Read the Docs build information Build id: 25317 Project: scs-toolbox Version: latest Commit: e102bdcf3f72196f0b96092c2f172b1f5b323ff0 Date: 2023-01-24T23:45:07.293438Z State: finished Success: True [rtd-command-info] start-time: 2023-01-24T23:45:08.547800Z, end-time: 2023-01-24T23:45:09.843797Z, duration: 1, exit-code: 0 git clone --no-single-branch --depth 50 https://git.xfel.eu/SCS/ToolBox.git . Cloning into '.'... [rtd-command-info] start-time: 2023-01-24T23:45:10.299103Z, end-time: 2023-01-24T23:45:10.401156Z, 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 e102bdc Merge branch 'hrixs_jan23' into 'master' [rtd-command-info] start-time: 2023-01-24T23:45:10.489147Z, end-time: 2023-01-24T23:45:10.554158Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2023-01-24T23:45:12.329922Z, end-time: 2023-01-24T23:45:17.111741Z, 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: 2023-01-24T23:45:17.199645Z, end-time: 2023-01-24T23:45:18.114605Z, 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: 2023-01-24T23:45:18.200721Z, end-time: 2023-01-24T23:45:28.687632Z, duration: 10, 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) 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Pillow-5.4.1-cp37-cp37m-manylinux1_x86_64.whl (2.0 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.0/2.0 MB 10.0 MB/s eta 0:00:00 Collecting alabaster!=0.7.5,<0.8,>=0.7 Downloading alabaster-0.7.13-py3-none-any.whl (13 kB) Collecting commonmark==0.8.1 Downloading commonmark-0.8.1-py2.py3-none-any.whl (47 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 47.4/47.4 kB 158.7 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 118.3 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 14.2 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-0.18.3.tar.gz (840 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 840.9/840.9 kB 219.8 MB/s eta 0:00:00 Preparing metadata (setup.py): started Preparing metadata (setup.py): finished with status 'done' Collecting imagesize Downloading imagesize-1.4.1-py2.py3-none-any.whl (8.8 kB) Collecting sphinxcontrib-websupport Downloading sphinxcontrib_websupport-1.2.4-py2.py3-none-any.whl (39 kB) Collecting packaging Downloading packaging-23.0-py3-none-any.whl (42 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 42.7/42.7 kB 148.2 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 141.3 MB/s eta 0:00:00 Collecting requests>=2.0.0 Downloading requests-2.28.2-py3-none-any.whl (62 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 62.8/62.8 kB 156.4 MB/s eta 0:00:00 Collecting snowballstemmer>=1.1 Downloading snowballstemmer-2.2.0-py2.py3-none-any.whl (93 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 93.0/93.0 kB 180.0 MB/s eta 0:00:00 Collecting six>=1.5 Downloading six-1.16.0-py2.py3-none-any.whl (11 kB) Collecting pytz>=2015.7 Downloading pytz-2022.7.1-py2.py3-none-any.whl (499 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 499.4/499.4 kB 214.1 MB/s eta 0:00:00 Collecting charset-normalizer<4,>=2 Downloading charset_normalizer-3.0.1-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (170 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 170.5/170.5 kB 186.0 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 140.2 MB/s eta 0:00:00 Collecting certifi>=2017.4.17 Downloading certifi-2022.12.7-py3-none-any.whl (155 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 155.3/155.3 kB 192.8 MB/s eta 0:00:00 Collecting urllib3<1.27,>=1.21.1 Downloading urllib3-1.26.14-py2.py3-none-any.whl (140 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 140.6/140.6 kB 185.1 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 195.3 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=1f3e7b20d91d8653540c5a8320d42e0dc2e254598b97c9d1301413bda5aa4752 Stored in directory: /tmp/pip-ephem-wheel-cache-m2mrs2a1/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-0.18.3-py3-none-any.whl size=492025 sha256=ef894cff574a58c61a49f9b699043e66463884c3c48d11fa69a71a0f5ac77d51 Stored in directory: /tmp/pip-ephem-wheel-cache-m2mrs2a1/wheels/52/2a/fc/520209cfa6448febd490720a0b09036cb367628f7c4e9cc172 Successfully built mock future Installing collected packages: snowballstemmer, pytz, Pygments, mock, docutils, charset-normalizer, urllib3, sphinxcontrib-serializinghtml, six, setuptools, pillow, packaging, markupsafe, imagesize, idna, future, certifi, babel, alabaster, sphinxcontrib-websupport, requests, jinja2, commonmark, sphinx, readthedocs-sphinx-ext, sphinx-rtd-theme, recommonmark Attempting uninstall: setuptools Found existing installation: setuptools 66.1.1 Uninstalling setuptools-66.1.1: Successfully uninstalled setuptools-66.1.1 Successfully installed Pygments-2.3.1 alabaster-0.7.13 babel-2.11.0 certifi-2022.12.7 charset-normalizer-3.0.1 commonmark-0.8.1 docutils-0.14 future-0.18.3 idna-3.4 imagesize-1.4.1 jinja2-2.11.3 markupsafe-2.0.1 mock-1.0.1 packaging-23.0 pillow-5.4.1 pytz-2022.7.1 readthedocs-sphinx-ext-1.0.4 recommonmark-0.5.0 requests-2.28.2 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 urllib3-1.26.14 [rtd-command-info] start-time: 2023-01-24T23:45:28.777570Z, end-time: 2023-01-24T23:45:39.255011Z, duration: 10, 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-2.0.1-py2.py3-none-any.whl (55 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 55.8/55.8 kB 2.6 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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)) (2.28.2) 