Read the Docs build information
Build id: 28507
Project: european-xfel-offline-calibration
Version: master
Commit: 2a7962c5694a5738da8e909393cfa641c242a034
Date: 2024-07-09T20:33:41.482487Z
State: finished
Success: True


[rtd-command-info] start-time: 2024-07-09T20:34:06.592394Z, end-time: 2024-07-09T20:34:27.057210Z, duration: 20, exit-code: 0
git clone --no-single-branch --depth 50 http://git.xfel.eu/calibration/pycalibration .
Cloning into '.'...
warning: redirecting to https://git.xfel.eu/calibration/pycalibration.git/

[rtd-command-info] start-time: 2024-07-09T20:34:27.513138Z, end-time: 2024-07-09T20:34:27.638172Z, duration: 0, exit-code: 0
git checkout --force origin/master
Note: checking out 'origin/master'.

You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by performing another checkout.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -b with the checkout command again. Example:

  git checkout -b <new-branch-name>

HEAD is now at 2a7962c5 Merge branch 'kluyvert-master-patch-54000' into 'master'

[rtd-command-info] start-time: 2024-07-09T20:34:27.723462Z, end-time: 2024-07-09T20:34:27.783085Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2024-07-09T20:34:29.572286Z, end-time: 2024-07-09T20:34:34.235925Z, duration: 4, exit-code: 0
python3.8 -mvirtualenv /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master
Using base prefix '/home/docs/.pyenv/versions/3.8.0'
New python executable in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/bin/python3.8
Also creating executable in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2024-07-09T20:34:34.327417Z, end-time: 2024-07-09T20:34:35.144478Z, duration: 0, exit-code: 0
/usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/bin/python -m pip install --upgrade --no-cache-dir pip
Requirement already satisfied: pip in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (24.1.2)

[rtd-command-info] start-time: 2024-07-09T20:34:35.229550Z, end-time: 2024-07-09T20:35:00.586555Z, duration: 25, exit-code: 0
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Successfully installed anyio-4.4.0 argon2-cffi-23.1.0 argon2-cffi-bindings-21.2.0 arrow-1.3.0 asttokens-2.4.1 async-lru-2.0.4 attrs-23.2.0 backcall-0.2.0 beautifulsoup4-4.12.3 bleach-6.1.0 cffi-1.16.0 colorama-0.4.6 comm-0.2.2 debugpy-1.8.2 decorator-5.1.1 defusedxml-0.7.1 exceptiongroup-1.2.1 executing-2.0.1 fastjsonschema-2.20.0 fqdn-1.5.1 ghp-import-2.1.0 griffe-0.27.1 h11-0.14.0 httpcore-1.0.5 httpx-0.27.0 importlib-resources-6.4.0 ipykernel-6.29.5 ipython-8.12.3 ipywidgets-8.1.3 isoduration-20.11.0 jedi-0.19.1 jinja2-3.1.4 json5-0.9.25 jsonpointer-3.0.0 jsonschema-4.23.0 jsonschema-specifications-2023.12.1 jupyter-1.0.0 jupyter-client-8.6.2 jupyter-console-6.6.3 jupyter-core-5.7.2 jupyter-events-0.10.0 jupyter-lsp-2.2.5 jupyter-server-2.14.1 jupyter-server-terminals-0.5.3 jupyterlab-4.2.3 jupyterlab-pygments-0.3.0 jupyterlab-server-2.27.2 jupyterlab-widgets-3.0.11 markdown-3.3.7 matplotlib-inline-0.1.7 mergedeep-1.3.4 mistune-3.0.2 mkdocs-1.4.2 mkdocs-autorefs-1.0.1 mkdocs-gen-files-0.4.0 mkdocs-glightbox-0.4.0 mkdocs-literate-nav-0.5.0 mkdocs-material-9.0.15 mkdocs-material-extensions-1.3.1 mkdocs-redirects-1.2.0 mkdocs-section-index-0.3.5 mkdocstrings-0.19.0 mkdocstrings-python-0.8.3 nbclient-0.10.0 nbconvert-7.16.4 nbformat-5.10.4 nest-asyncio-1.6.0 notebook-7.2.1 notebook-shim-0.2.4 overrides-7.7.0 pandocfilters-1.5.1 parso-0.8.4 pexpect-4.9.0 pickleshare-0.7.5 pkgutil-resolve-name-1.3.10 platformdirs-4.2.2 prometheus-client-0.20.0 prompt-toolkit-3.0.47 psutil-6.0.0 ptyprocess-0.7.0 pure-eval-0.2.2 pycparser-2.22 pygments-2.18.0 pymdown-extensions-10.4 python-dateutil-2.9.0.post0 python-json-logger-2.0.7 pyyaml-env-tag-0.1 pyzmq-26.0.3 qtconsole-5.5.2 qtpy-2.4.1 referencing-0.35.1 regex-2024.5.15 rfc3339-validator-0.1.4 rfc3986-validator-0.1.1 rpds-py-0.19.0 send2trash-1.8.3 six-1.16.0 sniffio-1.3.1 soupsieve-2.5 stack-data-0.6.3 terminado-0.18.1 tinycss2-1.3.0 tomli-2.0.1 traitlets-5.14.3 types-python-dateutil-2.9.0.20240316 typing-extensions-4.12.2 uri-template-1.3.0 watchdog-4.0.1 wcwidth-0.2.13 webcolors-24.6.0 webencodings-0.5.1 websocket-client-1.8.0 widgetsnbextension-4.0.11

