Merge pull request #40 from Imageomics/docker

Adds Dockerfile + release container building

Author: johnbradley

.github/workflows/deploy-image.yml

@@ -0,0 +1,45 @@
+name: Create and publish a Docker image
+
+on:
+  release:
+    types: [published]
+env:
+  REGISTRY: ghcr.io
+  IMAGE_NAME: ${{ github.repository }}
+
+jobs:
+  build-and-push-image:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      packages: write
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Log in to the Container registry
+        uses: docker/login-action@v3
+        with:
+          registry: ${{ env.REGISTRY }}
+          username: ${{ github.actor }}
+          password: ${{ secrets.GITHUB_TOKEN }}
+
+      - name: Extract metadata (tags, labels) for Docker
+        id: meta
+        uses: docker/metadata-action@v4
+        with:
+          images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}
+          tags: |
+            type=semver,pattern={{major}}.{{minor}}.{{patch}}
+            type=semver,pattern={{major}}.{{minor}}
+            type=semver,pattern={{major}}
+
+      - name: Build and push Docker image
+        uses: docker/build-push-action@v6
+        with:
+          context: .
+          push: true
+          tags: ${{ steps.meta.outputs.tags }}
+          labels: ${{ steps.meta.outputs.labels }}
+          build-args: "PYBIOCLIP_VERSION=${{ steps.meta.outputs.version }}"

Dockerfile

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+FROM condaforge/miniforge3:24.3.0-0
+
+# Pass -s to tini since apptainer doesn't run as PID 1
+ENTRYPOINT ["tini", "-s", "--"]
+
+ARG PYBIOCLIP_VERSION
+
+# Install pybioclip from the release archive because pypi can take a while to start working.
+RUN pip install "https://github.com/Imageomics/pybioclip/archive/refs/tags/${PYBIOCLIP_VERSION}.tar.gz" && \
+    pip cache purge
+
+# Create a non-root user with a home directory to help cache pybioclip files
+RUN useradd -ms /bin/bash bcuser
+USER bcuser
+ENV PATH="$PATH:/home/bcuser/.local/bin"
+WORKDIR /home/bcuser