Fix issues appearing after deploment of PR #293

.github/workflows/lint-code.yml

@@ -56,3 +56,39 @@ jobs:
       - name: mypy --> Static type checking
         # Configured in pyprojet.toml
         run: mypy **/*.py
+
+  # Use pipreqs to check for missing dependencies
+  pipreqs-check:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+      - name: Set up Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: '3.10'
+
+      - name: Install pipreqs
+        run: pip install pipreqs
+
+      - name: Install requirements
+        run: pip install -r requirements.txt
+
+      - name: Run pipreqs
+        run: pipreqs --savepath pipreqs.txt
+
+      - name: Compare requirements
+        run: |
+          # Extract and sort package names
+          awk '{print $1}' $1 | sort -u > "$1".compare
+          awk -F'==' '{print $1}' $2 | sort -u > "$2".compare
+
+          # Compare package lists
+          if cmp -s "$1".compare "$2".compare
+          then
+            echo "Requirements are the same"
+            exit 0
+          else
+            echo "Requirements are different"
+            exit 1
+          fi

requirements-dev.txt

@@ -1,6 +1,7 @@
-ruff
 mypy
+pipreqs
 pre-commit
+ruff
 types-PyYAML
 types-requests
 types-tabulate

requirements.txt

@@ -1,6 +1,17 @@
+CouchDB
+flowcell_parser @ git+https://github.com/SciLifeLab/flowcell_parser
 genologics
-couchdb
-markdown
-tabulate
+google_api_python_client
+httplib2
+interop
+Markdown
 numpy
-pandas
+oauth2client
+pandas
+protobuf
+psycopg2
+PyYAML
+Requests
+scilifelab_parsers @ git+https://github.com/SciLifeLab/scilifelab_parsers
+setuptools
+tabulate