[rtd-command-info] start-time: 2024-07-09T20:35:26.124112Z, end-time: 2024-07-09T20:36:35.941965Z, duration: 69, exit-code: 0
/usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/bin/python -m pip install --upgrade --upgrade-strategy eager --no-cache-dir .
Processing /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/checkouts/master
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Collecting Cython==0.29.21 (from European-XFEL-Offline-Calibration==1.0)
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Collecting docutils==0.17.1 (from European-XFEL-Offline-Calibration==1.0)
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Collecting pypandoc==1.4 (from European-XFEL-Offline-Calibration==1.0)
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Collecting python-dateutil==2.8.2 (from European-XFEL-Offline-Calibration==1.0)
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Collecting pyzmq==23.2.0 (from European-XFEL-Offline-Calibration==1.0)
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Collecting scikit-learn==0.22.2.post1 (from European-XFEL-Offline-Calibration==1.0)
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Collecting scipy==1.7.0 (from European-XFEL-Offline-Calibration==1.0)
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Collecting sharedmem==0.3.8 (from European-XFEL-Offline-Calibration==1.0)
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Collecting sphinx==1.8.5 (from European-XFEL-Offline-Calibration==1.0)
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Collecting traitlets==4.3.3 (from European-XFEL-Offline-Calibration==1.0)
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Collecting xarray==2022.3.0 (from European-XFEL-Offline-Calibration==1.0)
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Collecting EXtra-redu==0.0.8 (from European-XFEL-Offline-Calibration==1.0)
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Collecting rich==12.6.0 (from European-XFEL-Offline-Calibration==1.0)
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Collecting httpx==0.23.0 (from European-XFEL-Offline-Calibration==1.0)
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Collecting oauthlib (from calibration-client==11.3.0->European-XFEL-Offline-Calibration==1.0)
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Collecting requests-oauthlib (from calibration-client==11.3.0->European-XFEL-Offline-Calibration==1.0)
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Collecting oauth2-xfel-client>=6.1 (from calibration-client==11.3.0->European-XFEL-Offline-Calibration==1.0)
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Requirement already satisfied: pytz in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from calibration-client==11.3.0->European-XFEL-Offline-Calibration==1.0) (2024.1)
Collecting mypy-extensions>=0.4.3 (from cfelpyutils==2.0.6->European-XFEL-Offline-Calibration==1.0)
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Collecting pandas>=1.1.5 (from cfelpyutils==2.0.6->European-XFEL-Offline-Calibration==1.0)
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Collecting numba (from dynflatfield==1.0.0->European-XFEL-Offline-Calibration==1.0)
