Add zizmor

.github/workflows/docs.yml

@@ -7,6 +7,9 @@ on:
       - '*'
   merge_group:
 
+permissions:
+  contents: read
+
 jobs:
   Docs:
-    uses: tskit-dev/.github/.github/workflows/docs.yml@v17
+    uses: tskit-dev/.github/.github/workflows/docs.yml@v19

.github/workflows/lint.yml

@@ -3,6 +3,9 @@ name: Lint
 on:
   pull_request:
 
+permissions:
+  contents: read
+
 jobs:
   Lint:
-    uses: tskit-dev/.github/.github/workflows/lint.yml@v17
+    uses: tskit-dev/.github/.github/workflows/lint.yml@v19

.github/workflows/tests.yml

@@ -6,35 +6,41 @@ on:
     branches: [main, test]
   merge_group:
 
+permissions:
+  contents: read
+
 jobs:
 
   packaging:
     name: Python packaging
-    uses: tskit-dev/.github/.github/workflows/python-packaging.yml@v17
+    uses: tskit-dev/.github/.github/workflows/python-packaging.yml@v19
     with:
       cli-test-cmd: tsinfer --help
 
   test-c:
     name: C tests
-    uses: tskit-dev/.github/.github/workflows/c-tests.yml@v17
+    uses: tskit-dev/.github/.github/workflows/c-tests.yml@v19
     with:
       library-directory: lib
-    secrets: inherit
+    secrets:
+      CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
 
   test-python-c:
     name: Python-C tests
-    uses: tskit-dev/.github/.github/workflows/python-c-tests.yml@v17
-    secrets: inherit
+    uses: tskit-dev/.github/.github/workflows/python-c-tests.yml@v19
+    secrets:
+      CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
 
   test:
     name: Python
-    uses: tskit-dev/.github/.github/workflows/python-tests.yml@v17
+    uses: tskit-dev/.github/.github/workflows/python-tests.yml@v19
     with:
       os: ${{ matrix.os }}
       python-version: ${{ matrix.python }}
       coverage-directory: tsinfer
       fix-lwt-symlink: "true"
-    secrets: inherit
+    secrets:
+      CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
     strategy:
       matrix:
         python: [ 3.11, 3.13 ]

.github/workflows/wheels.yml

@@ -6,9 +6,12 @@ on:
   release:
     types: [published]
 
+permissions:
+  contents: read
+
 jobs:
   build-wheels:
-    uses: tskit-dev/.github/.github/workflows/build-wheels.yml@v17
+    uses: tskit-dev/.github/.github/workflows/build-wheels.yml@v19
 
   publish:
     runs-on: ubuntu-24.04
@@ -18,7 +21,7 @@ jobs:
       id-token: write
     steps:
       - name: Download artifacts
-        uses: actions/download-artifact@v7.0.0
+        uses: actions/download-artifact@3e5f45b2cfb9172054b4087a40e8e0b5a5461e7c  # v8.0.1
         with:
           pattern: build-*
           path: dist
@@ -29,11 +32,11 @@ jobs:
 
       - name: Publish to TestPyPI
         if: github.event_name == 'push' && github.ref_name == 'test-publish'
-        uses: pypa/gh-action-pypi-publish@v1.13.0
+        uses: pypa/gh-action-pypi-publish@cef221092ed1bacb1cc03d23a2d87d1d172e277b  # v1.14.0
         with:
           repository-url: https://test.pypi.org/legacy/
           verbose: true
 
       - name: Publish to PyPI
         if: github.event_name == 'release'
-        uses: pypa/gh-action-pypi-publish@v1.13.0
+        uses: pypa/gh-action-pypi-publish@cef221092ed1bacb1cc03d23a2d87d1d172e277b  # v1.14.0

.github/zizmor.yml

@@ -0,0 +1,9 @@
+# zizmor configuration for tskit-dev repos.
+# Third-party actions must be hash-pinned; first-party tskit-dev reusable
+# workflows are trusted and may stay pinned to a version tag (e.g. @v17).
+rules:
+  unpinned-uses:
+    config:
+      policies:
+        tskit-dev/*: ref-pin
+        "*": hash-pin

prek.toml

@@ -12,6 +12,7 @@ files = { glob = [
     "docs/**",
     "lib/*.[c,h]",
     "lib/tests/*.[c,h]",
+    ".github/workflows/**",
 ]}
 
 exclude = { glob = ["lib/avl.*", "lib/subprojects/**"]}
@@ -65,3 +66,16 @@ hooks = [
     verbose = true,
   },
 ]
+
+[[repos]]
+repo = "local"
+hooks = [
+  {
+    id = "zizmor",
+    name = "zizmor",
+    language = "system",
+    entry = "uv run --only-group=lint zizmor",
+    files = "^\\.github/workflows/.*\\.ya?ml$",
+    pass_filenames = true,
+  },
+]

pyproject.toml

@@ -100,6 +100,7 @@ lint = [
     "clang-format==21.1.8",
     "ruff==0.15.1",
     "prek==0.3.3",
+    "zizmor==1.26.1",
 ]
 
 packaging = [