[pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

cirrocumulus/concat.py

@@ -148,9 +148,11 @@ def concat_spatial(paths: list[str], output_path: str, ncols: int = 2):
 
 def create_parser(description=False):
     parser = argparse.ArgumentParser(
-        description="Concatenate datasets in a grid layout. If all the datasets are spatial datasets, then tissue images are concatenated."
-        if description
-        else None
+        description=(
+            "Concatenate datasets in a grid layout. If all the datasets are spatial datasets, then tissue images are concatenated."
+            if description
+            else None
+        )
     )
     parser.add_argument(
         "dataset",

cirrocumulus/diff_exp.py

@@ -137,11 +137,15 @@ def __init__(
                 scores=scores,
                 pvals=pvals,
                 logfoldchanges=foldchanges,
-                frac_expressed1=frac_expressed_df.loc[group_one].values
-                if frac_expressed_df is not None
-                else None,
-                frac_expressed2=frac_expressed_df.loc[group_two].values
-                if frac_expressed_df is not None
-                else None,
+                frac_expressed1=(
+                    frac_expressed_df.loc[group_one].values
+                    if frac_expressed_df is not None
+                    else None
+                ),
+                frac_expressed2=(
+                    frac_expressed_df.loc[group_two].values
+                    if frac_expressed_df is not None
+                    else None
+                ),
             )
         self.pair2results = pair2results

cirrocumulus/local_db_api.py

@@ -50,8 +50,10 @@ def __init__(self, paths: list[str]):
                 if url.lower().endswith(".json.gz") or url.lower().endswith(".json"):
                     import gzip
 
-                    with gzip.open(fs.open(url)) if url.lower().endswith(".json.gz") else fs.open(
-                        url
+                    with (
+                        gzip.open(fs.open(url))
+                        if url.lower().endswith(".json.gz")
+                        else fs.open(url)
                     ) as f:
                         d = json.load(f)
                         if "id" in d:

src/AutocompleteVirtualized.js

@@ -262,8 +262,8 @@ export default function AutocompleteVirtualized(props) {
           result.text != null
             ? result.text
             : result.id != null
-            ? result.id
-            : result;
+              ? result.id
+              : result;
         textToOption.delete(text.toLowerCase());
       });
       tokens.forEach((token) => {

src/actions/index.js

@@ -2425,8 +2425,8 @@ function getNewEmbeddingData(state, features) {
       embedding.spatial != null
         ? embedding.spatial.type
         : embedding.type
-        ? embedding.type
-        : TRACE_TYPE_SCATTER;
+          ? embedding.type
+          : TRACE_TYPE_SCATTER;
     let coordinates =
       traceType !== TRACE_TYPE_META_IMAGE ? cachedData[embeddingKey] : null;
     if (coordinates == null && embedding.mode != null) {

src/util.js

@@ -680,10 +680,10 @@ export function rankdata(values) {
     return a.value < b.value
       ? -1
       : a.value === b.value
-      ? a.position < b.position
-        ? -1
-        : 1
-      : 1;
+        ? a.position < b.position
+          ? -1
+          : 1
+        : 1;
   });
 
   // Walk the sorted array, filling output array using sorted positions,
@@ -722,20 +722,20 @@ function indexSortPairs(ranks, ascending) {
       return a.value < b.value
         ? -1
         : a.value === b.value
-        ? a.position < b.position
-          ? -1
-          : 1
-        : 1;
+          ? a.position < b.position
+            ? -1
+            : 1
+          : 1;
     });
   } else {
     ranks.sort(function (a, b) {
       return a.value < b.value
         ? 1
         : a.value === b.value
-        ? a.position < b.position
-          ? 1
-          : -1
-        : -1;
+          ? a.position < b.position
+            ? 1
+            : -1
+          : -1;
     });
   }