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Requirement already satisfied: psutil in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from dynflatfield==1.0.0->European-XFEL-Offline-Calibration==1.0) (6.0.0)
Collecting scikit-image (from dynflatfield==1.0.0->European-XFEL-Offline-Calibration==1.0)
  Downloading scikit_image-0.21.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (14 kB)
Collecting threadpoolctl (from dynflatfield==1.0.0->European-XFEL-Offline-Calibration==1.0)
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Requirement already satisfied: packaging in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from extra-data==1.15.1->European-XFEL-Offline-Calibration==1.0) (24.1)
Collecting euxfel-bunch-pattern>=0.6 (from EXtra-redu==0.0.8->European-XFEL-Offline-Calibration==1.0)
  Downloading euxfel_bunch_pattern-0.6-py3-none-any.whl.metadata (766 bytes)
Collecting gitdb<5,>=4.0.1 (from gitpython==3.1.0->European-XFEL-Offline-Calibration==1.0)
  Downloading gitdb-4.0.11-py3-none-any.whl.metadata (1.2 kB)
Requirement already satisfied: certifi in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from httpx==0.23.0->European-XFEL-Offline-Calibration==1.0) (2024.7.4)
Requirement already satisfied: sniffio in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from httpx==0.23.0->European-XFEL-Offline-Calibration==1.0) (1.3.1)
Collecting rfc3986<2,>=1.3 (from rfc3986[idna2008]<2,>=1.3->httpx==0.23.0->European-XFEL-Offline-Calibration==1.0)
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Collecting httpcore<0.16.0,>=0.15.0 (from httpx==0.23.0->European-XFEL-Offline-Calibration==1.0)
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Requirement already satisfied: tornado>=4.2 in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipykernel==5.1.4->European-XFEL-Offline-Calibration==1.0) (6.4.1)
Requirement already satisfied: decorator in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipyparallel==6.2.4->European-XFEL-Offline-Calibration==1.0) (5.1.1)
Requirement already satisfied: setuptools>=18.5 in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0) (41.0.1)
Collecting setuptools>=18.5 (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0)
  Downloading setuptools-70.3.0-py3-none-any.whl.metadata (5.8 kB)
Requirement already satisfied: jedi>=0.10 in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0) (0.19.1)
Requirement already satisfied: pickleshare in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0) (0.7.5)
Requirement already satisfied: prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0 in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0) (3.0.47)
Requirement already satisfied: pygments in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0) (2.18.0)
Requirement already satisfied: backcall in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0) (0.2.0)
Requirement already satisfied: pexpect in /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages (from ipython==7.12.0->European-XFEL-Offline-Calibration==1.0) (4.9.0)
Collecting entrypoints (from jupyter-client==7.3.4->European-XFEL-Offline-Calibration==1.0)
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Building wheels for collected packages: European-XFEL-Offline-Calibration, dill, prettytable, pypandoc, pyyaml, sharedmem, tabulate
  Building wheel for European-XFEL-Offline-Calibration (pyproject.toml): started
  Building wheel for European-XFEL-Offline-Calibration (pyproject.toml): finished with status 'done'
  Created wheel for European-XFEL-Offline-Calibration: filename=European_XFEL_Offline_Calibration-1.0-cp38-cp38-linux_x86_64.whl size=1712377 sha256=f174280c3867d7146ef616c8bc86986cbee5a75fd18ccfb9c4e35b38d9be876f
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  Building wheel for dill (setup.py): finished with status 'done'
