Read the Docs build information Build id: 24801 Project: scs-toolbox Version: latest Commit: 130371e48192c10745471f5243ec7db3d31a93d4 Date: 2022-11-11T15:01:42.218778Z State: finished Success: True [rtd-command-info] start-time: 2022-11-11T15:01:46.269679Z, end-time: 2022-11-11T15:01:46.984526Z, duration: 0, exit-code: 0 git clone --no-single-branch --depth 50 https://git.xfel.eu/gitlab/SCS/ToolBox.git . Cloning into '.'... [rtd-command-info] start-time: 2022-11-11T15:01:47.317800Z, end-time: 2022-11-11T15:01:47.414341Z, 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 HEAD is now at 130371e Merge branch 'more-mnemonics' into 'master' [rtd-command-info] start-time: 2022-11-11T15:01:47.497558Z, end-time: 2022-11-11T15:01:47.555570Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2022-11-11T15:01:48.770888Z, end-time: 2022-11-11T15:01:53.318411Z, duration: 4, exit-code: 0 python3.7 -mvirtualenv /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest Using base prefix '/home/docs/.pyenv/versions/3.7.3' New python executable in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/bin/python3.7 Also creating executable in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/bin/python Installing setuptools, pip, wheel... done. [rtd-command-info] start-time: 2022-11-11T15:01:53.408574Z, end-time: 2022-11-11T15:01:54.250461Z, duration: 0, exit-code: 0 /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/bin/python -m pip install --upgrade --no-cache-dir pip Requirement already satisfied: pip in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (22.3.1) [rtd-command-info] start-time: 2022-11-11T15:01:54.334383Z, end-time: 2022-11-11T15:02:03.533110Z, duration: 9, exit-code: 0 /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/bin/python -m pip install --upgrade --no-cache-dir jinja2==2.11.3 markupsafe==2.0.1 Pygments==2.3.1 setuptools==41.0.1 docutils==0.14 mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<1.1 Collecting jinja2==2.11.3 Downloading Jinja2-2.11.3-py2.py3-none-any.whl (125 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 125.7/125.7 kB 3.3 MB/s eta 0:00:00 Collecting markupsafe==2.0.1 Downloading MarkupSafe-2.0.1-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_12_x86_64.manylinux2010_x86_64.whl (31 kB) Collecting Pygments==2.3.1 Downloading Pygments-2.3.1-py2.py3-none-any.whl (849 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 849.5/849.5 kB 18.6 MB/s eta 0:00:00 Collecting setuptools==41.0.1 Downloading setuptools-41.0.1-py2.py3-none-any.whl (575 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 576.0/576.0 kB 171.5 MB/s eta 0:00:00 Collecting docutils==0.14 Downloading docutils-0.14-py3-none-any.whl (543 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 543.2/543.2 kB 187.2 MB/s eta 0:00:00 Collecting mock==1.0.1 Downloading mock-1.0.1.zip (861 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 861.9/861.9 kB 163.3 MB/s eta 0:00:00 Preparing metadata (setup.py): started Preparing metadata (setup.py): finished with status 'done' Collecting pillow==5.4.1 Downloading Pillow-5.4.1-cp37-cp37m-manylinux1_x86_64.whl (2.0 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.0/2.0 MB 107.5 MB/s eta 0:00:00 Collecting alabaster!=0.7.5,<0.8,>=0.7 Downloading alabaster-0.7.12-py2.py3-none-any.whl (14 kB) Collecting commonmark==0.8.1 Downloading commonmark-0.8.1-py2.py3-none-any.whl (47 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 47.4/47.4 kB 188.4 MB/s eta 0:00:00 Collecting recommonmark==0.5.0 Downloading recommonmark-0.5.0-py2.py3-none-any.whl (9.8 kB) Collecting sphinx<2 Downloading Sphinx-1.8.6-py2.py3-none-any.whl (3.1 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.1/3.1 MB 183.0 MB/s eta 0:00:00 Collecting sphinx-rtd-theme<0.5 Downloading sphinx_rtd_theme-0.4.3-py2.py3-none-any.whl (6.4 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 6.4/6.4 MB 157.3 MB/s eta 0:00:00 Collecting readthedocs-sphinx-ext<1.1 Downloading readthedocs_sphinx_ext-1.0.4-py2.py3-none-any.whl (28 kB) Collecting future Downloading future-0.18.2.tar.gz (829 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 829.2/829.2 kB 226.2 MB/s eta 0:00:00 Preparing metadata (setup.py): started Preparing metadata (setup.py): finished with status 'done' Collecting snowballstemmer>=1.1 Downloading snowballstemmer-2.2.0-py2.py3-none-any.whl (93 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 93.0/93.0 kB 195.4 MB/s eta 0:00:00 Collecting six>=1.5 Downloading six-1.16.0-py2.py3-none-any.whl (11 kB) Collecting imagesize Downloading imagesize-1.4.1-py2.py3-none-any.whl (8.8 kB) Collecting requests>=2.0.0 Downloading requests-2.28.1-py3-none-any.whl (62 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 62.8/62.8 kB 26.1 MB/s eta 0:00:00 Collecting babel!=2.0,>=1.3 Downloading Babel-2.11.0-py3-none-any.whl (9.5 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 9.5/9.5 MB 140.7 MB/s eta 0:00:00 Collecting packaging Downloading packaging-21.3-py3-none-any.whl (40 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 40.8/40.8 kB 147.9 MB/s eta 0:00:00 Collecting sphinxcontrib-websupport Downloading sphinxcontrib_websupport-1.2.4-py2.py3-none-any.whl (39 kB) Collecting pytz>=2015.7 Downloading pytz-2022.6-py2.py3-none-any.whl (498 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 498.1/498.1 kB 230.6 MB/s eta 0:00:00 Collecting charset-normalizer<3,>=2 Downloading charset_normalizer-2.1.1-py3-none-any.whl (39 kB) Collecting urllib3<1.27,>=1.21.1 Downloading urllib3-1.26.12-py2.py3-none-any.whl (140 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 140.4/140.4 kB 198.0 MB/s eta 0:00:00 Collecting idna<4,>=2.5 Downloading idna-3.4-py3-none-any.whl (61 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 61.5/61.5 kB 166.1 MB/s eta 0:00:00 Collecting certifi>=2017.4.17 Downloading certifi-2022.9.24-py3-none-any.whl (161 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 161.1/161.1 kB 213.3 MB/s eta 0:00:00 Collecting pyparsing!=3.0.5,>=2.0.2 Downloading pyparsing-3.0.9-py3-none-any.whl (98 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 98.3/98.3 kB 178.4 MB/s eta 0:00:00 Collecting sphinxcontrib-serializinghtml Downloading sphinxcontrib_serializinghtml-1.1.5-py2.py3-none-any.whl (94 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 94.0/94.0 kB 180.0 MB/s eta 0:00:00 Building wheels for collected packages: mock, future Building wheel for mock (setup.py): started Building wheel for mock (setup.py): finished with status 'done' Created wheel for mock: filename=mock-1.0.1-py3-none-any.whl size=23753 sha256=54be364a1e151e24acfaaeddb43b2ca29e34de8a3cbdc3c1143c51d6cac878c1 Stored in directory: /tmp/pip-ephem-wheel-cache-qb3kpujq/wheels/d1/33/8e/f9d24f00cc130866aacfe7c3bc15571217e2b22cc4c4e1b443 Building wheel for future (setup.py): started Building wheel for future (setup.py): finished with status 'done' Created wheel for future: filename=future-0.18.2-py3-none-any.whl size=491059 sha256=b1c12c17828c5850a9524142a151d4c515f128f08e7f14b5df04422f7e9ae9fa Stored in directory: /tmp/pip-ephem-wheel-cache-qb3kpujq/wheels/3e/3c/b4/7132d27620dd551cf00823f798a7190e7320ae7ffb71d1e989 Successfully built mock future Installing collected packages: snowballstemmer, pytz, Pygments, mock, docutils, alabaster, urllib3, sphinxcontrib-serializinghtml, six, setuptools, pyparsing, pillow, markupsafe, imagesize, idna, future, charset-normalizer, certifi, babel, sphinxcontrib-websupport, requests, packaging, jinja2, commonmark, sphinx, readthedocs-sphinx-ext, sphinx-rtd-theme, recommonmark Attempting uninstall: setuptools Found existing installation: setuptools 65.5.1 Uninstalling setuptools-65.5.1: Successfully uninstalled setuptools-65.5.1 Successfully installed Pygments-2.3.1 alabaster-0.7.12 babel-2.11.0 certifi-2022.9.24 charset-normalizer-2.1.1 commonmark-0.8.1 docutils-0.14 future-0.18.2 idna-3.4 imagesize-1.4.1 jinja2-2.11.3 markupsafe-2.0.1 mock-1.0.1 packaging-21.3 pillow-5.4.1 pyparsing-3.0.9 pytz-2022.6 readthedocs-sphinx-ext-1.0.4 recommonmark-0.5.0 requests-2.28.1 setuptools-41.0.1 six-1.16.0 snowballstemmer-2.2.0 sphinx-1.8.6 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.5 sphinxcontrib-websupport-1.2.4 urllib3-1.26.12 [rtd-command-info] start-time: 2022-11-11T15:02:03.618738Z, end-time: 2022-11-11T15:02:17.748979Z, duration: 14, exit-code: 0 /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/bin/python -m pip install --exists-action=w --no-cache-dir -r doc/requirements.txt Requirement already satisfied: sphinx in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from -r doc/requirements.txt (line 1)) (1.8.6) Requirement already satisfied: sphinx_rtd_theme in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from -r doc/requirements.txt (line 2)) (0.4.3) Collecting autoapi Downloading autoapi-2.0.1.tar.gz (11 kB) Preparing metadata (setup.py): started Preparing metadata (setup.py): finished with status 'done' Collecting sphinx-autoapi Downloading sphinx_autoapi-2.0.0-py2.py3-none-any.whl (55 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 56.0/56.0 kB 2.7 MB/s eta 0:00:00 Collecting nbsphinx Downloading nbsphinx-0.8.9-py3-none-any.whl (25 kB) Requirement already satisfied: snowballstemmer>=1.1 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (2.2.0) Requirement already satisfied: sphinxcontrib-websupport in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (1.2.4) Requirement already satisfied: docutils<0.18,>=0.11 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (0.14) Requirement already satisfied: six>=1.5 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (1.16.0) Requirement already satisfied: imagesize in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (1.4.1) Requirement already satisfied: alabaster<0.8,>=0.7 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (0.7.12) Requirement already satisfied: packaging in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (21.3) Requirement already satisfied: Jinja2>=2.3 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (2.11.3) Requirement already satisfied: requests>=2.0.0 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (2.28.1) Requirement already satisfied: setuptools in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (41.0.1) Requirement already satisfied: Pygments>=2.0 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (2.3.1) Requirement already satisfied: babel!=2.0,>=1.3 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (2.11.0) Collecting sphinx Downloading sphinx-5.3.0-py3-none-any.whl (3.2 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.2/3.2 MB 34.4 MB/s eta 0:00:00 Collecting astroid>=2.7 Downloading astroid-2.12.12-py3-none-any.whl (264 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 264.7/264.7 kB 192.7 MB/s eta 0:00:00 Collecting PyYAML Downloading PyYAML-6.0-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_12_x86_64.manylinux2010_x86_64.whl (596 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 596.3/596.3 kB 220.8 MB/s eta 0:00:00 Collecting unidecode Downloading Unidecode-1.3.6-py3-none-any.whl (235 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 235.9/235.9 kB 229.2 MB/s eta 0:00:00 Requirement already satisfied: sphinxcontrib-serializinghtml>=1.1.5 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from sphinx->-r doc/requirements.txt (line 1)) (1.1.5) Collecting sphinxcontrib-devhelp Downloading sphinxcontrib_devhelp-1.0.2-py2.py3-none-any.whl (84 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 84.7/84.7 kB 183.8 MB/s eta 0:00:00 Collecting sphinxcontrib-htmlhelp>=2.0.0 Downloading sphinxcontrib_htmlhelp-2.0.0-py2.py3-none-any.whl (100 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 100.5/100.5 kB 215.0 MB/s eta 0:00:00 Collecting sphinxcontrib-jsmath Downloading sphinxcontrib_jsmath-1.0.1-py2.py3-none-any.whl (5.1 kB) Collecting importlib-metadata>=4.8 Downloading importlib_metadata-5.0.0-py3-none-any.whl (21 kB) Collecting Pygments>=2.0 Downloading Pygments-2.13.0-py3-none-any.whl (1.1 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.1/1.1 MB 233.2 MB/s eta 0:00:00 Collecting Jinja2>=2.3 Downloading Jinja2-3.1.2-py3-none-any.whl (133 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 133.1/133.1 kB 199.0 MB/s eta 0:00:00 Collecting sphinxcontrib-qthelp Downloading sphinxcontrib_qthelp-1.0.3-py2.py3-none-any.whl (90 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 90.6/90.6 kB 187.5 MB/s eta 0:00:00 Collecting sphinxcontrib-applehelp Downloading sphinxcontrib_applehelp-1.0.2-py2.py3-none-any.whl (121 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 121.2/121.2 kB 200.6 MB/s eta 0:00:00 Collecting nbformat Downloading nbformat-5.7.0-py3-none-any.whl (77 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 77.1/77.1 kB 189.0 MB/s eta 0:00:00 Collecting traitlets>=5 Downloading traitlets-5.5.0-py3-none-any.whl (107 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 107.4/107.4 kB 184.0 MB/s eta 0:00:00 Collecting nbconvert!=5.4 Downloading nbconvert-7.2.4-py3-none-any.whl (273 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 273.2/273.2 kB 210.4 MB/s eta 0:00:00 Collecting wrapt<2,>=1.11 Downloading wrapt-1.14.1-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (75 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 75.2/75.2 kB 186.7 MB/s eta 0:00:00 Collecting typing-extensions>=3.10 Downloading typing_extensions-4.4.0-py3-none-any.whl (26 kB) Collecting lazy-object-proxy>=1.4.0 Downloading lazy-object-proxy-1.8.0.tar.gz (41 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 41.9/41.9 kB 156.5 MB/s eta 0:00:00 Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Collecting typed-ast<2.0,>=1.4.0 Downloading typed_ast-1.5.4-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_12_x86_64.manylinux2010_x86_64.whl (843 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 843.7/843.7 kB 231.2 MB/s eta 0:00:00 Requirement already satisfied: pytz>=2015.7 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from babel!=2.0,>=1.3->sphinx->-r doc/requirements.txt (line 1)) (2022.6) Collecting zipp>=0.5 Downloading zipp-3.10.0-py3-none-any.whl (6.2 kB) Requirement already satisfied: MarkupSafe>=2.0 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from Jinja2>=2.3->sphinx->-r doc/requirements.txt (line 1)) (2.0.1) Collecting jupyter-core>=4.7 Downloading jupyter_core-4.11.2-py3-none-any.whl (88 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 88.5/88.5 kB 196.9 MB/s eta 0:00:00 Collecting tinycss2 Downloading tinycss2-1.2.1-py3-none-any.whl (21 kB) Collecting pandocfilters>=1.4.1 Downloading pandocfilters-1.5.0-py2.py3-none-any.whl (8.7 kB) Collecting mistune<3,>=2.0.3 Downloading mistune-2.0.4-py2.py3-none-any.whl (24 kB) Collecting nbclient>=0.5.0 Downloading nbclient-0.7.0-py3-none-any.whl (71 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 71.9/71.9 kB 171.1 MB/s eta 0:00:00 Collecting beautifulsoup4 Downloading beautifulsoup4-4.11.1-py3-none-any.whl (128 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 128.2/128.2 kB 183.8 MB/s eta 0:00:00 Collecting jupyterlab-pygments Downloading jupyterlab_pygments-0.2.2-py2.py3-none-any.whl (21 kB) Collecting bleach Downloading bleach-5.0.1-py3-none-any.whl (160 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 160.9/160.9 kB 225.6 MB/s eta 0:00:00 Collecting defusedxml Downloading defusedxml-0.7.1-py2.py3-none-any.whl (25 kB) Collecting fastjsonschema Downloading fastjsonschema-2.16.2-py3-none-any.whl (22 kB) Collecting jsonschema>=2.6 Downloading jsonschema-4.17.0-py3-none-any.whl (83 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 83.8/83.8 kB 187.8 MB/s eta 0:00:00 Requirement already satisfied: pyparsing!=3.0.5,>=2.0.2 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from packaging->sphinx->-r doc/requirements.txt (line 1)) (3.0.9) Requirement already satisfied: charset-normalizer<3,>=2 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from requests>=2.0.0->sphinx->-r doc/requirements.txt (line 1)) (2.1.1) Requirement already satisfied: certifi>=2017.4.17 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from requests>=2.0.0->sphinx->-r doc/requirements.txt (line 1)) (2022.9.24) Requirement already satisfied: urllib3<1.27,>=1.21.1 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from requests>=2.0.0->sphinx->-r doc/requirements.txt (line 1)) (1.26.12) Requirement already satisfied: idna<4,>=2.5 in /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/lib/python3.7/site-packages (from requests>=2.0.0->sphinx->-r doc/requirements.txt (line 1)) (3.4) Collecting attrs>=17.4.0 Downloading attrs-22.1.0-py2.py3-none-any.whl (58 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 58.8/58.8 kB 191.2 MB/s eta 0:00:00 Collecting pkgutil-resolve-name>=1.3.10 Downloading pkgutil_resolve_name-1.3.10-py3-none-any.whl (4.7 kB) Collecting importlib-resources>=1.4.0 Downloading importlib_resources-5.10.0-py3-none-any.whl (34 kB) Collecting pyrsistent!=0.17.0,!=0.17.1,!=0.17.2,>=0.14.0 Downloading pyrsistent-0.19.2-py3-none-any.whl (57 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 57.5/57.5 kB 188.6 MB/s eta 0:00:00 Collecting jupyter-client>=6.1.5 Downloading jupyter_client-7.4.5-py3-none-any.whl (132 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 132.3/132.3 kB 217.1 MB/s eta 0:00:00 Collecting nest-asyncio Downloading nest_asyncio-1.5.6-py3-none-any.whl (5.2 kB) Collecting soupsieve>1.2 Downloading soupsieve-2.3.2.post1-py3-none-any.whl (37 kB) Collecting webencodings Downloading webencodings-0.5.1-py2.py3-none-any.whl (11 kB) Collecting python-dateutil>=2.8.2 Downloading python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 247.7/247.7 kB 213.6 MB/s eta 0:00:00 Collecting pyzmq>=23.0 Downloading pyzmq-24.0.1-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.whl (1.1 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.1/1.1 MB 228.7 MB/s eta 0:00:00 Collecting entrypoints Downloading entrypoints-0.4-py3-none-any.whl (5.3 kB) Collecting tornado>=6.2 Downloading tornado-6.2-cp37-abi3-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (423 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 424.0/424.0 kB 237.1 MB/s eta 0:00:00 Building wheels for collected packages: autoapi, lazy-object-proxy Building wheel for autoapi (setup.py): started Building wheel for autoapi (setup.py): finished with status 'done' Created wheel for autoapi: filename=autoapi-2.0.1-py3-none-any.whl size=13605 sha256=856b395e3565a13e48d9379e24f2d512a8aaf615178f6209a3c591be36699cde Stored in directory: /tmp/pip-ephem-wheel-cache-6xutkcsa/wheels/65/0b/e9/50413699f3d38398cda87d331bf6957b5a9dbad231753470c0 Building wheel for lazy-object-proxy (pyproject.toml): started Building wheel for lazy-object-proxy (pyproject.toml): finished with status 'done' Created wheel for lazy-object-proxy: filename=lazy_object_proxy-1.8.0-cp37-cp37m-linux_x86_64.whl size=56282 sha256=5b088aab047ba7a77ecd7f36625a4178cec076a277be54a37ee32e5ead5e9195 Stored in directory: /tmp/pip-ephem-wheel-cache-6xutkcsa/wheels/c0/96/89/f64b1ccaf665e6d26cee18a9a7cc434c2ea609649e0436df44 Successfully built autoapi lazy-object-proxy Installing collected packages: webencodings, mistune, fastjsonschema, zipp, wrapt, unidecode, typing-extensions, typed-ast, traitlets, tornado, tinycss2, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, soupsieve, pyzmq, PyYAML, python-dateutil, pyrsistent, Pygments, pkgutil-resolve-name, pandocfilters, nest-asyncio, lazy-object-proxy, jupyterlab-pygments, Jinja2, entrypoints, defusedxml, bleach, attrs, jupyter-core, importlib-resources, importlib-metadata, beautifulsoup4, astroid, sphinx, jupyter-client, jsonschema, sphinx-autoapi, nbformat, autoapi, nbclient, nbconvert, nbsphinx Attempting uninstall: Pygments Found existing installation: Pygments 2.3.1 Uninstalling Pygments-2.3.1: Successfully uninstalled Pygments-2.3.1 Attempting uninstall: Jinja2 Found existing installation: Jinja2 2.11.3 Uninstalling Jinja2-2.11.3: Successfully uninstalled Jinja2-2.11.3 Attempting uninstall: sphinx Found existing installation: Sphinx 1.8.6 Uninstalling Sphinx-1.8.6: Successfully uninstalled Sphinx-1.8.6 Successfully installed Jinja2-3.1.2 PyYAML-6.0 Pygments-2.13.0 astroid-2.12.12 attrs-22.1.0 autoapi-2.0.1 beautifulsoup4-4.11.1 bleach-5.0.1 defusedxml-0.7.1 entrypoints-0.4 fastjsonschema-2.16.2 importlib-metadata-5.0.0 importlib-resources-5.10.0 jsonschema-4.17.0 jupyter-client-7.4.5 jupyter-core-4.11.2 jupyterlab-pygments-0.2.2 lazy-object-proxy-1.8.0 mistune-2.0.4 nbclient-0.7.0 nbconvert-7.2.4 nbformat-5.7.0 nbsphinx-0.8.9 nest-asyncio-1.5.6 pandocfilters-1.5.0 pkgutil-resolve-name-1.3.10 pyrsistent-0.19.2 python-dateutil-2.8.2 pyzmq-24.0.1 soupsieve-2.3.2.post1 sphinx-5.3.0 sphinx-autoapi-2.0.0 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-1.0.2 sphinxcontrib-htmlhelp-2.0.0 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-1.0.3 tinycss2-1.2.1 tornado-6.2 traitlets-5.5.0 typed-ast-1.5.4 typing-extensions-4.4.0 unidecode-1.3.6 webencodings-0.5.1 wrapt-1.14.1 zipp-3.10.0 [rtd-command-info] start-time: 2022-11-11T15:02:18.467484Z, end-time: 2022-11-11T15:02:18.525744Z, duration: 0, exit-code: 0 cat doc/conf.py # -*- coding: utf-8 -*- # # Configuration file for the Sphinx documentation builder. # # This file does only contain a selection of the most common options. For a # full list see the documentation: # http://www.sphinx-doc.org/en/master/config # -- Path setup -------------------------------------------------------------- # If extensions (or modules to document with autodoc) are in another directory, # add these directories to sys.path here. If the directory is relative to the # documentation root, use os.path.abspath to make it absolute, like shown here. # import os import sys sys.path.insert(0, os.path.abspath('..')) import sphinx_rtd_theme # -- Project information ----------------------------------------------------- project = 'SCS Toolbox' copyright = '2021, SCS' author = 'SCS' # The short X.Y version version = '' # The full version, including alpha/beta/rc tags release = '' # -- General configuration --------------------------------------------------- # If your documentation needs a minimal Sphinx version, state it here. # # needs_sphinx = '1.0' # Add any Sphinx extension module names here, as strings. They can be # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom # ones. extensions = [ 'sphinx.ext.mathjax', 'sphinx.ext.viewcode', 'sphinx.ext.coverage', 'sphinx.ext.napoleon', 'sphinx.ext.extlinks', # Comment out autoapi to be able to run nbsphinx 'autoapi.extension', 'sphinx_rtd_theme', 'nbsphinx' ] autoapi_dirs = ['../src/toolbox_scs'] autoapi_ignore = ['*/deprecated/*'] extlinks = {'issue': ('https://git.xfel.eu/SCS/ToolBox/-/issues/%s', 'issue:'), 'mr': ('https://git.xfel.eu/SCS/ToolBox/-/merge_requests/%s', 'MR:'), 'commit': ('https://git.xfel.eu/SCS/ToolBox/-/commit/%s', 'commit:') } # Don't add .txt suffix to source files: html_sourcelink_suffix = '' # Add any paths that contain templates here, relative to this directory. templates_path = ['_templates'] # The suffix(es) of source filenames. # You can specify multiple suffix as a list of string: # # source_suffix = ['.rst', '.md'] source_suffix = '.rst' # The master toctree document. master_doc = 'index' # The language for content autogenerated by Sphinx. Refer to documentation # for a list of supported languages. # # This is also used if you do content translation via gettext catalogs. # Usually you set "language" from the command line for these cases. language = None # List of patterns, relative to source directory, that match files and # directories to ignore when looking for source files. # This pattern also affects html_static_path and html_extra_path. exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store'] # The name of the Pygments (syntax highlighting) style to use. pygments_style = None # -- Options for HTML output ------------------------------------------------- # The theme to use for HTML and HTML Help pages. See the documentation for # a list of builtin themes. # #html_theme = 'alabaster' html_theme = 'sphinx_rtd_theme' # Theme options are theme-specific and customize the look and feel of a theme # further. For a list of options available for each theme, see the # documentation. # # html_theme_options = {} # Add any paths that contain custom static files (such as style sheets) here, # relative to this directory. They are copied after the builtin static files, # so a file named "default.css" will overwrite the builtin "default.css". html_static_path = ['_static'] # Custom sidebar templates, must be a dictionary that maps document names # to template names. # # The default sidebars (for documents that don't match any pattern) are # defined by theme itself. Builtin themes are using these templates by # default: ``['localtoc.html', 'relations.html', 'sourcelink.html', # 'searchbox.html']``. # # html_sidebars = {} # -- Options for HTMLHelp output --------------------------------------------- # Output file base name for HTML help builder. htmlhelp_basename = 'SCSToolboxdoc' # -- Options for LaTeX output ------------------------------------------------ latex_elements = { # The paper size ('letterpaper' or 'a4paper'). # # 'papersize': 'letterpaper', # The font size ('10pt', '11pt' or '12pt'). # # 'pointsize': '10pt', # Additional stuff for the LaTeX preamble. # # 'preamble': '', # Latex figure (float) alignment # # 'figure_align': 'htbp', } # Grouping the document tree into LaTeX files. List of tuples # (source start file, target name, title, # author, documentclass [howto, manual, or own class]). latex_documents = [ (master_doc, 'SCSToolbox.tex', 'SCS Toolbox Documentation', 'SCS', 'manual'), ] # -- Options for manual page output ------------------------------------------ # One entry per manual page. List of tuples # (source start file, name, description, authors, manual section). man_pages = [ (master_doc, 'scstoolbox', 'SCS Toolbox Documentation', [author], 1) ] # -- Options for Texinfo output ---------------------------------------------- # Grouping the document tree into Texinfo files. List of tuples # (source start file, target name, title, author, # dir menu entry, description, category) texinfo_documents = [ (master_doc, 'SCSToolbox', 'SCS Toolbox Documentation', author, 'SCSToolbox', 'One line description of project.', 'Miscellaneous'), ] # -- Options for Epub output ------------------------------------------------- # Bibliographic Dublin Core info. epub_title = project # The unique identifier of the text. This can be a ISBN number # or the project homepage. # # epub_identifier = '' # A unique identification for the text. # # epub_uid = '' # A list of files that should not be packed into the epub file. epub_exclude_files = ['search.html'] # -- Extension configuration ------------------------------------------------- ########################################################################### # auto-created readthedocs.org specific configuration # ########################################################################### # # The following code was added during an automated build on readthedocs.org # It is auto created and injected for every build. The result is based on the # conf.py.tmpl file found in the readthedocs.org codebase: # https://github.com/rtfd/readthedocs.org/blob/master/readthedocs/doc_builder/templates/doc_builder/conf.py.tmpl # import importlib import sys import os.path from six import string_types from sphinx import version_info # Get suffix for proper linking to GitHub # This is deprecated in Sphinx 1.3+, # as each page can have its own suffix if globals().get('source_suffix', False): if isinstance(source_suffix, string_types): SUFFIX = source_suffix elif isinstance(source_suffix, (list, tuple)): # Sphinx >= 1.3 supports list/tuple to define multiple suffixes SUFFIX = source_suffix[0] elif isinstance(source_suffix, dict): # Sphinx >= 1.8 supports a mapping dictionary for multiple suffixes SUFFIX = list(source_suffix.keys())[0] # make a ``list()`` for py2/py3 compatibility else: # default to .rst SUFFIX = '.rst' else: SUFFIX = '.rst' # Add RTD Static Path. Add to the end because it overwrites previous files. if not 'html_static_path' in globals(): html_static_path = [] if os.path.exists('_static'): html_static_path.append('_static') # Add RTD Theme only if they aren't overriding it already using_rtd_theme = ( ( 'html_theme' in globals() and html_theme in ['default'] and # Allow people to bail with a hack of having an html_style 'html_style' not in globals() ) or 'html_theme' not in globals() ) if using_rtd_theme: theme = importlib.import_module('sphinx_rtd_theme') html_theme = 'sphinx_rtd_theme' html_style = None html_theme_options = {} if 'html_theme_path' in globals(): html_theme_path.append(theme.get_html_theme_path()) else: html_theme_path = [theme.get_html_theme_path()] if globals().get('websupport2_base_url', False): websupport2_base_url = 'http://rtd.xfel.eu/websupport' websupport2_static_url = '/static/' #Add project information to the template context. context = { 'using_theme': using_rtd_theme, 'html_theme': html_theme, 'current_version': "latest", 'version_slug': "latest", 'MEDIA_URL': "media/", 'STATIC_URL': "/static/", 'PRODUCTION_DOMAIN': "rtd.xfel.eu", 'versions': [ ("latest", "/en/latest/"), ], 'downloads': [ ("pdf", "//rtd.xfel.eu/downloads/scs-toolbox/latest/pdf/"), ], 'subprojects': [ ], 'slug': 'scs-toolbox', 'name': u'SCS ToolBox', 'rtd_language': u'en', 'programming_language': u'words', 'canonical_url': 'http://rtd.xfel.eu/docs/scs-toolbox/en/latest/', 'analytics_code': 'None', 'single_version': False, 'conf_py_path': '/doc/', 'api_host': 'http://rtd.xfel.eu', 'github_user': 'None', 'proxied_api_host': '/_', 'github_repo': 'None', 'github_version': 'master', 'display_github': False, 'bitbucket_user': 'None', 'bitbucket_repo': 