switch setup-conda to setup-miniconda

billbrod · Feb 18, 2025 · 11929df · 11929df
1 parent 5947bfc
commit 11929df
Showing 1 changed file with 20 additions and 27 deletions.
diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
@@ -4,9 +4,6 @@ on:
   schedule:
     - cron: "0 0 * * 0" # weekly
 
-env:
-  CONDA_PKGS_DIRS: /home/runner/pkgs
-
 jobs:
   test_models:
     runs-on: ubuntu-latest
@@ -16,16 +13,15 @@ jobs:
     - uses: actions/checkout@v4
       with:
         submodules: recursive
-    - name: Setup conda
-      uses: s-weigand/setup-conda@v1.2.3
+    - name: Setup Miniconda
+      uses: conda-incubator/setup-miniconda@v3.1.1
       with:
-        update-conda: true
+        mamba-version: "*"
         python-version: 3.7
-        conda-channels: anaconda, conda-forge, bioconda
+        channels: conda-forge, bioconda
+        channel-priority: true
     - name: Create environment
       run: |
-        conda install -n base mamba -c conda-forge
-        conda clean --all -y
         mamba env create -f environment.yml
     - name: Run tests with pytest
       run: |
@@ -40,16 +36,15 @@ jobs:
     - uses: actions/checkout@v4
       with:
         submodules: recursive
-    - name: Setup conda
-      uses: s-weigand/setup-conda@v1.2.3
+    - name: Setup Miniconda
+      uses: conda-incubator/setup-miniconda@v3.1.1
       with:
-        update-conda: true
+        mamba-version: "*"
         python-version: 3.7
-        conda-channels: anaconda, conda-forge, bioconda
+        channels: conda-forge, bioconda
+        channel-priority: true
     - name: Create environment
       run: |
-        conda install -n base mamba
-        conda clean --all -y
         mamba env create -f environment.yml
     - name: Setup FFmpeg
       uses: FedericoCarboni/setup-ffmpeg@v3.1
@@ -75,16 +70,15 @@ jobs:
     - uses: actions/checkout@v4
       with:
         submodules: recursive
-    - name: Setup conda
-      uses: s-weigand/setup-conda@v1.2.3
+    - name: Setup Miniconda
+      uses: conda-incubator/setup-miniconda@v3.1.1
       with:
-        update-conda: true
+        mamba-version: "*"
         python-version: 3.7
-        conda-channels: anaconda, conda-forge, bioconda
+        channels: conda-forge, bioconda
+        channel-priority: true
     - name: Create environment
       run: |
-        conda install -n base mamba
-        conda clean --all -y
         mamba env create -f environment.yml
         source activate metamers
         mamba install jupyter nbclient>=0.5.5
@@ -112,16 +106,15 @@ jobs:
     - uses: actions/checkout@v4
       with:
         submodules: recursive
-    - name: Setup conda
-      uses: s-weigand/setup-conda@v1.2.3
+    - name: Setup Miniconda
+      uses: conda-incubator/setup-miniconda@v3.1.1
       with:
-        update-conda: true
+        mamba-version: "*"
         python-version: 3.7
-        conda-channels: anaconda, conda-forge, bioconda
+        channels: conda-forge, bioconda
+        channel-priority: true
     - name: Create environment
       run: |
-        conda install -n base mamba
-        conda clean --all -y
         mamba env create -f environment.yml
     - name: modify config.yml
       run: |