From 5b05f781eccaa18552db830d4cc8391300f65abe Mon Sep 17 00:00:00 2001
From: Leonardo Schwarz <leonardo.schwarz@fgcz.ethz.ch>
Date: Mon, 1 Jul 2024 08:52:50 +0200
Subject: [PATCH] formatting

---
 bfabric/bfabric.py                                  | 1 -
 bfabric/scripts/bfabric_feeder_mascot.py            | 4 +---
 bfabric/scripts/bfabric_list_workunit_parameters.py | 8 ++++----
 bfabric/scripts/bfabric_save_csv2dataset.py         | 4 +---
 bfabric/scripts/bfabric_save_dataset2csv.py         | 4 +---
 5 files changed, 7 insertions(+), 14 deletions(-)

diff --git a/bfabric/bfabric.py b/bfabric/bfabric.py
index bb5f92af..584b7b4e 100755
--- a/bfabric/bfabric.py
+++ b/bfabric/bfabric.py
@@ -297,7 +297,6 @@ def get_system_auth(
     else:
         config_path = Path(config_path).expanduser()
 
-
     # Use the provided config data from arguments instead of the file
     if not config_path.is_file():
         if have_config_path:
diff --git a/bfabric/scripts/bfabric_feeder_mascot.py b/bfabric/scripts/bfabric_feeder_mascot.py
index cb28cada..d4b7d82b 100755
--- a/bfabric/scripts/bfabric_feeder_mascot.py
+++ b/bfabric/scripts/bfabric_feeder_mascot.py
@@ -65,9 +65,7 @@ def query_mascot_result(file_path: str) -> bool:
         print("\thit")
         wu = DB[file_path]
         if "workunitid" in wu:
-            print(
-                f"\tdat file {file_path} already registered as workunit id {wu['workunitid']}. continue ..."
-            )
+            print(f"\tdat file {file_path} already registered as workunit id {wu['workunitid']}. continue ...")
             return
         else:
             print("\tno workunitid found")
diff --git a/bfabric/scripts/bfabric_list_workunit_parameters.py b/bfabric/scripts/bfabric_list_workunit_parameters.py
index c15b299f..6c863816 100644
--- a/bfabric/scripts/bfabric_list_workunit_parameters.py
+++ b/bfabric/scripts/bfabric_list_workunit_parameters.py
@@ -48,9 +48,7 @@ def get_workunits_table_full(application_id: int, client: Bfabric, max_workunits
             inputdataset_id=pl.col("inputdataset").struct[1],
         )
     else:
-        workunits_table_full = workunits_table_full.with_columns(
-            inputdataset_id=pl.lit(None)
-        )
+        workunits_table_full = workunits_table_full.with_columns(inputdataset_id=pl.lit(None))
     return workunits_table_full
 
 
@@ -78,7 +76,9 @@ def get_parameter_table(client: Bfabric, workunits_table_explode: pl.DataFrame)
     # load the parameters table
     collect = []
     for i_frame, frame in enumerate(workunits_table_explode.iter_slices(100)):
-        print(f"-- Reading parameters chunk {i_frame + 1} of {len(workunits_table_explode) // 100 + 1}", file=sys.stderr)
+        print(
+            f"-- Reading parameters chunk {i_frame + 1} of {len(workunits_table_explode) // 100 + 1}", file=sys.stderr
+        )
         chunk = (
             client.read("parameter", {"id": frame["parameter_id"].to_list()}).to_polars().rename({"id": "parameter_id"})
         )
diff --git a/bfabric/scripts/bfabric_save_csv2dataset.py b/bfabric/scripts/bfabric_save_csv2dataset.py
index c06c2134..511909c0 100755
--- a/bfabric/scripts/bfabric_save_csv2dataset.py
+++ b/bfabric/scripts/bfabric_save_csv2dataset.py
@@ -99,9 +99,7 @@ def check_for_invalid_characters(data: pl.DataFrame, invalid_characters: str) ->
         .to_numpy()
     )
     if len(invalid_columns) > 0:
-        raise RuntimeError(
-            f"Invalid characters found in columns: {invalid_columns[0]}"
-        )
+        raise RuntimeError(f"Invalid characters found in columns: {invalid_columns[0]}")
 
 
 def main() -> None:
diff --git a/bfabric/scripts/bfabric_save_dataset2csv.py b/bfabric/scripts/bfabric_save_dataset2csv.py
index 5d3599fb..637d17ae 100755
--- a/bfabric/scripts/bfabric_save_dataset2csv.py
+++ b/bfabric/scripts/bfabric_save_dataset2csv.py
@@ -68,9 +68,7 @@ def main() -> None:
     )
     parser.add_argument("--sep", default=",", help="the separator to use in the csv file e.g. ',' or '\\t'")
     args = parser.parse_args()
-    bfabric_save_dataset2csv(
-        client=client, out_dir=args.dir, out_filename=args.file, dataset_id=args.id, sep=args.sep
-    )
+    bfabric_save_dataset2csv(client=client, out_dir=args.dir, out_filename=args.file, dataset_id=args.id, sep=args.sep)
 
 
 if __name__ == "__main__":