diff --git a/.flake8 b/.flake8
new file mode 100644
index 0000000..c2486c7
--- /dev/null
+++ b/.flake8
@@ -0,0 +1,7 @@
+[flake8]
+max-line-length = 79
+# E203: whitespace before :, flake8 disagrees with PEP 8
+# W503: line break after binary operator, flake8 disagrees with PEP 8
+ignore = E203, W503
+exclude =
+    docs/conf.py
diff --git a/.github/workflows/ci.yaml b/.github/workflows/ci.yaml
index 4afeec1..bc0b8d6 100644
--- a/.github/workflows/ci.yaml
+++ b/.github/workflows/ci.yaml
@@ -11,16 +11,16 @@ name: Python CI
       - "renovate/**"
       - "tickets/**"
       - "u/**"
-    tags:
-      - "*"
   pull_request: {}
+  release:
+    types: [published]
 
 jobs:
   lint:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           submodules: true
 
@@ -36,9 +36,11 @@ jobs:
           - "3.8"
           - "3.9"
           - "3.10"
+          - "3.11"
+          - "3.12"
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           submodules: true
 
@@ -52,7 +54,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -62,7 +64,7 @@ jobs:
       - name: Run tox
         uses: lsst-sqre/run-tox@v1
         with:
-          python-version: "3.10"
+          python-version: "3.12"
           tox-envs: "docs"
 
       # Only attempt documentation uploads for tagged releases and pull
@@ -80,18 +82,42 @@ jobs:
           username: ${{ secrets.LTD_USERNAME }}
           password: ${{ secrets.LTD_PASSWORD }}
 
+  test-packaging:
+    name: Test packaging
+    runs-on: ubuntu-latest
+
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: 0 # full history for setuptools_scm
+
+      - name: Build and publish
+        uses: lsst-sqre/build-and-publish-to-pypi@v2
+        with:
+          python-version: '3.12'
+          upload: false
+
   pypi:
+    # This job requires set up:
+    # 1. Set up a trusted publisher for PyPI
+    # 2. Set up a "pypi" environment in the repository
+    # See https://github.com/lsst-sqre/build-and-publish-to-pypi
+    name: Upload release to PyPI
     runs-on: ubuntu-latest
-    needs: [test, docs]
-    if: startsWith(github.ref, 'refs/tags/')
+    needs: [lint, test, docs, test-packaging]
+    environment:
+      name: pypi
+      url: https://pypi.org/p/templatekit
+    permissions:
+      id-token: write
+    if: github.event_name == 'release' && github.event.action == 'published'
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0 # full history for setuptools_scm
 
-      - name: Upload
-        uses: lsst-sqre/build-and-publish-to-pypi@v1
+      - name: Build and publish
+        uses: lsst-sqre/build-and-publish-to-pypi@v2
         with:
-          pypi-token: ${{ secrets.PYPI_SQRE_ADMIN }}
-          python-version: "3.10"
+          python-version: '3.12'
diff --git a/.github/workflows/dependencies.yaml b/.github/workflows/dependencies.yaml
new file mode 100644
index 0000000..f57ecc5
--- /dev/null
+++ b/.github/workflows/dependencies.yaml
@@ -0,0 +1,33 @@
+name: Dependency Update
+
+'on':
+  schedule:
+    - cron: '0 12 * * 1'
+  workflow_dispatch: {}
+
+jobs:
+  update:
+    runs-on: ubuntu-latest
+    timeout-minutes: 10
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Run neophile
+        uses: lsst-sqre/run-neophile@v1
+        with:
+          python-version: '3.11'
+          mode: pr
+          types: pre-commit
+          app-id: ${{ secrets.NEOPHILE_APP_ID }}
+          app-secret: ${{ secrets.NEOPHILE_PRIVATE_KEY }}
+
+      - name: Report status
+        if: always()
+        uses: ravsamhq/notify-slack-action@v2
+        with:
+          status: ${{ job.status }}
+          notify_when: 'failure'
+          notification_title: 'Periodic dependency update for {repo} failed'
+        env:
+          SLACK_WEBHOOK_URL: ${{ secrets.SLACK_ALERT_WEBHOOK }}
diff --git a/.github/workflows/periodic.yaml b/.github/workflows/periodic.yaml
index 4aab78c..235f7c6 100644
--- a/.github/workflows/periodic.yaml
+++ b/.github/workflows/periodic.yaml
@@ -7,14 +7,14 @@ name: Periodic CI
 