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)) (0.7.13) 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) 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 13.0 MB/s eta 0:00:00 Collecting sphinx Downloading sphinx-5.3.0-py3-none-any.whl (3.2 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.2/3.2 MB 48.2 MB/s eta 0:00:00 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sha256=cc662fc3417cfe0d9835a031340c408af43a8f051e553f7844804b0fccf87c78 Stored in directory: /tmp/pip-ephem-wheel-cache-86213p7u/wheels/65/0b/e9/50413699f3d38398cda87d331bf6957b5a9dbad231753470c0 Successfully built autoapi 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 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sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-1.0.3 tinycss2-1.2.1 tornado-6.2 traitlets-5.8.1 typed-ast-1.5.4 typing-extensions-4.4.0 unidecode-1.3.6 webencodings-0.5.1 wrapt-1.14.1 zipp-3.11.0 [rtd-command-info] start-time: 2023-01-24T23:45:39.985493Z, end-time: 2023-01-24T23:45:40.048569Z, 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': 'e102bdcf', } 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: 2023-01-24T23:45:40.135665Z, end-time: 2023-01-24T23:46:05.754781Z, duration: 25, 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'. 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[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, HRIXS.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 19 source files that are out of date updating environment: [new config] 60 added, 0 changed, 0 removed reading sources... [ 1%] Azimuthal integration of DSSC with pyFAI reading sources... 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unexpected unindent. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:61: 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:146: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/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/misc/index.rst:203: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:214: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:227: 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:88: 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_hrixs/index.rst:46: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_hrixs/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:81: 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:74: 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:72: 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/changelog.rst:31: ERROR: Unknown interpreted text role "rm". /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/HRIXS.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... [ 6%] 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... [ 11%] Dask DSSC module binning writing output... [ 13%] HRIXS writing output... [ 15%] How to extract peaks from digitizer traces writing output... [ 16%] Loading_data_in_memory writing output... [ 18%] PES_spectra_extraction writing output... [ 20%] Transient reflectivity measurement writing output... [ 21%] autoapi/index writing output... [ 23%] autoapi/toolbox_scs/base/index writing output... [ 25%] 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... [ 30%] 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... [ 41%] 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... [ 46%] autoapi/toolbox_scs/detectors/hrixs/index writing output... [ 48%] autoapi/toolbox_scs/detectors/index writing output... [ 50%] autoapi/toolbox_scs/detectors/pes/index writing output... [ 51%] autoapi/toolbox_scs/detectors/xgm/index writing output... 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[ 78%] autoapi/toolbox_scs/test/test_hrixs/index writing output... [ 80%] autoapi/toolbox_scs/test/test_misc/index writing output... [ 81%] autoapi/toolbox_scs/test/test_top_level/index writing output... [ 83%] autoapi/toolbox_scs/test/test_utils/index writing output... [ 85%] autoapi/toolbox_scs/util/exceptions/index writing output... [ 86%] autoapi/toolbox_scs/util/index writing output... [ 88%] autoapi/toolbox_scs/util/pkg/index writing output... [ 90%] bunch_pattern_decoding writing output... [ 91%] changelog writing output... [ 93%] dssc/DSSCBinner writing output... [ 95%] howtos writing output... [ 96%] index writing output... [ 98%] load writing output... 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[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, HRIXS.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] 60 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... 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[ 78%] autoapi/toolbox_scs/test/test_hrixs/index reading sources... [ 80%] autoapi/toolbox_scs/test/test_misc/index reading sources... [ 81%] autoapi/toolbox_scs/test/test_top_level/index reading sources... [ 83%] autoapi/toolbox_scs/test/test_utils/index reading sources... [ 85%] autoapi/toolbox_scs/util/exceptions/index reading sources... [ 86%] autoapi/toolbox_scs/util/index reading sources... [ 88%] autoapi/toolbox_scs/util/pkg/index reading sources... [ 90%] bunch_pattern_decoding reading sources... [ 91%] changelog reading sources... [ 93%] dssc/DSSCBinner reading sources... [ 95%] howtos reading sources... [ 96%] index [AutoAPI] Adding AutoAPI TOCTree [autoapi/index] to index.rst reading sources... [ 98%] load reading sources... 