Apply ruff changes

Author: cmacmackin

src/boutupgrader/bout_v5_input_file_upgrader.py

@@ -326,7 +326,9 @@ def run_general(REPLACEMENTS, DELETED, args, *, additional_modifications=None):
             continue
 
         try:
-            modified = apply_fixes(REPLACEMENTS, DELETED, original, additional_modifications)
+            modified = apply_fixes(
+                REPLACEMENTS, DELETED, original, additional_modifications
+            )
         except RuntimeError as e:
             print(e)
             continue

src/boutupgrader/hermes_collisions_input_file_upgrader.py

@@ -1,22 +1,29 @@
+import re
 from itertools import chain
 from typing import TypedDict
-import re
 
-from .bout_v5_input_file_upgrader import add_parser_general, run_general
 from boutdata.data import BoutOptionsFile
 
+from .bout_v5_input_file_upgrader import add_parser_general, run_general
+
+
 class Replacement(TypedDict):
     old: str
     new: str
 
+
 REPLACEMENTS = []
 DELETED = []
 
 NEW_NAMES = {
-    "collisions": ["braginskii_collisions", "braginskii_friction", "braginskii_heat_exchange"],
+    "collisions": [
+        "braginskii_collisions",
+        "braginskii_friction",
+        "braginskii_heat_exchange",
+    ],
     "electron_viscosity": ["braginskii_electron_viscosity"],
     "ion_viscosity": ["braginskii_ion_viscosity"],
-    "thermal_force": ["braginskii_thermal_force"]
+    "thermal_force": ["braginskii_thermal_force"],
 }
 
 COMPONENT_RE = re.compile(r"[+\-\w]+")
@@ -30,7 +37,11 @@ def update_component_names(options_file: BoutOptionsFile) -> None:
     for section_name in components:
         section = options_file.getSection(section_name)
         explicit_types = "type" in section
-        types = [tname.strip() for tname in section["type"].split(",")] if explicit_types else [section_name]
+        types = (
+            [tname.strip() for tname in section["type"].split(",")]
+            if explicit_types
+            else [section_name]
+        )
         open_paren = types[0][0] == "("
         close_paren = types[-1][-1] == ")"
         if open_paren:
@@ -42,7 +53,11 @@ def update_component_names(options_file: BoutOptionsFile) -> None:
         if "recycling" in new_types:
             recycling_component = section_name
         if new_types != types:
-            section["type"] =  ("(" if open_paren else "") + ", ".join(new_types) + (")" if close_paren else "")
+            section["type"] = (
+                ("(" if open_paren else "")
+                + ", ".join(new_types)
+                + (")" if close_paren else "")
+            )
     # Add braginskii_conduction to the end of the list of components
     if has_collisions:
         components.append("braginskii_conduction")
@@ -52,8 +67,12 @@ def update_component_names(options_file: BoutOptionsFile) -> None:
             components.append(recycling_component)
     options_file["hermes:components"] = "(" + ", ".join(components) + ")"
 
+
 def run(args) -> None:
-    run_general(REPLACEMENTS, DELETED, args, additional_modifications=update_component_names)
-    
+    run_general(
+        REPLACEMENTS, DELETED, args, additional_modifications=update_component_names
+    )
+
+
 def add_parser(subcommand, default_args, files_args):
     return add_parser_general(subcommand, default_args, files_args, run, "Hermes-3")