diff --git a/.github/workflows/build_push_docker.yaml b/.github/workflows/build_push_docker.yaml new file mode 100644 index 00000000..38451f9a --- /dev/null +++ b/.github/workflows/build_push_docker.yaml @@ -0,0 +1,76 @@ + +name: Docker Image Publish + +on: + push: + branches: [ "alignments" ] + # Publish semver tags as releases. + tags: [ 'v*.*.*' ] + pull_request: + branches: [ "alignments" ] + +env: + # Use docker.io for Docker Hub if empty + REGISTRY: ghcr.io + # github.repository as / + IMAGE_NAME: ${{ secrets.DOCKERHUB_REPOSITORY }} + + +jobs: + build: + + runs-on: ubuntu-latest + permissions: + contents: read + packages: write + # This is used to complete the identity challenge + # with sigstore/fulcio when running outside of PRs. + id-token: write + + steps: + - name: Checkout repository + uses: actions/checkout@v3 + + # Install the cosign tool except on PR + # https://github.com/sigstore/cosign-installer + - name: Install cosign + if: github.event_name != 'pull_request' + uses: sigstore/cosign-installer@f3c664df7af409cb4873aa5068053ba9d61a57b6 #v2.6.0 + with: + cosign-release: 'v1.11.0' + + + # Workaround: https://github.com/docker/build-push-action/issues/461 + - name: Setup Docker buildx + uses: docker/setup-buildx-action@v2 + + # Login against a Docker registry except on PR + # https://github.com/docker/login-action + - name: Log into registry ${{ env.REGISTRY }} + if: github.event_name != 'pull_request' + uses: docker/login-action@28218f9b04b4f3f62068d7b6ce6ca5b26e35336c + with: + registry: ${{ env.REGISTRY }} + username: ${{ github.actor }} + password: ${{ secrets.GITHUB_TOKEN }} + + # Extract metadata (tags, labels) for Docker + # https://github.com/docker/metadata-action + - name: Extract Docker metadata + id: meta + uses: docker/metadata-action@98669ae865ea3cffbcbaa878cf57c20bbf1c6c38 + with: + images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }} + + # Build and push Docker image with Buildx (don't push on PR) + # https://github.com/docker/build-push-action + - name: Build and push Docker image + id: build-and-push + uses: docker/build-push-action@v4 + with: + context: "{{defaultContext}}:src" + push: ${{ github.event_name != 'pull_request' }} # Don't push on PR + tags: ${{ steps.meta.outputs.tags }} + labels: ${{ steps.meta.outputs.labels }} + cache-from: type=gha + cache-to: type=gha,mode=max diff --git a/Dockerfile b/Dockerfile new file mode 100644 index 00000000..8477fe01 --- /dev/null +++ b/Dockerfile @@ -0,0 +1,21 @@ +# jupyter/scipy-notebook to build our image on top of it +FROM jupyter/scipy-notebook + +LABEL Max Haeussler + +USER root + +# Install psycopg2 dependencies +RUN apt-get update \ + && apt-get -y install libpq-dev gcc python3-dev\ + && pip install psycopg2 + +# Install python libraries +RUN pip install --upgrade pip \ + && pip install git+https://github.com/PyEED/pyeed.git@alignments + +# Let's change to "$NB_USER" command so the image runs as a non root user by default +USER $NB_UID + +#Let's define this parameter to install jupyter lab instead of the default juyter notebook command so we don't have to use it when running the container with the option -e +ENV JUPYTER_ENABLE_LAB=yes \ No newline at end of file