diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index e0dd383..430975c 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -1,23 +1,23 @@
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.4.0
+    rev: v5.0.0
     hooks:
       - id: check-added-large-files
       - id: trailing-whitespace
       - id: end-of-file-fixer
       - id: mixed-line-ending
   - repo: "https://github.com/ambv/black"
-    rev: 23.1.0
+    rev: 25.1.0
     hooks:
       - id: black-jupyter
         language_version: python3
   - repo: https://github.com/charliermarsh/ruff-pre-commit
-    rev: "v0.0.259"
+    rev: "v0.11.2"
     hooks:
       - id: ruff
         args: ["--fix"]
   - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: "v1.1.1"
+    rev: "v1.15.0"
     hooks:
       - id: mypy
         additional_dependencies: ["types-PyYAML", "types-requests", "types-setuptools"]
diff --git a/markdown_code_runner.py b/markdown_code_runner.py
index bb142c6..901426e 100644
--- a/markdown_code_runner.py
+++ b/markdown_code_runner.py
@@ -35,6 +35,7 @@
 echo "Hello, world!"
 ```
 Which will similarly print the output of the code block between next to the output markers.
+
 """
 
 from __future__ import annotations
@@ -134,11 +135,12 @@ def execute_code(
             exec(full_code, context)  # noqa: S102
             output = string.getvalue().split("\n")
     elif language == "bash":
-        result = subprocess.run(
+        result = subprocess.run(  # noqa: S602
             full_code,
             capture_output=True,
             text=True,
             shell=True,
+            check=False,
         )
         output = result.stdout.split("\n")
     else:
@@ -304,6 +306,7 @@ def process_markdown(content: list[str], *, verbose: bool = False) -> list[str]:
     -------
     list[str]
         A modified list of Markdown-formatted strings with code block output inserted.
+
     """
     assert isinstance(content, list), "Input must be a list"
     state = ProcessingState()
diff --git a/tests/test_app.py b/tests/test_app.py
index 60c956b..53efd3c 100644
--- a/tests/test_app.py
+++ b/tests/test_app.py
@@ -1,4 +1,5 @@
 """Test the markdown_code_runner app."""
+
 from __future__ import annotations
 
 import argparse
@@ -748,10 +749,6 @@ def test_patterns() -> None:
         ),
         ("```python markdown-code-runner", {"language": "python"}),
         ("This is a regular text line", {}),
-        (
-            "```javascript markdown-code-runner filename=test.js",
-            {"language": "javascript", "filename": "test.js"},
-        ),
         (
             "```python markdown-code-runner arg=test.js",
             {"language": "python", "arg": "test.js"},
@@ -760,10 +757,6 @@ def test_patterns() -> None:
             "```javascript markdown-code-runner filename=test.js arg2=1",
             {"language": "javascript", "filename": "test.js", "arg2": "1"},
         ),
-        (
-            "```python markdown-code-runner",
-            {"language": "python"},
-        ),
         (
             "```python markdown-code-runner arg1=value1 arg2=value2 arg3=value3",
             {