fix udpate_components script

Author: mashehu

.github/workflows/update_components_template.yml

@@ -12,14 +12,23 @@ jobs:
     steps:
       - name: Checkout repository
         uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4
+        with:
+          ref: dev
 
       - name: Set up Python
         uses: actions/setup-python@0b93645e9fea7318ecaed2b359559ac225c90a2b # v5
         with:
           python-version: "3.x"
 
+      - name: Install Nextflow
+        uses: nf-core/setup-nextflow@v2
+        with:
+          version: "24.04.2"
+
       - name: Install nf-core
-        run: pip install nf-core
+        run: |
+          python -m pip install --upgrade pip
+          pip install .
 
       - name: Update modules
         run: nf-core modules update --all --no-preview
@@ -36,11 +45,11 @@ jobs:
           git config user.name "nf-core-bot"
           git add .
           git status
-          git commit -m "[automated] Fix code linting"
+          git commit -m "[automated] Update components in template"
 
       # Open a new PR to dev with the changes
       - name: Create PR
         run: |
           git checkout -b update-modules
           git push origin update-modules
-          gh pr create --title "Update modules in template" --body "This PR updates the modules in the pipeline template" --base dev --head update-modules
+          gh pr create --title "Template: Update components in template" --body "This PR updates the modules and subworkflows in the pipeline template" --base dev --head update-modules