 "on":
   schedule:
-    - cron: "0 12 * * 1"
+    - cron: "0 13 * * 1"
 
 jobs:
   lint:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           submodules: true
 
@@ -32,7 +32,7 @@ jobs:
           - "3.10"
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           submodules: true
 
@@ -48,17 +48,17 @@ jobs:
           python-version: ${{ matrix.python }}
           tox-envs: "py,typing"
 
-  pypi:
+  test-packaging:
+    name: Test packaging
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0 # full history for setuptools_scm
 
-      - name: Upload
-        uses: lsst-sqre/build-and-publish-to-pypi@v1
+      - name: Build and publish
+        uses: lsst-sqre/build-and-publish-to-pypi@v2
         with:
-          pypi-token: ${{ secrets.PYPI_SQRE_ADMIN }}
-          python-version: "3.10"
+          python-version: '3.12'
           upload: false
diff --git a/CHANGELOG.rst b/CHANGELOG.rst
index 5b4802c..e973e19 100644
--- a/CHANGELOG.rst
+++ b/CHANGELOG.rst
@@ -2,6 +2,17 @@
 Change log
 ##########
 
+0.6.0 (2023-10-13)
+==================
+
+- Add a new ``-i/--ignore`` option to the ``templatekit check`` command.
+  This option allows the user to ignore certain files when checking for untracked files or dirty Git state after regenerating examples.
+  This is useful for files that have dynamic content, such as dates and times, that we do not expect to be consistent.
+- Migrate the packaging to ``pyproject.toml`` and retire the ``setup.cfg`` and ``setup.py`` files.
+- Migrate to the new Rubin user guide theme for documentation.
+- Add GitHub Actions workflow to update pre-commit hooks with Neophile.
+- Adopted the PyPI trusted publishers workflow.
+
 0.5.1 (2022-03-15)
 ==================
 
