diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index d2479b0c..efb65e1a 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -9,14 +9,14 @@ fail_fast: false
 
 repos:
 - repo: https://github.com/astral-sh/ruff-pre-commit
-  rev: v0.12.4
+  rev: v0.16.1
   hooks:
   - id: ruff
     args: [--fix]
   - id: ruff-format
 
 - repo: https://github.com/pre-commit/mirrors-mypy
-  rev: v1.17.0
+  rev: v2.3.0
   hooks:
   - id: mypy
     additional_dependencies:
@@ -25,7 +25,7 @@ repos:
     - types-PyYAML
     args: [--python-version=3.10, --ignore-missing-imports]
 - repo: https://github.com/macisamuele/language-formatters-pre-commit-hooks
-  rev: v2.15.0
+  rev: v2.16.0
   hooks:
   - id: pretty-format-yaml
     args:
@@ -39,7 +39,7 @@ repos:
     - --no-sort
 
 - repo: https://github.com/python-poetry/poetry
-  rev: 2.1.3
+  rev: 2.4.1
   hooks:
   - id: poetry-check
   - id: poetry-lock
@@ -59,7 +59,7 @@ repos:
     always_run: true
 
 - repo: https://github.com/pre-commit/pre-commit-hooks
-  rev: v5.0.0
+  rev: v6.0.0
   hooks:
   - id: check-case-conflict
   - id: end-of-file-fixer
diff --git a/src/cpac/__init__.py b/src/cpac/__init__.py
index 99fe3059..e8169535 100644
--- a/src/cpac/__init__.py
+++ b/src/cpac/__init__.py
@@ -1,4 +1,3 @@
-# -*- coding: utf-8 -*-
 """Init file for cpac."""
 
 from importlib.metadata import distribution, PackageNotFoundError
diff --git a/src/cpac/__main__.py b/src/cpac/__main__.py
index d4d08d1c..6154b5db 100644
--- a/src/cpac/__main__.py
+++ b/src/cpac/__main__.py
@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# -*- coding: utf-8 -*-
 """Main module for cpac package."""
 
 import argparse
@@ -82,10 +81,10 @@ def _parser():
     parser.add_argument(
         "--version",
         action="version",
-        version="cpac (convenience wrapper) version {ver}\nFor C-PAC version, "
+        version=f"cpac (convenience wrapper) version {__version__}\nFor C-PAC version, "
         "run `cpac version` with any cpac options (e.g., "
         "`--platform`, `--image`, `--tag`) that you would use "
-        "while running".format(ver=__version__),
+        "while running",
     )
 
