cleanup

bhardwaj-lab · May 5, 2024 · 92f0098 · 92f0098
1 parent 10e2146
commit 92f0098
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Showing 4 changed files with 2 additions and 5 deletions.
diff --git a/pyproject.toml b/pyproject.toml
@@ -14,7 +14,7 @@ authors = [
     {name = "Vivek Bhardwaj"},
 ]
 maintainers = [
-    {name = "Vivek Bhardwaj", email = "[email protected]"},
+    {name = "Vivek Bhardwaj", email = "[email protected]"},
 ]
 classifiers = [
     "Intended Audience :: Science/Research",
@@ -33,7 +33,6 @@ dependencies = [
     "deeptools",
     "leidenalg",
     "networkx",
-    "community",
     "python-igraph",
     # for debug logging (referenced from the issue template)
     "session-info",

diff --git a/requirements.txt b/requirements.txt
@@ -6,5 +6,4 @@ deeptools
 gensim
 leidenalg
 networkx
-community
 python-igraph
diff --git a/sincei/TopicModels.py b/sincei/TopicModels.py
@@ -9,7 +9,6 @@
 from sklearn.metrics import pairwise_distances
 import leidenalg as la
 
-# import community
 import umap
 from scanpy._utils import get_igraph_from_adjacency
 from scanpy.neighbors import (

diff --git a/sincei/_deprecated.py b/sincei/_deprecated.py
@@ -134,7 +134,7 @@ def cluster_LSA(
     G : igraph object
         Graph object.
     """
-
+    import community
     # cluster on cel-topic dist
     _distances = pairwise_distances(cell_topic.iloc[:, 1:], metric=distance_metric)
     knn_indices, knn_distances = _get_indices_distances_from_dense_matrix(_distances, nk)