diff --git a/docs/_rst_epilog.rst b/docs/_rst_epilog.rst
new file mode 100644
index 0000000..68d72d4
--- /dev/null
+++ b/docs/_rst_epilog.rst
@@ -0,0 +1,7 @@
+
+.. _Cookiecutter: https://cookiecutter.readthedocs.io/en/latest/
+.. _Jinja: http://jinja.pocoo.org
+.. _lsst/templates: https://github.com/lsst/templates
+.. _mypy: http://www.mypy-lang.org
+.. _tox: https://tox.readthedocs.io/en/latest/
+.. _pytest: https://docs.pytest.org/en/latest/
diff --git a/docs/conf.py b/docs/conf.py
index f3d0394..adc5988 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -1,139 +1 @@
-import os
-import sys
-
-import lsst_sphinx_bootstrap_theme
-from documenteer.sphinxconfig.utils import form_ltd_edition_name
-
-# Work around Sphinx bug related to large and highly-nested source files
-sys.setrecursionlimit(2000)
-
-# -- Common links and substitutions ---------------------------------------
-
-rst_epilog = """
-
-.. _Cookiecutter: https://cookiecutter.readthedocs.io/en/latest/
-.. _Jinja: http://jinja.pocoo.org
-.. _lsst/templates: https://github.com/lsst/templates
-.. _mypy: http://www.mypy-lang.org
-.. _tox: https://tox.readthedocs.io/en/latest/
-.. _pytest: https://docs.pytest.org/en/latest/
-"""
-
-# -- General configuration ------------------------------------------------
-
-# If your documentation needs a minimal Sphinx version, state it here.
-# needs_sphinx = '1.0'
-
-# Add any Sphinx extension module names here, as strings. They can be
-# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
-# ones.
-extensions = [
-    "sphinx.ext.autodoc",
-    "sphinx.ext.doctest",
-    "sphinx.ext.intersphinx",
-    "sphinx.ext.todo",
-    "sphinx.ext.ifconfig",
-    "sphinx_click.ext",
-    "numpydoc",
-    "sphinx_automodapi.automodapi",
-    "sphinx_automodapi.smart_resolver",
-    "documenteer.sphinxext",
-]
-
-# The suffix(es) of source filenames.
-# You can specify multiple suffix as a list of string:
-# source_suffix = ['.rst', '.md']
-source_suffix = ".rst"
-
-# The master toctree document.
-master_doc = "index"
-
-# General information about the project.
-project = "Templatekit"
-copyright = "2018-2019 Association of Universities for Research in Astronomy"
-author = "LSST Data Management"
-
-# The version info for the project you're documenting, acts as replacement for
-# |version| and |release|, also used in various other places throughout the
-# built documents.
-if os.getenv("TRAVIS_BRANCH", default="master") == "master":
-    # Use the current release as the version tag if on master
-    version = "Current"
-    release = version
-else:
-    # Use branch name as the version tag
-    version = form_ltd_edition_name(
-        git_ref_name=os.getenv("TRAVIS_BRANCH", default="master")
-    )
-    release = version
-
-# There are two options for replacing |today|: either, you set today to some
-# non-false value, then it is used:
-# today = ''
-# Else, today_fmt is used as the format for a strftime call.
-# today_fmt = '%B %d, %Y'
-
-# List of patterns, relative to source directory, that match files and
-# directories to ignore when looking for source files.
-exclude_patterns = ["_build", "README.rst"]
-
-# The name of the Pygments (syntax highlighting) style to use.
-pygments_style = "sphinx"
-
-# The reST default role cross-links Python (used for this markup: `text`)
-default_role = "py:obj"
-
-# Intersphinx
-
-intersphinx_mapping = {
-    "python": ("https://docs.python.org/3/", None),
-    "cookiecutter": ("https://cookiecutter.readthedocs.io/en/latest/", None),
-}
-
-# -- Options for linkcheck builder ----------------------------------------
-
-linkcheck_retries = 2
-
-# -- Options for HTML output ----------------------------------------------
-
-templates_path = [
-    "_templates",
-    lsst_sphinx_bootstrap_theme.get_html_templates_path(),
-]
-
-html_theme = "lsst_sphinx_bootstrap_theme"
-html_theme_path = [lsst_sphinx_bootstrap_theme.get_html_theme_path()]
-
-
-html_context = {
-    # Enable "Edit in GitHub" link
-    "display_github": True,
-    # https://{{ github_host|default("github.com") }}/{{ github_user }}/
-    #     {{ github_repo }}/blob/
-    #     {{ github_version }}{{ conf_py_path }}{{ pagename }}{{ suffix }}
-    "github_user": "lsst-sqre",
-    "github_repo": "templatekit",
-    "conf_py_path": "docs/",
-    # TRAVIS_BRANCH is available in CI, but master is a safe default
-    "github_version": os.getenv("TRAVIS_BRANCH", default="master") + "/",
-}
-
-# Theme options are theme-specific and customize the look and feel of a theme
-# further.  For a list of options available for each theme, see the
-# documentation.
-html_theme_options = {"logotext": project}
-
-# The name for this set of Sphinx documents.  If None, it defaults to
-# "<project> v<release> documentation".
-# html_title = None
-
-# A shorter title for the navigation bar.  Default is the same as html_title.
-html_short_title = project
-
-# Add any paths that contain custom static files (such as style sheets) here,
-# relative to this directory. They are copied after the builtin static files,
-# so a file named "default.css" will overwrite the builtin "default.css".
-html_static_path = []
-
-# If true, links to the reST sources are added to the pages.
-html_show_sourcelink = False
+from documenteer.conf.guide import *  # noqa: F401, F403
diff --git a/docs/dev/index.rst b/docs/dev/index.rst
new file mode 100644
index 0000000..bc35216
--- /dev/null
+++ b/docs/dev/index.rst
@@ -0,0 +1,10 @@
+#################
+Development guide
+#################
+
+.. toctree::
+   :maxdepth: 2
+   :titlesonly:
+
+   development
+   release
diff --git a/docs/documenteer.toml b/docs/documenteer.toml
new file mode 100644
index 0000000..7701376
--- /dev/null
+++ b/docs/documenteer.toml
@@ -0,0 +1,43 @@
+[project]
+title = "Templatekit"
+copyright = "2018-2023 Association of Universities for Research in Astronomy, Inc. (AURA)"
+
+[project.python]
+package = "templatekit"
+
+[sphinx]
+rst_epilog_file = "_rst_epilog.rst"
+disable_primary_sidebars = [
+    "index",
+    "changelog",
+]
+extensions = [
+    "sphinx_click.ext"
+]
+# nitpick_ignore = [
+#     ["py:class", "pydantic.main.BaseModel"],
+#     ["py:class", "pydantic.utils.Representation"],
+#     ["py:class", "pydantic.networks.HttpUrl"],
+#     ["py:class", "pydantic.networks.AnyHttpUrl"],
+#     ["py:class", "pydantic.networks.AnyUrl"],
+#     ["py:class", "pydantic.errors.UrlError"],
+#     ["py:class", "pydantic.errors.PydanticValueError"],
+#     ["py:class", "pydantic.errors.PydanticErrorMixin"],
+#     ["py:class", "pydantic.networks.HttpUrl"],
+#     ["py:class", "pydantic.networks.AnyHttpUrl"],
+#     ["py:class", "pydantic.networks.AnyUrl"],
+#     ["py:class", "pydantic.errors.UrlError"],
+#     ["py:class", "pydantic.errors.PydanticValueError"],
+#     ["py:class", "pydantic.errors.PydanticErrorMixin"],
+#     ["py:class", "unicode"],
+# ]
+
+[sphinx.linkcheck]
+ignore = [
+    "demo/index.html",
+    "https://support.orcid.org",
+]
+
+[sphinx.intersphinx.projects]
+cookiecutter = "https://cookiecutter.readthedocs.io/en/latest/"
+python = "https://docs.python.org/3/"
diff --git a/docs/index.rst b/docs/index.rst
index cb754fc..09baeff 100644
--- a/docs/index.rst
+++ b/docs/index.rst
@@ -19,30 +19,7 @@ Templatekit is available from `PyPI <https://pypi.org/project/templatekit/>`_:
 .. toctree::
    :hidden:
    