     parser.add_argument(
@@ -475,10 +474,7 @@ def run():
     for i, arg in enumerate(args.copy()):
         if i == command_index:
             option_value_setting = False
-        if arg in options:
-            reordered_args.append(args.pop(args.index(arg)))
-            option_value_setting = True
-        elif any(arg.startswith(f"{option}=") for option in options):
+        if arg in options or any(arg.startswith(f"{option}=") for option in options):
             reordered_args.append(args.pop(args.index(arg)))
             option_value_setting = True
         elif option_value_setting:
diff --git a/src/cpac/backends/container_platform.py b/src/cpac/backends/container_platform.py
index e1435cab..ab9d2c94 100644
--- a/src/cpac/backends/container_platform.py
+++ b/src/cpac/backends/container_platform.py
@@ -107,7 +107,7 @@ def __init__(self, **kwargs):
                 tracking_path = get_or_create_config(udir)
                 self.volumes += Volume(tracking_path)
             else:
-                raise EnvironmentError(
+                raise OSError(
                     "Unable to create tracking "
                     "configuration. Please run with "
                     "--tracking_opt-out and C-PAC >= "
@@ -354,9 +354,11 @@ def _load_logging(self):
                 textwrap.indent(
                     tabulate(
                         table.applymap(
-                            lambda x: ("\n".join(textwrap.wrap(x, 42)))
-                            if isinstance(x, str)
-                            else x
+                            lambda x: (
+                                ("\n".join(textwrap.wrap(x, 42)))
+                                if isinstance(x, str)
+                                else x
+                            )
                         ),
                         headers="keys",
                         showindex=False,
@@ -460,7 +462,7 @@ def _set_bindings(self, **kwargs):
                     self._bind_volume(Volume(bind_parts[0]))
                 else:
                     raise SyntaxError(
-                        "I don't know what to do with custom binding {}".format(d)
+                        f"I don't know what to do with custom binding {d}"
                     )
         for d in ["bids_dir", "output_dir"]:  # pylint: disable=invalid-name
             if d in kwargs and isinstance(kwargs[d], str) and os.path.exists(kwargs[d]):
diff --git a/src/cpac/backends/docker.py b/src/cpac/backends/docker.py
index 66f1783d..4dc9ea9e 100644
--- a/src/cpac/backends/docker.py
+++ b/src/cpac/backends/docker.py
@@ -210,7 +210,7 @@ def __init__(self, container):
         self.container = container
         [
             print(l.decode("utf-8"), end="")
-            for l in self.container.attach(  # noqa: E741
+            for l in self.container.attach(
                 logs=True, stderr=True, stdout=True, stream=True
             )
         ]
diff --git a/src/cpac/helpers/cpac_parse_resources.py b/src/cpac/helpers/cpac_parse_resources.py
index 2a3f4fa8..9ecf039b 100755
--- a/src/cpac/helpers/cpac_parse_resources.py
+++ b/src/cpac/helpers/cpac_parse_resources.py
@@ -39,9 +39,9 @@ def display(df):
         tmp += [d["id"]]
         tmp += [d[runti]]
         tmp += [d[estim]]
-        tmp += ["{0:.2f} %".format(100 * d[runti] * 1.0 / d[estim])]
+        tmp += [f"{100 * d[runti] * 1.0 / d[estim]:.2f} %"]
 
-        tmp = ["{0:.4f}".format(t) if isinstance(t, float) else str(t) for t in tmp]
+        tmp = [f"{t:.4f}" if isinstance(t, float) else str(t) for t in tmp]
         table.add_row(*tmp)
         del tmp
 
@@ -67,7 +67,7 @@ def get_or_create_config(udir):
 def load_runtime_stats(callback):
     """Load stats from a callback log."""
     with open(callback) as fhandle:
-        logs = [json.loads(log) for log in fhandle.readlines()]
+        logs = [json.loads(log) for log in fhandle]
 
     pruned_logs = []
     for log in logs:
diff --git a/src/cpac/utils/bare_wrap.py b/src/cpac/utils/bare_wrap.py
index 07f23e90..d3ec4d98 100644
--- a/src/cpac/utils/bare_wrap.py
+++ b/src/cpac/utils/bare_wrap.py
@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# -*- coding: utf-8 -*-
 """Wrap another Python package without any modifications."""
 
 from argparse import _SubParsersAction, ArgumentParser, HelpFormatter, REMAINDER
@@ -193,7 +192,6 @@ class WrappedHelpFormatter(HelpFormatter):
 
     def add_arguments(self, actions):
         """Don't add arguments."""
-        pass
 
 
 def add_bare_wrapper(parser: _SubParsersAction, command: str) -> None:
@@ -238,7 +236,7 @@ def call(name: str, command: list) -> None:
         raise KeyError(f"Package {name} not defined in dependencies") from ke
     marker = getattr(package_info, "marker", None)
     if marker and marker.evaluate({"extra": name}) is False:
-        raise EnvironmentError(
+        raise OSError(
             f"Current environment does not meet requirements ({marker}) for package {name}"
         )
     try:
diff --git a/tests/conftest.py b/tests/conftest.py
index 10274ab5..1709a9bc 100644
--- a/tests/conftest.py
+++ b/tests/conftest.py
@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# -*- coding: utf-8 -*-
 """conftest.py for cpac.
 
 Read more about conftest.py under:
diff --git a/tests/test_wrapped.py b/tests/test_wrapped.py
index 2740581c..cc798ed5 100644
--- a/tests/test_wrapped.py
+++ b/tests/test_wrapped.py
@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# -*- coding: utf-8 -*-
 """Test bare-wrapped commands."""
 
 from subprocess import call