'None', 'bitbucket_version': 'master', 'display_bitbucket': False, 'gitlab_user': 'None', 'gitlab_repo': 'None', 'gitlab_version': 'master', 'display_gitlab': False, 'READTHEDOCS': True, 'using_theme': (html_theme == "default"), 'new_theme': (html_theme == "sphinx_rtd_theme"), 'source_suffix': SUFFIX, 'ad_free': False, 'docsearch_disabled': False, 'user_analytics_code': '', 'global_analytics_code': 'None', 'commit': '130371e4', } if 'html_context' in globals(): html_context.update(context) else: html_context = context # Add custom RTD extension if 'extensions' in globals(): # Insert at the beginning because it can interfere # with other extensions. # See https://github.com/rtfd/readthedocs.org/pull/4054 extensions.insert(0, "readthedocs_ext.readthedocs") else: extensions = ["readthedocs_ext.readthedocs"] # Add External version warning banner to the external version documentation if 'branch' == 'external': extensions.insert(1, "readthedocs_ext.external_version_warning") project_language = 'en' # User's Sphinx configurations language_user = globals().get('language', None) latex_engine_user = globals().get('latex_engine', None) latex_elements_user = globals().get('latex_elements', None) # Remove this once xindy gets installed in Docker image and XINDYOPS # env variable is supported # https://github.com/rtfd/readthedocs-docker-images/pull/98 latex_use_xindy = False chinese = any([ language_user in ('zh_CN', 'zh_TW'), project_language in ('zh_CN', 'zh_TW'), ]) japanese = any([ language_user == 'ja', project_language == 'ja', ]) if chinese: latex_engine = latex_engine_user or 'xelatex' latex_elements_rtd = { 'preamble': '\\usepackage[UTF8]{ctex}\n', } latex_elements = latex_elements_user or latex_elements_rtd elif japanese: latex_engine = latex_engine_user or 'platex' # Make sure our build directory is always excluded exclude_patterns = globals().get('exclude_patterns', []) exclude_patterns.extend(['_build']) [rtd-command-info] start-time: 2022-11-11T15:02:18.612836Z, end-time: 2022-11-11T15:02:38.133658Z, duration: 19, exit-code: 0 python /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/bin/sphinx-build -T -E -b readthedocs -d _build/doctrees-readthedocs -D language=en . _build/html Running Sphinx v5.3.0 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). making output directory... done WARNING: html_static_path entry '_static' does not exist WARNING: extlinks: Sphinx-6.0 will require a caption string to contain exactly one '%s' and all other '%' need to be escaped as '%%'. WARNING: extlinks: Sphinx-6.0 will require a caption string to contain exactly one '%s' and all other '%' need to be escaped as '%%'. WARNING: extlinks: Sphinx-6.0 will require a caption string to contain exactly one '%s' and all other '%' need to be escaped as '%%'. [AutoAPI] Ignoring /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/deprecated/dssc_single_module.py [AutoAPI] Ignoring /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/deprecated/dssc_bkp.py [AutoAPI] Reading files... [ 2%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/__init__.py [AutoAPI] Reading files... [ 5%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/mnemonics_machinery.py [AutoAPI] Reading files... [ 7%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/constants.py [AutoAPI] Reading files... [ 10%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/load.py [AutoAPI] Reading files... [ 13%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/__init__.py [AutoAPI] Reading files... [ 15%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/laser_utils.py [AutoAPI] Reading files... [ 18%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern_external.py [AutoAPI] Reading files... [ 21%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern.py [AutoAPI] Reading files... [ 23%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/__init__.py [AutoAPI] Reading files... [ 26%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/pkg.py [AutoAPI] Reading files... [ 28%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/exceptions.py [AutoAPI] Reading files... [ 31%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/__init__.py [AutoAPI] Reading files... [ 34%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/knife_edge.py [AutoAPI] Reading files... [ 36%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/__init__.py [AutoAPI] Reading files... [ 39%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/test_knife_edge.py [AutoAPI] Reading files... [ 42%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_processing.py [AutoAPI] Reading files... [ 44%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/__init__.py [AutoAPI] Reading files... [ 47%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/hrixs.py [AutoAPI] Reading files... [ 50%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/azimuthal_integrator.py [AutoAPI] Reading files... [ 52%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_data.py [AutoAPI] Reading files... [ 55%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/pes.py [AutoAPI] Reading files... [ 57%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_plot.py [AutoAPI] Reading files... [ 60%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/fccd.py [AutoAPI] Reading files... [ 63%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/bam_detectors.py [AutoAPI] Reading files... [ 65%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/digitizers.py [AutoAPI] Reading files... [ 68%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_misc.py [AutoAPI] Reading files... [ 71%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc.py [AutoAPI] Reading files... [ 73%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/xgm.py [AutoAPI] Reading files... [ 76%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/__init__.py [AutoAPI] Reading files... [ 78%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_dssc_cls.py [AutoAPI] Reading files... [ 81%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_top_level.py [AutoAPI] Reading files... [ 84%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_misc.py [AutoAPI] Reading files... [ 86%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_utils.py [AutoAPI] Reading files... [ 89%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/__init__.py [AutoAPI] Reading files... [ 92%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/XAS.py [AutoAPI] Reading files... [ 94%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/Reflectivity.py [AutoAPI] Reading files... [ 97%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/knife_edge.py [AutoAPI] Reading files... [100%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/boz.py WARNING: Cannot resolve import of unknown module toolbox_scs.util.data_access in toolbox_scs.test.test_utils [AutoAPI] Mapping Data... [ 2%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/__init__.py [AutoAPI] Mapping Data... [ 5%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/mnemonics_machinery.py [AutoAPI] Mapping Data... [ 7%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/constants.py [AutoAPI] Mapping Data... [ 10%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/load.py [AutoAPI] Mapping Data... [ 13%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/__init__.py [AutoAPI] Mapping Data... [ 15%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/laser_utils.py [AutoAPI] Mapping Data... [ 18%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern_external.py [AutoAPI] Mapping Data... [ 21%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern.py [AutoAPI] Mapping Data... [ 23%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/__init__.py [AutoAPI] Mapping Data... [ 26%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/pkg.py [AutoAPI] Mapping Data... [ 28%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/exceptions.py [AutoAPI] Mapping Data... [ 31%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/__init__.py [AutoAPI] Mapping Data... [ 34%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/knife_edge.py [AutoAPI] Mapping Data... [ 36%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/__init__.py [AutoAPI] Mapping Data... [ 39%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/test_knife_edge.py [AutoAPI] Mapping Data... [ 42%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_processing.py [AutoAPI] Mapping Data... [ 44%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/__init__.py [AutoAPI] Mapping Data... [ 47%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/hrixs.py [AutoAPI] Mapping Data... [ 50%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/azimuthal_integrator.py [AutoAPI] Mapping Data... [ 52%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_data.py [AutoAPI] Mapping Data... [ 55%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/pes.py [AutoAPI] Mapping Data... [ 57%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_plot.py [AutoAPI] Mapping Data... [ 60%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/fccd.py [AutoAPI] Mapping Data... [ 63%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/bam_detectors.py [AutoAPI] Mapping Data... [ 65%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/digitizers.py [AutoAPI] Mapping Data... [ 68%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_misc.py [AutoAPI] Mapping Data... [ 71%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc.py [AutoAPI] Mapping Data... [ 73%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/xgm.py [AutoAPI] Mapping Data... [ 76%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/__init__.py [AutoAPI] Mapping Data... [ 78%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_dssc_cls.py [AutoAPI] Mapping Data... [ 81%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_top_level.py [AutoAPI] Mapping Data... [ 84%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_misc.py [AutoAPI] Mapping Data... [ 86%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_utils.py [AutoAPI] Mapping Data... [ 89%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/__init__.py [AutoAPI] Mapping Data... [ 92%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/XAS.py [AutoAPI] Mapping Data... [ 94%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/Reflectivity.py [AutoAPI] Mapping Data... [ 97%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/knife_edge.py [AutoAPI] Mapping Data... [100%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/boz.py [AutoAPI] Rendering Data... [ 2%] toolbox_scs [AutoAPI] Rendering Data... [ 5%] toolbox_scs.mnemonics_machinery [AutoAPI] Rendering Data... [ 7%] toolbox_scs.constants [AutoAPI] Rendering Data... [ 10%] toolbox_scs.load [AutoAPI] Rendering Data... [ 13%] toolbox_scs.misc [AutoAPI] Rendering Data... [ 15%] toolbox_scs.misc.laser_utils [AutoAPI] Rendering Data... [ 18%] toolbox_scs.misc.bunch_pattern_external [AutoAPI] Rendering Data... [ 21%] toolbox_scs.misc.bunch_pattern [AutoAPI] Rendering Data... [ 23%] toolbox_scs.util [AutoAPI] Rendering Data... [ 26%] toolbox_scs.util.pkg [AutoAPI] Rendering Data... [ 28%] toolbox_scs.util.exceptions [AutoAPI] Rendering Data... [ 31%] toolbox_scs.base [AutoAPI] Rendering Data... [ 34%] toolbox_scs.base.knife_edge [AutoAPI] Rendering Data... [ 36%] toolbox_scs.base.tests [AutoAPI] Rendering Data... [ 39%] toolbox_scs.base.tests.test_knife_edge [AutoAPI] Rendering Data... [ 42%] toolbox_scs.detectors.dssc_processing [AutoAPI] Rendering Data... [ 44%] toolbox_scs.detectors [AutoAPI] Rendering Data... [ 47%] toolbox_scs.detectors.hrixs [AutoAPI] Rendering Data... [ 50%] toolbox_scs.detectors.azimuthal_integrator [AutoAPI] Rendering Data... [ 52%] toolbox_scs.detectors.dssc_data [AutoAPI] Rendering Data... [ 55%] toolbox_scs.detectors.pes [AutoAPI] Rendering Data... [ 57%] toolbox_scs.detectors.dssc_plot [AutoAPI] Rendering Data... [ 60%] toolbox_scs.detectors.fccd [AutoAPI] Rendering Data... [ 63%] toolbox_scs.detectors.bam_detectors [AutoAPI] Rendering Data... [ 65%] toolbox_scs.detectors.digitizers [AutoAPI] Rendering Data... [ 68%] toolbox_scs.detectors.dssc_misc [AutoAPI] Rendering Data... [ 71%] toolbox_scs.detectors.dssc [AutoAPI] Rendering Data... [ 73%] toolbox_scs.detectors.xgm [AutoAPI] Rendering Data... [ 76%] toolbox_scs.test [AutoAPI] Rendering Data... [ 78%] toolbox_scs.test.test_dssc_cls [AutoAPI] Rendering Data... [ 81%] toolbox_scs.test.test_top_level [AutoAPI] Rendering Data... [ 84%] toolbox_scs.test.test_misc [AutoAPI] Rendering Data... [ 86%] toolbox_scs.test.test_utils [AutoAPI] Rendering Data... [ 89%] toolbox_scs.routines [AutoAPI] Rendering Data... [ 92%] toolbox_scs.routines.XAS [AutoAPI] Rendering Data... [ 94%] toolbox_scs.routines.Reflectivity [AutoAPI] Rendering Data... [ 97%] toolbox_scs.routines.knife_edge [AutoAPI] Rendering Data... [100%] toolbox_scs.routines.boz [autosummary] generating autosummary for: Azimuthal integration of DSSC with pyFAI.ipynb, BOZ analysis part I.a Correction determination.ipynb, BOZ analysis part I.b Correction validation.ipynb, BOZ analysis part II.1 Small data.ipynb, BOZ analysis part II.2 Binning.ipynb, DSSC fine delay with SCS toolbox.ipynb, Dask DSSC module binning.ipynb, How to extract peaks from digitizer traces.ipynb, Loading_data_in_memory.ipynb, PES_spectra_extraction.ipynb, Transient reflectivity measurement.ipynb, bunch_pattern_decoding.rst, changelog.rst, dssc/DSSCBinner.rst, howtos.rst, index.rst, load.rst, maintainers.rst building [mo]: targets for 0 po files that are out of date building [readthedocs]: targets for 18 source files that are out of date updating environment: [new config] 57 added, 0 changed, 0 removed reading sources... [ 1%] Azimuthal integration of DSSC with pyFAI reading sources... [ 3%] BOZ analysis part I.a Correction determination reading sources... [ 5%] BOZ analysis part I.b Correction validation reading sources... [ 7%] BOZ analysis part II.1 Small data reading sources... [ 8%] BOZ analysis part II.2 Binning reading sources... [ 10%] DSSC fine delay with SCS toolbox reading sources... [ 12%] Dask DSSC module binning reading sources... [ 14%] How to extract peaks from digitizer traces reading sources... [ 15%] Loading_data_in_memory reading sources... [ 17%] PES_spectra_extraction reading sources... [ 19%] Transient reflectivity measurement reading sources... [ 21%] autoapi/index reading sources... [ 22%] autoapi/toolbox_scs/base/index reading sources... [ 24%] autoapi/toolbox_scs/base/knife_edge/index reading sources... [ 26%] autoapi/toolbox_scs/base/tests/index reading sources... [ 28%] autoapi/toolbox_scs/base/tests/test_knife_edge/index reading sources... [ 29%] autoapi/toolbox_scs/constants/index reading sources... [ 31%] autoapi/toolbox_scs/detectors/azimuthal_integrator/index reading sources... [ 33%] autoapi/toolbox_scs/detectors/bam_detectors/index reading sources... [ 35%] autoapi/toolbox_scs/detectors/digitizers/index reading sources... [ 36%] autoapi/toolbox_scs/detectors/dssc/index reading sources... [ 38%] autoapi/toolbox_scs/detectors/dssc_data/index reading sources... [ 40%] autoapi/toolbox_scs/detectors/dssc_misc/index reading sources... [ 42%] autoapi/toolbox_scs/detectors/dssc_plot/index reading sources... [ 43%] autoapi/toolbox_scs/detectors/dssc_processing/index reading sources... [ 45%] autoapi/toolbox_scs/detectors/fccd/index reading sources... [ 47%] autoapi/toolbox_scs/detectors/hrixs/index reading sources... [ 49%] autoapi/toolbox_scs/detectors/index reading sources... [ 50%] autoapi/toolbox_scs/detectors/pes/index reading sources... [ 52%] autoapi/toolbox_scs/detectors/xgm/index reading sources... [ 54%] autoapi/toolbox_scs/index reading sources... [ 56%] autoapi/toolbox_scs/load/index reading sources... [ 57%] autoapi/toolbox_scs/misc/bunch_pattern/index reading sources... [ 59%] autoapi/toolbox_scs/misc/bunch_pattern_external/index reading sources... [ 61%] autoapi/toolbox_scs/misc/index reading sources... [ 63%] autoapi/toolbox_scs/misc/laser_utils/index reading sources... [ 64%] autoapi/toolbox_scs/mnemonics_machinery/index reading sources... [ 66%] autoapi/toolbox_scs/routines/Reflectivity/index reading sources... [ 68%] autoapi/toolbox_scs/routines/XAS/index reading sources... [ 70%] autoapi/toolbox_scs/routines/boz/index reading sources... [ 71%] autoapi/toolbox_scs/routines/index reading sources... [ 73%] autoapi/toolbox_scs/routines/knife_edge/index reading sources... [ 75%] autoapi/toolbox_scs/test/index reading sources... [ 77%] autoapi/toolbox_scs/test/test_dssc_cls/index reading sources... [ 78%] autoapi/toolbox_scs/test/test_misc/index reading sources... [ 80%] autoapi/toolbox_scs/test/test_top_level/index reading sources... [ 82%] autoapi/toolbox_scs/test/test_utils/index reading sources... [ 84%] autoapi/toolbox_scs/util/exceptions/index reading sources... [ 85%] autoapi/toolbox_scs/util/index reading sources... [ 87%] autoapi/toolbox_scs/util/pkg/index reading sources... [ 89%] bunch_pattern_decoding reading sources... [ 91%] changelog reading sources... [ 92%] dssc/DSSCBinner reading sources... [ 94%] howtos reading sources... [ 96%] index [AutoAPI] Adding AutoAPI TOCTree [autoapi/index] to index.rst reading sources... [ 98%] load reading sources... [100%] maintainers /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/base/knife_edge/index.rst:4: WARNING: duplicate object description of toolbox_scs.base.knife_edge, other instance in autoapi/toolbox_scs/base/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/dssc_misc/index.rst:71: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/dssc_misc/index.rst:30: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/fccd/index.rst:6: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/hrixs/index.rst:30: WARNING: duplicate object description of toolbox_scs.detectors.hrixs.find_curvature, other instance in autoapi/toolbox_scs/detectors/hrixs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/index.rst:640: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/index.rst:30: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:712: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:30: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:995: WARNING: could not parse arglist ("run=None, mnemonic=None, stepsize=None, subset=ed.by_index[:], subFolder='raw', proposalNB=None, runNB=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1035: WARNING: could not parse arglist ("proposalNB=None, runNB=None, fields=None, subFolder='raw', display=False, validate=False, subset=ed.by_index[:], rois={}, extract_adq412=True, extract_fadc=True, extract_fadc2=True, extract_xgm=True, extract_bam=True, adq412_bp='sase3', fadc_bp='scs_ppl', fadc2_bp='sase3', extract_tim=None, extract_laser=None, tim_bp=None, laser_bp=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1047: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1063: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:28: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1114: WARNING: could not parse arglist ('proposalNB, runNB, subset=ed.by_index[:], **kwargs'): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1176: WARNING: duplicate object description of toolbox_scs.__all__, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1188: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:8: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1223: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1227: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1283: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1294: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1307: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1399: WARNING: duplicate object description of toolbox_scs.__all__, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1411: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:7: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1418: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1434: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1572: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1642: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:8: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1673: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1798: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1845: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1902: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1905: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:12: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1908: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1927: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:2048: WARNING: duplicate object description of toolbox_scs.__all__, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:4: WARNING: duplicate object description of toolbox_scs.load, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:36: WARNING: could not parse arglist ("proposalNB=None, runNB=None, fields=None, subFolder='raw', display=False, validate=False, subset=ed.by_index[:], rois={}, extract_adq412=True, extract_fadc=True, extract_fadc2=True, extract_xgm=True, extract_bam=True, adq412_bp='sase3', fadc_bp='scs_ppl', fadc2_bp='sase3', extract_tim=None, extract_laser=None, tim_bp=None, laser_bp=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:48: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:64: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:28: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:147: WARNING: could not parse arglist ('proposalNB, runNB, subset=ed.by_index[:], **kwargs'): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:172: WARNING: could not parse arglist ("run=None, mnemonic=None, stepsize=None, subset=ed.by_index[:], subFolder='raw', proposalNB=None, runNB=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:38: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:8: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:73: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:77: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:57: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:8: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:92: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:96: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:152: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:163: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:176: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/laser_utils/index.rst:28: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/laser_utils/index.rst:41: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/laser_utils/index.rst:55: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:40: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:7: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:47: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:63: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:192: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:262: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:8: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:293: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:418: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:465: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:522: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:525: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:12: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:528: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:547: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:86: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:7: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:93: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:109: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:247: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:317: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:8: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:348: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:473: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:520: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:577: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:580: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:12: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:583: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:602: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/knife_edge/index.rst:4: WARNING: duplicate object description of toolbox_scs.routines.knife_edge, other instance in autoapi/toolbox_scs/routines/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_dssc_cls/index.rst:90: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_dssc_cls/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_misc/index.rst:82: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_misc/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_top_level/index.rst:76: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_top_level/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_utils/index.rst:73: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_utils/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/index.rst:130: CRITICAL: Title level inconsistent: Contribute ~~~~~~~~~~ WARNING: nbsphinx_widgets_path not given and ipywidgets module unavailable looking for now-outdated files... none found pickling environment... done checking consistency... /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Transient reflectivity measurement.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/index.rst: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/bunch_pattern_decoding.rst: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/load.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 1%] Azimuthal integration of DSSC with pyFAI writing output... [ 3%] BOZ analysis part I.a Correction determination writing output... [ 5%] BOZ analysis part I.b Correction validation writing output... [ 7%] BOZ analysis part II.1 Small data writing output... [ 8%] BOZ analysis part II.2 Binning writing output... [ 10%] DSSC fine delay with SCS toolbox writing output... [ 12%] Dask DSSC module binning writing output... [ 14%] How to extract peaks from digitizer traces writing output... [ 15%] Loading_data_in_memory writing output... [ 17%] PES_spectra_extraction writing output... [ 19%] Transient reflectivity measurement writing output... [ 21%] autoapi/index writing output... [ 22%] autoapi/toolbox_scs/base/index writing output... [ 24%] autoapi/toolbox_scs/base/knife_edge/index writing output... [ 26%] autoapi/toolbox_scs/base/tests/index writing output... [ 28%] autoapi/toolbox_scs/base/tests/test_knife_edge/index writing output... [ 29%] autoapi/toolbox_scs/constants/index writing output... [ 31%] autoapi/toolbox_scs/detectors/azimuthal_integrator/index writing output... [ 33%] autoapi/toolbox_scs/detectors/bam_detectors/index writing output... [ 35%] autoapi/toolbox_scs/detectors/digitizers/index writing output... [ 36%] autoapi/toolbox_scs/detectors/dssc/index writing output... [ 38%] autoapi/toolbox_scs/detectors/dssc_data/index writing output... [ 40%] autoapi/toolbox_scs/detectors/dssc_misc/index writing output... [ 42%] autoapi/toolbox_scs/detectors/dssc_plot/index writing output... [ 43%] autoapi/toolbox_scs/detectors/dssc_processing/index writing output... [ 45%] autoapi/toolbox_scs/detectors/fccd/index writing output... [ 47%] autoapi/toolbox_scs/detectors/hrixs/index writing output... [ 49%] autoapi/toolbox_scs/detectors/index writing output... [ 50%] autoapi/toolbox_scs/detectors/pes/index writing output... [ 52%] autoapi/toolbox_scs/detectors/xgm/index writing output... [ 54%] autoapi/toolbox_scs/index writing output... [ 56%] autoapi/toolbox_scs/load/index writing output... [ 57%] autoapi/toolbox_scs/misc/bunch_pattern/index writing output... [ 59%] autoapi/toolbox_scs/misc/bunch_pattern_external/index writing output... [ 61%] autoapi/toolbox_scs/misc/index writing output... [ 63%] autoapi/toolbox_scs/misc/laser_utils/index writing output... [ 64%] autoapi/toolbox_scs/mnemonics_machinery/index writing output... [ 66%] autoapi/toolbox_scs/routines/Reflectivity/index writing output... [ 68%] autoapi/toolbox_scs/routines/XAS/index writing output... [ 70%] autoapi/toolbox_scs/routines/boz/index writing output... [ 71%] autoapi/toolbox_scs/routines/index writing output... [ 73%] autoapi/toolbox_scs/routines/knife_edge/index writing output... [ 75%] autoapi/toolbox_scs/test/index writing output... [ 77%] autoapi/toolbox_scs/test/test_dssc_cls/index writing output... [ 78%] autoapi/toolbox_scs/test/test_misc/index writing output... [ 80%] autoapi/toolbox_scs/test/test_top_level/index writing output... [ 82%] autoapi/toolbox_scs/test/test_utils/index writing output... [ 84%] autoapi/toolbox_scs/util/exceptions/index writing output... [ 85%] autoapi/toolbox_scs/util/index writing output... [ 87%] autoapi/toolbox_scs/util/pkg/index writing output... [ 89%] bunch_pattern_decoding writing output... [ 91%] changelog writing output... [ 92%] dssc/DSSCBinner writing output... [ 94%] howtos writing output... [ 96%] index writing output... [ 98%] load writing output... [100%] maintainers /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Transient reflectivity measurement.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Transient reflectivity measurement.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Transient reflectivity measurement.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Transient reflectivity measurement.