Lint

Author: keller-mark

src/vitessce/widget.py

@@ -8,11 +8,9 @@
 from traitlets import Unicode, Dict, List, Int, Bool
 
 import asyncio
-import zarr
 from zarr.abc.store import RangeByteRequest, SuffixByteRequest
 from zarr.core.buffer.core import default_buffer_prototype
 
-from typing import Any
 
 MAX_PORT_TRIES = 1000
 DEFAULT_PORT = 8000
@@ -919,7 +917,7 @@ async def _zarr_get(self, params, buffers):
         store = self._stores[store_url]
         try:
             result = await store.get(key.lstrip("/"), prototype=default_buffer_prototype())
-            if result == None:
+            if result is None:
                 buffers = []
             else:
                 buffers = [result.to_bytes()]
@@ -941,12 +939,12 @@ async def _zarr_get_range(self, params, buffers):
             elif "offset" in range_query and "length" in range_query:
                 offset = range_query["offset"]
                 length = range_query["length"]
-                range_param = RangeByteRequest(start=offset, end=offset+length)
+                range_param = RangeByteRequest(start=offset, end=(offset + length))
             else:
                 raise ValueError(f"Invalid range query: {range_query}. Must contain either 'suffixLength' or both 'offset' and 'length'.")
 
             result = await store.get(key, byte_range=range_param, prototype=default_buffer_prototype())
-            if result == None:
+            if result is None:
                 buffers = []
             else:
                 buffers = [result.to_bytes()]

src/vitessce/widget_plugins/spatial_query.py

@@ -286,7 +286,7 @@ def _render_heatmap_base64(self, fp_tree, query_type, cell_type_of_interest):
             enrich = fp_tree.copy()
             enrich["frequency"] = enrich["n_center_motif"] / enrich["n_center"]
             enrich = enrich.sort_values(by="frequency", ascending=False)
-            enrich["motif_group"] = [f"motif_{i+1}" for i in range(len(enrich))]
+            enrich["motif_group"] = [f"motif_{i + 1}" for i in range(len(enrich))]
             expanded = enrich.explode("motifs")
             heatmap_data = expanded.pivot_table(
                 index="motifs", columns="motif_group", values="frequency", aggfunc="first"
@@ -303,7 +303,7 @@ def _render_heatmap_base64(self, fp_tree, query_type, cell_type_of_interest):
         else:
             fp = fp_tree.copy()
             fp = fp.sort_values(by="support", ascending=False).reset_index(drop=True)
-            fp["motif_group"] = [f"motif_{i+1}" for i in range(len(fp))]
+            fp["motif_group"] = [f"motif_{i + 1}" for i in range(len(fp))]
             expanded = fp.explode("itemsets")
             heatmap_data = expanded.pivot_table(
                 index="itemsets", columns="motif_group", values="support", aggfunc="first"

tests/test_ome_utils.py

@@ -78,17 +78,17 @@ def test_rgb_img_to_ome_zarr(self):
                 'omero': {
                     'channels': [
                         {'color': 'FF0000',
-                        'label': 'R',
-                        'window': {'end': 255, 'max': 255, 'min': 0, 'start': 0}
-                        },
+                         'label': 'R',
+                         'window': {'end': 255, 'max': 255, 'min': 0, 'start': 0}
+                         },
                         {'color': '00FF00',
-                        'label': 'G',
-                        'window': {'end': 255, 'max': 255, 'min': 0, 'start': 0}
-                        },
+                         'label': 'G',
+                         'window': {'end': 255, 'max': 255, 'min': 0, 'start': 0}
+                         },
                         {'color': '0000FF',
-                        'label': 'B',
-                        'window': {'end': 255, 'max': 255, 'min': 0, 'start': 0}
-                        }
+                         'label': 'B',
+                         'window': {'end': 255, 'max': 255, 'min': 0, 'start': 0}
+                         }
                     ],
                     'name': 'Test',
                     'rdefs': {