  Created wheel for dill: filename=dill-0.3.0-py3-none-any.whl size=77508 sha256=ba28193ab3608eeee07b0e7519ca8bbb3116ebd9b486d6d0e58629b589a07048
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  Created wheel for prettytable: filename=prettytable-0.7.2-py3-none-any.whl size=13699 sha256=bba0dc4bd4ee2d4d0455483442abedc736991529dcd2e676d484adc8d9cb489c
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  Created wheel for pypandoc: filename=pypandoc-1.4-py3-none-any.whl size=16716 sha256=e3adde215840115e650540ab0161a5b9b0b8e3b673bae6a5fe28a11c638d65b1
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  Building wheel for pyyaml (setup.py): started
  Building wheel for pyyaml (setup.py): finished with status 'done'
  Created wheel for pyyaml: filename=PyYAML-5.3-cp38-cp38-linux_x86_64.whl size=44228 sha256=af39d555ad0977d6801f86d8481c451b13b58f4eadace69fa7386c17b8f4a439
  Stored in directory: /tmp/pip-ephem-wheel-cache-94eqjffe/wheels/e4/94/ec/65e430f66fda7a86c08f61ce59455581adc269a65881b4ffeb
  Building wheel for sharedmem (setup.py): started
  Building wheel for sharedmem (setup.py): finished with status 'done'
  Created wheel for sharedmem: filename=sharedmem-0.3.8-py3-none-any.whl size=18341 sha256=4830a633d9e991969430ce478ed8c19de9c33bf0ec57002df9b55356307a25f8
  Stored in directory: /tmp/pip-ephem-wheel-cache-94eqjffe/wheels/ee/ef/25/9562dc56f11d2b55824c1b1547eff68b75f1a0117d3b0867dd
  Building wheel for tabulate (setup.py): started
  Building wheel for tabulate (setup.py): finished with status 'done'
  Created wheel for tabulate: filename=tabulate-0.8.6-py3-none-any.whl size=23272 sha256=cc185bfdbf98deec55b4791f67c4188df7ba582ea818d34be8b61f15f496af1b
  Stored in directory: /tmp/pip-ephem-wheel-cache-94eqjffe/wheels/86/8c/d9/3b6c2f55efaefe656c52b725d2fdc5669085c83444979db8b3
Successfully built European-XFEL-Offline-Calibration dill prettytable pypandoc pyyaml sharedmem tabulate
Installing collected packages: tabulate, rfc3986, pymunge, prettytable, mistune, kafka-python, ipython-genutils, env-cache, dynaconf, commonmark, chardet, urllib3, tzdata, traitlets, threadpoolctl, testpath, sphinxcontrib-websupport, smmap, setuptools, rich, pyzmq, pyyaml, python-dateutil, pyparsing, pillow, oauthlib, numpy, networkx, mypy-extensions, lxml, llvmlite, kiwisolver, joblib, Jinja2, idna, h11, entrypoints, docutils, dill, Cython, cycler, async-generator, astcheck, tifffile, sharedmem, scipy, requests, PyWavelets, pypandoc, pasha, pandas, numba, matplotlib, jupyter-core, ipython, iminuit, imageio, h5py, gitdb, euxfel-bunch-pattern, anyio, xarray, sphinx, scikit-learn, scikit-image, requests-oauthlib, jupyter-client, httpcore, gitpython, cfelpyutils, oauth2-xfel-client, nbformat, ipykernel, httpx, extra-geom, extra-data, dynflatfield, nbconvert, nbclient, metadata-client, jupyter-console, ipyparallel, EXtra-redu, calibration-client, princess, notebook, nbparameterise, European-XFEL-Offline-Calibration
  Attempting uninstall: mistune
    Found existing installation: mistune 3.0.2
    Uninstalling mistune-3.0.2:
      Successfully uninstalled mistune-3.0.2
  Attempting uninstall: commonmark
    Found existing installation: commonmark 0.8.1
    Uninstalling commonmark-0.8.1:
      Successfully uninstalled commonmark-0.8.1
  Attempting uninstall: urllib3
    Found existing installation: urllib3 2.2.2
    Uninstalling urllib3-2.2.2:
      Successfully uninstalled urllib3-2.2.2
  Attempting uninstall: traitlets
    Found existing installation: traitlets 5.14.3
    Uninstalling traitlets-5.14.3:
      Successfully uninstalled traitlets-5.14.3
  Attempting uninstall: setuptools
    Found existing installation: setuptools 41.0.1
    Uninstalling setuptools-41.0.1:
      Successfully uninstalled setuptools-41.0.1
  Attempting uninstall: pyzmq
    Found existing installation: pyzmq 26.0.3
    Uninstalling pyzmq-26.0.3:
      Successfully uninstalled pyzmq-26.0.3
  Attempting uninstall: pyyaml
    Found existing installation: PyYAML 6.0.1
    Uninstalling PyYAML-6.0.1:
      Successfully uninstalled PyYAML-6.0.1
  Attempting uninstall: python-dateutil
    Found existing installation: python-dateutil 2.9.0.post0
    Uninstalling python-dateutil-2.9.0.post0:
      Successfully uninstalled python-dateutil-2.9.0.post0
  Attempting uninstall: pillow
    Found existing installation: Pillow 5.4.1
    Uninstalling Pillow-5.4.1:
      Successfully uninstalled Pillow-5.4.1
  Attempting uninstall: Jinja2
    Found existing installation: Jinja2 3.1.4
    Uninstalling Jinja2-3.1.4:
      Successfully uninstalled Jinja2-3.1.4
  Attempting uninstall: idna
    Found existing installation: idna 3.7
    Uninstalling idna-3.7:
      Successfully uninstalled idna-3.7
  Attempting uninstall: h11
    Found existing installation: h11 0.14.0
    Uninstalling h11-0.14.0:
      Successfully uninstalled h11-0.14.0
  Attempting uninstall: docutils
    Found existing installation: docutils 0.14
    Uninstalling docutils-0.14:
      Successfully uninstalled docutils-0.14
  Attempting uninstall: requests
    Found existing installation: requests 2.32.3
    Uninstalling requests-2.32.3:
      Successfully uninstalled requests-2.32.3
  Attempting uninstall: jupyter-core
    Found existing installation: jupyter_core 5.7.2
    Uninstalling jupyter_core-5.7.2:
      Successfully uninstalled jupyter_core-5.7.2
  Attempting uninstall: ipython
    Found existing installation: ipython 8.12.3
    Uninstalling ipython-8.12.3:
      Successfully uninstalled ipython-8.12.3
  Attempting uninstall: anyio
    Found existing installation: anyio 4.4.0
    Uninstalling anyio-4.4.0:
      Successfully uninstalled anyio-4.4.0
  Attempting uninstall: sphinx
    Found existing installation: Sphinx 5.1.1
    Uninstalling Sphinx-5.1.1:
      Successfully uninstalled Sphinx-5.1.1
  Attempting uninstall: jupyter-client
    Found existing installation: jupyter_client 8.6.2
    Uninstalling jupyter_client-8.6.2:
      Successfully uninstalled jupyter_client-8.6.2
  Attempting uninstall: httpcore
    Found existing installation: httpcore 1.0.5
    Uninstalling httpcore-1.0.5:
      Successfully uninstalled httpcore-1.0.5
  Attempting uninstall: nbformat
    Found existing installation: nbformat 5.10.4
    Uninstalling nbformat-5.10.4:
      Successfully uninstalled nbformat-5.10.4
  Attempting uninstall: ipykernel
    Found existing installation: ipykernel 6.29.5
    Uninstalling ipykernel-6.29.5:
      Successfully uninstalled ipykernel-6.29.5
  Attempting uninstall: httpx
    Found existing installation: httpx 0.27.0
    Uninstalling httpx-0.27.0:
      Successfully uninstalled httpx-0.27.0
  Attempting uninstall: nbconvert
    Found existing installation: nbconvert 7.16.4
    Uninstalling nbconvert-7.16.4:
      Successfully uninstalled nbconvert-7.16.4
  Attempting uninstall: nbclient
    Found existing installation: nbclient 0.10.0
    Uninstalling nbclient-0.10.0:
      Successfully uninstalled nbclient-0.10.0
  Attempting uninstall: jupyter-console
    Found existing installation: jupyter-console 6.6.3
    Uninstalling jupyter-console-6.6.3:
      Successfully uninstalled jupyter-console-6.6.3
  Attempting uninstall: notebook
    Found existing installation: notebook 7.2.1
    Uninstalling notebook-7.2.1:
      Successfully uninstalled notebook-7.2.1
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
jupyter-events 0.10.0 requires traitlets>=5.3, but you have traitlets 4.3.3 which is incompatible.
