From 5e044995d3558ca3dcbd3436bb1453702f31d670 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci-lite[bot]"
 <117423508+pre-commit-ci-lite[bot]@users.noreply.github.com>
Date: Fri, 1 Nov 2024 10:24:01 +0000
Subject: [PATCH] Apply automatic formatting

---
 src/scicat_configuration.py |  2 +-
 src/scicat_dataset.py       | 27 ++++++++++-----------------
 2 files changed, 11 insertions(+), 18 deletions(-)

diff --git a/src/scicat_configuration.py b/src/scicat_configuration.py
index e2e367e..b89e836 100644
--- a/src/scicat_configuration.py
+++ b/src/scicat_configuration.py
@@ -204,7 +204,7 @@ class FileHandlingOptions:
     ingestor_files_directory: str = "../ingestor"
     message_to_file: bool = True
     message_file_extension: str = "message.json"
-    file_path_type: str = "relative" # allowed values: absolute and relative
+    file_path_type: str = "relative"  # allowed values: absolute and relative
 
 
 @dataclass(kw_only=True)
diff --git a/src/scicat_dataset.py b/src/scicat_dataset.py
index 86c6512..6e2b527 100644
--- a/src/scicat_dataset.py
+++ b/src/scicat_dataset.py
@@ -198,8 +198,7 @@ def extract_paths_from_h5_file(
         for key in temp_keys:
             output_paths += [
                 key + "/" + subkey
-                for subkey
-                in extract_paths_from_h5_file(
+                for subkey in extract_paths_from_h5_file(
                     _h5_object[key], copy.deepcopy(_path)
                 )
             ]
@@ -607,9 +606,9 @@ def scicat_dataset_to_dict(dataset: ScicatDataset) -> dict:
 
 
 def _define_dataset_source_folder(
-        datafilelist: list[DataFileListItem],
-        data_file_path: pathlib.Path,
-        source_folder_config: str = "common_path"
+    datafilelist: list[DataFileListItem],
+    data_file_path: pathlib.Path,
+    source_folder_config: str = "common_path",
 ) -> pathlib.Path | None:
     """
     Return the dataset source folder, which is the common path
@@ -624,10 +623,11 @@ def _define_dataset_source_folder(
     else:
         return None
 
+
 def _path_to_relative(
     datafilelist_item: DataFileListItem,
     dataset_source_folder: pathlib.Path,
-    file_path_type: str = "relative"
+    file_path_type: str = "relative",
 ) -> DataFileListItem:
     """
     Copy the datafiles item and transform the path to the relative path
@@ -648,20 +648,15 @@ def _path_to_relative(
 def _prepare_origdatablock_datafilelist(
     datafiles_list: list[DataFileListItem],
     dataset_source_folder: pathlib.Path,
-    file_path_type: str = "relative"
+    file_path_type: str = "relative",
 ) -> list[DataFileListItem]:
     """
     Prepare the datafiles list for the origdatablock entry in scicat
     That means that the file paths needs to be relative to the dataset source folder
     """
     return [
-        _path_to_relative(
-            item,
-            dataset_source_folder,
-            file_path_type
-        )
-        for item
-        in datafiles_list
+        _path_to_relative(item, dataset_source_folder, file_path_type)
+        for item in datafiles_list
     ]
 
 
@@ -671,9 +666,7 @@ def create_origdatablock_instance(
     config: FileHandlingOptions,
 ) -> OrigDataBlockInstance:
     origdatablock_datafiles_list = _prepare_origdatablock_datafilelist(
-        data_file_list,
-        scicat_dataset["sourceFolder"],
-        config.file_path_type
+        data_file_list, scicat_dataset["sourceFolder"], config.file_path_type
     )
     return OrigDataBlockInstance(
         datasetId=scicat_dataset["pid"],