remove addition of .raw field to anndata, make edge selection more memory efficient

Author: AnneHartebrodt

src/netmap/downstream/edge_selection.py

@@ -74,6 +74,10 @@ def _get_top_edges_global(grn_adata, top_edges: float):
             print(f"You ran into an issue sorting the array. Please manually sort"
                 "the array using chunked_argsort and reduce the chunk size (current default chunk"
                 " size: 500)")
+        except MemoryError:
+            print(f"You ran into an issue sorting the array. Please manually sort"
+                "the array using chunked_argsort and reduce the chunk size (current default chunk"
+                " size: 500)")
 
     b = grn_adata.layers['sorted']
 

src/netmap/utils/data_utils.py

@@ -15,7 +15,7 @@ def attribution_to_anndata(attribution_list, var = None, obs = None)-> anndata.A
     """
     print('Creating anndata')
     adata = anndata.AnnData(attribution_list)
-    adata.raw = adata
+    #adata.raw = adata
     if var is not None:
         print('Setting vars')
         adata.var = var