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Transient reflectivity measurement.ipynb:: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/bunch_pattern_decoding.rst:4: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/bunch_pattern_decoding.rst:22: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:15: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:32: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:38: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:44: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:49: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:60: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:68: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:74: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:85: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:92: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:105: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:111: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:117: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:121: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:135: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:141: WARNING: Pygments lexer name 'ipython3' is not known /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst:152: WARNING: Pygments lexer name 'ipython3' is not known generating indices... genindex py-modindex done copying notebooks ... [ 9%] Azimuthal integration of DSSC with pyFAI.ipynb copying notebooks ... [ 18%] BOZ analysis part I.a Correction determination.ipynb copying notebooks ... [ 27%] BOZ analysis part I.b Correction validation.ipynb copying notebooks ... [ 36%] BOZ analysis part II.1 Small data.ipynb copying notebooks ... [ 45%] BOZ analysis part II.2 Binning.ipynb copying notebooks ... [ 54%] DSSC fine delay with SCS toolbox.ipynb copying notebooks ... [ 63%] Dask DSSC module binning.ipynb copying notebooks ... [ 72%] How to extract peaks from digitizer traces.ipynb copying notebooks ... [ 81%] Loading_data_in_memory.ipynb copying notebooks ... [ 90%] PES_spectra_extraction.ipynb copying notebooks ... [100%] Transient reflectivity measurement.ipynb highlighting module code... [ 2%] toolbox_scs.base highlighting module code... [ 5%] toolbox_scs.base.knife_edge highlighting module code... [ 8%] toolbox_scs.base.tests.test_knife_edge highlighting module code... [ 11%] toolbox_scs.constants highlighting module code... [ 14%] toolbox_scs.detectors highlighting module code... [ 17%] toolbox_scs.detectors.azimuthal_integrator highlighting module code... [ 20%] toolbox_scs.detectors.bam_detectors highlighting module code... [ 23%] toolbox_scs.detectors.digitizers highlighting module code... [ 26%] toolbox_scs.detectors.dssc highlighting module code... [ 29%] toolbox_scs.detectors.dssc_data highlighting module code... [ 32%] toolbox_scs.detectors.dssc_misc highlighting module code... [ 35%] toolbox_scs.detectors.dssc_plot highlighting module code... [ 38%] toolbox_scs.detectors.dssc_processing highlighting module code... [ 41%] toolbox_scs.detectors.fccd highlighting module code... [ 44%] toolbox_scs.detectors.hrixs highlighting module code... [ 47%] toolbox_scs.detectors.pes highlighting module code... [ 50%] toolbox_scs.detectors.xgm highlighting module code... [ 52%] toolbox_scs.load highlighting module code... [ 55%] toolbox_scs.misc highlighting module code... [ 58%] toolbox_scs.misc.bunch_pattern highlighting module code... [ 61%] toolbox_scs.misc.bunch_pattern_external highlighting module code... [ 64%] toolbox_scs.misc.laser_utils highlighting module code... [ 67%] toolbox_scs.mnemonics_machinery highlighting module code... [ 70%] toolbox_scs.routines highlighting module code... [ 73%] toolbox_scs.routines.Reflectivity highlighting module code... [ 76%] toolbox_scs.routines.XAS highlighting module code... [ 79%] toolbox_scs.routines.boz highlighting module code... [ 82%] toolbox_scs.routines.knife_edge highlighting module code... [ 85%] toolbox_scs.test.test_dssc_cls highlighting module code... [ 88%] toolbox_scs.test.test_misc highlighting module code... [ 91%] toolbox_scs.test.test_top_level highlighting module code... [ 94%] toolbox_scs.test.test_utils highlighting module code... [ 97%] toolbox_scs.util.exceptions highlighting module code... [100%] toolbox_scs.util.pkg writing additional pages... search done copying images... [ 2%] _build/doctrees-readthedocs/nbsphinx/Azimuthal_integration_of_DSSC_with_pyFAI_9_1.png copying images... [ 5%] _build/doctrees-readthedocs/nbsphinx/Azimuthal_integration_of_DSSC_with_pyFAI_11_0.png copying images... [ 8%] _build/doctrees-readthedocs/nbsphinx/Azimuthal_integration_of_DSSC_with_pyFAI_13_1.png copying images... [ 10%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_14_0.png copying images... [ 13%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_20_0.png copying images... [ 16%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_23_0.png copying images... [ 18%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_27_0.png copying images... [ 21%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_36_0.png copying images... [ 24%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_45_1.png copying images... [ 27%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_48_0.png copying images... [ 29%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.a_Correction_determination_51_0.png copying images... [ 32%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.b_Correction_validation_9_0.png copying images... [ 35%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.b_Correction_validation_14_0.png copying images... [ 37%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.b_Correction_validation_17_0.png copying images... [ 40%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.b_Correction_validation_23_0.png copying images... [ 43%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.b_Correction_validation_28_0.png copying images... [ 45%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.b_Correction_validation_31_0.png copying images... [ 48%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_I.b_Correction_validation_35_1.png copying images... [ 51%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_II.1_Small_data_9_0.png copying images... [ 54%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_II.1_Small_data_13_0.png copying images... [ 56%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_II.1_Small_data_20_0.png copying images... [ 59%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_II.1_Small_data_25_0.png copying images... [ 62%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_II.1_Small_data_29_1.png copying images... [ 64%] _build/doctrees-readthedocs/nbsphinx/BOZ_analysis_part_II.2_Binning_11_0.png copying images... [ 67%] _build/doctrees-readthedocs/nbsphinx/DSSC_fine_delay_with_SCS_toolbox_15_1.png copying images... [ 70%] _build/doctrees-readthedocs/nbsphinx/DSSC_fine_delay_with_SCS_toolbox_22_1.png copying images... [ 72%] _build/doctrees-readthedocs/nbsphinx/Loading_data_in_memory_20_1.png copying images... [ 75%] _build/doctrees-readthedocs/nbsphinx/PES_spectra_extraction_5_1.png copying images... [ 78%] _build/doctrees-readthedocs/nbsphinx/PES_spectra_extraction_12_1.png copying images... [ 81%] _build/doctrees-readthedocs/nbsphinx/PES_spectra_extraction_15_1.png copying images... [ 83%] _build/doctrees-readthedocs/nbsphinx/PES_spectra_extraction_15_2.png copying images... [ 86%] _build/doctrees-readthedocs/nbsphinx/PES_spectra_extraction_18_0.png copying images... [ 89%] _build/doctrees-readthedocs/nbsphinx/PES_spectra_extraction_18_1.png copying images... [ 91%] _build/doctrees-readthedocs/nbsphinx/Transient_reflectivity_measurement_2_1.png copying images... [ 94%] _build/doctrees-readthedocs/nbsphinx/Transient_reflectivity_measurement_5_1.png copying images... [ 97%] _build/doctrees-readthedocs/nbsphinx/Transient_reflectivity_measurement_12_0.png copying images... [100%] metadata.png copying downloadable files... [ 50%] scripts/bin_dssc_module_job.sh copying downloadable files... [100%] scripts/boz_parameters_job.sh copying static files... done copying readthedocs static files... done copying searchtools... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 343 warnings. The HTML pages are in _build/html. [rtd-command-info] start-time: 2022-11-11T15:02:38.321429Z, end-time: 2022-11-11T15:02:54.868993Z, duration: 16, exit-code: 0 python /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/envs/latest/bin/sphinx-build -b latex -D language=en -d _build/doctrees . _build/latex Running Sphinx v5.3.0 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). making output directory... done WARNING: html_static_path entry '_static' does not exist WARNING: extlinks: Sphinx-6.0 will require a caption string to contain exactly one '%s' and all other '%' need to be escaped as '%%'. WARNING: extlinks: Sphinx-6.0 will require a caption string to contain exactly one '%s' and all other '%' need to be escaped as '%%'. WARNING: extlinks: Sphinx-6.0 will require a caption string to contain exactly one '%s' and all other '%' need to be escaped as '%%'. [AutoAPI] Ignoring /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/deprecated/dssc_single_module.py [AutoAPI] Ignoring /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/deprecated/dssc_bkp.py [AutoAPI] Reading files... [ 2%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/__init__.py [AutoAPI] Reading files... [ 5%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/mnemonics_machinery.py [AutoAPI] Reading files... [ 7%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/constants.py [AutoAPI] Reading files... [ 10%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/load.py [AutoAPI] Reading files... [ 13%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/__init__.py [AutoAPI] Reading files... [ 15%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/laser_utils.py [AutoAPI] Reading files... [ 18%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern_external.py [AutoAPI] Reading files... [ 21%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern.py [AutoAPI] Reading files... [ 23%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/__init__.py [AutoAPI] Reading files... [ 26%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/pkg.py [AutoAPI] Reading files... [ 28%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/exceptions.py [AutoAPI] Reading files... [ 31%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/__init__.py [AutoAPI] Reading files... [ 34%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/knife_edge.py [AutoAPI] Reading files... [ 36%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/__init__.py [AutoAPI] Reading files... [ 39%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/test_knife_edge.py [AutoAPI] Reading files... [ 42%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_processing.py [AutoAPI] Reading files... [ 44%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/__init__.py [AutoAPI] Reading files... [ 47%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/hrixs.py [AutoAPI] Reading files... [ 50%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/azimuthal_integrator.py [AutoAPI] Reading files... [ 52%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_data.py [AutoAPI] Reading files... [ 55%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/pes.py [AutoAPI] Reading files... [ 57%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_plot.py [AutoAPI] Reading files... [ 60%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/fccd.py [AutoAPI] Reading files... [ 63%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/bam_detectors.py [AutoAPI] Reading files... [ 65%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/digitizers.py [AutoAPI] Reading files... [ 68%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_misc.py [AutoAPI] Reading files... [ 71%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc.py [AutoAPI] Reading files... [ 73%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/xgm.py [AutoAPI] Reading files... [ 76%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/__init__.py [AutoAPI] Reading files... [ 78%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_dssc_cls.py [AutoAPI] Reading files... [ 81%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_top_level.py [AutoAPI] Reading files... [ 84%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_misc.py [AutoAPI] Reading files... [ 86%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_utils.py [AutoAPI] Reading files... [ 89%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/__init__.py [AutoAPI] Reading files... [ 92%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/XAS.py [AutoAPI] Reading files... [ 94%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/Reflectivity.py [AutoAPI] Reading files... [ 97%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/knife_edge.py [AutoAPI] Reading files... [100%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/boz.py WARNING: Cannot resolve import of unknown module toolbox_scs.util.data_access in toolbox_scs.test.test_utils [AutoAPI] Mapping Data... [ 2%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/__init__.py [AutoAPI] Mapping Data... [ 5%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/mnemonics_machinery.py [AutoAPI] Mapping Data... [ 7%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/constants.py [AutoAPI] Mapping Data... [ 10%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/load.py [AutoAPI] Mapping Data... [ 13%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/__init__.py [AutoAPI] Mapping Data... [ 15%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/laser_utils.py [AutoAPI] Mapping Data... [ 18%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern_external.py [AutoAPI] Mapping Data... [ 21%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/misc/bunch_pattern.py [AutoAPI] Mapping Data... [ 23%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/__init__.py [AutoAPI] Mapping Data... [ 26%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/pkg.py [AutoAPI] Mapping Data... [ 28%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/util/exceptions.py [AutoAPI] Mapping Data... [ 31%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/__init__.py [AutoAPI] Mapping Data... [ 34%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/knife_edge.py [AutoAPI] Mapping Data... [ 36%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/__init__.py [AutoAPI] Mapping Data... [ 39%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/base/tests/test_knife_edge.py [AutoAPI] Mapping Data... [ 42%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_processing.py [AutoAPI] Mapping Data... [ 44%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/__init__.py [AutoAPI] Mapping Data... [ 47%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/hrixs.py [AutoAPI] Mapping Data... [ 50%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/azimuthal_integrator.py [AutoAPI] Mapping Data... [ 52%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_data.py [AutoAPI] Mapping Data... [ 55%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/pes.py [AutoAPI] Mapping Data... [ 57%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_plot.py [AutoAPI] Mapping Data... [ 60%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/fccd.py [AutoAPI] Mapping Data... [ 63%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/bam_detectors.py [AutoAPI] Mapping Data... [ 65%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/digitizers.py [AutoAPI] Mapping Data... [ 68%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc_misc.py [AutoAPI] Mapping Data... [ 71%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/dssc.py [AutoAPI] Mapping Data... [ 73%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/detectors/xgm.py [AutoAPI] Mapping Data... [ 76%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/__init__.py [AutoAPI] Mapping Data... [ 78%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_dssc_cls.py [AutoAPI] Mapping Data... [ 81%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_top_level.py [AutoAPI] Mapping Data... [ 84%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_misc.py [AutoAPI] Mapping Data... [ 86%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/test/test_utils.py [AutoAPI] Mapping Data... [ 89%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/__init__.py [AutoAPI] Mapping Data... [ 92%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/XAS.py [AutoAPI] Mapping Data... [ 94%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/Reflectivity.py [AutoAPI] Mapping Data... [ 97%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/knife_edge.py [AutoAPI] Mapping Data... [100%] /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/src/toolbox_scs/routines/boz.py [AutoAPI] Rendering Data... [ 2%] toolbox_scs [AutoAPI] Rendering Data... [ 5%] toolbox_scs.mnemonics_machinery [AutoAPI] Rendering Data... [ 7%] toolbox_scs.constants [AutoAPI] Rendering Data... [ 10%] toolbox_scs.load [AutoAPI] Rendering Data... [ 13%] toolbox_scs.misc [AutoAPI] Rendering Data... [ 15%] toolbox_scs.misc.laser_utils [AutoAPI] Rendering Data... [ 18%] toolbox_scs.misc.bunch_pattern_external [AutoAPI] Rendering Data... [ 21%] toolbox_scs.misc.bunch_pattern [AutoAPI] Rendering Data... [ 23%] toolbox_scs.util [AutoAPI] Rendering Data... [ 26%] toolbox_scs.util.pkg [AutoAPI] Rendering Data... [ 28%] toolbox_scs.util.exceptions [AutoAPI] Rendering Data... [ 31%] toolbox_scs.base [AutoAPI] Rendering Data... [ 34%] toolbox_scs.base.knife_edge [AutoAPI] Rendering Data... [ 36%] toolbox_scs.base.tests [AutoAPI] Rendering Data... [ 39%] toolbox_scs.base.tests.test_knife_edge [AutoAPI] Rendering Data... [ 42%] toolbox_scs.detectors.dssc_processing [AutoAPI] Rendering Data... [ 44%] toolbox_scs.detectors [AutoAPI] Rendering Data... [ 47%] toolbox_scs.detectors.hrixs [AutoAPI] Rendering Data... [ 50%] toolbox_scs.detectors.azimuthal_integrator [AutoAPI] Rendering Data... [ 52%] toolbox_scs.detectors.dssc_data [AutoAPI] Rendering Data... [ 55%] toolbox_scs.detectors.pes [AutoAPI] Rendering Data... [ 57%] toolbox_scs.detectors.dssc_plot [AutoAPI] Rendering Data... [ 60%] toolbox_scs.detectors.fccd [AutoAPI] Rendering Data... [ 63%] toolbox_scs.detectors.bam_detectors [AutoAPI] Rendering Data... [ 65%] toolbox_scs.detectors.digitizers [AutoAPI] Rendering Data... [ 68%] toolbox_scs.detectors.dssc_misc [AutoAPI] Rendering Data... [ 71%] toolbox_scs.detectors.dssc [AutoAPI] Rendering Data... [ 73%] toolbox_scs.detectors.xgm [AutoAPI] Rendering Data... [ 76%] toolbox_scs.test [AutoAPI] Rendering Data... [ 78%] toolbox_scs.test.test_dssc_cls [AutoAPI] Rendering Data... [ 81%] toolbox_scs.test.test_top_level [AutoAPI] Rendering Data... [ 84%] toolbox_scs.test.test_misc [AutoAPI] Rendering Data... [ 86%] toolbox_scs.test.test_utils [AutoAPI] Rendering Data... [ 89%] toolbox_scs.routines [AutoAPI] Rendering Data... [ 92%] toolbox_scs.routines.XAS [AutoAPI] Rendering Data... [ 94%] toolbox_scs.routines.Reflectivity [AutoAPI] Rendering Data... [ 97%] toolbox_scs.routines.knife_edge [AutoAPI] Rendering Data... [100%] toolbox_scs.routines.boz [autosummary] generating autosummary for: Azimuthal integration of DSSC with pyFAI.ipynb, BOZ analysis part I.a Correction determination.ipynb, BOZ analysis part I.b Correction validation.ipynb, BOZ analysis part II.1 Small data.ipynb, BOZ analysis part II.2 Binning.ipynb, DSSC fine delay with SCS toolbox.ipynb, Dask DSSC module binning.ipynb, How to extract peaks from digitizer traces.ipynb, Loading_data_in_memory.ipynb, PES_spectra_extraction.ipynb, Transient reflectivity measurement.ipynb, bunch_pattern_decoding.rst, changelog.rst, dssc/DSSCBinner.rst, howtos.rst, index.rst, load.rst, maintainers.rst building [mo]: targets for 0 po files that are out of date building [latex]: all documents updating environment: [new config] 57 added, 0 changed, 0 removed reading sources... [ 1%] Azimuthal integration of DSSC with pyFAI reading sources... [ 3%] BOZ analysis part I.a Correction determination reading sources... [ 5%] BOZ analysis part I.b Correction validation reading sources... [ 7%] BOZ analysis part II.1 Small data reading sources... [ 8%] BOZ analysis part II.2 Binning reading sources... [ 10%] DSSC fine delay with SCS toolbox reading sources... [ 12%] Dask DSSC module binning reading sources... [ 14%] How to extract peaks from digitizer traces reading sources... [ 15%] Loading_data_in_memory reading sources... [ 17%] PES_spectra_extraction reading sources... [ 19%] Transient reflectivity measurement reading sources... [ 21%] autoapi/index reading sources... [ 22%] autoapi/toolbox_scs/base/index reading sources... [ 24%] autoapi/toolbox_scs/base/knife_edge/index reading sources... [ 26%] autoapi/toolbox_scs/base/tests/index reading sources... [ 28%] autoapi/toolbox_scs/base/tests/test_knife_edge/index reading sources... [ 29%] autoapi/toolbox_scs/constants/index reading sources... [ 31%] autoapi/toolbox_scs/detectors/azimuthal_integrator/index reading sources... [ 33%] autoapi/toolbox_scs/detectors/bam_detectors/index reading sources... [ 35%] autoapi/toolbox_scs/detectors/digitizers/index reading sources... [ 36%] autoapi/toolbox_scs/detectors/dssc/index reading sources... [ 38%] autoapi/toolbox_scs/detectors/dssc_data/index reading sources... [ 40%] autoapi/toolbox_scs/detectors/dssc_misc/index reading sources... [ 42%] autoapi/toolbox_scs/detectors/dssc_plot/index reading sources... [ 43%] autoapi/toolbox_scs/detectors/dssc_processing/index reading sources... [ 45%] autoapi/toolbox_scs/detectors/fccd/index reading sources... [ 47%] autoapi/toolbox_scs/detectors/hrixs/index reading sources... [ 49%] autoapi/toolbox_scs/detectors/index reading sources... [ 50%] autoapi/toolbox_scs/detectors/pes/index reading sources... [ 52%] autoapi/toolbox_scs/detectors/xgm/index reading sources... [ 54%] autoapi/toolbox_scs/index reading sources... [ 56%] autoapi/toolbox_scs/load/index reading sources... [ 57%] autoapi/toolbox_scs/misc/bunch_pattern/index reading sources... [ 59%] autoapi/toolbox_scs/misc/bunch_pattern_external/index reading sources... [ 61%] autoapi/toolbox_scs/misc/index reading sources... [ 63%] autoapi/toolbox_scs/misc/laser_utils/index reading sources... [ 64%] autoapi/toolbox_scs/mnemonics_machinery/index reading sources... [ 66%] autoapi/toolbox_scs/routines/Reflectivity/index reading sources... [ 68%] autoapi/toolbox_scs/routines/XAS/index reading sources... [ 70%] autoapi/toolbox_scs/routines/boz/index reading sources... [ 71%] autoapi/toolbox_scs/routines/index reading sources... [ 73%] autoapi/toolbox_scs/routines/knife_edge/index reading sources... [ 75%] autoapi/toolbox_scs/test/index reading sources... [ 77%] autoapi/toolbox_scs/test/test_dssc_cls/index reading sources... [ 78%] autoapi/toolbox_scs/test/test_misc/index reading sources... [ 80%] autoapi/toolbox_scs/test/test_top_level/index reading sources... [ 82%] autoapi/toolbox_scs/test/test_utils/index reading sources... [ 84%] autoapi/toolbox_scs/util/exceptions/index reading sources... [ 85%] autoapi/toolbox_scs/util/index reading sources... [ 87%] autoapi/toolbox_scs/util/pkg/index reading sources... [ 89%] bunch_pattern_decoding reading sources... [ 91%] changelog reading sources... [ 92%] dssc/DSSCBinner reading sources... [ 94%] howtos reading sources... [ 96%] index [AutoAPI] Adding AutoAPI TOCTree [autoapi/index] to index.rst reading sources... [ 98%] load reading sources... [100%] maintainers /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/base/knife_edge/index.rst:4: WARNING: duplicate object description of toolbox_scs.base.knife_edge, other instance in autoapi/toolbox_scs/base/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/dssc_misc/index.rst:71: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/dssc_misc/index.rst:30: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/fccd/index.rst:6: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/hrixs/index.rst:30: WARNING: duplicate object description of toolbox_scs.detectors.hrixs.find_curvature, other instance in autoapi/toolbox_scs/detectors/hrixs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/index.rst:640: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/detectors/index.rst:30: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:712: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:30: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:995: WARNING: could not parse arglist ("run=None, mnemonic=None, stepsize=None, subset=ed.by_index[:], subFolder='raw', proposalNB=None, runNB=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1035: WARNING: could not parse arglist ("proposalNB=None, runNB=None, fields=None, subFolder='raw', display=False, validate=False, subset=ed.by_index[:], rois={}, extract_adq412=True, extract_fadc=True, extract_fadc2=True, extract_xgm=True, extract_bam=True, adq412_bp='sase3', fadc_bp='scs_ppl', fadc2_bp='sase3', extract_tim=None, extract_laser=None, tim_bp=None, laser_bp=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1047: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1063: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:28: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1114: WARNING: could not parse arglist ('proposalNB, runNB, subset=ed.by_index[:], **kwargs'): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1176: WARNING: duplicate object description of toolbox_scs.__all__, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1188: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:8: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1223: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1227: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1283: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1294: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1307: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1399: WARNING: duplicate object description of toolbox_scs.__all__, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1411: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:7: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1418: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1434: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1572: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1642: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:8: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1673: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1798: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1845: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1902: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1905: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:12: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1908: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1927: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:2048: WARNING: duplicate object description of toolbox_scs.__all__, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:4: WARNING: duplicate object description of toolbox_scs.load, other instance in autoapi/toolbox_scs/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:36: WARNING: could not parse arglist ("proposalNB=None, runNB=None, fields=None, subFolder='raw', display=False, validate=False, subset=ed.by_index[:], rois={}, extract_adq412=True, extract_fadc=True, extract_fadc2=True, extract_xgm=True, extract_bam=True, adq412_bp='sase3', fadc_bp='scs_ppl', fadc2_bp='sase3', extract_tim=None, extract_laser=None, tim_bp=None, laser_bp=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:48: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:64: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:28: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:147: WARNING: could not parse arglist ('proposalNB, runNB, subset=ed.by_index[:], **kwargs'): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:172: WARNING: could not parse arglist ("run=None, mnemonic=None, stepsize=None, subset=ed.by_index[:], subFolder='raw', proposalNB=None, runNB=None"): Unable to parse Slice object /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:38: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:8: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:73: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:77: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:57: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:8: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:92: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:96: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:152: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:163: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:176: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/laser_utils/index.rst:28: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/laser_utils/index.rst:41: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/laser_utils/index.rst:55: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:40: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:7: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:47: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/XAS/index.rst:63: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:192: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:262: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:8: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:293: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:418: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:465: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:522: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:525: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:12: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:528: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/boz/index.rst:547: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:86: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:7: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:93: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:109: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:247: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:317: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:8: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:348: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:7: WARNING: Definition list ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:473: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:520: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:10: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:577: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:9: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:580: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:12: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:583: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/index.rst:602: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/routines/knife_edge/index.rst:4: WARNING: duplicate object description of toolbox_scs.routines.knife_edge, other instance in autoapi/toolbox_scs/routines/index, use :noindex: for one of them /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_dssc_cls/index.rst:90: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_dssc_cls/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_misc/index.rst:82: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_misc/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_top_level/index.rst:76: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_top_level/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_utils/index.rst:73: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_utils/index.rst:27: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/index.rst:130: CRITICAL: Title level inconsistent: Contribute ~~~~~~~~~~ WARNING: nbsphinx_widgets_path not given and ipywidgets module unavailable looking for now-outdated files... none found pickling environment... done checking consistency... /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Azimuthal integration of DSSC with pyFAI.