jupyter-server 2.14.1 requires jinja2>=3.0.3, but you have jinja2 2.11.2 which is incompatible.
jupyter-server 2.14.1 requires jupyter-client>=7.4.4, but you have jupyter-client 7.3.4 which is incompatible.
jupyter-server 2.14.1 requires jupyter-core!=5.0.*,>=4.12, but you have jupyter-core 4.10.0 which is incompatible.
jupyter-server 2.14.1 requires nbconvert>=6.4.4, but you have nbconvert 5.6.1 which is incompatible.
jupyter-server 2.14.1 requires nbformat>=5.3.0, but you have nbformat 5.0.7 which is incompatible.
jupyter-server 2.14.1 requires pyzmq>=24, but you have pyzmq 23.2.0 which is incompatible.
jupyter-server 2.14.1 requires traitlets>=5.6.0, but you have traitlets 4.3.3 which is incompatible.
jupyterlab 4.2.3 requires httpx>=0.25.0, but you have httpx 0.23.0 which is incompatible.
jupyterlab 4.2.3 requires ipykernel>=6.5.0, but you have ipykernel 5.1.4 which is incompatible.
jupyterlab 4.2.3 requires jinja2>=3.0.3, but you have jinja2 2.11.2 which is incompatible.
jupyterlab-server 2.27.2 requires jinja2>=3.0.3, but you have jinja2 2.11.2 which is incompatible.
jupyterlab-server 2.27.2 requires requests>=2.31, but you have requests 2.22.0 which is incompatible.
mkdocs-material 9.0.15 requires jinja2>=3.0, but you have jinja2 2.11.2 which is incompatible.
mkdocs-material 9.0.15 requires requests>=2.26, but you have requests 2.22.0 which is incompatible.
Successfully installed Cython-0.29.21 EXtra-redu-0.0.8 European-XFEL-Offline-Calibration-1.0 Jinja2-2.11.2 PyWavelets-1.4.1 anyio-3.7.1 astcheck-0.3.0 async-generator-1.10 calibration-client-11.3.0 cfelpyutils-2.0.6 chardet-3.0.4 commonmark-0.9.1 cycler-0.12.1 dill-0.3.0 docutils-0.17.1 dynaconf-3.1.4 dynflatfield-1.0.0 entrypoints-0.4 env-cache-0.1 euxfel-bunch-pattern-0.6 extra-data-1.15.1 extra-geom-1.10.0 gitdb-4.0.11 gitpython-3.1.0 h11-0.12.0 h5py-3.5.0 httpcore-0.15.0 httpx-0.23.0 idna-2.8 imageio-2.34.2 iminuit-1.3.8 ipykernel-5.1.4 ipyparallel-6.2.4 ipython-7.12.0 ipython-genutils-0.2.0 joblib-1.4.2 jupyter-client-7.3.4 jupyter-console-6.1.0 jupyter-core-4.10.0 kafka-python-2.0.2 kiwisolver-1.4.5 llvmlite-0.39.1 lxml-4.5.0 matplotlib-3.4.2 metadata-client-4.0.0 mistune-0.8.4 mypy-extensions-1.0.0 nbclient-0.5.1 nbconvert-5.6.1 nbformat-5.0.7 nbparameterise-0.6 networkx-3.1 notebook-6.1.5 numba-0.56.4 numpy-1.20.3 oauth2-xfel-client-6.1.1 oauthlib-3.2.2 pandas-2.0.3 pasha-0.1.1 pillow-10.3.0 prettytable-0.7.2 princess-0.5 pymunge-0.1.3 pypandoc-1.4 pyparsing-3.1.2 python-dateutil-2.8.2 pyyaml-5.3 pyzmq-23.2.0 requests-2.22.0 requests-oauthlib-2.0.0 rfc3986-1.5.0 rich-12.6.0 scikit-image-0.19.3 scikit-learn-0.22.2.post1 scipy-1.7.0 setuptools-70.3.0 sharedmem-0.3.8 smmap-5.0.1 sphinx-1.8.5 sphinxcontrib-websupport-1.2.4 tabulate-0.8.6 testpath-0.6.0 threadpoolctl-3.5.0 tifffile-2023.7.10 traitlets-4.3.3 tzdata-2024.1 urllib3-1.25.11 xarray-2022.3.0

[rtd-command-info] start-time: 2024-07-09T20:36:36.187502Z, end-time: 2024-07-09T20:36:36.244436Z, duration: 0, exit-code: 0
cat mkdocs.yml
copyright: '&copy; 2018 <a href="https://www.xfel.eu/"  target="_blank" rel="noopener">European
  XFEL</a>'
docs_dir: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/checkouts/master/docs
extra_css:
- css/extra.css
- css/custom.css
- http://rtd.xfel.eu/static/css/badge_only.css
- http://rtd.xfel.eu/static/css/readthedocs-doc-embed.css
extra_javascript:
