disable singularity from install testing

ktmeaton · Feb 16, 2021 · f30964b · f30964b
1 parent 4aa4cdc
commit f30964b
Showing 1 changed file with 37 additions and 37 deletions.
diff --git a/.github/workflows/install.yaml b/.github/workflows/install.yaml
@@ -60,43 +60,43 @@ jobs:
       #- name: Setup tmate session
       #  uses: mxschmitt/action-tmate@v3
   #----------------------------------------------------------------------------#
-  install_singularity:
-    name: Install with Singularity
-    runs-on: ubuntu-latest
-    strategy:
-      fail-fast: false
-    steps:
-      #------------------------------------------------------------------------#
-      - name: setup environment variables
-        run: |
-          echo "SINGULARITY_DOCKER_USERNAME=${{ secrets.DOCKERHUB_USERNAME }}" >> $GITHUB_ENV
-          echo "SINGULARITY_DOCKER_PASSWORD=${{ secrets.DOCKERHUB_PASSWORD }}" >> $GITHUB_ENV
-          echo "FLOWDASH_BIO_USERNAME=${{ secrets.FLOWDASH_BIO_USERNAME }}" >> $GITHUB_ENV
-          echo "FLOWDASH_BIO_PASSWORD=${{ secrets.FLOWDASH_BIO_PASSWORD }}" >> $GITHUB_ENV
-      #SINGULARITY_ROOT: /opt/hostedtoolcache/singularity/3.6.3/x64
-      #------------------------------------------------------------------------#
-      # Checkout Repository
-      - name: checkout repo
-        uses: actions/checkout@v2
-      #------------------------------------------------------------------------#
-      # Setup singularity
-      - name: setup singularity
-        uses: eWaterCycle/setup-singularity@v5
-        with:
-          singularity-version: 3.6.3
-      #------------------------------------------------------------------------#
-      # pull container
-      - name: pull container
-        run: singularity pull docker://docker.io/ktmeaton/plague-phylogeography:dev
-      #------------------------------------------------------------------------#
-      # Configure sra-toolkit
-      - name: configure sra-toolkit
-        run: |
-          mkdir -p ~/.ncbi/;
-          printf '/LIBS/GUID = "%s"\n' `uuidgen` > ~/.ncbi/user-settings.mkfg;
-      # run help
-      - name: run help
-        run: singularity exec plague-phylogeography_dev.sif snakemake --profile profiles/gh-actions help;
+  # install_singularity:
+  #   name: Install with Singularity
+  #   runs-on: ubuntu-latest
+  #   strategy:
+  #     fail-fast: false
+  #   steps:
+  #     #------------------------------------------------------------------------#
+  #     - name: setup environment variables
+  #       run: |
+  #         echo "SINGULARITY_DOCKER_USERNAME=${{ secrets.DOCKERHUB_USERNAME }}" >> $GITHUB_ENV
+  #         echo "SINGULARITY_DOCKER_PASSWORD=${{ secrets.DOCKERHUB_PASSWORD }}" >> $GITHUB_ENV
+  #         echo "FLOWDASH_BIO_USERNAME=${{ secrets.FLOWDASH_BIO_USERNAME }}" >> $GITHUB_ENV
+  #         echo "FLOWDASH_BIO_PASSWORD=${{ secrets.FLOWDASH_BIO_PASSWORD }}" >> $GITHUB_ENV
+  #     #SINGULARITY_ROOT: /opt/hostedtoolcache/singularity/3.6.3/x64
+  #     #------------------------------------------------------------------------#
+  #     # Checkout Repository
+  #     - name: checkout repo
+  #       uses: actions/checkout@v2
+  #     #------------------------------------------------------------------------#
+  #     # Setup singularity
+  #     - name: setup singularity
+  #       uses: eWaterCycle/setup-singularity@v5
+  #       with:
+  #         singularity-version: 3.6.3
+  #     #------------------------------------------------------------------------#
+  #     # pull container
+  #     - name: pull container
+  #       run: singularity pull docker://docker.io/ktmeaton/plague-phylogeography:dev
+  #     #------------------------------------------------------------------------#
+  #     # Configure sra-toolkit
+  #     - name: configure sra-toolkit
+  #       run: |
+  #         mkdir -p ~/.ncbi/;
+  #         printf '/LIBS/GUID = "%s"\n' `uuidgen` > ~/.ncbi/user-settings.mkfg;
+  #     # run help
+  #     - name: run help
+  #       run: singularity exec plague-phylogeography_dev.sif snakemake --profile profiles/gh-actions help;
   #----------------------------------------------------------------------------#
   install_docker:
     name: Install with Docker