From b5740726e3b1e148b273f13f9936d5583530e281 Mon Sep 17 00:00:00 2001
From: Alex Dewar <a.dewar@imperial.ac.uk>
Date: Thu, 31 Oct 2024 17:14:42 +0000
Subject: [PATCH 1/5] CI: Split out poetry setup into composite action

---
 .github/actions/setup/action.yml | 22 ++++++++++++++++++++++
 .github/workflows/ci.yml         |  7 +------
 2 files changed, 23 insertions(+), 6 deletions(-)
 create mode 100644 .github/actions/setup/action.yml

diff --git a/.github/actions/setup/action.yml b/.github/actions/setup/action.yml
new file mode 100644
index 0000000..494310d
--- /dev/null
+++ b/.github/actions/setup/action.yml
@@ -0,0 +1,22 @@
+name: Set up
+description: Set up Python environment and install dependencies
+inputs:
+  python-version:
+    description: The Python version to use
+    required: true
+
+runs:
+  using: composite
+  steps:
+    - name: Install Poetry
+      shell: bash
+      run: pipx install poetry
+
+    - uses: actions/setup-python@v5
+      with:
+        python-version: ${{ inputs.python-version }}
+        cache: poetry
+
+    - name: Install dependencies
+      shell: bash
+      run: poetry install
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index c97ca6d..811cb7f 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -19,13 +19,8 @@ jobs:
         python-version: ['3.10', '3.11', '3.12', '3.13']
     steps:
       - uses: actions/checkout@v4
-      - name: Install poetry
-        run: pipx install poetry
-      - uses: actions/setup-python@v5
+      - uses: ./.github/actions/setup
         with:
           python-version: ${{ matrix.python-version }}
-          cache: poetry
-      - name: Install dependencies
-        run: poetry install
       - name: Run tests
         run: poetry run pytest

From c9dc3e7c8ddfa21b56011ae049909de95fb16240 Mon Sep 17 00:00:00 2001
From: Alex Dewar <a.dewar@imperial.ac.uk>
Date: Thu, 31 Oct 2024 17:21:33 +0000
Subject: [PATCH 2/5] CI: Add workflow to publish on PyPI

Closes #33.
---
 .github/workflows/release.yml | 53 +++++++++++++++++++++++++++++++++++
 1 file changed, 53 insertions(+)
 create mode 100644 .github/workflows/release.yml

diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
new file mode 100644
index 0000000..02df5af
--- /dev/null
+++ b/.github/workflows/release.yml
@@ -0,0 +1,53 @@
+name: Release
+
+on:
+  release:
+    types: [published]
+
+jobs:
+  test:
+    uses: ./.github/workflows/ci.yml
+
+  # If tests are successful, we build the wheel and push it to the release
+  build-wheel:
+    needs: test
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: ./.github/actions/setup
+        with:
+          python-version: '3.13'
+
+      - name: Build package
+        run: poetry build
+
+        # Upload files as test artifact (to be retrieved later)
+      - uses: actions/upload-artifact@v4
+        with:
+          path: dist/*
+
+        # Publish files as release artifacts
+      - uses: softprops/action-gh-release@v2
+        with:
+          files: dist/*
+
+  # If all goes well, publish to PyPI
+  publish-pypi:
+    needs: build-wheel
+    name: Publish to PyPI
+    runs-on: ubuntu-latest
+    permissions:
+      id-token: write
+
+    steps:
+      - name: Download wheel and sdist artifacts
+        uses: actions/download-artifact@v4
+        with:
+          name: artifact
+          path: dist
+
+      - name: Display structure of downloaded files
+        run: ls -R dist
+
+      - name: Publish package distributions to PyPI
+        uses: pypa/gh-action-pypi-publish@release/v1

From c0af4fd894c876e9d58da492f21289fc533e8dc0 Mon Sep 17 00:00:00 2001
From: Alex Dewar <a.dewar@imperial.ac.uk>
Date: Fri, 1 Nov 2024 16:47:46 +0000
Subject: [PATCH 3/5] Add check that package version matches tag

---
 .github/workflows/release.yml | 8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
index 02df5af..0255954 100644
--- a/.github/workflows/release.yml
+++ b/.github/workflows/release.yml
@@ -18,6 +18,14 @@ jobs:
         with:
           python-version: '3.13'
 
+      - name: Check package version matches tag
+        run: |
+          pkgver=$(python -c "import autocorpus; print(autocorpus.__version__, end='')")
+
+          # NB: tag name must be prefixed by "v" (the default for GitHub Releases)
+          test v$pkgver = ${{ github.ref_name }}
+
+
       - name: Build package
         run: poetry build
 

From 10c7d877024b42a4d0d8800870906de88b5230e7 Mon Sep 17 00:00:00 2001
From: Alex Dewar <a.dewar@imperial.ac.uk>
Date: Fri, 1 Nov 2024 16:51:01 +0000
Subject: [PATCH 4/5] Whitespace

---
 .github/workflows/release.yml | 1 -
 1 file changed, 1 deletion(-)

diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
index 0255954..5bc5f40 100644
--- a/.github/workflows/release.yml
+++ b/.github/workflows/release.yml
@@ -25,7 +25,6 @@ jobs:
           # NB: tag name must be prefixed by "v" (the default for GitHub Releases)
           test v$pkgver = ${{ github.ref_name }}
 
-
       - name: Build package
         run: poetry build
 

From 54d730a963fdc2829a3e55b8e3454f95f9374c79 Mon Sep 17 00:00:00 2001
From: Alex Dewar <a.dewar@imperial.ac.uk>
Date: Fri, 1 Nov 2024 16:51:24 +0000
Subject: [PATCH 5/5] Fix typo in pyproject.toml

---
 pyproject.toml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 269a544..c0e6fe3 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -14,7 +14,8 @@ keywords = [
     "natural language processing",
     "text mining",
     "biomedical literature",
-    "semantics, health data",
+    "semantics",
+    "health data"
 ]
 classifiers = ["Intended Audience :: Science/Research"]