Merge branch 'OMICSINT_H24' into OMICSINT_H24 #3
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| name: Build and Push Docker Images for Labs | |
| on: | |
| push: | |
| paths: | |
| - .github/workflows/Build and Push Docker Images for Labs.yml | |
| - 'session_ml/DeepLearningDataIntegration/**' | |
| - 'session_ml/FeatureSelectionIntegrOMICs/**' | |
| - 'session_ml/SingleCell/**' | |
| - 'session_ml/SupervisedOMICsIntegration/**' | |
| - 'session_ml/UnsupervisedOMICsIntegration/**' | |
| - 'session_ml/UMAP_DataIntegration/**' | |
| - 'session_gems/**' | |
| - 'session_gsa/**' | |
| branches: | |
| - OMICSINT_H24 | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| if: github.repository == 'NBISweden/workshop_omics_integration' | |
| steps: | |
| # Checkout the repository with full history (fetch-depth: 0) | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| # Set short commit hash | |
| - name: Set short commit hash | |
| run: echo "SHORT_SHA=${GITHUB_SHA::7}" >> $GITHUB_ENV | |
| # Set up Docker Buildx for multi-platform builds | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v2 | |
| # Log in to Docker Hub | |
| - name: Log in to Docker Hub | |
| uses: docker/login-action@v2 | |
| with: | |
| username: ${{ secrets.DOCKER_HUB_USERNAME }} | |
| password: ${{ secrets.DOCKER_HUB_ACCESS_TOKEN }} | |
| # Log in to GitHub Container Registry (GHCR) | |
| - name: Log in to GHCR | |
| uses: docker/login-action@v2 | |
| with: | |
| registry: ghcr.io | |
| username: ${{ github.actor }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| # Determine which directories have changes | |
| - name: Check for Changes | |
| id: changes | |
| run: | | |
| echo "## Detecting changes in the repository..." | |
| git fetch origin ${{ github.event.before }} | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_ml/DeepLearningDataIntegration'; then | |
| echo "deep_learning=true" >> $GITHUB_ENV | |
| fi | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_ml/FeatureSelectionIntegrOMICs'; then | |
| echo "feature_selection=true" >> $GITHUB_ENV | |
| fi | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_ml/SingleCell'; then | |
| echo "single_cell=true" >> $GITHUB_ENV | |
| fi | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_ml/UMAP_DataIntegration'; then | |
| echo "umap_data_integration=true" >> $GITHUB_ENV | |
| fi | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_ml/SupervisedOMICsIntegration'; then | |
| echo "supervised_omics_integration=true" >> $GITHUB_ENV | |
| fi | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_ml/UnsupervisedOMICsIntegration'; then | |
| echo "unsupervised_omics_integration=true" >> $GITHUB_ENV | |
| fi | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_gems'; then | |
| echo "gems=true" >> $GITHUB_ENV | |
| fi | |
| if git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep -q '^session_gsa'; then | |
| echo "gsa=true" >> $GITHUB_ENV | |
| fi | |
| # Conditionally build and push images for Deep Learning Lab | |
| - name: Build and Push Docker Image for Deep Learning Lab | |
| if: env.deep_learning == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_ml/DeepLearningDataIntegration | |
| file: session_ml/DeepLearningDataIntegration/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_ml_deep_learning_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_ml_deep_learning_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| # Conditionally build and push images for Feature Selection Lab | |
| - name: Build and Push Docker Image for Feature Selection Lab | |
| if: env.feature_selection == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_ml/FeatureSelectionIntegrOMICs | |
| file: session_ml/FeatureSelectionIntegrOMICs/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_ml_feature_selection_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_ml_feature_selection_amd_v.h24.${{ env.SHORT_SHA }} | |
| # Conditionally build and push images for Single Cell Lab | |
| - name: Build and Push Docker Image for Single Cell Lab | |
| if: env.single_cell == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_ml/SingleCell | |
| file: session_ml/SingleCell/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_ml_single_cell_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_ml_single_cell_amd_v.h24.${{ env.SHORT_SHA }} | |
| # Conditionally build and push images for UMAP Data Integration Lab | |
| - name: Build and Push Docker Image for UMAP Data Integration Lab | |
| if: env.umap_data_integration == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_ml/UMAP_DataIntegration | |
| file: session_ml/UMAP_DataIntegration/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_ml_umap_data_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_ml_umap_data_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| # Conditionally build and push images for Supervised OMICs Integration Lab | |
| - name: Build and Push Docker Image for Supervised OMICs Integration Lab | |
| if: env.supervised_omics_integration == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_ml/SupervisedOMICsIntegration | |
| file: session_ml/SupervisedOMICsIntegration/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_ml_supervised_omics_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_ml_supervised_omics_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| # Conditionally build and push images for Unsupervised OMICs Integration Lab | |
| - name: Build and Push Docker Image for Unsupervised OMICs Integration Lab | |
| if: env.unsupervised_omics_integration == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_ml/UnsupervisedOMICsIntegration | |
| file: session_ml/UnsupervisedOMICsIntegration/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_ml_unsupervised_omics_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_ml_unsupervised_omics_integration_amd_v.h24.${{ env.SHORT_SHA }} | |
| # Conditionally build and push images for Gems Lab | |
| - name: Build and Push Docker Image for Gems Lab | |
| if: env.gems == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_gems | |
| file: session_gems/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_gems_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_gems_amd_v.h24.${{ env.SHORT_SHA }} | |
| # Conditionally build and push images for GSA lab | |
| - name: Build and Push Docker Image for GSA Lab | |
| if: env.gsa == 'true' | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: ./session_gsa | |
| file: session_gsa/Dockerfile | |
| platforms: linux/amd64 | |
| push: true | |
| no-cache: true | |
| tags: | | |
| docker.io/rasoolsnbis/omicsint_h24:session_gsa_amd_v.h24.${{ env.SHORT_SHA }} | |
| ghcr.io/nbisweden/omicsint_h24:session_gsa_amd_v.h24.${{ env.SHORT_SHA }} | |