Add mamba jobs for julia testing

cropsinsilico · Jan 10, 2024 · ec51370 · ec51370
1 parent 7d7f0d9
commit ec51370
Showing 1 changed file with 36 additions and 7 deletions.
diff --git a/.github/workflows/julia-setup.yml b/.github/workflows/julia-setup.yml
@@ -10,19 +10,48 @@ jobs:
       max-parallel: 20
     runs-on: ${{ matrix.os }}
     steps:
+
+    # Mamba steps
+    - name: Set up mamba
+      uses: conda-incubator/setup-miniconda@v2
+      if: matrix.install-method == 'mamba'
+      with:
+        auto-update-conda: true
+        python-version: ${{ matrix.python-version }}
+        channels: conda-forge
+        use-only-tar-bz2: true
+        channel-priority: strict
+        miniforge-variant: Mambaforge
+        use-mamba: true
+    - name: Install mamba packages
+      if: matrix.install-method == 'mamba'
+      shell: bash -l {0}
+      run: |
+        mamba install -y python==3.7 juliaup r-base
+
+    # Non-mamba steps
     - name: Install Python
       if: matrix.install-method == 'pip'
       uses: actions/setup-python@v4
       with:
         python-version: '3.7'
-    # - name: Install R
-    #   if: matrix.install-method == 'pip'
-    #   uses: r-lib/actions/setup-r@v2
-    #   with:
-    #     r-version: 4.2.3
+    - name: Install R
+      if: matrix.install-method == 'pip'
+      uses: r-lib/actions/setup-r@v2
+      with:
+        r-version: 4.2.3
     - name: Install Julia
       if: matrix.install-method == 'pip'
       uses: julia-actions/setup-julia@v1
-    - name: Install PyCall
+
+    # Test julia installation
+    - name: Check Julia version
+      shell: bash -l {0}
+      run: julia -v
+    - name: Install PyCall (no mamba)
       if: matrix.install-method == 'pip'
-      run: julia -e "using Pkg; Pkg.add(\"PyCall\")"
+      run: julia -e "using Pkg; Pkg.add(\"PyCall\")"
+    - name: Install PyCall (mamba)
+      if: matrix.install-method == 'mamba'
+      shell: bash -l {0}
+      run: julia -e "using Pkg; Pkg.add(\"PyCall\")"