Build apptainer

Author: almahmoud

.github/workflows/build_apptainer.yaml

@@ -0,0 +1,79 @@
+name: Build Apptainer Images
+
+on:
+  workflow_dispatch:
+  workflow_run:
+    workflows: ["Build container images for GHCR and Dockerhub"]
+    types:
+      - completed
+
+jobs:
+  build-apptainer:
+    runs-on: ubuntu-latest
+    if: ${{ github.event.workflow_run.conclusion == 'success' || github.event_name == 'workflow_dispatch' }}
+    strategy:
+      fail-fast: false
+      matrix:
+        image:
+          - r-ver
+          - bioconductor
+          - tidyverse
+          - shiny
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v4
+
+      - name: Free root space
+        uses: almahmoud/free-root-space@main
+        with:
+          verbose: true
+
+      - name: Get branch and tag info
+        id: vars
+        run: |
+          BRANCH_NAME=${GITHUB_REF#refs/heads/}
+          echo "branch=$BRANCH_NAME" >> $GITHUB_OUTPUT
+          
+          # Convert repository owner to lowercase
+          OWNER_LOWER=$(echo "${{ github.repository_owner }}" | tr '[:upper:]' '[:lower:]')
+          echo "owner=$OWNER_LOWER" >> $GITHUB_OUTPUT
+
+      - name: Install Apptainer
+        run: |
+          # Install Apptainer from official Ubuntu/Debian repository
+          sudo add-apt-repository -y ppa:apptainer/ppa
+          sudo apt-get update
+          sudo apt-get install -y apptainer
+
+      - name: Verify Apptainer installation
+        run: |
+          apptainer version
+          apptainer --version
+
+      - name: Build Apptainer image from Docker
+        run: |
+          DOCKER_IMAGE="ghcr.io/${{ steps.vars.outputs.owner }}/${{ matrix.image }}:${{ steps.vars.outputs.branch }}"
+          SIF_FILE="${{ matrix.image }}-${{ steps.vars.outputs.branch }}.sif"
+          
+          echo "Building Apptainer image from: $DOCKER_IMAGE"
+          echo "Output file: $SIF_FILE"
+          
+          apptainer build "$SIF_FILE" "docker://$DOCKER_IMAGE"
+          
+          # Verify the image was created
+          ls -lh "$SIF_FILE"
+          apptainer inspect "$SIF_FILE"
+
+      - name: Login to GitHub Container Registry
+        run: |
+          echo "${{ secrets.GITHUB_TOKEN }}" | apptainer remote login -u ${{ github.actor }} --password-stdin oras://ghcr.io
+
+      - name: Push to GitHub Container Registry
+        run: |
+          SIF_FILE="${{ matrix.image }}-${{ steps.vars.outputs.branch }}.sif"
+          DEST="oras://ghcr.io/${{ steps.vars.outputs.owner }}/${{ matrix.image }}-apptainer:${{ steps.vars.outputs.branch }}"
+          
+          echo "Pushing to: $DEST"
+          apptainer push "$SIF_FILE" "$DEST"
+          
+          echo "Successfully pushed Apptainer image for ${{ matrix.image }}"