Remove the dependencies from the package source

cbg-ethz · Dec 5, 2024 · 2565af3 · 2565af3
1 parent 99af46e
commit 2565af3
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Showing 13 changed files with 4 additions and 1,019 deletions.
diff --git a/src/pmhn/__init__.py b/src/pmhn/__init__.py
@@ -3,33 +3,16 @@
     simulate_genotype_known_time,
     simulate_trajectory,
 )
-from pmhn._backend import (
-    MHNCythonBackend,
-    MHNJoblibBackend,
-    MHNBackend,
-    control_no_mutation_warning,
-)
-from pmhn._ppl import (
-    MHNLoglikelihood,
-    PersonalisedMHNLoglikelihood,
-    prior_regularized_horseshoe,
-    prior_normal,
-    prior_only_baseline_rates,
-    prior_offdiagonal_laplace,
-    prior_spike_and_slab_marginalized,
-    prior_horseshoe,
-)
 from pmhn._theta import construct_matrix, decompose_matrix, sample_spike_and_slab
 from pmhn._visualise import (
-    plot_genotypes,
     plot_genotype_samples,
-    plot_theta,
-    plot_offdiagonal_sparsity,
+    plot_genotypes,
     plot_offdiagonal_histograms,
+    plot_offdiagonal_sparsity,
+    plot_theta,
     plot_theta_samples,
 )
 
-
 __all__ = [
     "simulate_dataset",
     "simulate_genotype_known_time",

diff --git a/src/pmhn/_backend/__init__.py b/src/pmhn/_backend/__init__.py
diff --git a/src/pmhn/_backend/_learnmhn.py b/src/pmhn/_backend/_learnmhn.py
diff --git a/src/pmhn/_ppl/__init__.py b/src/pmhn/_ppl/__init__.py
diff --git a/src/pmhn/_ppl/_multiplemhn.py b/src/pmhn/_ppl/_multiplemhn.py