diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml index b393af213fc..8e0da519d80 100644 --- a/.github/workflows/test.yml +++ b/.github/workflows/test.yml @@ -353,15 +353,11 @@ jobs: with: version: latest-everything - # For OCI containers - - name: Set XDG_RUNTIME_DIR - run: echo "XDG_RUNTIME_DIR=/run/user/$UID" >> $GITHUB_ENV - - name: Install Singularity if: matrix.profile == 'singularity' run: | wget https://github.com/sylabs/singularity/releases/download/v4.0.2/singularity-ce_4.0.2-jammy_amd64.deb - sudo apt-get install -y crun libfuse2 + sudo apt-get install -y libfuse2 sudo dpkg -i singularity-ce_4.0.2-jammy_amd64.deb - name: Set up Singularity @@ -543,9 +539,12 @@ jobs: wget -qO- https://code.askimed.com/install/nf-test | bash sudo mv nf-test /usr/local/bin/ - - name: Setup apptainer + - name: Install Singularity if: matrix.profile == 'singularity' - uses: eWaterCycle/setup-apptainer@main + run: | + wget https://github.com/sylabs/singularity/releases/download/v4.0.2/singularity-ce_4.0.2-jammy_amd64.deb + sudo apt-get install -y libfuse2 + sudo dpkg -i singularity-ce_4.0.2-jammy_amd64.deb - name: Set up Singularity if: matrix.profile == 'singularity' diff --git a/tests/config/nextflow.config b/tests/config/nextflow.config index ebe8c18284b..c24e252ec57 100644 --- a/tests/config/nextflow.config +++ b/tests/config/nextflow.config @@ -14,7 +14,6 @@ process { if ("$PROFILE" == "singularity") { singularity.enabled = true singularity.autoMounts = true - singularity.oci = true } else if ("$PROFILE" == "conda") { conda.enabled = true } else if ("$PROFILE" == "mamba") {