remove zero bandwidth warning from knngraph

KrishnaswamyLab · Jul 7, 2019 · d55694f · d55694f
1 parent b19d150
commit d55694f
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/graphtools/graphs.py b/graphtools/graphs.py
@@ -311,6 +311,9 @@ def build_kernel_to_data(self, Y, knn=None, bandwidth=None,
 
             bandwidth = bandwidth * bandwidth_scale
 
+            # check for zero bandwidth
+            bandwidth = np.maximum(bandwidth, np.finfo(float).eps)
+
             radius = bandwidth * np.power(-1 * np.log(self.thresh),
                                           1 / self.decay)
             update_idx = np.argwhere(