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.a Correction determination.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part I.b Correction validation.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.1 Small data.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/BOZ analysis part II.2 Binning.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/DSSC fine delay with SCS toolbox.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Dask DSSC module binning.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/How to extract peaks from digitizer traces.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Loading_data_in_memory.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/PES_spectra_extraction.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/Transient reflectivity measurement.ipynb: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/index.rst: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/bunch_pattern_decoding.rst: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/dssc/DSSCBinner.rst: WARNING: document isn't included in any toctree /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/load.rst: WARNING: document isn't included in any toctree done processing SCSToolbox.tex... index howtos maintainers changelog autoapi/index autoapi/toolbox_scs/index autoapi/toolbox_scs/base/index autoapi/toolbox_scs/base/tests/index autoapi/toolbox_scs/base/tests/test_knife_edge/index autoapi/toolbox_scs/base/knife_edge/index autoapi/toolbox_scs/detectors/index autoapi/toolbox_scs/detectors/azimuthal_integrator/index autoapi/toolbox_scs/detectors/bam_detectors/index autoapi/toolbox_scs/detectors/digitizers/index autoapi/toolbox_scs/detectors/dssc/index autoapi/toolbox_scs/detectors/dssc_data/index autoapi/toolbox_scs/detectors/dssc_misc/index autoapi/toolbox_scs/detectors/dssc_plot/index autoapi/toolbox_scs/detectors/dssc_processing/index autoapi/toolbox_scs/detectors/fccd/index autoapi/toolbox_scs/detectors/hrixs/index autoapi/toolbox_scs/detectors/pes/index autoapi/toolbox_scs/detectors/xgm/index autoapi/toolbox_scs/misc/index autoapi/toolbox_scs/misc/bunch_pattern/index autoapi/toolbox_scs/misc/bunch_pattern_external/index autoapi/toolbox_scs/misc/laser_utils/index autoapi/toolbox_scs/routines/index autoapi/toolbox_scs/routines/Reflectivity/index autoapi/toolbox_scs/routines/XAS/index autoapi/toolbox_scs/routines/boz/index autoapi/toolbox_scs/routines/knife_edge/index autoapi/toolbox_scs/test/index autoapi/toolbox_scs/test/test_dssc_cls/index autoapi/toolbox_scs/test/test_misc/index autoapi/toolbox_scs/test/test_top_level/index autoapi/toolbox_scs/test/test_utils/index autoapi/toolbox_scs/util/index autoapi/toolbox_scs/util/exceptions/index autoapi/toolbox_scs/util/pkg/index autoapi/toolbox_scs/constants/index autoapi/toolbox_scs/load/index autoapi/toolbox_scs/mnemonics_machinery/index resolving references... done writing... done copying images... [100%] metadata.png copying TeX support files... copying TeX support files... done build succeeded, 147 warnings. The LaTeX files are in _build/latex. Run 'make' in that directory to run these through (pdf)latex (use `make latexpdf' here to do that automatically). [rtd-command-info] start-time: 2022-11-11T15:02:55.139779Z, end-time: 2022-11-11T15:02:55.205032Z, duration: 0, exit-code: 0 cat latexmkrc $latex = 'latex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $pdflatex = 'pdflatex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $lualatex = 'lualatex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $xelatex = 'xelatex --no-pdf ' . $ENV{'LATEXOPTS'} . ' %O %S'; $makeindex = 'makeindex -s python.ist %O -o %D %S'; add_cus_dep( "glo", "gls", 0, "makeglo" ); sub makeglo { return system( "makeindex -s gglo.ist -o '$_[0].gls' '$_[0].glo'" ); } [rtd-command-info] start-time: 2022-11-11T15:02:55.287044Z, end-time: 2022-11-11T15:02:59.477641Z, duration: 4, exit-code: 0 latexmk -r latexmkrc -pdf -f -dvi- -ps- -jobname=scs-toolbox -interaction=nonstopmode Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 1, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 2, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 3, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 4, chunk 1. Subroutine makeglo redefined at (eval 11) line 7, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 1, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 2, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 3, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 4, chunk 1. Latexmk: This is Latexmk, John Collins, 1 January 2015, version: 4.41. File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/bin/latexmk line 7482. Rule 'pdflatex': Rules & subrules not known to be previously run: pdflatex Rule 'pdflatex': The following rules & subrules became out-of-date: 'pdflatex' ------------ Run number 1 of rule 'pdflatex' ------------ Latexmk: applying rule 'pdflatex'... ------------ Running 'pdflatex -interaction=nonstopmode -recorder --jobname="scs-toolbox" "SCSToolbox.tex"' ------------ This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./SCSToolbox.tex LaTeX2e <2017-04-15> Babel <3.18> and hyphenation patterns for 84 language(s) loaded. (./sphinxmanual.cls Document Class: sphinxmanual 2019/12/01 v2.3.0 Document class (Sphinx manual) (/usr/share/texlive/texmf-dist/tex/latex/base/report.cls Document Class: report 2014/09/29 v1.4h Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/ot1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/omsenc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/cmap/cmap.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)<>) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texlive/texmf-dist/tex/generic/babel/switch.def) (/usr/share/texlive/texmf-dist/tex/generic/babel-english/english.ldf (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.def (/usr/share/texlive/texmf-dist/tex/generic/babel/txtbabel.def)))) (/usr/share/texmf/tex/latex/tex-gyre/tgtermes.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvsetkeys.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/infwarerr.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/etexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifluatex.sty))))) (/usr/share/texmf/tex/latex/tex-gyre/tgheros.sty) (/usr/share/texlive/texmf-dist/tex/latex/fncychap/fncychap.sty) (./sphinx.sty (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (./sphinxoptionshyperref.sty) (./sphinxoptionsgeometry.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/float/float.sty) (/usr/share/texlive/texmf-dist/tex/latex/wrapfig/wrapfig.sty) (/usr/share/texlive/texmf-dist/tex/latex/capt-of/capt-of.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/multicol.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (./sphinxlatexgraphics.sty) (./sphinxpackageboxes.sty) (./sphinxlatexadmonitions.sty (/usr/share/texlive/texmf-dist/tex/latex/framed/framed.sty)) (./sphinxlatexliterals.sty (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty Style option: `fancyvrb' v2.7a, with DG/SPQR fixes, and firstline=lastline fix <2008/02/07> (tvz)) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty) (/usr/share/texlive/texmf-dist/tex/latex/needspace/needspace.sty)) (./sphinxlatexshadowbox.sty) (./sphinxlatexcontainers.sty) (./sphinxhighlight.sty) (./sphinxlatextables.sty (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/varwidth/varwidth.sty) (/usr/share/texlive/texmf-dist/tex/latex/colortbl/colortbl.sty)) (./sphinxlatexnumfig.sty (/usr/share/texlive/texmf-dist/tex/latex/carlisle/remreset.sty)) (./sphinxlatexlists.sty) (./sphinxpackagefootnote.sty) (./sphinxlatexindbibtoc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty)) (./sphinxlatexstylepage.sty (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty)) (./sphinxlatexstyleheadings.sty (/usr/share/texlive/texmf-dist/tex/latex/titlesec/titlesec.sty)) (./sphinxlatexstyletext.sty) (./sphinxlatexobjects.sty)) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifpdf.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifvtex.sty) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hypcap.sty) (./sphinxmessages.sty) Writing index file scs-toolbox.idx (./scs-toolbox.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texmf/tex/latex/tex-gyre/t1qtm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (/usr/share/texmf/tex/latex/tex-gyre/t1qhv.fd)<><><><> (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [2] [1] [2] Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/txfonts/t1txtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) [1] [2] Chapter 2. [3 <./metadata.png>] [4] Chapter 3. LaTeX Warning: Hyper reference `howtos:how-to-s' on page 5 undefined on input l ine 351. [5] [6] Chapter 4. (/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) [7] [8] [9] [10] [11] [12] [13] [14] [15] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_range_mask' on page 16 undefi ned on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_prepare_arrays_nans' on page 16 undefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_prepare_arrays_size' on page 16 undefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_prepare_arrays_range' on page 16 undefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_knife_edge_base' on page 16 u ndefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge._with_values' on page 16 undefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_range_mask' on page 16 undefi ned on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_prepare_arrays_nans' on page 16 undefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_prepare_arrays_size' on page 16 undefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_prepare_arrays_range' on page 16 undefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge.test_knife_edge_base' on page 16 u ndefined on input line 1303. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/tests/test_knife_edge/ index:toolbox_scs.base.tests.test_knife_edge._with_values' on page 16 undefined on input line 1303. [16] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/knife_edge/index:toolb ox_scs.base.knife_edge.knife_edge' on page 17 undefined on input line 1397. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/knife_edge/index:toolb ox_scs.base.knife_edge.knife_edge_base' on page 17 undefined on input line 1397 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/knife_edge/index:toolb ox_scs.base.knife_edge.knife_edge' on page 17 undefined on input line 1397. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/knife_edge/index:toolb ox_scs.base.knife_edge.knife_edge_base' on page 17 undefined on input line 1397 . [17] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/knife_edge/index:modul e-toolbox_scs.base.knife_edge' on page 18 undefined on input line 1536. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/index:toolbox_scs.base .knife_edge_base' on page 18 undefined on input line 1536. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/knife_edge/index:modul e-toolbox_scs.base.knife_edge' on page 18 undefined on input line 1536. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/index:toolbox_scs.base .knife_edge_base' on page 18 undefined on input line 1536. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/index:toolbox_scs.base .__all__' on page 18 undefined on input line 1558. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/base/index:toolbox_scs.base .__all__' on page 18 undefined on input line 1558. [18] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/azimuthal_integra tor/index:toolbox_scs.detectors.azimuthal_integrator.AzimuthalIntegrator' on pa ge 19 undefined on input line 1719. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/azimuthal_integra tor/index:toolbox_scs.detectors.azimuthal_integrator.AzimuthalIntegratorDSSC' o n page 19 undefined on input line 1719. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/azimuthal_integra tor/index:toolbox_scs.detectors.azimuthal_integrator.AzimuthalIntegrator' on pa ge 19 undefined on input line 1719. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/azimuthal_integra tor/index:toolbox_scs.detectors.azimuthal_integrator.AzimuthalIntegratorDSSC' o n page 19 undefined on input line 1719. [19] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/azimuthal_integra tor/index:toolbox_scs.detectors.azimuthal_integrator.AzimuthalIntegrator' on pa ge 20 undefined on input line 1817. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/bam_detectors/ind ex:toolbox_scs.detectors.bam_detectors.get_bam' on page 20 undefined on input l ine 1877. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/bam_detectors/ind ex:toolbox_scs.detectors.bam_detectors.get_bam_params' on page 20 undefined on input line 1877. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/bam_detectors/ind ex:toolbox_scs.detectors.bam_detectors.get_bam' on page 20 undefined on input l ine 1877. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/bam_detectors/ind ex:toolbox_scs.detectors.bam_detectors.get_bam_params' on page 20 undefined on input line 1877. [20] [21] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_peaks' on page 22 undefined on input line 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_dig_avg_trace' on page 22 undefined on inp ut line 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.check_peak_params' on page 22 undefined on inp ut line 2057. Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|\T1/txtt/m/sl/10 check_peak_params\T1/qtm/m/n/10 (run, mnemonic[, raw_trace, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_tim_peaks' on page 22 undefined on input l ine 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_laser_peaks' on page 22 undefined on input line 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_digitizer_peaks' on page 22 undefined on i nput line 2057. Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|\T1/txtt/m/sl/10 get_digitizer_peaks\T1/qtm/m/n/10 (run[, mnemon-ics, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.digitizer_signal_description' on page 22 undef ined on input line 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_peaks' on page 22 undefined on input line 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_dig_avg_trace' on page 22 undefined on inp ut line 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.check_peak_params' on page 22 undefined on inp ut line 2057. Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|\T1/txtt/m/sl/10 check_peak_params\T1/qtm/m/n/10 (run, mnemonic[, raw_trace, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_tim_peaks' on page 22 undefined on input l ine 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_laser_peaks' on page 22 undefined on input line 2057. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.get_digitizer_peaks' on page 22 undefined on i nput line 2057. Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|\T1/txtt/m/sl/10 get_digitizer_peaks\T1/qtm/m/n/10 (run[, mnemon-ics, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/digitizers/index: toolbox_scs.detectors.digitizers.digitizer_signal_description' on page 22 undef ined on input line 2057. [22] [23] [24] [25] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc/index:toolbo x_scs.detectors.dssc.DSSCBinner' on page 26 undefined on input line 2556. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc/index:toolbo x_scs.detectors.dssc.DSSCFormatter' on page 26 undefined on input line 2556. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc/index:toolbo x_scs.detectors.dssc.DSSCBinner' on page 26 undefined on input line 2556. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc/index:toolbo x_scs.detectors.dssc.DSSCFormatter' on page 26 undefined on input line 2556. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxValueError' on page 26 undefined on input line 25 98. [26] [27] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.save_xarray' on page 28 undefined on input line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.save_attributes_h5' on page 28 undefined on inpu t line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.load_xarray' on page 28 undefined on input line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.get_data_formatted' on page 28 undefined on inpu t line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.save_xarray' on page 28 undefined on input line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.save_attributes_h5' on page 28 undefined on inpu t line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.load_xarray' on page 28 undefined on input line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_data/index:t oolbox_scs.detectors.dssc_data.get_data_formatted' on page 28 undefined on inpu t line 2920. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxFileError' on page 28 undefined on input line 295 0. [28] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.load_dssc_info' on page 29 undefined on input li ne 3112. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.create_dssc_bins' on page 29 undefined on input line 3112. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.get_xgm_formatted' on page 29 undefined on input line 3112. Underfull \hbox (badness 10000) in paragraph at lines 3112--3112 []|\T1/txtt/m/sl/10 get_xgm_formatted\T1/qtm/m/n/10 (run_obj, xgm_name, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.quickmask_DSSC_ASIC' on page 29 undefined on inp ut line 3112. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.load_mask' on page 29 undefined on input line 31 12. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.load_dssc_info' on page 29 undefined on input li ne 3112. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.create_dssc_bins' on page 29 undefined on input line 3112. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.get_xgm_formatted' on page 29 undefined on input line 3112. Underfull \hbox (badness 10000) in paragraph at lines 3112--3112 []|\T1/txtt/m/sl/10 get_xgm_formatted\T1/qtm/m/n/10 (run_obj, xgm_name, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.quickmask_DSSC_ASIC' on page 29 undefined on inp ut line 3112. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_misc/index:t oolbox_scs.detectors.dssc_misc.load_mask' on page 29 undefined on input line 31 12. [29] [30] [31] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_xgm_threshold' on page 32 undefined on inpu t line 3363. Underfull \hbox (badness 5817) in paragraph at lines 3363--3363 []|\T1/txtt/m/sl/10 plot_xgm_threshold\T1/qtm/m/n/10 (xgm[, xgm_min, xgm_max, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_binner' on page 32 undefined on input line 3363. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_binner_hist' on page 32 undefined on input line 3363. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_hist_processed' on page 32 undefined on inp ut line 3363. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_xgm_threshold' on page 32 undefined on inpu t line 3363. Underfull \hbox (badness 5817) in paragraph at lines 3363--3363 []|\T1/txtt/m/sl/10 plot_xgm_threshold\T1/qtm/m/n/10 (xgm[, xgm_min, xgm_max, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_binner' on page 32 undefined on input line 3363. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_binner_hist' on page 32 undefined on input line 3363. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_plot/index:t oolbox_scs.detectors.dssc_plot.plot_hist_processed' on page 32 undefined on inp ut line 3363. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_processing/i ndex:toolbox_scs.detectors.dssc_processing.process_dssc_data' on page 32 undefi ned on input line 3435. Underfull \hbox (badness 10000) in paragraph at lines 3435--3435 []|\T1/txtt/m/sl/10 process_dssc_data\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/dssc_processing/i ndex:toolbox_scs.detectors.dssc_processing.process_dssc_data' on page 32 undefi ned on input line 3435. Underfull \hbox (badness 10000) in paragraph at lines 3435--3435 []|\T1/txtt/m/sl/10 process_dssc_data\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, [32] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/fccd/index:toolbo x_scs.detectors.fccd.FastCCD' on page 33 undefined on input line 3546. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/fccd/index:toolbo x_scs.detectors.fccd.FastCCD' on page 33 undefined on input line 3546. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/fccd/index:toolbo x_scs.detectors.fccd.process_one_module' on page 33 undefined on input line 356 8. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/fccd/index:toolbo x_scs.detectors.fccd.process_one_module' on page 33 undefined on input line 356 8. [33] [34] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:id0' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:id0' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.correct_curvature' on page 35 undefined on input line 39 45. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.get_spectrum' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.energy_calibration' on page 35 undefined on input line 3 945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.calibrate' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.gaussian_fit' on page 35 undefined on input line 3945. Underfull \hbox (badness 10000) in paragraph at lines 3945--3945 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.to_fwhm' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:id0' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:id0' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.correct_curvature' on page 35 undefined on input line 39 45. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.get_spectrum' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.energy_calibration' on page 35 undefined on input line 3 945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.calibrate' on page 35 undefined on input line 3945. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.gaussian_fit' on page 35 undefined on input line 3945. Underfull \hbox (badness 10000) in paragraph at lines 3945--3945 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/hrixs/index:toolb ox_scs.detectors.hrixs.to_fwhm' on page 35 undefined on input line 3945. [35] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/pes/index:toolbox _scs.detectors.pes.get_pes_tof' on page 36 undefined on input line 4067. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/pes/index:toolbox _scs.detectors.pes.get_pes_params' on page 36 undefined on input line 4067. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/pes/index:toolbox _scs.detectors.pes.get_pes_tof' on page 36 undefined on input line 4067. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/pes/index:toolbox _scs.detectors.pes.get_pes_params' on page 36 undefined on input line 4067. [36] [37] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/xgm/index:toolbox _scs.detectors.xgm.get_xgm' on page 38 undefined on input line 4230. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/xgm/index:toolbox _scs.detectors.xgm.calibrate_xgm' on page 38 undefined on input line 4230. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/xgm/index:toolbox _scs.detectors.xgm.get_xgm' on page 38 undefined on input line 4230. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/xgm/index:toolbox _scs.detectors.xgm.calibrate_xgm' on page 38 undefined on input line 4230. [38] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.AzimuthalIntegrator' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.AzimuthalIntegratorDSSC' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.DSSCBinner' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.DSSCFormatter' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.AzimuthalIntegrator' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.AzimuthalIntegratorDSSC' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.DSSCBinner' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.DSSCFormatter' on page 39 undefined on input line 4393. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_bam' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_bam_params' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.check_peak_params' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 check_peak_params\T1/qtm/m/n/10 (run, mnemonic[, raw_trace, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_digitizer_peaks' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 get_digitizer_peaks\T1/qtm/m/n/10 (run[, mnemon-ics, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_laser_peaks' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_peaks' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_tim_peaks' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.digitizer_signal_description' on page 39 undefined on input line 461 8. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_dig_avg_trace' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_data_formatted' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.load_xarray' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.save_attributes_h5' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.save_xarray' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.create_dssc_bins' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_xgm_formatted' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 get_xgm_formatted\T1/qtm/m/n/10 (run_obj, xgm_name, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.load_dssc_info' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.load_mask' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.quickmask_DSSC_ASIC' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.process_dssc_data' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 process_dssc_data\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.find_curvature' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.correct_curvature' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_spectrum' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.energy_calibration' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.calibrate' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.gaussian_fit' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.to_fwhm' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_pes_params' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_pes_tof' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.calibrate_xgm' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_xgm' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_bam' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_bam_params' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.check_peak_params' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 check_peak_params\T1/qtm/m/n/10 (run, mnemonic[, raw_trace, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_digitizer_peaks' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 get_digitizer_peaks\T1/qtm/m/n/10 (run[, mnemon-ics, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_laser_peaks' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_peaks' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_tim_peaks' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.digitizer_signal_description' on page 39 undefined on input line 461 8. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_dig_avg_trace' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_data_formatted' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.load_xarray' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.save_attributes_h5' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.save_xarray' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.create_dssc_bins' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_xgm_formatted' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 get_xgm_formatted\T1/qtm/m/n/10 (run_obj, xgm_name, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.load_dssc_info' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.load_mask' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.quickmask_DSSC_ASIC' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.process_dssc_data' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/txtt/m/sl/10 process_dssc_data\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.find_curvature' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.correct_curvature' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_spectrum' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.energy_calibration' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.calibrate' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.gaussian_fit' on page 39 undefined on input line 4618. Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.to_fwhm' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_pes_params' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_pes_tof' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.calibrate_xgm' on page 39 undefined on input line 4618. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.get_xgm' on page 39 undefined on input line 4618. [39] [40] Overfull \vbox (66.56737pt too high) has occurred while \output is active [41] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.__all__' on page 42 undefined on input line 4640. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.__all__' on page 42 undefined on input line 4640. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/detectors/index:toolbox_scs .detectors.AzimuthalIntegrator' on page 42 undefined on input line 4738. [42] [43] [44] [45] [46] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxValueError' on page 47 undefined on input line 53 30. [47] [48] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxFileError' on page 49 undefined on input line 572 6. [49] [50] [51] [52] [53] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern/index:to olbox_scs.misc.bunch_pattern.extractBunchPattern' on page 54 undefined on input line 6367. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern/index:to olbox_scs.misc.bunch_pattern.pulsePatternInfo' on page 54 undefined on input li ne 6367. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern/index:to olbox_scs.misc.bunch_pattern.repRate' on page 54 undefined on input line 6367. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern/index:to olbox_scs.misc.bunch_pattern.extractBunchPattern' on page 54 undefined on input line 6367. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern/index:to olbox_scs.misc.bunch_pattern.pulsePatternInfo' on page 54 undefined on input li ne 6367. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern/index:to olbox_scs.misc.bunch_pattern.repRate' on page 54 undefined on input line 6367. [54] [55] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_pulse_at' on page 56 undefine d on input line 6525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_sase_3' on page 56 undefined on input line 6525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_sase_1' on page 56 undefined on input line 6525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_ppl' on page 56 undefined on input line 6525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_pulse_at' on page 56 undefine d on input line 6525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_sase_3' on page 56 undefined on input line 6525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_sase_1' on page 56 undefined on input line 6525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/bunch_pattern_external /index:toolbox_scs.misc.bunch_pattern_external.is_ppl' on page 56 undefined on input line 6525. [56] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.positionToDelay' on page 57 undefined on input line 66 94. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.delayToPosition' on page 57 undefined on input line 66 94. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.degToRelPower' on page 57 undefined on input line 6694 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.fluenceCalibration' on page 57 undefined on input line 6694. Underfull \hbox (badness 10000) in paragraph at lines 6694--6694 []|\T1/txtt/m/sl/10 fluenceCalibration\T1/qtm/m/n/10 (hwp, power_mW, npulses, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.align_ol_to_fel_pId' on page 57 undefined on input lin e 6694. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.positionToDelay' on page 57 undefined on input line 66 94. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.delayToPosition' on page 57 undefined on input line 66 94. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.degToRelPower' on page 57 undefined on input line 6694 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.fluenceCalibration' on page 57 undefined on input line 6694. Underfull \hbox (badness 10000) in paragraph at lines 6694--6694 []|\T1/txtt/m/sl/10 fluenceCalibration\T1/qtm/m/n/10 (hwp, power_mW, npulses, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/laser_utils/index:tool box_scs.misc.laser_utils.align_ol_to_fel_pId' on page 57 undefined on input lin e 6694. [57] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .extractBunchPattern' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .pulsePatternInfo' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .repRate' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_sase_3' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_sase_1' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_ppl' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_pulse_at' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .degToRelPower' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .positionToDelay' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .delayToPosition' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .fluenceCalibration' on page 58 undefined on input line 7009. Underfull \hbox (badness 10000) in paragraph at lines 7009--7009 []|\T1/txtt/m/sl/10 fluenceCalibration\T1/qtm/m/n/10 (hwp, power_mW, npulses, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .align_ol_to_fel_pId' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .extractBunchPattern' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .pulsePatternInfo' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .repRate' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_sase_3' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_sase_1' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_ppl' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .is_pulse_at' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .degToRelPower' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .positionToDelay' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .delayToPosition' on page 58 undefined on input line 7009. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .fluenceCalibration' on page 58 undefined on input line 7009. Underfull \hbox (badness 10000) in paragraph at lines 7009--7009 []|\T1/txtt/m/sl/10 fluenceCalibration\T1/qtm/m/n/10 (hwp, power_mW, npulses, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .align_ol_to_fel_pId' on page 58 undefined on input line 7009. [58] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .__all__' on page 59 undefined on input line 7031. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/misc/index:toolbox_scs.misc .__all__' on page 59 undefined on input line 7031. [59] [60] [61] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/Reflectivity/index :toolbox_scs.routines.Reflectivity.reflectivity' on page 62 undefined on input line 7510. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/Reflectivity/index :toolbox_scs.routines.Reflectivity.reflectivity' on page 62 undefined on input line 7510. [62] [63] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/XAS/index:toolbox_ scs.routines.XAS.xas' on page 64 undefined on input line 7657. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/XAS/index:toolbox_ scs.routines.XAS.xasxmcd' on page 64 undefined on input line 7657. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/XAS/index:toolbox_ scs.routines.XAS.xas' on page 64 undefined on input line 7657. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/XAS/index:toolbox_ scs.routines.XAS.xasxmcd' on page 64 undefined on input line 7657. [64] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.parameters' on page 65 undefined on input line 7768. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.parameters' on page 65 undefined on input line 7768. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.get_roi_pixel_pos' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.bad_pixel_map' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_dark' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.histogram_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_histogram' on page 65 undefined on input line 7979. Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|\T1/txtt/m/sl/10 inspect_histogram\T1/qtm/m/n/10 (arr[, arr_dark, mask, ex- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.find_rois' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.find_rois_from_params' on page 65 undefined on input line 7979 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_rois' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.compute_flat_field_correction' on page 65 undefined on input l ine 7979. Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|\T1/txtt/m/sl/10 compute_flat_field_correction\T1/qtm/m/n/10 (rois, params[, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_flat_field_domain' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_plane_fitting' on page 65 undefined on input line 7979 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.plane_fitting_domain' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.plane_fitting' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.ff_refine_crit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.ff_refine_fit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_domain' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_lut' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_crit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_fit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_nl_fit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.snr' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_Fnl' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_correction' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.load_dssc_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.average_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.process_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.process' on page 65 undefined on input line 7979. Underfull \hbox (badness 7362) in paragraph at lines 7979--7979 []|\T1/txtt/m/sl/10 process\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, ma sk, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_saturation' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.get_roi_pixel_pos' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.bad_pixel_map' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_dark' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.histogram_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_histogram' on page 65 undefined on input line 7979. Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|\T1/txtt/m/sl/10 inspect_histogram\T1/qtm/m/n/10 (arr[, arr_dark, mask, ex- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.find_rois' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.find_rois_from_params' on page 65 undefined on input line 7979 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_rois' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.compute_flat_field_correction' on page 65 undefined on input l ine 7979. Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|\T1/txtt/m/sl/10 compute_flat_field_correction\T1/qtm/m/n/10 (rois, params[, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_flat_field_domain' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_plane_fitting' on page 65 undefined on input line 7979 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.plane_fitting_domain' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.plane_fitting' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.ff_refine_crit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.ff_refine_fit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_domain' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_lut' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_crit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.nl_fit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_nl_fit' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.snr' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_Fnl' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_correction' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.load_dssc_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.average_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.process_module' on page 65 undefined on input line 7979. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.process' on page 65 undefined on input line 7979. Underfull \hbox (badness 7362) in paragraph at lines 7979--7979 []|\T1/txtt/m/sl/10 process\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, ma sk, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/boz/index:toolbox_ scs.routines.boz.inspect_saturation' on page 65 undefined on input line 7979. [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/knife_edge/index:t oolbox_scs.routines.knife_edge.knife_edge' on page 76 undefined on input line 9 170. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/knife_edge/index:t oolbox_scs.routines.knife_edge.knife_edge' on page 76 undefined on input line 9 170. [76] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.parameters' on page 77 undefined on input line 9260. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.parameters' on page 77 undefined on input line 9260. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.xas' on page 77 undefined on input line 9292. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.xasxmcd' on page 77 undefined on input line 9299. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.get_roi_pixel_pos' on page 77 undefined on input line 9306. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.bad_pixel_map' on page 77 undefined on input line 9313. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_dark' on page 77 undefined on input line 9320. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.histogram_module' on page 77 undefined on input line 9327. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_histogram' on page 77 undefined on input line 9334. Underfull \hbox (badness 10000) in paragraph at lines 9333--9335 []|\T1/txtt/m/sl/10 inspect_histogram\T1/qtm/m/n/10 (arr[, arr_dark, mask, ex- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.find_rois' on page 77 undefined on input line 9341. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.find_rois_from_params' on page 77 undefined on input line 9348. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_rois' on page 77 undefined on input line 9355. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.compute_flat_field_correction' on page 77 undefined on input line 9362 . Underfull \hbox (badness 10000) in paragraph at lines 9361--9363 []|\T1/txtt/m/sl/10 compute_flat_field_correction\T1/qtm/m/n/10 (rois, params[, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_flat_field_domain' on page 77 undefined on input line 9369. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_plane_fitting' on page 77 undefined on input line 9376. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.plane_fitting_domain' on page 77 undefined on input line 9383. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.plane_fitting' on page 77 undefined on input line 9390. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.ff_refine_crit' on page 77 undefined on input line 9397. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.ff_refine_fit' on page 77 undefined on input line 9404. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.nl_domain' on page 77 undefined on input line 9411. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.nl_lut' on page 77 undefined on input line 9418. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.nl_crit' on page 77 undefined on input line 9425. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.nl_fit' on page 77 undefined on input line 9432. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_nl_fit' on page 77 undefined on input line 9439. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.snr' on page 77 undefined on input line 9446. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_Fnl' on page 77 undefined on input line 9453. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_correction' on page 77 undefined on input line 9460. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.load_dssc_module' on page 77 undefined on input line 9467. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.average_module' on page 77 undefined on input line 9474. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.process_module' on page 77 undefined on input line 9481. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.process' on page 77 undefined on input line 9488. Underfull \hbox (badness 7362) in paragraph at lines 9487--9489 []|\T1/txtt/m/sl/10 process\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, ma sk, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.inspect_saturation' on page 77 undefined on input line 9495. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.reflectivity' on page 77 undefined on input line 9502. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/knife_edge/index:m odule-toolbox_scs.routines.knife_edge' on page 77 undefined on input line 9509. Package longtable Warning: Column widths have changed (longtable) in table 1 on input line 9515. [77] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.__all__' on page 78 undefined on input line 9538. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/routines/index:toolbox_scs. routines.__all__' on page 78 undefined on input line 9538. [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.TestDSSC' on page 89 undefined on input line 10973 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.TestDSSC' on page 89 undefined on input line 10973 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.setup_tmp_dir' on page 89 undefined on input line 11023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.cleanup_tmp_dir' on page 89 undefined on input lin e 11023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.list_suites' on page 89 undefined on input line 11 023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.suite' on page 89 undefined on input line 11023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.main' on page 89 undefined on input line 11023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.setup_tmp_dir' on page 89 undefined on input line 11023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.cleanup_tmp_dir' on page 89 undefined on input lin e 11023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.list_suites' on page 89 undefined on input line 11 023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.suite' on page 89 undefined on input line 11023. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.main' on page 89 undefined on input line 11023. [89] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.log_root' on page 90 undefined on input line 11066 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.suites' on page 90 undefined on input line 11066. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls._temp_dirs' on page 90 undefined on input line 110 66. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.parser' on page 90 undefined on input line 11066. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.log_root' on page 90 undefined on input line 11066 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.suites' on page 90 undefined on input line 11066. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls._temp_dirs' on page 90 undefined on input line 110 66. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_dssc_cls/index:to olbox_scs.test.test_dssc_cls.parser' on page 90 undefined on input line 11066. [90] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.TestDataAccess' on page 91 undefined on input line 11302. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.TestDataAccess' on page 91 undefined on input line 11302. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.list_suites' on page 91 undefined on input line 11338. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.suite' on page 91 undefined on input line 11338. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.start_tests' on page 91 undefined on input line 11338. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.list_suites' on page 91 undefined on input line 11338. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.suite' on page 91 undefined on input line 11338. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.start_tests' on page 91 undefined on input line 11338. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.proposalNB' on page 91 undefined on input line 11381. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.runNB' on page 91 undefined on input line 11381. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.suites' on page 91 undefined on input line 11381. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.parser' on page 91 undefined on input line 11381. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.proposalNB' on page 91 undefined on input line 11381. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.runNB' on page 91 undefined on input line 11381. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.suites' on page 91 undefined on input line 11381. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_misc/index:toolbo x_scs.test.test_misc.parser' on page 91 undefined on input line 11381. [91] [92] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.TestToolbox' on page 93 undefined on input line 11632. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.TestToolbox' on page 93 undefined on input line 11632. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.list_suites' on page 93 undefined on input line 11668. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.suite' on page 93 undefined on input line 11668. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.main' on page 93 undefined on input line 11668. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.list_suites' on page 93 undefined on input line 11668. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.suite' on page 93 undefined on input line 11668. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.main' on page 93 undefined on input line 11668. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.log_root' on page 93 undefined on input line 117 04. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.suites' on page 93 undefined on input line 11704 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.parser' on page 93 undefined on input line 11704 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.log_root' on page 93 undefined on input line 117 04. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.suites' on page 93 undefined on input line 11704 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_top_level/index:t oolbox_scs.test.test_top_level.parser' on page 93 undefined on input line 11704 . [93] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.TestDataAccess' on page 94 undefined on input line 11946 . LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.TestDataAccess' on page 94 undefined on input line 11946 . [94] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.list_suites' on page 95 undefined on input line 11982. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.suite' on page 95 undefined on input line 11982. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.main' on page 95 undefined on input line 11982. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.list_suites' on page 95 undefined on input line 11982. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.suite' on page 95 undefined on input line 11982. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.main' on page 95 undefined on input line 11982. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.suites' on page 95 undefined on input line 12011. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.parser' on page 95 undefined on input line 12011. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.suites' on page 95 undefined on input line 12011. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/test/test_utils/index:toolb ox_scs.test.test_utils.parser' on page 95 undefined on input line 12011. [95] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxError' on page 96 undefined on input line 12238. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxError' on page 96 undefined on input line 12253. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxError' on page 96 undefined on input line 12268. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxError' on page 96 undefined on input line 12283. [96] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/pkg/index:toolbox_scs. util.pkg.get_version' on page 97 undefined on input line 12317. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/pkg/index:toolbox_scs. util.pkg.get_version' on page 97 undefined on input line 12317. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .load' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .run_by_path' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .find_run_path' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .open_run' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .get_array' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .load_run_values' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .concatenateRuns' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .load' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .run_by_path' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .find_run_path' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .open_run' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .get_array' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .load_run_values' on page 97 undefined on input line 12428. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:toolbox_scs.load .concatenateRuns' on page 97 undefined on input line 12428. [97] Underfull \hbox (badness 5970) in paragraph at lines 12531--12534 []\T1/txtt/bx/n/10 extract_bam \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 bool\T1/qtm/m/n /10 ) ^^U If True, ex-tracts the val-ues from BAM vari-ables (e.g. [98] [99] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxValueError' on page 100 undefined on input line 1 2779. [100] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/mnemonics_machinery/index:t oolbox_scs.mnemonics_machinery.mnemonics_for_run' on page 101 undefined on inpu t line 12900. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/mnemonics_machinery/index:t oolbox_scs.mnemonics_machinery.mnemonics_for_run' on page 101 undefined on inpu t line 12900. [101] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.Azimuthal Integrator' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.Azimuthal IntegratorDSSC' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.DSSCBinne r' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.DSSCForma tter' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.parameter s' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.Azimuthal Integrator' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.Azimuthal IntegratorDSSC' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.DSSCBinne r' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.DSSCForma tter' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.parameter s' on page 102 undefined on input line 12996. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_bam' on page 102 undefined on input line 13028. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_bam_p arams' on page 102 undefined on input line 13035. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.check_pea k_params' on page 102 undefined on input line 13042. Underfull \hbox (badness 10000) in paragraph at lines 13041--13043 []|\T1/txtt/m/sl/10 check_peak_params\T1/qtm/m/n/10 (run, mnemonic[, raw_trace, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_digit izer_peaks' on page 102 undefined on input line 13049. Underfull \hbox (badness 10000) in paragraph at lines 13048--13050 []|\T1/txtt/m/sl/10 get_digitizer_peaks\T1/qtm/m/n/10 (run[, mnemon-ics, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_laser _peaks' on page 102 undefined on input line 13056. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_peaks ' on page 102 undefined on input line 13063. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_tim_p eaks' on page 102 undefined on input line 13070. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.digitizer _signal_description' on page 102 undefined on input line 13077. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_dig_a vg_trace' on page 102 undefined on input line 13084. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_data_ formatted' on page 102 undefined on input line 13091. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.load_xarr ay' on page 102 undefined on input line 13098. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.save_attr ibutes_h5' on page 102 undefined on input line 13105. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.save_xarr ay' on page 102 undefined on input line 13112. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.create_ds sc_bins' on page 102 undefined on input line 13119. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_xgm_f ormatted' on page 102 undefined on input line 13126. Underfull \hbox (badness 10000) in paragraph at lines 13125--13127 []|\T1/txtt/m/sl/10 get_xgm_formatted\T1/qtm/m/n/10 (run_obj, xgm_name, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.load_dssc _info' on page 102 undefined on input line 13133. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.load_mask ' on page 102 undefined on input line 13140. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.quickmask _DSSC_ASIC' on page 102 undefined on input line 13147. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.process_d ssc_data' on page 102 undefined on input line 13154. Underfull \hbox (badness 10000) in paragraph at lines 13153--13155 []|\T1/txtt/m/sl/10 process_dssc_data\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.find_curv ature' on page 102 undefined on input line 13161. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.correct_c urvature' on page 102 undefined on input line 13168. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_spect rum' on page 102 undefined on input line 13175. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.energy_ca libration' on page 102 undefined on input line 13182. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.calibrate ' on page 102 undefined on input line 13189. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.gaussian_ fit' on page 102 undefined on input line 13196. Underfull \hbox (badness 10000) in paragraph at lines 13198--13201 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.to_fwhm' on page 102 undefined on input line 13203. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_pes_p arams' on page 102 undefined on input line 13210. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_pes_t of' on page 102 undefined on input line 13217. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.calibrate _xgm' on page 102 undefined on input line 13224. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_xgm' on page 102 undefined on input line 13231. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.concatena teRuns' on page 102 undefined on input line 13238. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.find_run_ path' on page 102 undefined on input line 13245. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_array ' on page 102 undefined on input line 13252. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/load/index:module-toolbox_s cs.load' on page 102 undefined on input line 13259. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.open_run' on page 102 undefined on input line 13266. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.run_by_pa th' on page 102 undefined on input line 13273. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.load_run_ values' on page 102 undefined on input line 13280. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.extractBu nchPattern' on page 102 undefined on input line 13287. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.pulsePatt ernInfo' on page 102 undefined on input line 13294. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.repRate' on page 102 undefined on input line 13301. [102] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.is_sase_3 ' on page 103 undefined on input line 13308. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.is_sase_1 ' on page 103 undefined on input line 13315. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.is_ppl' o n page 103 undefined on input line 13322. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.is_pulse_ at' on page 103 undefined on input line 13329. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.degToRelP ower' on page 103 undefined on input line 13336. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.positionT oDelay' on page 103 undefined on input line 13343. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.delayToPo sition' on page 103 undefined on input line 13350. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.fluenceCa libration' on page 103 undefined on input line 13357. Underfull \hbox (badness 10000) in paragraph at lines 13356--13358 []|\T1/txtt/m/sl/10 fluenceCalibration\T1/qtm/m/n/10 (hwp, power_mW, npulses, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.align_ol_ to_fel_pId' on page 103 undefined on input line 13364. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.mnemonics _for_run' on page 103 undefined on input line 13371. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.xas' on p age 103 undefined on input line 13378. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.xasxmcd' on page 103 undefined on input line 13385. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.get_roi_p ixel_pos' on page 103 undefined on input line 13392. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.bad_pixel _map' on page 103 undefined on input line 13399. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_d ark' on page 103 undefined on input line 13406. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.histogram _module' on page 103 undefined on input line 13413. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_h istogram' on page 103 undefined on input line 13420. Underfull \hbox (badness 10000) in paragraph at lines 13419--13421 []|\T1/txtt/m/sl/10 inspect_histogram\T1/qtm/m/n/10 (arr[, arr_dark, mask, ex- LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.find_rois ' on page 103 undefined on input line 13427. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.find_rois _from_params' on page 103 undefined on input line 13434. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_r ois' on page 103 undefined on input line 13441. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.compute_f lat_field_correction' on page 103 undefined on input line 13448. Underfull \hbox (badness 10000) in paragraph at lines 13447--13449 []|\T1/txtt/m/sl/10 compute_flat_field_correction\T1/qtm/m/n/10 (rois, params[, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_f lat_field_domain' on page 103 undefined on input line 13455. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_p lane_fitting' on page 103 undefined on input line 13462. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.plane_fit ting_domain' on page 103 undefined on input line 13469. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.plane_fit ting' on page 103 undefined on input line 13476. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.ff_refine _crit' on page 103 undefined on input line 13483. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.ff_refine _fit' on page 103 undefined on input line 13490. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.nl_domain ' on page 103 undefined on input line 13497. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.nl_lut' o n page 103 undefined on input line 13504. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.nl_crit' on page 103 undefined on input line 13511. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.nl_fit' o n page 103 undefined on input line 13518. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_n l_fit' on page 103 undefined on input line 13525. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.snr' on p age 103 undefined on input line 13532. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_F nl' on page 103 undefined on input line 13539. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_c orrection' on page 103 undefined on input line 13546. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.load_dssc _module' on page 103 undefined on input line 13553. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.average_m odule' on page 103 undefined on input line 13560. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.process_m odule' on page 103 undefined on input line 13567. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.process' on page 103 undefined on input line 13574. Underfull \hbox (badness 7362) in paragraph at lines 13573--13575 []|\T1/txtt/m/sl/10 process\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, ma sk, LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.inspect_s aturation' on page 103 undefined on input line 13581. [103] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.reflectiv ity' on page 104 undefined on input line 13588. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.knife_edg e' on page 104 undefined on input line 13595. [104] Package longtable Warning: Column widths have changed (longtable) in table 2 on input line 13601. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.mnemonics ' on page 105 undefined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.mnemonics ' on page 105 undefined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:id34' on page 105 und efined on input line 13652. LaTeX Warning: Hyper reference `autoapi/toolbox_scs/index:toolbox_scs.Azimuthal Integrator' on page 105 undefined on input line 13768. [105] [106] [107] [108] [109] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxValueError' on page 110 undefined on input line 1 4360. [110] [111] [112] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxFileError' on page 113 undefined on input line 14 756. [113] [114] [115] [116] [117] LaTeX Warning: Hyper reference `autoapi/toolbox_scs/util/exceptions/index:toolb ox_scs.util.exceptions.ToolBoxValueError' on page 118 undefined on input line 1 5452. [118] Underfull \hbox (badness 5970) in paragraph at lines 15566--15569 []\T1/txtt/bx/n/10 extract_bam \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 bool\T1/qtm/m/n /10 ) ^^U If True, ex-tracts the val-ues from BAM vari-ables (e.g. [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] Chapter 5. [137] [138] LaTeX Warning: Reference `autoapi/toolbox_scs/index:module-toolbox_scs' on page 139 undefined on input line 17671. LaTeX Warning: Reference `autoapi/toolbox_scs/base/index:module-toolbox_scs.bas e' on page 139 undefined on input line 17672. LaTeX Warning: Reference `autoapi/toolbox_scs/base/knife_edge/index:module-tool box_scs.base.knife_edge' on page 139 undefined on input line 17673. LaTeX Warning: Reference `autoapi/toolbox_scs/base/tests/index:module-toolbox_s cs.base.tests' on page 139 undefined on input line 17674. LaTeX Warning: Reference `autoapi/toolbox_scs/base/tests/test_knife_edge/index: module-toolbox_scs.base.tests.test_knife_edge' on page 139 undefined on input l ine 17675. LaTeX Warning: Reference `autoapi/toolbox_scs/constants/index:module-toolbox_sc s.constants' on page 139 undefined on input line 17676. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/index:module-toolbox_sc s.detectors' on page 139 undefined on input line 17677. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/azimuthal_integrator/in dex:module-toolbox_scs.detectors.azimuthal_integrator' on page 139 undefined on input line 17678. Underfull \hbox (badness 10000) in paragraph at lines 17678--17679 []\T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/bam_detectors/index:mod ule-toolbox_scs.detectors.bam_detectors' on page 139 undefined on input line 17 679. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/digitizers/index:module -toolbox_scs.detectors.digitizers' on page 139 undefined on input line 17680. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/dssc/index:module-toolb ox_scs.detectors.dssc' on page 139 undefined on input line 17681. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/dssc_data/index:module- toolbox_scs.detectors.dssc_data' on page 139 undefined on input line 17682. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/dssc_misc/index:module- toolbox_scs.detectors.dssc_misc' on page 139 undefined on input line 17683. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/dssc_plot/index:module- toolbox_scs.detectors.dssc_plot' on page 139 undefined on input line 17684. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/dssc_processing/index:m odule-toolbox_scs.detectors.dssc_processing' on page 139 undefined on input lin e 17685. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/fccd/index:module-toolb ox_scs.detectors.fccd' on page 139 undefined on input line 17686. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/hrixs/index:module-tool box_scs.detectors.hrixs' on page 139 undefined on input line 17687. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/pes/index:module-toolbo x_scs.detectors.pes' on page 139 undefined on input line 17688. LaTeX Warning: Reference `autoapi/toolbox_scs/detectors/xgm/index:module-toolbo x_scs.detectors.xgm' on page 139 undefined on input line 17689. LaTeX Warning: Reference `autoapi/toolbox_scs/load/index:module-toolbox_scs.loa d' on page 139 undefined on input line 17690. LaTeX Warning: Reference `autoapi/toolbox_scs/misc/index:module-toolbox_scs.mis c' on page 139 undefined on input line 17691. LaTeX Warning: Reference `autoapi/toolbox_scs/misc/bunch_pattern/index:module-t oolbox_scs.misc.bunch_pattern' on page 139 undefined on input line 17692. LaTeX Warning: Reference `autoapi/toolbox_scs/misc/bunch_pattern_external/index :module-toolbox_scs.misc.bunch_pattern_external' on page 139 undefined on input line 17693. LaTeX Warning: Reference `autoapi/toolbox_scs/misc/laser_utils/index:module-too lbox_scs.misc.laser_utils' on page 139 undefined on input line 17694. LaTeX Warning: Reference `autoapi/toolbox_scs/mnemonics_machinery/index:module- toolbox_scs.mnemonics_machinery' on page 139 undefined on input line 17695. LaTeX Warning: Reference `autoapi/toolbox_scs/routines/index:module-toolbox_scs .routines' on page 139 undefined on input line 17696. LaTeX Warning: Reference `autoapi/toolbox_scs/routines/boz/index:module-toolbox _scs.routines.boz' on page 139 undefined on input line 17697. LaTeX Warning: Reference `autoapi/toolbox_scs/routines/knife_edge/index:module- toolbox_scs.routines.knife_edge' on page 139 undefined on input line 17698. LaTeX Warning: Reference `autoapi/toolbox_scs/routines/Reflectivity/index:modul e-toolbox_scs.routines.Reflectivity' on page 139 undefined on input line 17699. LaTeX Warning: Reference `autoapi/toolbox_scs/routines/XAS/index:module-toolbox _scs.routines.XAS' on page 139 undefined on input line 17700. LaTeX Warning: Reference `autoapi/toolbox_scs/test/index:module-toolbox_scs.tes t' on page 139 undefined on input line 17701. LaTeX Warning: Reference `autoapi/toolbox_scs/test/test_dssc_cls/index:module-t oolbox_scs.test.test_dssc_cls' on page 139 undefined on input line 17702. LaTeX Warning: Reference `autoapi/toolbox_scs/test/test_misc/index:module-toolb ox_scs.test.test_misc' on page 139 undefined on input line 17703. LaTeX Warning: Reference `autoapi/toolbox_scs/test/test_top_level/index:module- toolbox_scs.test.test_top_level' on page 139 undefined on input line 17704. LaTeX Warning: Reference `autoapi/toolbox_scs/test/test_utils/index:module-tool box_scs.test.test_utils' on page 139 undefined on input line 17705. LaTeX Warning: Reference `autoapi/toolbox_scs/util/index:module-toolbox_scs.uti l' on page 139 undefined on input line 17706. LaTeX Warning: Reference `autoapi/toolbox_scs/util/exceptions/index:module-tool box_scs.util.exceptions' on page 139 undefined on input line 17707. LaTeX Warning: Reference `autoapi/toolbox_scs/util/pkg/index:module-toolbox_scs .util.pkg' on page 139 undefined on input line 17708. [139] No file scs-toolbox.ind. Package longtable Warning: Table widths have changed. Rerun LaTeX. (./scs-toolbox.aux) Package rerunfilecheck Warning: File `scs-toolbox.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ec.enc}{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc}{ /usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc} Output written on scs-toolbox.pdf (143 pages, 583781 bytes). Transcript written on scs-toolbox.log. Latexmk: Index file 'scs-toolbox.idx' was written Latexmk: Missing input file: 'scs-toolbox.ind' from line 'No file scs-toolbox.ind.' Latexmk: References changed. Latexmk: References changed. Latexmk: Log file says output to 'scs-toolbox.pdf' Latexmk: List of undefined refs and citations: Reference `autoapi/toolbox_scs/base/index:module-toolbox_scs.base' on page 139 undefined on input line 17672 Reference `autoapi/toolbox_scs/base/knife_edge/index:module-toolbox_scs.base.knife_edge' on page 139 undefined on input line 17673 Reference `autoapi/toolbox_scs/base/tests/index:module-toolbox_scs.base.tests' on page 139 undefined on input line 17674 Reference `autoapi/toolbox_scs/base/tests/test_knife_edge/index:module-toolbox_scs.base.tests.test_knife_edge' on page 139 undefined on input line 17675 Reference `autoapi/toolbox_scs/constants/index:module-toolbox_scs.constants' on page 139 undefined on input line 17676 Reference `autoapi/toolbox_scs/detectors/azimuthal_integrator/index:module-toolbox_scs.detectors.azimuthal_integrator' on page 139 undefined on input line 17678 Reference `autoapi/toolbox_scs/detectors/bam_detectors/index:module-toolbox_scs.detectors.bam_detectors' on page 139 undefined on input line 17679 Reference `autoapi/toolbox_scs/detectors/digitizers/index:module-toolbox_scs.detectors.digitizers' on page 139 undefined on input line 17680 Reference `autoapi/toolbox_scs/detectors/dssc/index:module-toolbox_scs.detectors.dssc' on page 139 undefined on input line 17681 Reference `autoapi/toolbox_scs/detectors/dssc_data/index:module-toolbox_scs.detectors.dssc_data' on page 139 undefined on input line 17682 Reference `autoapi/toolbox_scs/detectors/dssc_misc/index:module-toolbox_scs.detectors.dssc_misc' on page 139 undefined on input line 17683 Reference `autoapi/toolbox_scs/detectors/dssc_plot/index:module-toolbox_scs.detectors.dssc_plot' on page 139 undefined on input line 17684 Reference `autoapi/toolbox_scs/detectors/dssc_processing/index:module-toolbox_scs.detectors.dssc_processing' on page 139 undefined on input line 17685 Reference `autoapi/toolbox_scs/detectors/fccd/index:module-toolbox_scs.detectors.fccd' on page 139 undefined on input line 17686 Reference `autoapi/toolbox_scs/detectors/hrixs/index:module-toolbox_scs.detectors.hrixs' on page 139 undefined on input line 17687 Reference `autoapi/toolbox_scs/detectors/index:module-toolbox_scs.detectors' on page 139 undefined on input line 17677 Reference `autoapi/toolbox_scs/detectors/pes/index:module-toolbox_scs.detectors.pes' on page 139 undefined on input line 17688 Reference `autoapi/toolbox_scs/detectors/xgm/index:module-toolbox_scs.detectors.xgm' on page 139 undefined on input line 17689 Reference `autoapi/toolbox_scs/index:module-toolbox_scs' on page 139 undefined on input line 17671 Reference `autoapi/toolbox_scs/load/index:module-toolbox_scs.load' on page 139 undefined on input line 17690 Reference `autoapi/toolbox_scs/misc/bunch_pattern/index:module-toolbox_scs.misc.bunch_pattern' on page 139 undefined on input line 17692 Reference `autoapi/toolbox_scs/misc/bunch_pattern_external/index:module-toolbox_scs.misc.bunch_pattern_external' on page 139 undefined on input line 17693 Reference `autoapi/toolbox_scs/misc/index:module-toolbox_scs.misc' on page 139 undefined on input line 17691 Reference `autoapi/toolbox_scs/misc/laser_utils/index:module-toolbox_scs.misc.laser_utils' on page 139 undefined on input line 17694 Reference `autoapi/toolbox_scs/mnemonics_machinery/index:module-toolbox_scs.mnemonics_machinery' on page 139 undefined on input line 17695 Reference `autoapi/toolbox_scs/routines/Reflectivity/index:module-toolbox_scs.routines.Reflectivity' on page 139 undefined on input line 17699 Reference `autoapi/toolbox_scs/routines/XAS/index:module-toolbox_scs.routines.XAS' on page 139 undefined on input line 17700 Reference `autoapi/toolbox_scs/routines/boz/index:module-toolbox_scs.routines.boz' on page 139 undefined on input line 17697 Reference `autoapi/toolbox_scs/routines/index:module-toolbox_scs.routines' on page 139 undefined on input line 17696 Reference `autoapi/toolbox_scs/routines/knife_edge/index:module-toolbox_scs.routines.knife_edge' on page 139 undefined on input line 17698 Reference `autoapi/toolbox_scs/test/index:module-toolbox_scs.test' on page 139 undefined on input line 17701 Reference `autoapi/toolbox_scs/test/test_dssc_cls/index:module-toolbox_scs.test.test_dssc_cls' on page 139 undefined on input line 17702 Reference `autoapi/toolbox_scs/test/test_misc/index:module-toolbox_scs.test.test_misc' on page 139 undefined on input line 17703 Reference `autoapi/toolbox_scs/test/test_top_level/index:module-toolbox_scs.test.test_top_level' on page 139 undefined on input line 17704 Reference `autoapi/toolbox_scs/test/test_utils/index:module-toolbox_scs.test.test_utils' on page 139 undefined on input line 17705 Reference `autoapi/toolbox_scs/util/exceptions/index:module-toolbox_scs.util.exceptions' on page 139 undefined on input line 17707 Reference `autoapi/toolbox_scs/util/index:module-toolbox_scs.util' on page 139 undefined on input line 17706 Reference `autoapi/toolbox_scs/util/pkg/index:module-toolbox_scs.util.pkg' on page 139 undefined on input line 17708 Latexmk: Summary of warnings: Latex failed to resolve 39 reference(s) Rule 'makeindex scs-toolbox.idx': File changes, etc: Non-existent destination files: 'scs-toolbox.ind' ------------ Run number 1 of rule 'makeindex scs-toolbox.idx' ------------ ------------ Running 'makeindex -s python.ist -o "scs-toolbox.ind" "scs-toolbox.idx"' ------------ Latexmk: applying rule 'makeindex scs-toolbox.idx'... This is makeindex, version 2.15 [TeX Live 2017] (kpathsea + Thai support). Scanning style file ./python.ist.......done (7 attributes redefined, 0 ignored). Scanning input file scs-toolbox.idx....done (536 entries accepted, 0 rejected). Sorting entries.......done (5271 comparisons). Generating output file scs-toolbox.ind....done (823 lines written, 0 warnings). Output written in scs-toolbox.ind. Transcript written in scs-toolbox.ilg. Rule 'pdflatex': File changes, etc: Changed files, or newly in use since previous run(s): 'scs-toolbox.aux' 'scs-toolbox.ind' ------------ Run number 2 of rule 'pdflatex' ------------ Latexmk: applying rule 'pdflatex'... ------------ Running 'pdflatex -interaction=nonstopmode -recorder --jobname="scs-toolbox" "SCSToolbox.tex"' ------------ This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./SCSToolbox.tex LaTeX2e <2017-04-15> Babel <3.18> and hyphenation patterns for 84 language(s) loaded. (./sphinxmanual.cls Document Class: sphinxmanual 2019/12/01 v2.3.0 Document class (Sphinx manual) (/usr/share/texlive/texmf-dist/tex/latex/base/report.cls Document Class: report 2014/09/29 v1.4h Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/ot1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/omsenc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/cmap/cmap.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)<>) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texlive/texmf-dist/tex/generic/babel/switch.def) (/usr/share/texlive/texmf-dist/tex/generic/babel-english/english.ldf (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.def (/usr/share/texlive/texmf-dist/tex/generic/babel/txtbabel.def)))) (/usr/share/texmf/tex/latex/tex-gyre/tgtermes.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvsetkeys.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/infwarerr.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/etexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifluatex.sty))))) (/usr/share/texmf/tex/latex/tex-gyre/tgheros.sty) (/usr/share/texlive/texmf-dist/tex/latex/fncychap/fncychap.sty) (./sphinx.sty (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (./sphinxoptionshyperref.sty) (./sphinxoptionsgeometry.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/float/float.sty) (/usr/share/texlive/texmf-dist/tex/latex/wrapfig/wrapfig.sty) (/usr/share/texlive/texmf-dist/tex/latex/capt-of/capt-of.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/multicol.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (./sphinxlatexgraphics.sty) (./sphinxpackageboxes.sty) (./sphinxlatexadmonitions.sty (/usr/share/texlive/texmf-dist/tex/latex/framed/framed.sty)) (./sphinxlatexliterals.sty (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty Style option: `fancyvrb' v2.7a, with DG/SPQR fixes, and firstline=lastline fix <2008/02/07> (tvz)) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty) (/usr/share/texlive/texmf-dist/tex/latex/needspace/needspace.sty)) (./sphinxlatexshadowbox.sty) (./sphinxlatexcontainers.sty) (./sphinxhighlight.sty) (./sphinxlatextables.sty (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/varwidth/varwidth.sty) (/usr/share/texlive/texmf-dist/tex/latex/colortbl/colortbl.sty)) (./sphinxlatexnumfig.sty (/usr/share/texlive/texmf-dist/tex/latex/carlisle/remreset.sty)) (./sphinxlatexlists.sty) (./sphinxpackagefootnote.sty) (./sphinxlatexindbibtoc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty)) (./sphinxlatexstylepage.sty (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty)) (./sphinxlatexstyleheadings.sty (/usr/share/texlive/texmf-dist/tex/latex/titlesec/titlesec.sty)) (./sphinxlatexstyletext.sty) (./sphinxlatexobjects.sty)) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifpdf.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifvtex.sty) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hypcap.sty) (./sphinxmessages.sty) Writing index file scs-toolbox.idx (./scs-toolbox.