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/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:2142: 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:2189: 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:2246: ERROR: 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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:: ERROR: Unknown target name: "numpy.s". /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:: ERROR: Unknown target name: "numpy.s". /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/index.rst:1390: ERROR: Unknown target name: "numpy.s". /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:48: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:65: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:29: 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:: ERROR: Unknown target name: "numpy.s". /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:148: ERROR: Unknown target name: "numpy.s". /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/load/index.rst:: ERROR: Unknown target name: "numpy.s". /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/index.rst:85: 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:126: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/bunch_pattern/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/misc/index.rst:61: 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:146: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/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/misc/index.rst:203: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:214: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/misc/index.rst:227: 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:88: 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_hrixs/index.rst:46: ERROR: Unexpected indentation. /usr/src/app/checkouts/readthedocs.org/user_builds/scs-toolbox/checkouts/latest/doc/autoapi/toolbox_scs/test/test_hrixs/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:81: 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:74: 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:72: 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/changelog.rst:31: ERROR: Unknown interpreted text role "rm". /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/HRIXS.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/misc/undulator/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_hrixs/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, 171 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: 2023-01-24T23:46:27.647793Z, end-time: 2023-01-24T23:46:27.706524Z, 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: 2023-01-24T23:46:27.791697Z, end-time: 2023-01-24T23:46:33.193700Z, duration: 5, 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. 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LaTeX Warning: Reference `autoapi/toolbox_scs/util/index:module-toolbox_scs.uti l' on page 153 undefined on input line 19870. LaTeX Warning: Reference `autoapi/toolbox_scs/util/exceptions/index:module-tool box_scs.util.exceptions' on page 153 undefined on input line 19871. LaTeX Warning: Reference `autoapi/toolbox_scs/util/pkg/index:module-toolbox_scs .util.pkg' on page 153 undefined on input line 19872. [153] 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 (157 pages, 621915 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 153 undefined on input line 19834 Reference `autoapi/toolbox_scs/base/knife_edge/index:module-toolbox_scs.base.knife_edge' on page 153 undefined on input line 19835 Reference `autoapi/toolbox_scs/base/tests/index:module-toolbox_scs.base.tests' on page 153 undefined on input line 19836 Reference `autoapi/toolbox_scs/base/tests/test_knife_edge/index:module-toolbox_scs.base.tests.test_knife_edge' on page 153 undefined on input line 19837 Reference `autoapi/toolbox_scs/constants/index:module-toolbox_scs.constants' on page 153 undefined on input line 19838 Reference `autoapi/toolbox_scs/detectors/azimuthal_integrator/index:module-toolbox_scs.detectors.azimuthal_integrator' on page 153 undefined on input line 19840 Reference `autoapi/toolbox_scs/detectors/bam_detectors/index:module-toolbox_scs.detectors.bam_detectors' on 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line 19855 Reference `autoapi/toolbox_scs/misc/index:module-toolbox_scs.misc' on page 153 undefined on input line 19853 Reference `autoapi/toolbox_scs/misc/laser_utils/index:module-toolbox_scs.misc.laser_utils' on page 153 undefined on input line 19856 Reference `autoapi/toolbox_scs/misc/undulator/index:module-toolbox_scs.misc.undulator' on page 153 undefined on input line 19857 Reference `autoapi/toolbox_scs/mnemonics_machinery/index:module-toolbox_scs.mnemonics_machinery' on page 153 undefined on input line 19858 Reference `autoapi/toolbox_scs/routines/Reflectivity/index:module-toolbox_scs.routines.Reflectivity' on page 153 undefined on input line 19862 Reference `autoapi/toolbox_scs/routines/XAS/index:module-toolbox_scs.routines.XAS' on page 153 undefined on input line 19863 Reference `autoapi/toolbox_scs/routines/boz/index:module-toolbox_scs.routines.boz' on page 153 undefined on input line 19860 Reference `autoapi/toolbox_scs/routines/index:module-toolbox_scs.routines' on page 153 undefined on input line 19859 Reference `autoapi/toolbox_scs/routines/knife_edge/index:module-toolbox_scs.routines.knife_edge' on page 153 undefined on input line 19861 Reference `autoapi/toolbox_scs/test/index:module-toolbox_scs.test' on page 153 undefined on input line 19864 Reference `autoapi/toolbox_scs/test/test_dssc_cls/index:module-toolbox_scs.test.test_dssc_cls' on page 153 undefined on input line 19865 Reference `autoapi/toolbox_scs/test/test_hrixs/index:module-toolbox_scs.test.test_hrixs' on page 153 undefined on input line 19866 Reference `autoapi/toolbox_scs/test/test_misc/index:module-toolbox_scs.test.test_misc' on page 153 undefined on input line 19867 Reference `autoapi/toolbox_scs/test/test_top_level/index:module-toolbox_scs.test.test_top_level' on page 153 undefined on input line 19868 Reference `autoapi/toolbox_scs/test/test_utils/index:module-toolbox_scs.test.test_utils' on page 153 undefined on input line 19869 Reference 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get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 14641--14643 []|[][]\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 14669--14671 []|[][]\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 14697--14699 []|[][]\T1/txtt/m/sl/10 get_xgm[][]\T1/qtm/m/n/10 (run[, mnemon-ics, merge_with , in-dices, Underfull \hbox (badness 10000) in paragraph at lines 14760--14762 []|[][]\T1/txtt/m/sl/10 get_sase_pId[][]\T1/qtm/m/n/10 (run[, loc, run_mnemonic s, bpt, [111] Underfull \hbox (badness 10000) in paragraph at lines 14837--14839 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 14907--14909 []|[][]\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 14935--14937 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, [112] Underfull \hbox (badness 7362) in paragraph at lines 15061--15063 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [113] [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 5970) in paragraph at lines 17587--17590 []\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. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Chapter 5. [151] [152] Underfull \hbox (badness 10000) in paragraph at lines 19840--19841 []\T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , [153] (./scs-toolbox.ind [154] 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 [155] 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 81--82 []\T1/txtt/m/n/10 aggregate() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS Underfull \hbox (badness 5475) in paragraph at lines 83--84 []\T1/txtt/m/n/10 aggregator() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.hRIXS method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 84--85 []\T1/txtt/m/n/10 aggregator() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 87--89 []\T1/txtt/m/n/10 aggregators \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS at- Underfull \hbox (badness 10000) in paragraph at lines 92--94 []\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 96--97 []\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 98--100 []\T1/txtt/m/n/10 AVOID_DBL \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.hrixs.hRIXS at- Underfull \hbox (badness 10000) in paragraph at lines 105--107 []\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 105--107 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 108--110 []\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 110--112 []\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 110--112 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 118--119 []\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 125--126 []\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 126--128 []\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 128--130 []\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 132--133 []\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 134--135 []\T1/txtt/m/n/10 centroid() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 137--139 []\T1/txtt/m/n/10 centroid_one() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 141--143 []\T1/txtt/m/n/10 centroid_two() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 145--146 []\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 146--148 []\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 148--150 []\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 150--152 []\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 150--152 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 152--154 []\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 152--154 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 154--156 []\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 154--156 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 156--157 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. DSSCFormatter [156] Underfull \hbox (badness 10000) in paragraph at lines 166--167 []\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 167--169 []\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 169--171 []\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 169--171 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 171--173 []\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 171--173 \T1/qtm/m/it/10 box_scs.detectors.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 173--174 []\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 185--187 []\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 185--187 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 187--189 []\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 193--195 []\T1/txtt/m/n/10 define_scan() \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 197--199 []\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 201--203 []\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 218--220 []\T1/txtt/m/n/10 ENERGY_INTERCEPT \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .detectors.