chore: update pre-commit hooks and apply auto-fixes

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Author: RPL

.pre-commit-config.yaml

@@ -12,12 +12,12 @@ repos:
       - id: end-of-file-fixer
       - id: trailing-whitespace
   - repo: https://github.com/kynan/nbstripout
-    rev: 0.6.1
+    rev: 0.9.1
     hooks:
       - id: nbstripout
   - repo: https://github.com/astral-sh/ruff-pre-commit
     # Ruff version.
-    rev: v0.14.1
+    rev: v0.15.14
     hooks:
       # Run the linter.
       - id: ruff

scripts/delete_all_runs.py

@@ -1,4 +1,5 @@
 """delete all runs"""
+
 from argparse import ArgumentParser
 
 import requests

src/ot2_interface/config.py

@@ -1,4 +1,5 @@
 """Stores dataclasses/args/config for the ot2 drivers"""
+
 import json
 from argparse import ArgumentParser, Namespace
 from pathlib import Path

src/ot2_interface/protopiler/config.py

@@ -1,4 +1,5 @@
 """Dataclasses and other configuration used in the protopiler"""
+
 from pathlib import Path
 from typing import List, Literal, Optional, TypeVar, Union
 

src/ot2_interface/protopiler/deconstructor.py

@@ -1,4 +1,5 @@
 """Deconstructor, parses a protocol and turns it into a config"""
+
 import re
 import subprocess
 from argparse import ArgumentParser

src/ot2_interface/protopiler/protopiler.py

@@ -1,4 +1,5 @@
 """Protopiler is designed to compile a config yaml into a working protocol"""
+
 import argparse
 import copy
 from datetime import datetime
@@ -7,6 +8,7 @@
 from typing import Dict, Generator, List, Optional, Tuple, Union
 
 import pandas as pd
+
 from ot2_interface.protopiler.config import (
     Clear_Pipette,
     CommandBase,
@@ -501,7 +503,7 @@ def yaml_to_protocol(
                         "#location#", f'"{location}"'
                     )
                     labware_command = labware_command.replace(
-                        "#nickname#", f'{"module"}'
+                        "#nickname#", f"{'module'}"
                     )
                     labware_command = labware_command.replace(
                         "#labware_name#", f'"{name}"'

src/ot2_interface/protopiler/resource_manager.py

@@ -1,4 +1,5 @@
 """Class to manage/keep track of resources used by a protocol"""
+
 import json
 import re
 from argparse import ArgumentParser

src/ot2_interface/protopiler/test_configs/basic_config.py

@@ -1,4 +1,5 @@
 """basic config module"""
+
 from opentrons import protocol_api
 
 metadata = {

src/ot2_rest_node.py

@@ -9,9 +9,10 @@
 from madsci.common.types.resource_types import Container, Pool, Slot, Stack
 from madsci.node_module.helpers import action
 from madsci.node_module.rest_node_module import RestNode
-from ot2_interface.ot2_driver_http import OT2_Config, OT2_Driver
 from typing_extensions import Annotated
 
+from ot2_interface.ot2_driver_http import OT2_Config, OT2_Driver
+
 
 class OT2NodeConfig(RestNodeConfig):
     """Configuration for the OT2 node module."""
@@ -429,9 +430,7 @@ def execute(self, protocol_path, payload=None, resource_config=None):
         try:
             protocol_id, run_id = self.ot2_interface.transfer(protocol_file_path)
             self.logger.log(
-                "OT2 "
-                + self.node_info.node_name
-                + " protocol transfer successful"
+                "OT2 " + self.node_info.node_name + " protocol transfer successful"
             )
 
             self.run_id = run_id