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texmf/tex/latex/tex-gyre/t1qtm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./scs-toolbox.out) (./scs-toolbox.out) (/usr/share/texmf/tex/latex/tex-gyre/t1qhv.fd)<><><><> (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [2] (./scs-toolbox.toc) [1] [2] Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/txfonts/t1txtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) [1] [2] Chapter 2. [3 <./metadata.png>] [4] Chapter 3. [5] [6] Chapter 4. (/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , [22] [23] [24] [25] [26] [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 3112--3112 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 3112--3112 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, [29] [30] [31] Underfull \hbox (badness 5817) in paragraph at lines 3363--3363 []|[][]\T1/txtt/m/sl/10 plot_xgm_threshold[][]\T1/qtm/m/n/10 (xgm[, xgm_min, xg m_max, Underfull \hbox (badness 5817) in paragraph at lines 3363--3363 []|[][]\T1/txtt/m/sl/10 plot_xgm_threshold[][]\T1/qtm/m/n/10 (xgm[, xgm_min, xg m_max, Underfull \hbox (badness 10000) in paragraph at lines 3435--3435 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 3435--3435 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 3945--3945 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- Underfull \hbox (badness 10000) in paragraph at lines 3945--3945 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- [35] [36] [37] [38] Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- [39] [40] Overfull \vbox (66.56737pt too high) has occurred while \output is active [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] Underfull \hbox (badness 10000) in paragraph at lines 6694--6694 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 6694--6694 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, [57] Underfull \hbox (badness 10000) in paragraph at lines 7009--7009 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 7009--7009 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, [58] [59] [60] [61] [62] [63] [64] Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 10000) in paragraph at lines 9333--9335 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 9361--9363 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 9487--9489 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 5970) in paragraph at lines 12531--12534 []\T1/txtt/bx/n/10 extract_bam \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 bool\T1/qtm/m/n /10 ) ^^U If True, ex-tracts the val-ues from BAM vari-ables (e.g. [98] [99] [100] [101] Underfull \hbox (badness 10000) in paragraph at lines 13041--13043 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 13048--13050 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 13125--13127 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 13153--13155 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 13198--13201 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- [102] Underfull \hbox (badness 10000) in paragraph at lines 13356--13358 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 13419--13421 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 13447--13449 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 13573--13575 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 5970) in paragraph at lines 15566--15569 []\T1/txtt/bx/n/10 extract_bam \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 bool\T1/qtm/m/n /10 ) ^^U If True, ex-tracts the val-ues from BAM vari-ables (e.g. [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] Chapter 5. [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 17678--17679 []\T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , [139] (./scs-toolbox.ind [140] Overfull \hbox (82.43233pt too wide) in paragraph at lines 18--20 []\T1/txtt/m/n/10 __call__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/txtt/m/n/10 __del__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 24--26 []\T1/txtt/m/n/10 __del__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 27--29 []\T1/txtt/m/n/10 __str__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.boz.parameters Underfull \hbox (badness 5519) in paragraph at lines 29--30 []\T1/txtt/m/n/10 __str__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 31--33 []\T1/txtt/m/n/10 _bin_metadata() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. detectors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 33--35 []\T1/txtt/m/n/10 _bin_metadata() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 33--35 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 37--39 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 37--39 \T1/qtm/m/it/10 box_scs.AzimuthalIntegratorDSSC method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 39--41 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 39--41 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 41--43 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 41--43 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegratorDSSC Underfull \hbox (badness 10000) in paragraph at lines 43--45 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (49.47249pt too wide) in paragraph at lines 43--45 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 45--47 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (73.36249pt too wide) in paragraph at lines 45--47 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegratorDSSC Underfull \hbox (badness 10000) in paragraph at lines 47--49 []\T1/txtt/m/n/10 _calc_indices() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 49--51 []\T1/txtt/m/n/10 _calc_indices() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 49--51 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 51--53 []\T1/txtt/m/n/10 _calc_indices() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (49.47249pt too wide) in paragraph at lines 51--53 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 55--57 []\T1/txtt/m/n/10 _calc_polar_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 55--57 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 57--59 []\T1/txtt/m/n/10 _calc_polar_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (49.47249pt too wide) in paragraph at lines 57--59 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 61--63 []\T1/txtt/m/n/10 _with_values() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 10000) in paragraph at lines 66--68 []\T1/txtt/m/n/10 add_attributes() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 66--68 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 68--70 []\T1/txtt/m/n/10 add_attributes() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 68--70 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 70--71 []\T1/txtt/m/n/10 add_attributes() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 73--74 []\T1/txtt/m/n/10 add_binner() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 75--77 []\T1/txtt/m/n/10 add_dataArray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 75--77 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter [141] Underfull \hbox (badness 10000) in paragraph at lines 77--79 []\T1/txtt/m/n/10 add_dataArray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 77--79 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 79--80 []\T1/txtt/m/n/10 add_dataArray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 82--84 []\T1/txtt/m/n/10 align_ol_to_fel_pId() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 86--87 []\T1/txtt/m/n/10 average_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 91--93 []\T1/txtt/m/n/10 AzimuthalIntegrator \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in tool- Underfull \hbox (badness 10000) in paragraph at lines 91--93 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 94--96 []\T1/txtt/m/n/10 AzimuthalIntegratorDSSC \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in tool- Underfull \hbox (badness 10000) in paragraph at lines 96--98 []\T1/txtt/m/n/10 AzimuthalIntegratorDSSC \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in tool- Underfull \hbox (badness 10000) in paragraph at lines 96--98 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 104--105 []\T1/txtt/m/n/10 binning() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 108--109 []\T1/txtt/m/n/10 calc_q() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.Azimuth alIntegrator method\T1/qtm/m/n/10 ), Overfull \hbox (71.93236pt too wide) in paragraph at lines 109--111 []\T1/txtt/m/n/10 calc_q() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detecto rs.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 111--113 []\T1/txtt/m/n/10 calc_q() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detecto rs.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 118--119 []\T1/txtt/m/n/10 calibrate_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Underfull \hbox (badness 10000) in paragraph at lines 120--121 []\T1/txtt/m/n/10 check_peak_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 121--123 []\T1/txtt/m/n/10 check_peak_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 123--125 []\T1/txtt/m/n/10 cleanup_tmp_dir() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 125--127 []\T1/txtt/m/n/10 collect_fastccd_file() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 125--127 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 127--129 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 127--129 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 129--131 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 129--131 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 131--132 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 141--142 []\T1/txtt/m/n/10 correct_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 142--144 []\T1/txtt/m/n/10 correct_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 145--146 []\T1/txtt/m/n/10 create_dssc_bins() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 146--148 []\T1/txtt/m/n/10 create_dssc_bins() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 148--150 []\T1/txtt/m/n/10 create_pulsemask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 148--150 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 150--152 []\T1/txtt/m/n/10 create_pulsemask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 150--152 \T1/qtm/m/it/10 box_scs.detectors.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 152--153 []\T1/txtt/m/n/10 create_pulsemask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_s cs.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 158--160 []\T1/txtt/m/n/10 dask_load_persistently() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool - Underfull \hbox (badness 10000) in paragraph at lines 158--160 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 160--162 []\T1/txtt/m/n/10 dask_load_persistently() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool - Underfull \hbox (badness 10000) in paragraph at lines 162--164 []\T1/txtt/m/n/10 define_scan() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.de tectors.fccd.FastCCD [142] Underfull \hbox (badness 10000) in paragraph at lines 166--168 []\T1/txtt/m/n/10 degToRelPower() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Underfull \hbox (badness 10000) in paragraph at lines 170--172 []\T1/txtt/m/n/10 delayToPosition() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 188--189 []\T1/txtt/m/n/10 energy_calibration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 189--191 []\T1/txtt/m/n/10 energy_calibration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 193--195 []\T1/txtt/m/n/10 extractBunchPattern() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 201--202 []\T1/txtt/m/n/10 ff_refine_crit() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 207--209 []\T1/txtt/m/n/10 find_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 213--215 []\T1/txtt/m/n/10 find_rois_from_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 215--217 []\T1/txtt/m/n/10 find_rois_from_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 219--220 []\T1/txtt/m/n/10 flat_field_guess() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_s cs.parameters Underfull \hbox (badness 10000) in paragraph at lines 220--222 []\T1/txtt/m/n/10 flat_field_guess() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 220--222 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 226--228 []\T1/txtt/m/n/10 fluenceCalibration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 233--234 []\T1/txtt/m/n/10 gaussian_fit() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 10000) in paragraph at lines 238--240 []\T1/txtt/m/n/10 get_bam() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 242--244 []\T1/txtt/m/n/10 get_bam_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 245--247 []\T1/txtt/m/n/10 get_data_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 247--249 []\T1/txtt/m/n/10 get_data_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 250--252 []\T1/txtt/m/n/10 get_dig_avg_trace() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 252--254 []\T1/txtt/m/n/10 get_dig_avg_trace() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 255--257 []\T1/txtt/m/n/10 get_digitizer_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 257--259 []\T1/txtt/m/n/10 get_digitizer_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 260--262 []\T1/txtt/m/n/10 get_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 260--262 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), [143] Underfull \hbox (badness 10000) in paragraph at lines 262--264 []\T1/txtt/m/n/10 get_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .routines.parameters Underfull \hbox (badness 10000) in paragraph at lines 265--266 []\T1/txtt/m/n/10 get_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.boz.parameters Underfull \hbox (badness 5519) in paragraph at lines 266--267 []\T1/txtt/m/n/10 get_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 267--269 []\T1/txtt/m/n/10 get_info() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 269--270 []\T1/txtt/m/n/10 get_info() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 273--275 []\T1/txtt/m/n/10 get_laser_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 276--278 []\T1/txtt/m/n/10 get_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routi nes.boz.parameters Underfull \hbox (badness 6220) in paragraph at lines 280--282 []\T1/txtt/m/n/10 get_mask_idx() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.r outines.boz.parameters Underfull \hbox (badness 10000) in paragraph at lines 282--284 []\T1/txtt/m/n/10 get_mask_idx() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.r outines.parameters Underfull \hbox (badness 10000) in paragraph at lines 286--288 []\T1/txtt/m/n/10 get_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 290--292 []\T1/txtt/m/n/10 get_pes_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 296--297 []\T1/txtt/m/n/10 get_roi_pixel_pos() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 297--299 []\T1/txtt/m/n/10 get_roi_pixel_pos() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 301--302 []\T1/txtt/m/n/10 get_spectrum() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 10000) in paragraph at lines 302--304 []\T1/txtt/m/n/10 get_tim_binned() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 302--304 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 309--311 []\T1/txtt/m/n/10 get_tim_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Underfull \hbox (badness 10000) in paragraph at lines 315--317 []\T1/txtt/m/n/10 get_xgm_binned() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 315--317 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 321--322 []\T1/txtt/m/n/10 get_xgm_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 322--324 []\T1/txtt/m/n/10 get_xgm_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 329--331 []\T1/txtt/m/n/10 histogram_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 335--336 []\T1/txtt/m/n/10 inspect_correction() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 336--338 []\T1/txtt/m/n/10 inspect_correction() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 341--342 []\T1/txtt/m/n/10 inspect_flat_field_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 342--344 []\T1/txtt/m/n/10 inspect_flat_field_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 344--346 []\T1/txtt/m/n/10 inspect_flat_field_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 350--351 []\T1/txtt/m/n/10 inspect_histogram() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 351--353 []\T1/txtt/m/n/10 inspect_histogram() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- [144] Underfull \hbox (badness 10000) in paragraph at lines 355--356 []\T1/txtt/m/n/10 inspect_nl_fit() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 357--359 []\T1/txtt/m/n/10 inspect_plane_fitting() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 359--361 []\T1/txtt/m/n/10 inspect_plane_fitting() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 365--366 []\T1/txtt/m/n/10 inspect_saturation() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 366--368 []\T1/txtt/m/n/10 inspect_saturation() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 370--372 []\T1/txtt/m/n/10 is_ppl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 374--376 []\T1/txtt/m/n/10 is_pulse_at() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 378--380 []\T1/txtt/m/n/10 is_sase_1() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 382--384 []\T1/txtt/m/n/10 is_sase_3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 391--393 []\T1/txtt/m/n/10 knife_edge() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 394--396 []\T1/txtt/m/n/10 knife_edge_base() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 399--401 []\T1/txtt/m/n/10 list_suites() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 402--404 []\T1/txtt/m/n/10 list_suites() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 408--410 []\T1/txtt/m/n/10 load() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routines. boz.parameters class Underfull \hbox (badness 10000) in paragraph at lines 411--413 []\T1/txtt/m/n/10 load_binned() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.de tectors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 415--417 []\T1/txtt/m/n/10 load_dssc_info() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 419--421 []\T1/txtt/m/n/10 load_dssc_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 421--423 []\T1/txtt/m/n/10 load_gain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 425--427 []\T1/txtt/m/n/10 load_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 427--429 []\T1/txtt/m/n/10 load_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 431--433 []\T1/txtt/m/n/10 load_tim() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 433--434 []\T1/txtt/m/n/10 load_tim() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 437--439 []\T1/txtt/m/n/10 load_xarray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 439--441 []\T1/txtt/m/n/10 load_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 441--442 []\T1/txtt/m/n/10 load_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner [145] Underfull \hbox (badness 10000) in paragraph at lines 454--456 []\T1/txtt/m/n/10 mnemonics_for_run() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 461--462 []| \T1/txtt/m/n/10 toolbox_scs.base.tests.test_knife_edge\T1/qtm/m/n/10 , Overfull \hbox (13.12186pt too wide) in paragraph at lines 464--465 []| \T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 479--480 []| \T1/txtt/m/n/10 toolbox_scs.misc.bunch_pattern_external\T1/qtm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 515--516 []\T1/txtt/m/n/10 open_run() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 530--532 []\T1/txtt/m/n/10 plane_fitting_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 532--534 []\T1/txtt/m/n/10 plane_fitting_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 534--536 []\T1/txtt/m/n/10 plot_azimuthal_int() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 534--536 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 536--538 []\T1/txtt/m/n/10 plot_azimuthal_line_cut() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 too l- Underfull \hbox (badness 10000) in paragraph at lines 536--538 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 538--540 []\T1/txtt/m/n/10 plot_binner() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 540--542 []\T1/txtt/m/n/10 plot_binner_hist() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 542--544 []\T1/txtt/m/n/10 plot_FastCCD() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 544--546 []\T1/txtt/m/n/10 plot_hist_processed() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 546--548 []\T1/txtt/m/n/10 plot_scan() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 550--552 []\T1/txtt/m/n/10 plot_xgm_threshold() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- [146] Underfull \hbox (badness 10000) in paragraph at lines 554--556 []\T1/txtt/m/n/10 positionToDelay() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 559--561 []\T1/txtt/m/n/10 process_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 559--561 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 561--563 []\T1/txtt/m/n/10 process_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 563--564 []\T1/txtt/m/n/10 process_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.D SSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 565--566 []\T1/txtt/m/n/10 process_dssc_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 566--568 []\T1/txtt/m/n/10 process_dssc_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 570--571 []\T1/txtt/m/n/10 process_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 571--573 []\T1/txtt/m/n/10 process_one_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 576--578 []\T1/txtt/m/n/10 pulsePatternInfo() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 582--584 []\T1/txtt/m/n/10 quickmask_DSSC_ASIC() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 584--586 []\T1/txtt/m/n/10 quickmask_DSSC_ASIC() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 591--593 []\T1/txtt/m/n/10 reflectivity() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 6188) in paragraph at lines 602--603 []\T1/txtt/m/n/10 save() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detectors .fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 607--609 []\T1/txtt/m/n/10 save_attributes_h5() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 609--611 []\T1/txtt/m/n/10 save_attributes_h5() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 611--613 []\T1/txtt/m/n/10 save_formatted_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 611--613 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 613--615 []\T1/txtt/m/n/10 save_formatted_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 613--615 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 619--621 []\T1/txtt/m/n/10 save_xarray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 622--624 []\T1/txtt/m/n/10 set_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 622--624 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 624--626 []\T1/txtt/m/n/10 set_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .routines.parameters Underfull \hbox (badness 10000) in paragraph at lines 627--628 []\T1/txtt/m/n/10 set_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.boz.parameters Underfull \hbox (badness 5519) in paragraph at lines 628--629 []\T1/txtt/m/n/10 set_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 630--632 []\T1/txtt/m/n/10 set_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routi nes.boz.parameters Underfull \hbox (badness 10000) in paragraph at lines 633--635 []\T1/txtt/m/n/10 setUp() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test.tes t_misc.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 635--637 []\T1/txtt/m/n/10 setUp() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test.tes t_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 637--639 []\T1/txtt/m/n/10 setUp() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test.tes t_utils.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 639--641 []\T1/txtt/m/n/10 setup_tmp_dir() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Overfull \hbox (5.7323pt too wide) in paragraph at lines 643--645 []\T1/txtt/m/n/10 setUpClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_misc.TestDataAccess Overfull \hbox (8.28223pt too wide) in paragraph at lines 645--647 []\T1/txtt/m/n/10 setUpClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_top_level.TestToolbox Overfull \hbox (4.6323pt too wide) in paragraph at lines 647--649 []\T1/txtt/m/n/10 setUpClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_utils.TestDataAccess [147] Underfull \hbox (badness 6526) in paragraph at lines 668--670 []\T1/txtt/m/n/10 tearDown() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test. test_utils.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 670--672 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 670--672 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC class Underfull \hbox (badness 10000) in paragraph at lines 672--674 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 672--674 \T1/qtm/m/it/10 box_scs.test.test_misc.TestDataAccess class Underfull \hbox (badness 10000) in paragraph at lines 674--676 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 674--676 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox class Underfull \hbox (badness 10000) in paragraph at lines 676--678 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 676--678 \T1/qtm/m/it/10 box_scs.test.test_utils.TestDataAccess class Underfull \hbox (badness 10000) in paragraph at lines 678--680 []\T1/txtt/m/n/10 test_constant() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 678--680 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Overfull \hbox (2.86227pt too wide) in paragraph at lines 680--682 []\T1/txtt/m/n/10 test_create() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.te st.test_dssc_cls.TestDSSC Underfull \hbox (badness 10000) in paragraph at lines 682--684 []\T1/txtt/m/n/10 test_extractBunchPattern() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 to ol- Overfull \hbox (5.7323pt too wide) in paragraph at lines 684--686 []\T1/txtt/m/n/10 test_isppl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_misc.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 686--688 []\T1/txtt/m/n/10 test_issase1() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 688--690 []\T1/txtt/m/n/10 test_issase3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 690--692 []\T1/txtt/m/n/10 test_knife_edge_base() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Overfull \hbox (3.03224pt too wide) in paragraph at lines 692--694 []\T1/txtt/m/n/10 test_load() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test .test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 694--696 []\T1/txtt/m/n/10 test_loadbinnedarray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 694--696 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 696--698 []\T1/txtt/m/n/10 test_normalization_all() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool - Underfull \hbox (badness 10000) in paragraph at lines 696--698 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 698--700 []\T1/txtt/m/n/10 test_openrun() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 698--700 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 700--702 []\T1/txtt/m/n/10 test_openrunpath() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 700--702 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 702--704 []\T1/txtt/m/n/10 test_prepare_arrays_nans() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 704--706 []\T1/txtt/m/n/10 test_prepare_arrays_range() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 706--708 []\T1/txtt/m/n/10 test_prepare_arrays_size() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 708--710 []\T1/txtt/m/n/10 test_processing_quick() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 708--710 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 710--712 []\T1/txtt/m/n/10 test_pulsePatternInfo() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 712--714 []\T1/txtt/m/n/10 test_range_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 714--716 []\T1/txtt/m/n/10 test_rundir1() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 716--718 []\T1/txtt/m/n/10 test_rundir2() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 718--720 []\T1/txtt/m/n/10 test_rundir3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 720--722 []\T1/txtt/m/n/10 test_use_xgm_tim() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 720--722 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), [148] Underfull \hbox (badness 10000) in paragraph at lines 820--822 []\T1/txtt/m/n/10 xgm_filter() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.fccd.FastCCD [149]) (./scs-toolbox.aux) Package rerunfilecheck Warning: File `scs-toolbox.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ec.enc}{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc}{ /usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc} Output written on scs-toolbox.pdf (153 pages, 651944 bytes). Transcript written on scs-toolbox.log. Latexmk: Index file 'scs-toolbox.idx' was written Latexmk: References changed. Latexmk: Log file says output to 'scs-toolbox.pdf' Rule 'pdflatex': File changes, etc: Changed files, or newly in use since previous run(s): 'scs-toolbox.aux' 'scs-toolbox.out' 'scs-toolbox.toc' ------------ Run number 3 of rule 'pdflatex' ------------ ------------ Running 'pdflatex -interaction=nonstopmode -recorder --jobname="scs-toolbox" "SCSToolbox.tex"' ------------ Latexmk: applying rule 'pdflatex'... This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./SCSToolbox.tex LaTeX2e <2017-04-15> Babel <3.18> and hyphenation patterns for 84 language(s) loaded. (./sphinxmanual.cls Document Class: sphinxmanual 2019/12/01 v2.3.0 Document class (Sphinx manual) (/usr/share/texlive/texmf-dist/tex/latex/base/report.cls Document Class: report 2014/09/29 v1.4h Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/ot1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/omsenc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/cmap/cmap.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)<>) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texlive/texmf-dist/tex/generic/babel/switch.def) (/usr/share/texlive/texmf-dist/tex/generic/babel-english/english.ldf (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.def (/usr/share/texlive/texmf-dist/tex/generic/babel/txtbabel.def)))) (/usr/share/texmf/tex/latex/tex-gyre/tgtermes.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvsetkeys.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/infwarerr.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/etexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifluatex.sty))))) (/usr/share/texmf/tex/latex/tex-gyre/tgheros.sty) (/usr/share/texlive/texmf-dist/tex/latex/fncychap/fncychap.sty) (./sphinx.sty (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (./sphinxoptionshyperref.sty) (./sphinxoptionsgeometry.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/float/float.sty) (/usr/share/texlive/texmf-dist/tex/latex/wrapfig/wrapfig.sty) (/usr/share/texlive/texmf-dist/tex/latex/capt-of/capt-of.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/multicol.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (./sphinxlatexgraphics.sty) (./sphinxpackageboxes.sty) (./sphinxlatexadmonitions.sty (/usr/share/texlive/texmf-dist/tex/latex/framed/framed.sty)) (./sphinxlatexliterals.sty (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty Style option: `fancyvrb' v2.7a, with DG/SPQR fixes, and firstline=lastline fix <2008/02/07> (tvz)) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty) (/usr/share/texlive/texmf-dist/tex/latex/needspace/needspace.sty)) (./sphinxlatexshadowbox.sty) (./sphinxlatexcontainers.sty) (./sphinxhighlight.sty) (./sphinxlatextables.sty (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/varwidth/varwidth.sty) (/usr/share/texlive/texmf-dist/tex/latex/colortbl/colortbl.sty)) (./sphinxlatexnumfig.sty (/usr/share/texlive/texmf-dist/tex/latex/carlisle/remreset.sty)) (./sphinxlatexlists.sty) (./sphinxpackagefootnote.sty) (./sphinxlatexindbibtoc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty)) (./sphinxlatexstylepage.sty (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty)) (./sphinxlatexstyleheadings.sty (/usr/share/texlive/texmf-dist/tex/latex/titlesec/titlesec.sty)) (./sphinxlatexstyletext.sty) (./sphinxlatexobjects.sty)) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifpdf.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ifvtex.sty) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hypcap.sty) (./sphinxmessages.sty) Writing index file scs-toolbox.idx (./scs-toolbox.