Two locus general matrix

.clang-format

@@ -16,6 +16,5 @@ BinPackArguments: true
 BinPackParameters: true
 AlwaysBreakAfterReturnType: AllDefinitions
 
-# These are disabled for version 6 compatibility
-# StatementMacros: ["PyObject_HEAD"]
-# AlignConsecutiveMacros: true
+StatementMacros: ["PyObject_HEAD", "Py_BEGIN_ALLOW_THREADS", "Py_END_ALLOW_THREADS"]
+AlignConsecutiveMacros: true

.github/PULL_REQUEST_TEMPLATE.md

@@ -1,7 +1,7 @@
 ## Description
 
 Thanks for contributing to tskit! :heart:
-A guide to the PR process is [here](https://tskit.readthedocs.io/en/latest/development.html#development_workflow_git)
+A guide to the PR process is [here](https://tskit.dev/tskit/docs/stable/development.html#git-workflow)
 Please replace this text with a summary of the change and which issue is fixed, if any. Please also include relevant motivation and context.
 
 Fixes #(issue) <- Putting the issue number here will auto-close the issue when this PR is merged 

.github/workflows/docs.yml

@@ -6,9 +6,14 @@ on:
     branches: [main]
     tags:
       - '*'
+
+env:
+  FORCE_COLOR: 1
+
 jobs:
   Docs:
-    uses: tskit-dev/.github/.github/workflows/docs-build-template.yml@v1
+    uses: tskit-dev/.github/.github/workflows/docs.yml@v15
     with:
-      additional-setup: sudo apt-get install -y doxygen
-      make-command: make -C python
+      pyproject-directory: python
+      additional-apt-packages: doxygen
+      pre-build-command: cd docs/doxygen && doxygen

.github/workflows/lint.yml

@@ -0,0 +1,10 @@
+name: Lint
+
+on:
+  pull_request:
+
+jobs:
+  Lint:
+    uses: tskit-dev/.github/.github/workflows/lint.yml@v15
+    with:
+      pyproject-directory: python

.github/workflows/release-c.yml

@@ -0,0 +1,41 @@
+name: Publish C API release
+
+on:
+  push:
+    branches: [main, test]
+    tags: ['*']
+
+env:
+  FORCE_COLOR: 1
+
+jobs:
+  build:
+    runs-on: ubuntu-24.04
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6.0.2
+      - name: Install uv
+        uses: astral-sh/setup-uv@v6
+        with:
+          version: "0.10.0"
+      - name: Install system deps
+        run: |
+          sudo apt-get update
+          sudo apt-get install -y ninja-build libcunit1-dev
+      - name: Install meson
+        run: uv tool install meson==1.10.1
+      - name: Build tarball
+        run: |
+          git rm -rf c/tests/meson-subproject
+          git config --global user.email "CI@CI.com"
+          git config --global user.name "Mr Robot"
+          git add -A
+          git commit -m "dummy commit to make meson not add in the symlinked directory"
+          meson c build-gcc
+          meson dist -C build-gcc
+      - name: C Release
+        uses: softprops/action-gh-release@v2.5.0
+        if: startsWith(github.ref, 'refs/tags/') && contains(github.event.ref, 'C_')
+        with:
+          draft: True
+          files: build-gcc/meson-dist/*