinks',
+    'sphinx.ext.intersphinx',
     'sphinx.ext.todo',
     'nbsphinx',
 ]
@@ -183,4 +184,9 @@
 # -- Others ------------------------------------------------------------------
 autodoc_default_options = {
     'private-members': True,
+}
+
+intersphinx_mapping = {
+    'python': ('https://docs.python.org/3', None),
+    "pymbar": ("https://pymbar.readthedocs.io/en/latest/", None),
 }

ensemble_md/analysis/analyze_free_energy.py

@@ -31,7 +31,7 @@ def preprocess_data(files_list, temp, data_type, spacing=1, t=None, g=None):
     For each replica, it reads in :math:`u_{nk}`/:math:`dH/dλ` data from all iterations, concatenate
     them, remove the equilibrium region and and decorrelate the concatenated data. Notably,
     the data preprocessing protocol is basically the same as the one adopted in
-    :code:`alchemlyb.subsampling.equilibrium_detection`.
+    :func:`alchemlyb.subsampling.equilibrium_detection`.
 
     Parameters
     ----------