👷 CI: Add CI steps to create streamlit example branch and deploy EMP report

Author: sayalaruano

.github/workflows/docs.yml

@@ -35,6 +35,7 @@ jobs:
         run: |
             cd docs
             sphinx-build -n --keep-going -b html ./ ./_build/
+      # --- HTML example deployment ---
       - name: Rename entry point of report to index.html
         run: |
             mv docs/quarto_report/quarto_report.html docs/quarto_report/index.html
@@ -50,3 +51,24 @@ jobs:
       #   with:
       #     name: Sphinx_${{ matrix.python-version }}
       #     path: docs/_build/
+
+      # --- Streamlit example deployment ---
+      - name: Configure Git for Streamlit example branch
+        run: |
+          git config --global user.name "github-actions[bot]"
+          git config --global user.email "github-actions[bot]@users.noreply.github.com"
+      - name: Create or reset Streamlit example branch
+        run: |
+          git fetch origin
+          git checkout -B streamlit-example
+      - name: Remove all existing files except .git
+        run: |
+          find . -mindepth 1 -maxdepth 1 ! -name '.git' -exec rm -rf {} +
+      - name: Copy necessary Streamlit files
+        run: |
+          git checkout main -- docs/streamlit_report docs/example_data/Earth_microbiome_vuegen_demo_notebook requirements.txt
+      - name: Commit and push to streamlit-example branch
+        run: |
+          git add .
+          git commit -m "Update Streamlit example deployment files"
+          git push --force origin streamlit-example

requirements.txt

@@ -1,169 +1 @@
-aiohappyeyeballs==2.4.4 
-aiohttp==3.11.10 
-aiosignal==1.3.2 
-altair==5.5.0 
-anyio==4.7.0 
-appnope==0.1.4
-argon2-cffi-bindings==21.2.0 
-argon2-cffi==23.1.0 
-arrow==1.3.0 
-asttokens==3.0.0 
-async-lru==2.0.4 
-async-timeout==5.0.1 
-attrs==24.3.0 
-babel==2.16.0 
-beautifulsoup4==4.12.3 
-bleach==6.2.0 
-blinker==1.9.0 
-bokeh==2.4.3 
-cachetools==5.5.0 
-certifi==2024.12.14 
-cffi==1.17.1 
-charset-normalizer==3.4.0 
-click==8.1.7 
-colorama==0.4.6
-colorcet==3.1.0 
-comm==0.2.2 
-contourpy==1.3.0 
-cssselect==1.2.0 
-cssutils==2.11.1 
-cycler==0.12.1 
-dataframe-image==0.2.6 
-debugpy==1.8.11 
-decorator==5.1.1 
-defusedxml==0.7.1 
-et-xmlfile==2.0.0 
-exceptiongroup==1.2.2 
-executing==2.1.0 
-fastjsonschema==2.21.1 
-fonttools==4.55.3 
-fqdn==1.5.1 
-frozenlist==1.5.0 
-gitdb==4.0.11 
-gitpython==3.1.43 
-h11==0.14.0 
-holoviews==1.16.2 
-html2image==2.0.5 
-httpcore==1.0.7 
-httpx==0.28.1 
-idna==3.10 
-importlib-metadata==8.5.0 
-importlib-resources==6.4.5 
-ipykernel==6.29.5 
-ipython==8.18.1 
-ipywidgets==8.1.5 
-isoduration==20.11.0 
-itables==2.2.4 
-jedi==0.19.2 
-json5==0.10.0 
-jsonpickle==4.0.1 
-jsonpointer==3.0.0 
-jsonschema-specifications==2024.10.1 
-jsonschema==4.23.0 
-jsonschema[format-nongpl]==4.23.0 
-jupyter-client==8.6.3 
-jupyter-console==6.6.3 
-jupyter-core==5.7.2 
-jupyter-events==0.11.0 
-jupyter-lsp==2.2.5 
-jupyter-server-terminals==0.5.3 
-jupyter-server==2.14.2 
-jupyter==1.1.1 
-jupyterlab-pygments==0.3.0 
-jupyterlab-server==2.27.3 
-jupyterlab-widgets==3.0.13 
-jupyterlab==4.3.3 
-kaleido==0.2.1
-kiwisolver==1.4.7 
-lxml==5.3.0 
-markdown-it-py==3.0.0 
-markdown==3.7 
-markupsafe==3.0.2 
-matplotlib-inline==0.1.7 
-matplotlib==3.9.4 
-mdurl==0.1.2 
-mistune==3.0.2 
-more-itertools==10.5.0 
-multidict==6.1.0 
-narwhals==1.18.4 
-nbclient==0.10.1 
-nbconvert==7.16.4 
-nbformat==5.10.4 
-nest-asyncio==1.6.0 
-networkx==3.2.1 
-notebook-shim==0.2.4 
-notebook==7.3.1 
-numpy==2.0.2 
-openpyxl==3.1.5 
-overrides==7.7.0 
-packaging==24.2 
-pandas==2.2.3 
-pandas[parquet]==2.2.3 
-pandocfilters==1.5.1 
-panel==0.14.4 
-param==2.2.0 
-parso==0.8.4 
-pexpect==4.9.0 
-pillow==10.4.0 
-platformdirs==4.3.6 
-plotly==5.15.0 
-prometheus-client==0.21.1 
-prompt-toolkit==3.0.48 
-propcache==0.2.1 
-protobuf==5.29.1 
-psutil==6.1.0 
-ptyprocess==0.7.0 
-pure-eval==0.2.3 
-pyarrow==18.1.0 
-pycparser==2.22 
-pyct==0.5.0 
-pydeck==0.9.1 
-pygments==2.18.0 
-pyparsing==3.2.0 
-python-dateutil==2.9.0.post0 
-python-json-logger==3.2.1 
-pytz==2024.2 
-pyvis==0.3.2 
-pyviz-comms==3.0.3 
-pyyaml==6.0.2 
-pyzmq==26.2.0 
-quarto-cli==1.6.37 
-referencing==0.35.1 
-requests==2.32.3 
-rfc3339-validator==0.1.4 
-rfc3986-validator==0.1.1 
-rich==13.9.4 
-rpds-py==0.22.3 
-send2trash==1.8.3 
-setuptools==75.6.0 
-six==1.17.0 
-smmap==5.0.1 
-sniffio==1.3.1 
-soupsieve==2.6 
-stack-data==0.6.3 
-streamlit==1.39.0 
-strenum==0.4.15 
-tenacity==9.0.0 
-terminado==0.18.1 
-tinycss2==1.4.0 
-toml==0.10.2 
-tomli==2.2.1 
-tornado==6.4.2 
-tqdm==4.67.1 
-traitlets==5.14.3 
-types-python-dateutil==2.9.0.20241206 
-typing-extensions==4.12.2 
-tzdata==2024.2 
-uri-template==1.3.0 
-urllib3==2.2.3 
-vl-convert-python==1.7.0 
-watchdog==3.0.0 
-wcwidth==0.2.13 
-webcolors==24.11.1 
-webencodings==0.5.1 
-websocket-client==1.8.0 
-wheel==0.45.1 
-widgetsnbextension==4.0.13 
-xlrd==2.0.1 
-yarl==1.18.3 
-zipp==3.21.0 
+vuegen