- readthedocs-data.js
- http://rtd.xfel.eu/static/core/js/readthedocs-doc-embed.js
- http://rtd.xfel.eu/static/javascript/readthedocs-analytics.js
google_analytics: null
markdown_extensions:
- abbr
- pymdownx.highlight:
    anchor_linenums: true
    linenums_style: pymdownx-inline
- pymdownx.superfences
- pymdownx.inlinehilite
- pymdownx.snippets:
    auto_append:
    - docs/includes/abbreviations.md
- pymdownx.tasklist
- pymdownx.arithmatex:
    generic: true
- pymdownx.tabbed:
    alternate_style: true
- pymdownx.details
- pymdownx.mark
- pymdownx.emoji: null
- attr_list
- def_list
- footnotes
- md_in_html
- toc:
    permalink: true
- admonition
- tables
- codehilite
nav:
- index.md
- Operation:
  - CALCAT: operation/calibration_database.md
  - myMDC: operation/myMDC.md
  - Available Calibration notebooks: operation/available_notebooks.md
  - Calibration webservice:
    - The webservice: operation/webservice.md
    - Calibration Configuration: operation/calibration_configurations.md
  - Troubleshooting:
    - General: operation/troubleshooting.md
    - Detector specific: operation/detector_specific_troubleshooting.md
- Development:
  - Installation: development/installation.md
  - Workflow: development/workflow.md
  - How to write a notebook: development/how_to_write_xfel_calibrate_notebook_NBC.md
  - Configuration: development/configuration.md
  - Automated tests: development/testing_pipeline.md
- Code Reference: reference/
- Reference:
  - FAQ: references/faq.md
  - Changelog: references/changelog.md
plugins:
- glightbox
- search
- autorefs
- gen-files:
    scripts:
    - docs/gen_ref_pages.py
- literate-nav:
    nav_file: SUMMARY.md
- section-index
- mkdocstrings:
    handlers:
      python:
        docstring_section_style: list
        docstring_style: sphinx
        import:
        - https://docs.python-requests.org/en/master/objects.inv
repo_url: https://git.xfel.eu/calibration/pycalibration
site_name: EuXFEL Offline calibration
theme:
  features:
  - navigation.tabs
  - navigation.tabs.sticky
  - navigation.sections
  - navigation.top
  - navigation.instant
  - navigation.tracking
  - search.suggest
  - search.highlight
  - content.tabs.link
  - content.code.annotation
  - content.code.copy
  - navigation.indexes
  - content.tooltips
  - toc.follow
  language: en
  name: material
  palette:
  - scheme: light
    toggle:
      icon: material/lightbulb
      name: Switch to dark mode
  - scheme: slate
    toggle:
      icon: material/lightbulb-outline
      name: Switch to light mode

[rtd-command-info] start-time: 2024-07-09T20:36:36.330857Z, end-time: 2024-07-09T20:36:46.209916Z, duration: 9, exit-code: 0
/usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/bin/python -m mkdocs build --clean --site-dir _build/html --config-file mkdocs.yml
INFO     -  Cleaning site directory
INFO     -  Building documentation to directory: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/checkouts/master/_build/html
INFO     -  The following pages exist in the docs directory, but are not included in the "nav" configuration:
  - overview.md
  - development/advanced.md
  - development/contributing_to_gitlab.md
  - includes/abbreviations.md
WARNING  -  Documentation file 'development/configuration.md' contains a link to 'reference/xfel-calibrate/calibrate.md' which is not found in the documentation files.