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 224--226 []\T1/txtt/m/n/10 ENERGY_SLOPE \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 229--231 []\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 237--238 []\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 245--246 []\T1/txtt/m/n/10 find_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .detectors.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 253--255 []\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 255--257 []\T1/txtt/m/n/10 find_rois_from_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- [157] Underfull \hbox (badness 10000) in paragraph at lines 259--260 []\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 260--262 []\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 260--262 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 266--268 []\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 269--270 []\T1/txtt/m/n/10 from_run() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 278--280 []\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 282--284 []\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 285--287 []\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 287--289 []\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 290--292 []\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 292--294 []\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 295--297 []\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 297--299 []\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 300--302 []\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 300--302 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 302--304 []\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 305--306 []\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 306--307 []\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 307--309 []\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 309--310 []\T1/txtt/m/n/10 get_info() 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\T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), [158] Underfull \hbox (badness 10000) in paragraph at lines 354--356 []\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 357--358 []\T1/txtt/m/n/10 get_undulator_config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 358--360 []\T1/txtt/m/n/10 get_undulator_config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 364--366 []\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 364--366 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 370--371 []\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 371--373 []\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 378--380 []\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 387--388 []\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 388--390 []\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 393--394 []\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 394--396 []\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 396--398 []\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 402--403 []\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 403--405 []\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 407--408 []\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 409--411 []\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 411--413 []\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 417--418 []\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 418--420 []\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 421--422 []\T1/txtt/m/n/10 integrate() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 425--427 []\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 429--431 []\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 433--435 []\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 437--439 []\T1/txtt/m/n/10 is_sase_3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- [159] Underfull \hbox (badness 10000) in paragraph at lines 446--448 []\T1/txtt/m/n/10 knife_edge() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- 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[]\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 478--480 []\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 480--482 []\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 484--486 []\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 486--488 []\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 490--492 []\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 492--493 []\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 496--498 []\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 498--500 []\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 500--501 []\T1/txtt/m/n/10 load_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 517--519 []\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 524--525 []| \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 527--528 []| \T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , [160] Underfull \hbox (badness 10000) in paragraph at lines 542--543 []| \T1/txtt/m/n/10 