+   user-guide/index
+   Template guide <template-guide/index>
    changelog
-
-
-User guide
-==========
-
-.. toctree::
-   :maxdepth: 1
-
-   cli-reference
-
-Template development guide
-==========================
-
-.. toctree::
-   :maxdepth: 2
-
-   template-guide/index
-
-Development guide
-=================
-
-.. toctree::
-   :maxdepth: 1
-
-   dev/development
-   dev/release
+   dev/index
diff --git a/docs/cli-reference.rst b/docs/user-guide/cli-reference.rst
similarity index 100%
rename from docs/cli-reference.rst
rename to docs/user-guide/cli-reference.rst
diff --git a/docs/user-guide/index.rst b/docs/user-guide/index.rst
new file mode 100644
index 0000000..024d2c7
--- /dev/null
+++ b/docs/user-guide/index.rst
@@ -0,0 +1,9 @@
+##########
+User guide
+##########
+
+.. toctree::
+   :maxdepth: 2
+   :titlesonly:
+
+   cli-reference
diff --git a/pyproject.toml b/pyproject.toml
index ab54fed..8146f9b 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,13 +1,78 @@
-[build-system]
-requires = [
-    "setuptools>=42",
-    "wheel",
-    "setuptools_scm[toml]>=3.4"
+[project]
+# https://packaging.python.org/en/latest/specifications/declaring-project-metadata/
+name = "templatekit"
+description = "Tookit for rendering Rubin Observatory project templates"
+license = { file = "LICENSE" }
+readme = "README.rst"
+keywords = ["rubin", "lsst"]
+# https://pypi.org/classifiers/
+classifiers = [
+    "Development Status :: 4 - Beta",
+    "License :: OSI Approved :: MIT License",
+    "Programming Language :: Python",
+    "Programming Language :: Python :: 3",
+    "Programming Language :: Python :: 3.8",
+    "Programming Language :: Python :: 3.9",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "Intended Audience :: Developers",
+    "Natural Language :: English",
+    "Operating System :: POSIX",
+    "Typing :: Typed",
+]
+requires-python = ">=3.8"
+dependencies = [
+    "Cerberus>=1.2",
+    "click",
+    "cookiecutter>=1.6.0",
+    "GitPython>=3.0.0",
+    "Jinja2>=2.10",
+    "pyperclip>=1.6.0",
+    "PyYAML>=5.1",
+    "scons>=3.0.1",
+]
+dynamic = ["version"]
+
+[[project.authors]]
+name = "Association of Universities for Research in Astronomy, Inc. (AURA)"
+email = "sqre-admin@lists.lsst.org"
+
+[[project.authors]]
+name = "Jonathan Sick"
+email = "jsick@lsst.org"
+
+
+[project.optional-dependencies]
+dev = [
+    "coverage[toml]",
+    "mypy",
+    "pre-commit",
+    "pytest",
+    "pytest-cov",
+    "types-PyYAML",
+    # documentation
+    "documenteer[guide]",
+    "sphinx-click",
 ]
-build-backend = 'setuptools.build_meta'
+
+[project.urls]
+Homepage = "https://templatekit.lsst.io"
+Source = "https://github.com/lsst-sqre/templatekit"
+
+[project.scripts]
+templatekit = "templatekit.scripts.main:main"
+
+[build-system]
+requires = ["setuptools>=61", "wheel", "setuptools_scm[toml]>=6.2"]
+build-backend = "setuptools.build_meta"
 