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texmf/tex/latex/tex-gyre/t1qtm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./scs-toolbox.out) (./scs-toolbox.out) (/usr/share/texmf/tex/latex/tex-gyre/t1qhv.fd)<><><><> (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [2] (./scs-toolbox.toc) [1] [2] Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/txfonts/t1txtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) [1] [2] Chapter 2. [3 <./metadata.png>] [4] Chapter 3. [5] [6] Chapter 4. (/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 2057--2057 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , [22] [23] [24] [25] [26] [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 3112--3112 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 3112--3112 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, [29] [30] [31] Underfull \hbox (badness 5817) in paragraph at lines 3363--3363 []|[][]\T1/txtt/m/sl/10 plot_xgm_threshold[][]\T1/qtm/m/n/10 (xgm[, xgm_min, xg m_max, Underfull \hbox (badness 5817) in paragraph at lines 3363--3363 []|[][]\T1/txtt/m/sl/10 plot_xgm_threshold[][]\T1/qtm/m/n/10 (xgm[, xgm_min, xg m_max, Underfull \hbox (badness 10000) in paragraph at lines 3435--3435 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 3435--3435 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 3945--3945 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- Underfull \hbox (badness 10000) in paragraph at lines 3945--3945 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- [35] [36] [37] [38] Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 4618--4618 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- [39] [40] Overfull \vbox (66.56737pt too high) has occurred while \output is active [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] Underfull \hbox (badness 10000) in paragraph at lines 6694--6694 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 6694--6694 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, [57] Underfull \hbox (badness 10000) in paragraph at lines 7009--7009 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 7009--7009 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, [58] [59] [60] [61] [62] [63] [64] Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 7979--7979 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 10000) in paragraph at lines 9333--9335 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 9361--9363 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 9487--9489 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 5970) in paragraph at lines 12531--12534 []\T1/txtt/bx/n/10 extract_bam \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 bool\T1/qtm/m/n /10 ) ^^U If True, ex-tracts the val-ues from BAM vari-ables (e.g. [98] [99] [100] [101] Underfull \hbox (badness 10000) in paragraph at lines 13041--13043 []|[][]\T1/txtt/m/sl/10 check_peak_params[][]\T1/qtm/m/n/10 (run, mnemonic[, ra w_trace, Underfull \hbox (badness 10000) in paragraph at lines 13048--13050 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 13125--13127 []|[][]\T1/txtt/m/sl/10 get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, Underfull \hbox (badness 10000) in paragraph at lines 13153--13155 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, Underfull \hbox (badness 10000) in paragraph at lines 13198--13201 []|\T1/qtm/m/n/10 Centre-of-mass and width. Lifted from im- [102] Underfull \hbox (badness 10000) in paragraph at lines 13356--13358 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 13419--13421 []|[][]\T1/txtt/m/sl/10 inspect_histogram[][]\T1/qtm/m/n/10 (arr[, arr_dark, ma sk, ex- Underfull \hbox (badness 10000) in paragraph at lines 13447--13449 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 13573--13575 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 5970) in paragraph at lines 15566--15569 []\T1/txtt/bx/n/10 extract_bam \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 bool\T1/qtm/m/n /10 ) ^^U If True, ex-tracts the val-ues from BAM vari-ables (e.g. [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] Chapter 5. [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 17678--17679 []\T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , [139] (./scs-toolbox.ind [140] Overfull \hbox (82.43233pt too wide) in paragraph at lines 18--20 []\T1/txtt/m/n/10 __call__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/txtt/m/n/10 __del__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 24--26 []\T1/txtt/m/n/10 __del__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 27--29 []\T1/txtt/m/n/10 __str__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.boz.parameters Underfull \hbox (badness 5519) in paragraph at lines 29--30 []\T1/txtt/m/n/10 __str__() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 31--33 []\T1/txtt/m/n/10 _bin_metadata() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. detectors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 33--35 []\T1/txtt/m/n/10 _bin_metadata() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 33--35 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 37--39 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 37--39 \T1/qtm/m/it/10 box_scs.AzimuthalIntegratorDSSC method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 39--41 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 39--41 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 41--43 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 41--43 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegratorDSSC Underfull \hbox (badness 10000) in paragraph at lines 43--45 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (49.47249pt too wide) in paragraph at lines 43--45 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 45--47 []\T1/txtt/m/n/10 _calc_dist_array() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (73.36249pt too wide) in paragraph at lines 45--47 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegratorDSSC Underfull \hbox (badness 10000) in paragraph at lines 47--49 []\T1/txtt/m/n/10 _calc_indices() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 49--51 []\T1/txtt/m/n/10 _calc_indices() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 49--51 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 51--53 []\T1/txtt/m/n/10 _calc_indices() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (49.47249pt too wide) in paragraph at lines 51--53 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 55--57 []\T1/txtt/m/n/10 _calc_polar_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 55--57 \T1/qtm/m/it/10 box_scs.detectors.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 57--59 []\T1/txtt/m/n/10 _calc_polar_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Overfull \hbox (49.47249pt too wide) in paragraph at lines 57--59 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 61--63 []\T1/txtt/m/n/10 _with_values() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 10000) in paragraph at lines 66--68 []\T1/txtt/m/n/10 add_attributes() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 66--68 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 68--70 []\T1/txtt/m/n/10 add_attributes() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 68--70 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 70--71 []\T1/txtt/m/n/10 add_attributes() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 73--74 []\T1/txtt/m/n/10 add_binner() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 75--77 []\T1/txtt/m/n/10 add_dataArray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 75--77 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter [141] Underfull \hbox (badness 10000) in paragraph at lines 77--79 []\T1/txtt/m/n/10 add_dataArray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 77--79 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 79--80 []\T1/txtt/m/n/10 add_dataArray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 82--84 []\T1/txtt/m/n/10 align_ol_to_fel_pId() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 86--87 []\T1/txtt/m/n/10 average_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 91--93 []\T1/txtt/m/n/10 AzimuthalIntegrator \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in tool- Underfull \hbox (badness 10000) in paragraph at lines 91--93 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 94--96 []\T1/txtt/m/n/10 AzimuthalIntegratorDSSC \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in tool- Underfull \hbox (badness 10000) in paragraph at lines 96--98 []\T1/txtt/m/n/10 AzimuthalIntegratorDSSC \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in tool- Underfull \hbox (badness 10000) in paragraph at lines 96--98 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 104--105 []\T1/txtt/m/n/10 binning() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 108--109 []\T1/txtt/m/n/10 calc_q() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.Azimuth alIntegrator method\T1/qtm/m/n/10 ), Overfull \hbox (71.93236pt too wide) in paragraph at lines 109--111 []\T1/txtt/m/n/10 calc_q() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detecto rs.azimuthal_integrator.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 111--113 []\T1/txtt/m/n/10 calc_q() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detecto rs.AzimuthalIntegrator Underfull \hbox (badness 10000) in paragraph at lines 118--119 []\T1/txtt/m/n/10 calibrate_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Underfull \hbox (badness 10000) in paragraph at lines 120--121 []\T1/txtt/m/n/10 check_peak_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 121--123 []\T1/txtt/m/n/10 check_peak_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 123--125 []\T1/txtt/m/n/10 cleanup_tmp_dir() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 125--127 []\T1/txtt/m/n/10 collect_fastccd_file() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 125--127 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 127--129 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 127--129 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 129--131 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 129--131 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 131--132 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 141--142 []\T1/txtt/m/n/10 correct_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 142--144 []\T1/txtt/m/n/10 correct_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 145--146 []\T1/txtt/m/n/10 create_dssc_bins() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 146--148 []\T1/txtt/m/n/10 create_dssc_bins() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 148--150 []\T1/txtt/m/n/10 create_pulsemask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 148--150 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 150--152 []\T1/txtt/m/n/10 create_pulsemask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 150--152 \T1/qtm/m/it/10 box_scs.detectors.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 152--153 []\T1/txtt/m/n/10 create_pulsemask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_s cs.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 158--160 []\T1/txtt/m/n/10 dask_load_persistently() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool - Underfull \hbox (badness 10000) in paragraph at lines 158--160 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 160--162 []\T1/txtt/m/n/10 dask_load_persistently() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool - Underfull \hbox (badness 10000) in paragraph at lines 162--164 []\T1/txtt/m/n/10 define_scan() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.de tectors.fccd.FastCCD [142] Underfull \hbox (badness 10000) in paragraph at lines 166--168 []\T1/txtt/m/n/10 degToRelPower() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Underfull \hbox (badness 10000) in paragraph at lines 170--172 []\T1/txtt/m/n/10 delayToPosition() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 188--189 []\T1/txtt/m/n/10 energy_calibration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 189--191 []\T1/txtt/m/n/10 energy_calibration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 193--195 []\T1/txtt/m/n/10 extractBunchPattern() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 201--202 []\T1/txtt/m/n/10 ff_refine_crit() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 207--209 []\T1/txtt/m/n/10 find_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 213--215 []\T1/txtt/m/n/10 find_rois_from_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 215--217 []\T1/txtt/m/n/10 find_rois_from_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 219--220 []\T1/txtt/m/n/10 flat_field_guess() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_s cs.parameters Underfull \hbox (badness 10000) in paragraph at lines 220--222 []\T1/txtt/m/n/10 flat_field_guess() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 220--222 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 226--228 []\T1/txtt/m/n/10 fluenceCalibration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 233--234 []\T1/txtt/m/n/10 gaussian_fit() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 10000) in paragraph at lines 238--240 []\T1/txtt/m/n/10 get_bam() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 242--244 []\T1/txtt/m/n/10 get_bam_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 245--247 []\T1/txtt/m/n/10 get_data_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 247--249 []\T1/txtt/m/n/10 get_data_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 250--252 []\T1/txtt/m/n/10 get_dig_avg_trace() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 252--254 []\T1/txtt/m/n/10 get_dig_avg_trace() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 255--257 []\T1/txtt/m/n/10 get_digitizer_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 257--259 []\T1/txtt/m/n/10 get_digitizer_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 260--262 []\T1/txtt/m/n/10 get_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 260--262 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), [143] Underfull \hbox (badness 10000) in paragraph at lines 262--264 []\T1/txtt/m/n/10 get_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .routines.parameters Underfull \hbox (badness 10000) in paragraph at lines 265--266 []\T1/txtt/m/n/10 get_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.boz.parameters Underfull \hbox (badness 5519) in paragraph at lines 266--267 []\T1/txtt/m/n/10 get_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 267--269 []\T1/txtt/m/n/10 get_info() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 269--270 []\T1/txtt/m/n/10 get_info() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 273--275 []\T1/txtt/m/n/10 get_laser_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 276--278 []\T1/txtt/m/n/10 get_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routi nes.boz.parameters Underfull \hbox (badness 6220) in paragraph at lines 280--282 []\T1/txtt/m/n/10 get_mask_idx() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.r outines.boz.parameters Underfull \hbox (badness 10000) in paragraph at lines 282--284 []\T1/txtt/m/n/10 get_mask_idx() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.r outines.parameters Underfull \hbox (badness 10000) in paragraph at lines 286--288 []\T1/txtt/m/n/10 get_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 290--292 []\T1/txtt/m/n/10 get_pes_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 296--297 []\T1/txtt/m/n/10 get_roi_pixel_pos() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 297--299 []\T1/txtt/m/n/10 get_roi_pixel_pos() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 301--302 []\T1/txtt/m/n/10 get_spectrum() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 10000) in paragraph at lines 302--304 []\T1/txtt/m/n/10 get_tim_binned() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 302--304 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 309--311 []\T1/txtt/m/n/10 get_tim_peaks() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Underfull \hbox (badness 10000) in paragraph at lines 315--317 []\T1/txtt/m/n/10 get_xgm_binned() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 315--317 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 321--322 []\T1/txtt/m/n/10 get_xgm_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 322--324 []\T1/txtt/m/n/10 get_xgm_formatted() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 329--331 []\T1/txtt/m/n/10 histogram_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 335--336 []\T1/txtt/m/n/10 inspect_correction() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 336--338 []\T1/txtt/m/n/10 inspect_correction() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 341--342 []\T1/txtt/m/n/10 inspect_flat_field_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 342--344 []\T1/txtt/m/n/10 inspect_flat_field_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 344--346 []\T1/txtt/m/n/10 inspect_flat_field_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 350--351 []\T1/txtt/m/n/10 inspect_histogram() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 351--353 []\T1/txtt/m/n/10 inspect_histogram() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- [144] Underfull \hbox (badness 10000) in paragraph at lines 355--356 []\T1/txtt/m/n/10 inspect_nl_fit() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 357--359 []\T1/txtt/m/n/10 inspect_plane_fitting() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 359--361 []\T1/txtt/m/n/10 inspect_plane_fitting() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 365--366 []\T1/txtt/m/n/10 inspect_saturation() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 366--368 []\T1/txtt/m/n/10 inspect_saturation() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 370--372 []\T1/txtt/m/n/10 is_ppl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 374--376 []\T1/txtt/m/n/10 is_pulse_at() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 378--380 []\T1/txtt/m/n/10 is_sase_1() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 382--384 []\T1/txtt/m/n/10 is_sase_3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 391--393 []\T1/txtt/m/n/10 knife_edge() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 394--396 []\T1/txtt/m/n/10 knife_edge_base() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 399--401 []\T1/txtt/m/n/10 list_suites() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 402--404 []\T1/txtt/m/n/10 list_suites() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 408--410 []\T1/txtt/m/n/10 load() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routines. boz.parameters class Underfull \hbox (badness 10000) in paragraph at lines 411--413 []\T1/txtt/m/n/10 load_binned() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.de tectors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 415--417 []\T1/txtt/m/n/10 load_dssc_info() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 419--421 []\T1/txtt/m/n/10 load_dssc_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 421--423 []\T1/txtt/m/n/10 load_gain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 425--427 []\T1/txtt/m/n/10 load_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 427--429 []\T1/txtt/m/n/10 load_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 431--433 []\T1/txtt/m/n/10 load_tim() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 433--434 []\T1/txtt/m/n/10 load_tim() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 437--439 []\T1/txtt/m/n/10 load_xarray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 439--441 []\T1/txtt/m/n/10 load_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.dssc.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 441--442 []\T1/txtt/m/n/10 load_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner [145] Underfull \hbox (badness 10000) in paragraph at lines 454--456 []\T1/txtt/m/n/10 mnemonics_for_run() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 461--462 []| \T1/txtt/m/n/10 toolbox_scs.base.tests.test_knife_edge\T1/qtm/m/n/10 , Overfull \hbox (13.12186pt too wide) in paragraph at lines 464--465 []| \T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 479--480 []| \T1/txtt/m/n/10 toolbox_scs.misc.bunch_pattern_external\T1/qtm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 515--516 []\T1/txtt/m/n/10 open_run() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 530--532 []\T1/txtt/m/n/10 plane_fitting_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 532--534 []\T1/txtt/m/n/10 plane_fitting_domain() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 534--536 []\T1/txtt/m/n/10 plot_azimuthal_int() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 534--536 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 536--538 []\T1/txtt/m/n/10 plot_azimuthal_line_cut() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 too l- Underfull \hbox (badness 10000) in paragraph at lines 536--538 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 538--540 []\T1/txtt/m/n/10 plot_binner() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 540--542 []\T1/txtt/m/n/10 plot_binner_hist() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 542--544 []\T1/txtt/m/n/10 plot_FastCCD() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 544--546 []\T1/txtt/m/n/10 plot_hist_processed() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 546--548 []\T1/txtt/m/n/10 plot_scan() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.fccd.FastCCD Underfull \hbox (badness 10000) in paragraph at lines 550--552 []\T1/txtt/m/n/10 plot_xgm_threshold() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- [146] Underfull \hbox (badness 10000) in paragraph at lines 554--556 []\T1/txtt/m/n/10 positionToDelay() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 559--561 []\T1/txtt/m/n/10 process_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 559--561 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 561--563 []\T1/txtt/m/n/10 process_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 563--564 []\T1/txtt/m/n/10 process_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.D SSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 565--566 []\T1/txtt/m/n/10 process_dssc_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 566--568 []\T1/txtt/m/n/10 process_dssc_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- Underfull \hbox (badness 10000) in paragraph at lines 570--571 []\T1/txtt/m/n/10 process_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule t ool- Underfull \hbox (badness 10000) in paragraph at lines 571--573 []\T1/txtt/m/n/10 process_one_module() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 576--578 []\T1/txtt/m/n/10 pulsePatternInfo() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 582--584 []\T1/txtt/m/n/10 quickmask_DSSC_ASIC() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 584--586 []\T1/txtt/m/n/10 quickmask_DSSC_ASIC() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 591--593 []\T1/txtt/m/n/10 reflectivity() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule too l- Underfull \hbox (badness 6188) in paragraph at lines 602--603 []\T1/txtt/m/n/10 save() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detectors .fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 607--609 []\T1/txtt/m/n/10 save_attributes_h5() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 609--611 []\T1/txtt/m/n/10 save_attributes_h5() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le tool- Underfull \hbox (badness 10000) in paragraph at lines 611--613 []\T1/txtt/m/n/10 save_formatted_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 611--613 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 613--615 []\T1/txtt/m/n/10 save_formatted_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 613--615 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 619--621 []\T1/txtt/m/n/10 save_xarray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool - Underfull \hbox (badness 10000) in paragraph at lines 622--624 []\T1/txtt/m/n/10 set_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 622--624 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 624--626 []\T1/txtt/m/n/10 set_flat_field() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .routines.parameters Underfull \hbox (badness 10000) in paragraph at lines 627--628 []\T1/txtt/m/n/10 set_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.boz.parameters Underfull \hbox (badness 5519) in paragraph at lines 628--629 []\T1/txtt/m/n/10 set_Fnl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routin es.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 630--632 []\T1/txtt/m/n/10 set_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.routi nes.boz.parameters Underfull \hbox (badness 10000) in paragraph at lines 633--635 []\T1/txtt/m/n/10 setUp() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test.tes t_misc.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 635--637 []\T1/txtt/m/n/10 setUp() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test.tes t_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 637--639 []\T1/txtt/m/n/10 setUp() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test.tes t_utils.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 639--641 []\T1/txtt/m/n/10 setup_tmp_dir() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule to ol- Overfull \hbox (5.7323pt too wide) in paragraph at lines 643--645 []\T1/txtt/m/n/10 setUpClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_misc.TestDataAccess Overfull \hbox (8.28223pt too wide) in paragraph at lines 645--647 []\T1/txtt/m/n/10 setUpClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_top_level.TestToolbox Overfull \hbox (4.6323pt too wide) in paragraph at lines 647--649 []\T1/txtt/m/n/10 setUpClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_utils.TestDataAccess [147] Underfull \hbox (badness 6526) in paragraph at lines 668--670 []\T1/txtt/m/n/10 tearDown() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test. test_utils.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 670--672 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 670--672 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC class Underfull \hbox (badness 10000) in paragraph at lines 672--674 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 672--674 \T1/qtm/m/it/10 box_scs.test.test_misc.TestDataAccess class Underfull \hbox (badness 10000) in paragraph at lines 674--676 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 674--676 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox class Underfull \hbox (badness 10000) in paragraph at lines 676--678 []\T1/txtt/m/n/10 tearDownClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 676--678 \T1/qtm/m/it/10 box_scs.test.test_utils.TestDataAccess class Underfull \hbox (badness 10000) in paragraph at lines 678--680 []\T1/txtt/m/n/10 test_constant() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 678--680 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Overfull \hbox (2.86227pt too wide) in paragraph at lines 680--682 []\T1/txtt/m/n/10 test_create() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.te st.test_dssc_cls.TestDSSC Underfull \hbox (badness 10000) in paragraph at lines 682--684 []\T1/txtt/m/n/10 test_extractBunchPattern() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 to ol- Overfull \hbox (5.7323pt too wide) in paragraph at lines 684--686 []\T1/txtt/m/n/10 test_isppl() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_misc.TestDataAccess Underfull \hbox (badness 10000) in paragraph at lines 686--688 []\T1/txtt/m/n/10 test_issase1() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 688--690 []\T1/txtt/m/n/10 test_issase3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 690--692 []\T1/txtt/m/n/10 test_knife_edge_base() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Overfull \hbox (3.03224pt too wide) in paragraph at lines 692--694 []\T1/txtt/m/n/10 test_load() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.test .test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 694--696 []\T1/txtt/m/n/10 test_loadbinnedarray() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 694--696 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 696--698 []\T1/txtt/m/n/10 test_normalization_all() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool - Underfull \hbox (badness 10000) in paragraph at lines 696--698 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 698--700 []\T1/txtt/m/n/10 test_openrun() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 698--700 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 700--702 []\T1/txtt/m/n/10 test_openrunpath() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 700--702 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 702--704 []\T1/txtt/m/n/10 test_prepare_arrays_nans() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 704--706 []\T1/txtt/m/n/10 test_prepare_arrays_range() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 706--708 []\T1/txtt/m/n/10 test_prepare_arrays_size() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 708--710 []\T1/txtt/m/n/10 test_processing_quick() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 708--710 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 710--712 []\T1/txtt/m/n/10 test_pulsePatternInfo() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 712--714 []\T1/txtt/m/n/10 test_range_mask() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- Underfull \hbox (badness 10000) in paragraph at lines 714--716 []\T1/txtt/m/n/10 test_rundir1() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 716--718 []\T1/txtt/m/n/10 test_rundir2() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 718--720 []\T1/txtt/m/n/10 test_rundir3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 720--722 []\T1/txtt/m/n/10 test_use_xgm_tim() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 720--722 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), [148] Underfull \hbox (badness 10000) in paragraph at lines 820--822 []\T1/txtt/m/n/10 xgm_filter() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.fccd.FastCCD [149]) (./scs-toolbox.aux) ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ec.enc}{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc}{ /usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc} Output written on scs-toolbox.pdf (153 pages, 651860 bytes). Transcript written on scs-toolbox.log. Latexmk: Index file 'scs-toolbox.idx' was written Latexmk: Log file says output to 'scs-toolbox.pdf' Latexmk: All targets (scs-toolbox.pdf) are up-to-date [rtd-command-info] start-time: 2022-11-11T15:02:59.586392Z, end-time: 2022-11-11T15:02:59.644823Z, duration: 0, exit-code: 0 mv -f /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/_build/latex/scs-toolbox.pdf /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/artifacts/latest/sphinx_pdf/scs-toolbox.pdf