diff --git a/.copier-answers.yml b/.copier-answers.yml
index 97226e4dc2cf8fe21da00489bbba7fb0bd180e94..a6e23626f1bbefed26828f30c016c25e67815afc 100644
--- a/.copier-answers.yml
+++ b/.copier-answers.yml
@@ -1,5 +1,5 @@
 # Changes here will be overwritten by Copier
-_commit: v0.2.3
+_commit: v0.3.3
 _src_path: https://gitlab.softwareheritage.org/swh/devel/swh-py-template.git
 description: Software Heritage Documentation
 distribution_name: swh-docs
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 96512ea6cd1c0b6a1f8ee92964702310b7f548fe..aa66426e227d390806a91436fcaf2d540be69c0d 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -1,18 +1,18 @@
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.6.0
+    rev: v5.0.0
     hooks:
       - id: trailing-whitespace
       - id: check-json
       - id: check-yaml
 
   - repo: https://github.com/python/black
-    rev: 24.8.0
+    rev: 25.1.0
     hooks:
       - id: black
 
   - repo: https://github.com/PyCQA/isort
-    rev: 5.13.2
+    rev: 6.0.0
     hooks:
       - id: isort
 
@@ -20,16 +20,16 @@ repos:
     rev: 7.1.1
     hooks:
       - id: flake8
-        additional_dependencies: [flake8-bugbear==24.4.26]
+        additional_dependencies: [flake8-bugbear==24.12.12, flake8-pyproject]
 
   - repo: https://github.com/codespell-project/codespell
-    rev: v2.3.0
+    rev: v2.4.1
     hooks:
       - id: codespell
         name: Check source code spelling
         additional_dependencies:
           - tomli
-        stages: [commit]
+        stages: [pre-commit]
       - id: codespell
         name: Check commit message spelling
         additional_dependencies:
diff --git a/mypy.ini b/mypy.ini
deleted file mode 100644
index 7823a866489c1a6a8fe7f1d3e0022766d3d071c2..0000000000000000000000000000000000000000
--- a/mypy.ini
+++ /dev/null
@@ -1,14 +0,0 @@
-[mypy]
-namespace_packages = True
-warn_unused_ignores = True
-explicit_package_bases = True
-# ^ Needed for mypy to detect py.typed from swh packages installed
-# in editable mode
-
-# 3rd party libraries without stubs (yet)
-
-[mypy-sphinx.*]
-ignore_missing_imports = True
-
-# [mypy-add_your_lib_here.*]
-# ignore_missing_imports = True
diff --git a/pyproject.toml b/pyproject.toml
index 8203425e496193c35a5eb08c3f297eb3e209645f..dd9d4e21cdb57cb6e3c2788298ce266fba1b5a09 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -55,3 +55,35 @@ known_first_party = ['swh']
 
 [tool.codespell]
 ignore-words-list = "aks,crate"
+
+[tool.mypy]
+namespace_packages = true
+warn_unused_ignores = true
+explicit_package_bases = true
+# ^ Needed for mypy to detect py.typed from swh packages installed
+# in editable mode
+
+plugins = []
+
+# 3rd party libraries without stubs (yet)
+# [[tool.mypy.overrides]]
+# module = [
+#     "package1.*",
+#     "package2.*",
+# ]
+# ignore_missing_imports = true
+
+[tool.flake8]
+select = ["C", "E", "F", "W", "B950"]
+ignore = [
+    "E203", # whitespaces before ':' <https://github.com/psf/black/issues/315>
+    "E231", # missing whitespace after ','
+    "E501", # line too long, use B950 warning from flake8-bugbear instead
+    "W503" # line break before binary operator <https://github.com/psf/black/issues/52>
+]
+max-line-length = 88
+
+[tool.pytest.ini_options]
+norecursedirs = "build docs .*"
+asyncio_mode = "strict"
+consider_namespace_packages = true
diff --git a/pytest.ini b/pytest.ini
deleted file mode 100644
index fe398a0babf5a774f332240c7ce22d38f7330ba1..0000000000000000000000000000000000000000
--- a/pytest.ini
+++ /dev/null
@@ -1,4 +0,0 @@
-[pytest]
-norecursedirs = build docs .*
-asyncio_mode = strict
-consider_namespace_packages = true
diff --git a/setup.cfg b/setup.cfg
deleted file mode 100644
index adf9af3e48c7da13135e5dfb6505a1909bc26066..0000000000000000000000000000000000000000
--- a/setup.cfg
+++ /dev/null
@@ -1,8 +0,0 @@
-[flake8]
-# E203: whitespaces before ':' <https://github.com/psf/black/issues/315>
-# E231: missing whitespace after ','
-# E501: line too long, use B950 warning from flake8-bugbear instead
-# W503: line break before binary operator <https://github.com/psf/black/issues/52>
-select = C,E,F,W,B950
-ignore = E203,E231,E501,E704,W503
-max-line-length = 88
diff --git a/tox.ini b/tox.ini
index 71d171d73149fd4ea31f4dc65673de0738913412..7ea5b49e24c4d5d6a2224ad04dcc45bc3d3000a0 100644
--- a/tox.ini
+++ b/tox.ini
@@ -40,7 +40,7 @@ commands =
 [testenv:black]
 skip_install = true
 deps =
-  black==24.8.0
+  black==25.1.0
 commands =
   {envpython} -m black --check swh
 
@@ -48,7 +48,9 @@ commands =
 skip_install = true
 deps =
   flake8==7.1.1
-  flake8-bugbear==24.4.26
+  flake8-bugbear==24.12.12
+  flake8-pyproject==1.2.3
   pycodestyle==2.12.1
+
 commands =
   {envpython} -m flake8