 [tool.setuptools_scm]
 
+[tool.setuptools.packages.find]
+# https://setuptools.pypa.io/en/latest/userguide/pyproject_config.html
+where = ["src"]
+include = ["templatekit*"]
+
 [tool.coverage.run]
 parallel = true
 branch = true
@@ -49,9 +114,9 @@ exclude = '''
 # Multi-line strings are implicitly treated by black as regular expressions
 
 [tool.isort]
-include_trailing_comma = true
-multi_line_output = 3
-known_first_party = ["templatekit", "tests"]
+profile = "black"
+line_length = 79
+known_first_party = "templatekit"
 skip = ["docs/conf.py"]
 
 [tool.pytest.ini_options]
@@ -69,3 +134,16 @@ norecursedirs = [
 python_files = [
     "tests/*.py",
 ]
+
+[tool.mypy]
+disallow_untyped_defs = true
+disallow_incomplete_defs = true
+ignore_missing_imports = true
+show_error_codes = true
+strict_equality = true
+warn_redundant_casts = true
+warn_unreachable = true
+warn_unused_ignores = true
+exclude = [
+    "tests/data",
+]
diff --git a/setup.cfg b/setup.cfg
deleted file mode 100644
index 9e5b357..0000000
--- a/setup.cfg
+++ /dev/null
@@ -1,83 +0,0 @@
-[metadata]
-name = templatekit
-description = Tookit for rendering Rubin Observatory project templates.
-author = Association of Universities for Research in Astronomy, Inc. (AURA)
-author_email = sqre-admin@lists.lsst.org
-long_description = file: README.rst, CHANGELOG.rst, LICENSE
-long_description_content_type = text/x-rst
-license = MIT
-url = https://github.com/lsst-sqre/templatekit
-project_urls =
-    Change log = https://github.com/lsst-sqre/templatekit/main/blob/CHANGELOG.rst
-    Source code = https://github.com/lsst-sqre/templatekit
-    Issue tracker = https://github.com/lsst-sqre/templatekit/issues
-classifiers =
-    Development Status :: 4 - Beta
-    License :: OSI Approved :: MIT License
-    Programming Language :: Python
-    Programming Language :: Python :: 3
-    Programming Language :: Python :: 3.8
-    Programming Language :: Python :: 3.9
-    Programming Language :: Python :: 3.10
-    Natural Language :: English
-    Operating System :: POSIX
-keywords =
-    lsst
-    cookiecutter
-
-[options]
-zip_safe = False
-include_package_data = True
-package_dir =
-    = src
-packages = find:
-python_requires = >=3.8
-setup_requires =
-    setuptools_scm
-install_requires =
-    Cerberus>=1.2
-    click
-    cookiecutter>=1.6.0
-    GitPython>=3.0.0
-    Jinja2>=2.10
-    pyperclip>=1.6.0
-    PyYAML>=5.1
-    scons>=3.0.1
-
-[options.packages.find]
-where = src
-
-[options.extras_require]
-dev =
-    coverage[toml]
-    mypy
-    pre-commit
-    pytest
-    pytest-cov
-    types-PyYAML
-    # documentation
-    documenteer[pipelines]
-    sphinx-click
-
-[options.entry_points]
-console_scripts =
-    templatekit = templatekit.scripts.main:main
-
-[flake8]
-max-line-length = 79
-# E203: whitespace before :, flake8 disagrees with PEP-8
-# W503: line break after binary operator, flake8 disagrees with PEP-8
-ignore = E203, W503
-exclude =
-    docs/conf.py
-
-[mypy]
-disallow_untyped_defs = True
-disallow_incomplete_defs = True
-exclude = tests/data
-ignore_missing_imports = True
-show_error_codes = True
-strict_equality = True
-warn_redundant_casts = True
-warn_unreachable = True
-warn_unused_ignores = True
diff --git a/setup.py b/setup.py
deleted file mode 100644
index d5d43d7..0000000
--- a/setup.py
+++ /dev/null
@@ -1,3 +0,0 @@
-from setuptools import setup
-
-setup(use_scm_version=True)
diff --git a/src/templatekit/scripts/check.py b/src/templatekit/scripts/check.py
index b8a1bf4..5080f5e 100644
--- a/src/templatekit/scripts/check.py
+++ b/src/templatekit/scripts/check.py
@@ -5,7 +5,7 @@
 __all__ = ("check",)
 
