create requirements.txt for docs with pip-compile

generate a frozen state of packages for docs

done using command `pip-compile --extra=docs -o requirements.txt`

.readthedocs.yaml

@@ -25,9 +25,6 @@ formats:
 # See https://docs.readthedocs.io/en/stable/guides/reproducible-builds.html
 python:
   install:
-    - requirements: docs/requirements.txt
     - requirements: requirements.txt
-    - requirements: requirements-dev.txt
-    - requirements: requirements-optional.txt
     - method: pip
       path: .

requirements.txt

@@ -0,0 +1,220 @@
+#
+# This file is autogenerated by pip-compile with Python 3.11
+# by the following command:
+#
+#    pip-compile --extra=docs --output-file=requirements.txt
+#
+alabaster==0.7.16
+    # via sphinx
+attrs==24.2.0
+    # via
+    #   jsonschema
+    #   referencing
+babel==2.16.0
+    # via sphinx
+beautifulsoup4==4.12.3
+    # via nbconvert
+bleach==6.1.0
+    # via nbconvert
+bokeh==2.4.3
+    # via massdash (pyproject.toml)
+certifi==2024.8.30
+    # via requests
+charset-normalizer==3.3.2
+    # via requests
+click==8.1.7
+    # via massdash (pyproject.toml)
+contourpy==1.3.0
+    # via matplotlib
+cycler==0.12.1
+    # via matplotlib
+defusedxml==0.7.1
+    # via nbconvert
+docutils==0.19
+    # via
+    #   nbsphinx
+    #   sphinx
+    #   sphinx-rtd-theme
+fastjsonschema==2.20.0
+    # via nbformat
+fonttools==4.54.1
+    # via matplotlib
+idna==3.10
+    # via requests
+imagesize==1.4.1
+    # via sphinx
+jinja2==3.1.4
+    # via
+    #   bokeh
+    #   nbconvert
+    #   nbsphinx
+    #   sphinx
+joblib==1.4.2
+    # via massdash (pyproject.toml)
+jsonschema==4.23.0
+    # via nbformat
+jsonschema-specifications==2023.12.1
+    # via jsonschema
+jupyter-client==8.6.3
+    # via nbclient
+jupyter-core==5.7.2
+    # via
+    #   jupyter-client
+    #   nbclient
+    #   nbconvert
+    #   nbformat
+jupyterlab-pygments==0.3.0
+    # via nbconvert
+kiwisolver==1.4.7
+    # via matplotlib
+markupsafe==2.1.5
+    # via
+    #   jinja2
+    #   nbconvert
+matplotlib==3.9.2
+    # via
+    #   massdash (pyproject.toml)
+    #   pyopenms
+    #   upsetplot
+mistune==3.0.2
+    # via nbconvert
+nbclient==0.10.0
+    # via nbconvert
+nbconvert==7.16.4
+    # via nbsphinx
+nbformat==5.10.4
+    # via
+    #   nbclient
+    #   nbconvert
+    #   nbsphinx
+nbsphinx==0.9.5
+    # via massdash (pyproject.toml)
+numpy==1.26.4
+    # via
+    #   bokeh
+    #   contourpy
+    #   massdash (pyproject.toml)
+    #   matplotlib
+    #   pandas
+    #   pyopenms
+    #   scipy
+packaging==24.1
+    # via
+    #   bokeh
+    #   matplotlib
+    #   nbconvert
+    #   plotly
+    #   sphinx
+pandas==2.2.3
+    # via
+    #   massdash (pyproject.toml)
+    #   pyopenms
+    #   upsetplot
+pandocfilters==1.5.1
+    # via nbconvert
+pillow==10.4.0
+    # via
+    #   bokeh
+    #   matplotlib
+platformdirs==4.3.6
+    # via jupyter-core
+plotly==5.18.0
+    # via massdash (pyproject.toml)
+psutil==6.0.0
+    # via massdash (pyproject.toml)
+pygments==2.18.0
+    # via
+    #   nbconvert
+    #   sphinx
+pyopenms==3.2.0
+    # via massdash (pyproject.toml)
+pyparsing==3.1.4
+    # via matplotlib
+python-dateutil==2.9.0.post0
+    # via
+    #   jupyter-client
+    #   matplotlib
+    #   pandas
+pytz==2024.2
+    # via pandas
+pyyaml==6.0.2
+    # via bokeh
+pyzmq==26.2.0
+    # via jupyter-client
+referencing==0.35.1
+    # via
+    #   jsonschema
+    #   jsonschema-specifications
+requests==2.32.3
+    # via
+    #   massdash (pyproject.toml)
+    #   sphinx
+rpds-py==0.20.0
+    # via
+    #   jsonschema
+    #   referencing
+scipy==1.14.1
+    # via massdash (pyproject.toml)
+six==1.16.0
+    # via
+    #   bleach
+    #   python-dateutil
+snowballstemmer==2.2.0
+    # via sphinx
+soupsieve==2.6
+    # via beautifulsoup4
+sphinx==5.3.0
+    # via
+    #   massdash (pyproject.toml)
+    #   nbsphinx
+    #   sphinx-copybutton
+    #   sphinx-rtd-theme
+    #   sphinxcontrib-jquery
+sphinx-copybutton==0.5.2
+    # via massdash (pyproject.toml)
+sphinx-rtd-theme==2.0.0
+    # via massdash (pyproject.toml)
+sphinxcontrib-applehelp==2.0.0
+    # via sphinx
+sphinxcontrib-devhelp==2.0.0
+    # via sphinx
+sphinxcontrib-htmlhelp==2.1.0
+    # via sphinx
+sphinxcontrib-jquery==4.1
+    # via sphinx-rtd-theme
+sphinxcontrib-jsmath==1.0.1
+    # via sphinx
+sphinxcontrib-qthelp==2.0.0
+    # via sphinx
+sphinxcontrib-serializinghtml==2.0.0
+    # via sphinx
+tenacity==9.0.0
+    # via plotly
+tinycss2==1.3.0
+    # via nbconvert
+tornado==6.4.1
+    # via
+    #   bokeh
+    #   jupyter-client
+tqdm==4.66.5
+    # via massdash (pyproject.toml)
+traitlets==5.14.3
+    # via
+    #   jupyter-client
+    #   jupyter-core
+    #   nbclient
+    #   nbconvert
+    #   nbformat
+    #   nbsphinx
+typing-extensions==4.12.2
+    # via bokeh
+tzdata==2024.2
+    # via pandas
+upsetplot==0.9.0
+    # via massdash (pyproject.toml)
+urllib3==2.2.3
+    # via requests
+webencodings==0.5.1
+    # via
+    #   bleach
+    #   tinycss2