Fixing doc CI

.github/workflows/ci.yml

@@ -67,76 +67,11 @@ jobs:
           conda install -c conda-forge pytest pytest-xdist pytest-cov
           pip install -e .
           pytest -n auto -x --cov=./ --cov-report=xml
-
-  build-docs:
-    if: github.repository == 'neurospin/pymultifracs'
-    runs-on: ubuntu-latest
-    steps:
-      - uses: actions/checkout@v3
-      - name: Cache conda
-        uses: actions/cache@v2
-        env:
-          CACHE_NUMBER: 0
+      - name: Upload coverage
+        if: ${{ matrix.os == 'ubuntu-latest' && matrix.python-version ==  '3.10' }} 
+        uses: codecov/codecov-action@v3
         with:
-          path: ~/conda_pkgs_dir
-          key:
-            doc-conda-${{ env.CACHE_NUMBER }}-${{
-            hashFiles('meta.yml') }}
-      - name: Setup python with conda
-        uses: conda-incubator/setup-miniconda@v2
-        with:
-          auto-update-conda: true
-          python-version: 3.11
-          environment-file: meta.yml
-          use-only-tar-bz2: true
-      - name: Build doc
-        run: |
-          conda install -c conda-forge sphinx numpydoc pydata-sphinx-theme
-          pip install -e .
-          cd doc
-          make html
-
-  upload-docs:
-    if: github.repository == 'neurospin/pymultifracs'
-    runs-on: ubuntu-latest
-    needs: [build-docs]
-    steps:
-      - name: Archive artifact
-        shell: sh
-        if: runner.os == 'Linux'
-        run: |
-          tar \
-            --dereference --hard-dereference \
-            --directory doc/_build/ \
-            -cvf "$RUNNER_TEMP/artifact.tar" \
-            --exclude=.git \
-            --exclude=.github \
-            .
-      - name: Upload artifact
-        uses: actions/upload-artifact@v3
-        with:
-          name: github-pages
-          path: ${{ runner.temp }}/artifact.tar
-          retention-days: 1
-          if-no-files-found: error
-
-  deploy-docs:
-    needs: upload-docs
-
-    # Grant GITHUB_TOKEN the permissions required to make a Pages deployment
-    permissions:
-      pages: write      # to deploy to Pages
-      id-token: write   # to verify the deployment originates from an appropriate source
-
-    # Deploy to the github-pages environment
-    environment:
-      name: github-pages
-      url: ${{ steps.deployment.outputs.page_url }}
-
-    # Specify runner + deployment step
-    runs-on: ubuntu-latest
-    steps:
-      - name: Deploy to GitHub Pages
-        id: deployment
-        uses: actions/[email protected] # or the latest "vX.X.X" version tag for this action
-
+          files: ./coverage.xml # optional
+          name: codecov-umbrella # optional
+          fail_ci_if_error: true # optional (default = false)
+          verbose: true # optional (default = false)

.github/workflows/doc.yml

@@ -0,0 +1,83 @@
+name: doc
+
+on:
+  push:
+    branches: [ "master" ]
+  workflow_dispatch:
+
+jobs:
+  build-docs:
+    defaults:
+      run:
+        shell: bash -el {0}
+    if: github.repository == 'neurospin/pymultifracs'
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+      - name: Cache conda
+        uses: actions/cache@v2
+        env:
+          CACHE_NUMBER: 0
+        with:
+          path: ~/conda_pkgs_dir
+          key:
+            doc-conda-${{ env.CACHE_NUMBER }}-${{
+            hashFiles('meta.yml') }}
+      - name: Setup python with conda
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+          auto-update-conda: true
+          activate-environment: test
+          python-version: 3.11
+          environment-file: meta.yml
+          use-only-tar-bz2: true
+      - name: Build doc
+        shell: bash -el {0}
+        run: |
+          conda install -c conda-forge pip sphinx numpydoc pydata-sphinx-theme
+          python -m pip install .
+          cd doc
+          ls $CONDA/envs
+          export SPHINXBUILD=$CONDA/test/bin/sphinx-build
+          export SPHINXBUILD=/usr/share/miniconda/envs/test/bin/sphinx-build
+          make html
+      - name: Archive artifact
+        shell: sh
+        if: runner.os == 'Linux'
+        run: |
+          tar \
+            --dereference --hard-dereference \
+            --directory doc/_build/ \
+            -cvf "$RUNNER_TEMP/artifact.tar" \
+            --exclude=.git \
+            --exclude=.github \
+            .
+      - name: Upload artifact
+        uses: actions/upload-artifact@v3
+        with:
+          name: github-pages
+          path: ${{ runner.temp }}/artifact.tar
+          retention-days: 1
+          if-no-files-found: error
+
+  deploy-docs:
+    needs: build-docs
+
+    # Grant GITHUB_TOKEN the permissions required to make a Pages deployment
+    permissions:
+      pages: write      # to deploy to Pages
+      id-token: write   # to verify the deployment originates from an appropriate source
+
+    # Deploy to the github-pages environment
+    environment:
+      name: github-pages
+      url: ${{ steps.deployment.outputs.page_url }}
+
+    # Specify runner + deployment step
+    runs-on: ubuntu-latest
+    steps:
+      - name: Deploy to GitHub Pages
+        id: deployment
+        uses: actions/deploy-pages@v2 # or the latest "vX.X.X" version tag for this action
+        with:
+          token: ${{ secrets.GITHUB_TOKEN }}