Merge pull request #934 from NeurodataWithoutBorders/fix_mambaforge

Author: rly

.github/workflows/build_and_deploy_mac.yml

@@ -24,16 +24,14 @@ jobs:
         with:
           python-version: "3.10"
 
-      - name: Setup Mambaforge
+      - name: Set up conda
         uses: conda-incubator/setup-miniconda@v3
         with:
-          miniforge-variant: Mambaforge
           miniforge-version: latest
           activate-environment: nwb-guide
-          use-mamba: true
 
       - name: Create and activate environment
-        run: mamba env update --name nwb-guide --file environments/environment-MAC-intel.yml
+        run: conda env update --name nwb-guide --file environments/environment-MAC-intel.yml
 
       - name: Use Node.js 20
         uses: actions/setup-node@v4

.github/workflows/testing_dev.yml

@@ -37,13 +37,11 @@ jobs:
       - run: git fetch --prune --unshallow --tags
 
       # see https://github.com/conda-incubator/setup-miniconda#caching-environments
-      - name: Setup Mambaforge
+      - name: Set up conda
         uses: conda-incubator/setup-miniconda@v3
         with:
-          miniforge-variant: Mambaforge
           miniforge-version: latest
           activate-environment: nwb-guide
-          use-mamba: true
 
       - name: Set cache date
         id: get-date
@@ -59,7 +57,7 @@ jobs:
 
       - if: steps.cache.outputs.cache-hit != 'true'
         name: Create and activate environment
-        run: mamba env update --name nwb-guide --file ${{ matrix.label }}
+        run: conda env update --name nwb-guide --file ${{ matrix.label }}
 
       - name: Use Node.js 20
         uses: actions/setup-node@v4

.github/workflows/testing_dev_e2e_with_live_services.yml

@@ -39,13 +39,11 @@ jobs:
       - run: git fetch --prune --unshallow --tags
 
       # see https://github.com/conda-incubator/setup-miniconda#caching-environments
-      - name: Setup Mambaforge
+      - name: Set up conda
         uses: conda-incubator/setup-miniconda@v3
         with:
-          miniforge-variant: Mambaforge
           miniforge-version: latest
           activate-environment: nwb-guide
-          use-mamba: true
 
       - name: Set cache date
         id: get-date
@@ -61,7 +59,7 @@ jobs:
 
       - if: steps.cache.outputs.cache-hit != 'true'
         name: Create and activate environment
-        run: mamba env update -n nwb-guide -f ${{ matrix.label }}
+        run: conda env update -n nwb-guide -f ${{ matrix.label }}
 
       - name: Use Node.js 20
         uses: actions/setup-node@v4

.github/workflows/testing_dev_with_live_services.yml

@@ -37,13 +37,11 @@ jobs:
       - run: git fetch --prune --unshallow --tags
 
       # see https://github.com/conda-incubator/setup-miniconda#caching-environments
-      - name: Setup Mambaforge
+      - name: Set up conda
         uses: conda-incubator/setup-miniconda@v3
         with:
-          miniforge-variant: Mambaforge
           miniforge-version: latest
           activate-environment: nwb-guide
-          use-mamba: true
 
       - name: Set cache date
         id: get-date
@@ -59,7 +57,7 @@ jobs:
 
       - if: steps.cache.outputs.cache-hit != 'true'
         name: Create and activate environment
-        run: mamba env update -n nwb-guide -f ${{ matrix.label }}
+        run: conda env update -n nwb-guide -f ${{ matrix.label }}
 
       - name: Use Node.js 20
         uses: actions/setup-node@v4

.github/workflows/testing_flask_build_and_dist.yml

@@ -36,20 +36,18 @@ jobs:
         run: uname -m
 
       # see https://github.com/conda-incubator/setup-miniconda#caching-environments
-      - name: Setup Mambaforge
+      - name: Set up conda
         uses: conda-incubator/setup-miniconda@v3
         with:
-          miniforge-variant: Mambaforge
           miniforge-version: latest
           activate-environment: nwb-guide
-          use-mamba: true
 
       - name: Set cache date
         id: get-date
         run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT
         shell: bash
 
-      - name: Cache Mamba env
+      - name: Cache Conda env
         uses: actions/cache@v4
         with:
           path: ${{ env.CONDA }}/envs
@@ -61,7 +59,7 @@ jobs:
 
       - if: steps.cache.outputs.cache-hit != 'true'
         name: Update environment
-        run: mamba env update -f ${{ matrix.label }}
+        run: conda env update -f ${{ matrix.label }}
 
       - name: Setup Node.js 20
         uses: actions/setup-node@v4

.github/workflows/testing_pipelines.yml

@@ -35,13 +35,11 @@ jobs:
       - run: git fetch --prune --unshallow --tags
 
       # see https://github.com/conda-incubator/setup-miniconda#caching-environments
-      - name: Setup Mambaforge
+      - name: Set up conda
         uses: conda-incubator/setup-miniconda@v3
         with:
-          miniforge-variant: Mambaforge
           miniforge-version: latest
           activate-environment: nwb-guide
-          use-mamba: true
 
       # Setup conda environment from cache
       - name: Set environment cache date
@@ -56,7 +54,7 @@ jobs:
         id: cache
       - if: steps.cache.outputs.cache-hit != 'true'
         name: Create and activate environment
-        run: mamba env update --name nwb-guide --file ${{ matrix.label }}
+        run: conda env update --name nwb-guide --file ${{ matrix.label }}
 
       - name: Use Node.js 20
         uses: actions/setup-node@v4