WARNING  -  Documentation file 'development/workflow.md' contains a link to 'development/SUMMARY.md' which is not found in the documentation files.
WARNING  -  Documentation file 'development/workflow.md' contains a link to 'reference/src/cal_tools/files.md' which is not found in the documentation files.
WARNING  -  Documentation file 'operation/troubleshooting.md' contains a link to 'operation/max-exfl-cal001.desy.de:8008' which is not found in the documentation files.
WARNING  -  Documentation file 'operation/troubleshooting.md' contains a link to 'operation/operation/webservice.md' which is not found in the documentation files.
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:49: No type or annotation for parameter 'run'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:49: Parameter 'run' does not appear in the function signature
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:383: No type or annotation for returned value 'bool'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:451: No type or annotation for returned value 'float'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:418: No type or annotation for returned value 'int'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:395: No type or annotation for returned value 'list'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:441: No type or annotation for returned value 'float'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:401: No type or annotation for returned value 'float'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/agipdlib.py:428: No type or annotation for returned value 'int'
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
ERROR    -  griffe: Failed to parse annotation from 'BoolOp' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
ERROR    -  griffe: Failed to parse annotation from 'BoolOp' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:296: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:120: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:573: No type or annotation for returned value 'DICT'
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
ERROR    -  griffe: Failed to parse annotation from 'BoolOp' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
ERROR    -  griffe: Failed to parse annotation from 'BoolOp' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:446: No type or annotation for parameter '**condition_params'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:446: Parameter '**condition_params' does not appear in the function signature
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:622: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:514: Failed to get 'name: description' pair from 'Any further keyword arguments are passed on to'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:515: Failed to get 'name: description' pair from 'CalibrationClient.__init__().'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:518: No type or annotation for returned value 1
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface.py:973: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/calcat_interface2.py:797: Parameter 'ccvs_url' does not appear in the function signature
ERROR    -  griffe: Failed to parse annotation from 'BoolOp' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/constants.py:1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/constants.py:90: Parameter 'const_path' does not appear in the function signature
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/constants.py:95: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/constants.py:44: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:517: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:444: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:473: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:232: No type or annotation for returned value 1
ERROR    -  griffe: Failed to parse annotation from 'Tuple' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:179: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:249: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:328: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:135: Parameter 'args,' does not appear in the function signature
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:140: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:270: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:287: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:592: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:562: No type or annotation for parameter 'kwargs'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:566: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:23: No type or annotation for returned value 1
ERROR    -  griffe: Failed to parse annotation from 'BoolOp' node at /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:70: No type or annotation for yielded value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/files.py:43: No type or annotation for yielded value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/tools.py:1059: No type or annotation for returned value 'str'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/gotthard2/gotthard2lib.py:54: No type or annotation for returned value 'str'
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jfstrixel.py:75: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:40: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:15: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:104: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:182: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:191: Empty returns section at line 11
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:256: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:265: Empty returns section at line 11
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:338: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:347: No type or annotation for returned value 1
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:441: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:454: Empty returns section at line 15
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:405: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:69: Empty parameters section at line 3
WARNING  -  griffe: /usr/src/app/checkouts/readthedocs.org/user_builds/european-xfel-offline-calibration/envs/master/lib/python3.8/site-packages/cal_tools/jungfrau/jungfrau_ff.py:77: Empty returns section at line 10
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