name change

sottorivalab · Apr 23, 2024 · 592697d · 592697d
1 parent 3748925
commit 592697d
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Showing 6 changed files with 1,634 additions and 33 deletions.
diff --git a/README.md b/README.md
@@ -70,7 +70,7 @@ Interested in contributing? Check out the contributing guidelines. Please note t
 
 - [ ] Final API Documnetation
 - [X] Tutorial math on AA
-- [ ] Tutorial parameters and networks
+- [X] Tutorial parameters and networks
 - [X] Quick start 
 - [ ] Allow the user to specify its own encoder/decoder
 - [ ] Provide some module builders

diff --git a/docs/conf.py b/docs/conf.py
@@ -12,6 +12,15 @@
 
 nb_execution_mode = "off"
 
+def skip_submodules(app, what, name, obj, skip, options):
+    if what == "module":
+        skip = True
+    return skip
+
+
+def setup(sphinx):
+    sphinx.connect("autoapi-skip-member", skip_submodules)
+
 # -- General configuration ---------------------------------------------------
 
 # Add any Sphinx extension module names here, as strings. They can be

diff --git a/docs/implementation_and_parameters.ipynb b/docs/implementation_and_parameters.ipynb
diff --git a/notebooks/implementation_and_parameters.ipynb b/notebooks/implementation_and_parameters.ipynb
diff --git a/notebooks/test_encoder_decoder.ipynb b/notebooks/test_encoder_decoder.ipynb
@@ -869,7 +869,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "scdeepaa",
+   "display_name": "Python 3",
    "language": "python",
    "name": "python3"
   },
@@ -883,7 +883,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.11.6"
+   "version": "3.9.15"
   }
  },
  "nbformat": 4,

diff --git a/src/midaa/__init__.py b/src/midaa/__init__.py
@@ -3,7 +3,7 @@
 from midaa.Plots import plot_archetypes_simplex, plot_ELBO, plot_ELBO_across_runs
 from midaa.DataGeneration import generate_synthetic_data
 
-__all__ = ["fit_MIDAA", "load_model_from_state_dict", 
+__all__ = ("fit_MIDAA", "load_model_from_state_dict", 
            "get_input_params_adata", "add_to_obs_adata", 
            "plot_archetypes_simplex", "plot_ELBO",
-           "plot_ELBO_across_runs", "generate_synthetic_data"]
+           "plot_ELBO_across_runs", "generate_synthetic_data")