Merge pull request #896 from open-life-science/update-pr-plugin

Merge all CRON workflow into 1 with several jobs

.github/workflows/update.yml

@@ -0,0 +1,103 @@
+name: Update schedule, artifacts, and bibliography
+
+on:
+  schedule:
+    # We'll run this weekly
+    - cron:  '0 12 * * 1'
+  workflow_dispatch:
+
+jobs:
+  update-schedule-artifacts:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+      - name: Setup Miniconda
+        uses: conda-incubator/[email protected]
+        with:
+        #  channels: conda-forge,defaults
+        #  channel-priority: true
+          activate-environment: ols-website
+          environment-file: environment.yml
+
+      - shell: bash -el {0}
+        run: |
+          conda info
+          conda list
+          conda config --show-sources
+          conda config --show
+
+      - name: Update Open Seeds schedule
+        shell: bash -el {0}
+        run: |
+          bash bin/openseeds/update_schedule.sh
+
+      - name: Update Open Seeds library
+        shell: bash -el {0}
+        run: |
+          python bin/prepare_website_data.py buildlibrary -p "openseeds"
+
+      - name: Update Nebula schedule
+        shell: bash -el {0}
+        run: |
+          bash bin/nebula/update_schedule.sh
+
+      - name: Update people data artifacts
+        shell: bash -el {0}
+        run: |
+          python bin/prepare_website_data.py extractfullpeopledata
+
+      - name: Update Open Seeds library artifacts
+        shell: bash -el {0}
+        run: |
+          python bin/prepare_website_data.py extractlibrary -p "openseeds"
+
+      - name: Update Open Seeds projects
+        shell: bash -el {0}
+        run: |
+          python bin/prepare_website_data.py createprojecttable -p "openseeds"
+
+      - name: Create Pull Request
+        uses: peter-evans/create-pull-request@v7
+        with:
+          commit-message: Update schedule and artifacts
+          title: Automatic schedule & artifact update
+          body: Automatic schedule update and artifacts done via GitHub Action once a week
+          base: main
+          branch: schedule-update
+          delete-branch: true
+
+  update-bibliography:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+      - name: Setup Miniconda
+        uses: conda-incubator/[email protected]
+        with:
+        #  channels: conda-forge,defaults
+        #  channel-priority: true
+          activate-environment: ols-website
+          environment-file: environment.yml
+
+      - shell: bash -el {0}
+        run: |
+          conda info
+          conda list
+          conda config --show-sources
+          conda config --show
+
+      - name: Update bibliography
+        shell: bash -el {0}
+        env:
+          ZOTERO_API: ${{ secrets.ZoteroAPI }}
+        run: |
+          python bin/prepare_website_data.py updatebibliography -a "$ZOTERO_API"
+
+      - name: Create Pull Request
+        uses: peter-evans/create-pull-request@v7
+        with:
+          commit-message: Update bibliography
+          title: Automatic bibliography update
+          body: Automatic bibliography update done via GitHub Action once a week
+          base: main
+          branch: bibliography-update
+          delete-branch: true