diff --git a/bean/model/model.py b/bean/model/model.py index 7c7ad2d..cbf4df2 100755 --- a/bean/model/model.py +++ b/bean/model/model.py @@ -418,7 +418,6 @@ def MixtureNormalModel( if "mu_scale" in prior_params: mu_scale = prior_params["mu_scale"] mu_dist = dist.Normal(mu_loc, mu_scale) - # Set the prior for phenotype means with pyro.plate("guide_plate0", 1): with pyro.plate("guide_plate1", data.n_targets): diff --git a/docs/conf.py b/docs/conf.py index e5ba831..b385d81 100755 --- a/docs/conf.py +++ b/docs/conf.py @@ -14,11 +14,7 @@ # -- General configuration --------------------------------------------------- # https://www.sphinx-doc.org/en/master/usage/configuration.html#general-configuration -extensions = [ - "sphinxarg.ext", - "m2r", - "sphinx.ext.extlinks", -] +extensions = ["sphinxarg.ext", "m2r", "sphinx.ext.extlinks", "sphinx.ext.mathjax"] templates_path = ["_templates"] exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"] diff --git a/tests/test_run.py b/tests/test_run.py index 7f60b85..99680bf 100755 --- a/tests/test_run.py +++ b/tests/test_run.py @@ -224,3 +224,8 @@ def test_run_tiling_no_translation(): ) except subprocess.CalledProcessError as exc: raise exc + + +# TODO: make test data for --prior-params +# TODO: semantic testing on splitting a single screen into two to train +# TODO: add test using --prior-params