Manually fix some more cases that ruff could not detect

src/maggma/stores/azure.py

@@ -523,6 +523,7 @@ def rebuild_metadata_from_index(self, index_query: Optional[Dict] = None):
         """
         Read data from the index store and populate the metadata of the Azure Blob.
         Force all of the keys to be lower case to be Minio compatible
+
         Args:
             index_query: query on the index store.
         """

src/maggma/stores/compound_stores.py

@@ -295,6 +295,7 @@ def remove_docs(self, criteria: Dict):
     def __eq__(self, other: object) -> bool:
         """
         Check equality for JointStore
+
         Args:
             other: other JointStore to compare with.
         """

src/maggma/stores/file_store.py

@@ -57,7 +57,8 @@ def __init__(
         **kwargs,
     ):
         """
-        Initializes a FileStore
+        Initializes a FileStore.
+
         Args:
             path: parent directory containing all files and subdirectories to process
             file_filters: List of fnmatch patterns defining the files to be tracked by
@@ -177,20 +178,20 @@ def read(self) -> List[Dict]:
         Iterate through all files in the Store folder and populate
         the Store with dictionaries containing basic information about each file.
 
-        The keys of the documents added to the Store are
-
-            name: str = File name
-            path: Path = Absolute path of this file
-            parent: str = Name of the parent directory (if any)
-            file_id: str = Unique identifier for this file, computed from the hash
-                        of its path relative to the base FileStore directory and
-                        the file creation time. The key of this field is 'file_id'
-                        by default but can be changed via the 'key' kwarg to
-                        FileStore.__init__().
-            size: int = Size of this file in bytes
-            last_updated: datetime = Time this file was last modified
-            hash: str = Hash of the file contents
-            orphan: bool = Whether this record is an orphan
+        The keys of the documents added to the Store are:
+
+        - name: str = File name
+        - path: Path = Absolute path of this file
+        - parent: str = Name of the parent directory (if any)
+        - file_id: str = Unique identifier for this file, computed from the hash
+                    of its path relative to the base FileStore directory and
+                    the file creation time. The key of this field is 'file_id'
+                    by default but can be changed via the 'key' kwarg to
+                    `FileStore.__init__()`.
+        - size: int = Size of this file in bytes
+        - last_updated: datetime = Time this file was last modified
+        - hash: str = Hash of the file contents
+        - orphan: bool = Whether this record is an orphan
         """
         file_list = []
         # generate a list of files in subdirectories
@@ -214,18 +215,18 @@ def _create_record_from_file(self, f: Path) -> Dict:
         basic information about that file. The keys in the returned dict
         are:
 
-            name: str = File name
-            path: Path = Absolute path of this file
-            parent: str = Name of the parent directory (if any)
-            file_id: str = Unique identifier for this file, computed from the hash
-                        of its path relative to the base FileStore directory and
-                        the file creation time. The key of this field is 'file_id'
-                        by default but can be changed via the 'key' kwarg to
-                        FileStore.__init__().
-            size: int = Size of this file in bytes
-            last_updated: datetime = Time this file was last modified
-            hash: str = Hash of the file contents
-            orphan: bool = Whether this record is an orphan
+        - name: str = File name
+        - path: Path = Absolute path of this file
+        - parent: str = Name of the parent directory (if any)
+        - file_id: str = Unique identifier for this file, computed from the hash
+                    of its path relative to the base FileStore directory and
+                    the file creation time. The key of this field is 'file_id'
+                    by default but can be changed via the 'key' kwarg to
+                    FileStore.__init__().
+        - size: int = Size of this file in bytes
+        - last_updated: datetime = Time this file was last modified
+        - hash: str = Hash of the file contents
+        - orphan: bool = Whether this record is an orphan
         """
         # compute the file_id from the relative path
         relative_path = f.relative_to(self.path)

src/maggma/stores/gridfs.py

@@ -452,7 +452,8 @@ def __init__(
         **kwargs,
     ):
         """
-        Initializes a GridFS Store for binary data
+        Initializes a GridFS Store for binary data.
+
         Args:
             uri: MongoDB+SRV URI
             database: database to connect to

src/maggma/stores/mongolike.py

@@ -348,7 +348,8 @@ def query(  # type: ignore
 
     def ensure_index(self, key: str, unique: Optional[bool] = False) -> bool:
         """
-        Tries to create an index and return true if it succeeded
+        Tries to create an index and return true if it succeeded.
+
         Args:
             key: single key to index
             unique: Whether or not this index contains only unique keys.
@@ -516,7 +517,8 @@ class MemoryStore(MongoStore):
 
     def __init__(self, collection_name: str = "memory_db", **kwargs):
         """
-        Initializes the Memory Store
+        Initializes the Memory Store.
+
         Args:
             collection_name: name for the collection in memory.
         """

src/maggma/stores/shared_stores.py

@@ -271,6 +271,7 @@ def get_store_index(self, store: Store) -> Optional[int]:
 
         Note: this is not a search for an instance of a store,
             but rather a search for a equivalent store
+
         Args:
             store: The store to find
 

tests/api/test_api.py

@@ -77,6 +77,7 @@ def test_msonable(owner_store, pet_store):
 def search_helper(payload, base: str = "/?", debug=True) -> Tuple[Response, Any]:
     """
     Helper function to directly query search endpoints
+
     Args:
         store: store f
         base: base of the query, default to /query?

tests/api/test_read_resource.py

@@ -110,7 +110,8 @@ def generate_hints(query):
 
 def search_helper(payload, base: str = "/?", debug=True) -> Response:
     """
-    Helper function to directly query search endpoints
+    Helper function to directly query search endpoints.
+
     Args:
         store: store f
         base: base of the query, default to /query?