 import sys
-from typing import Dict
+from typing import Dict, List
 
 import click
 
@@ -13,8 +13,16 @@
 
 
 @click.command(short_help="Check the template repository")
+@click.option(
+    "-i",
+    "--ignore",
+    "ignored_files",
+    multiple=True,
+    type=click.Path(exists=True, dir_okay=False),
+    help="Ignore a file when checking consistency of examples.",
+)
 @click.pass_obj
-def check(state: Dict[str, Repo]) -> None:
+def check(state: Dict[str, Repo], ignored_files: List[str]) -> None:
     """Check the template repository for valid structure and operation.
 
     The following checks are performed:
@@ -41,7 +49,7 @@ def check(state: Dict[str, Repo]) -> None:
         sys.exit(message.format(scons_result.returncode))
 
     error_count = 0
-    error_count += _test_git_state(repo)
+    error_count += _test_git_state(repo, ignored_files)
 
     if error_count == 1:
         sys.exit(
@@ -57,7 +65,7 @@ def check(state: Dict[str, Repo]) -> None:
         print("✅ Passed!")
 
 
-def _test_git_state(repo: Repo) -> int:
+def _test_git_state(repo: Repo, ignored_files: List[str]) -> int:
     """Test if the Git repository of the template repository is clean.
     (no modified files and no untracked files).
     """
@@ -65,7 +73,7 @@ def _test_git_state(repo: Repo) -> int:
 
     if repo.is_git_dirty():
         error_count += _test_untracked_files(repo)
-        error_count += _test_uncommitted_changes(repo)
+        error_count += _test_uncommitted_changes(repo, ignored_files)
 
     return error_count
 
@@ -81,7 +89,7 @@ def _test_untracked_files(repo: Repo) -> int:
     return error_count
 
 
-def _test_uncommitted_changes(repo: Repo) -> int:
+def _test_uncommitted_changes(repo: Repo, ignored_files: List[str]) -> int:
     error_count = 0
     # Get all uncommitted changes because we don't have a count of them
     # otherwise
@@ -91,6 +99,8 @@ def _test_uncommitted_changes(repo: Repo) -> int:
         for change in diffindex.iter_change_type(
             changetype  # type: ignore[arg-type]  # GitPython typing bug
         ):
+            if change.a_path in ignored_files:
+                continue
             # For deleted files, we want to use the original ("a") path.
             # Otherwise, we tend to want to show the user the new ("b") path
             if changetype in ("D",):
diff --git a/tox.ini b/tox.ini
index a75a18f..4762493 100644
--- a/tox.ini
+++ b/tox.ini
@@ -20,7 +20,7 @@ commands = coverage report
 [testenv:typing]
 description = Run mypy.
 commands =
-    mypy src/templatekit tests setup.py
+    mypy src/templatekit tests
 
 [testenv:lint]
 description = Lint codebase by running pre-commit (Black, isort, Flake8).