toolbox_scs.misc.bunch_pattern_external\T1/qtm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 576--577 []\T1/txtt/m/n/10 normalize() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 580--582 []\T1/txtt/m/n/10 npulses_has_changed() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 587--588 []\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 592--593 []\T1/txtt/m/n/10 parabola() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 605--607 []\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 607--609 []\T1/txtt/m/n/10 plane_fitting_domain() \T1/qtm/m/n/10 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636--638 []\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 638--639 []\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 640--641 []\T1/txtt/m/n/10 process_dssc_data() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e tool- [161] Underfull \hbox (badness 10000) in paragraph at lines 641--643 []\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 645--646 []\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 646--648 []\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 654--656 []\T1/txtt/m/n/10 pulsePatternInfo() 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(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 (169 pages, 697284 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'... 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(/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. 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get_xgm_formatted[][]\T1/qtm/m/n/10 (run_obj, xgm_name, [29] [30] [31] Underfull \hbox (badness 5817) in paragraph at lines 3439--3439 []|[][]\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 3439--3439 []|[][]\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 3511--3511 []|[][]\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 3511--3511 []|[][]\T1/txtt/m/sl/10 process_dssc_data[][]\T1/qtm/m/n/10 (proposal, run_nr, mod-ule, [32] [33] [34] [35] [36] [37] [38] [39] [40] Underfull \hbox (badness 10000) in paragraph at lines 4780--4780 []|[][]\T1/txtt/m/sl/10 get_xgm[][]\T1/qtm/m/n/10 (run[, mnemon-ics, merge_with , in-dices, Underfull \hbox (badness 10000) in paragraph at lines 4780--4780 []|[][]\T1/txtt/m/sl/10 get_xgm[][]\T1/qtm/m/n/10 (run[, mnemon-ics, merge_with , in-dices, [41] [42] Underfull \hbox (badness 10000) in paragraph at lines 5124--5124 []|[][]\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 5124--5124 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 5124--5124 []|[][]\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 5124--5124 []|[][]\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 5124--5124 []|[][]\T1/txtt/m/sl/10 get_xgm[][]\T1/qtm/m/n/10 (run[, mnemon-ics, merge_with , in-dices, Underfull \hbox (badness 10000) in paragraph at lines 5124--5124 []|[][]\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 5124--5124 []|[][]\T1/txtt/m/sl/10 get_digitizer_peaks[][]\T1/qtm/m/n/10 (run[, mnemon-ics , Underfull \hbox (badness 10000) in paragraph at lines 5124--5124 []|[][]\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 5124--5124 []|[][]\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 5124--5124 []|[][]\T1/txtt/m/sl/10 get_xgm[][]\T1/qtm/m/n/10 (run[, mnemon-ics, merge_with , in-dices, [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 10000) in paragraph at lines 7421--7421 []|[][]\T1/txtt/m/sl/10 get_sase_pId[][]\T1/qtm/m/n/10 (run[, loc, run_mnemonic s, bpt, Underfull \hbox (badness 10000) in paragraph at lines 7421--7421 []|[][]\T1/txtt/m/sl/10 get_sase_pId[][]\T1/qtm/m/n/10 (run[, loc, run_mnemonic s, bpt, [60] [61] [62] Underfull \hbox (badness 10000) in paragraph at lines 7844--7844 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 7844--7844 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, [63] [64] [65] Underfull \hbox (badness 10000) in paragraph at lines 8255--8255 []|[][]\T1/txtt/m/sl/10 get_sase_pId[][]\T1/qtm/m/n/10 (run[, loc, run_mnemonic s, bpt, Underfull \hbox (badness 10000) in paragraph at lines 8255--8255 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, Underfull \hbox (badness 10000) in paragraph at lines 8255--8255 []|[][]\T1/txtt/m/sl/10 get_sase_pId[][]\T1/qtm/m/n/10 (run[, loc, run_mnemonic s, bpt, Underfull \hbox (badness 10000) in paragraph at lines 8255--8255 []|[][]\T1/txtt/m/sl/10 fluenceCalibration[][]\T1/qtm/m/n/10 (hwp, power_mW, np ulses, [66] [67] [68] [69] [70] [71] [72] Underfull \hbox (badness 10000) in paragraph at lines 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[]|[][]\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 10748--10750 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, Underfull \hbox (badness 7362) in paragraph at lines 10874--10876 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] Underfull \hbox (badness 5970) in paragraph at lines 14040--14043 []\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. [107] [108] [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 14557--14559 []|[][]\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 14564--14566 []|[][]\T1/txtt/m/sl/10 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\hbox (badness 10000) in paragraph at lines 14935--14937 []|[][]\T1/txtt/m/sl/10 compute_flat_field_correction[][]\T1/qtm/m/n/10 (rois, params[, [112] Underfull \hbox (badness 7362) in paragraph at lines 15061--15063 []|[][]\T1/txtt/m/sl/10 process[][]\T1/qtm/m/n/10 (Fmodel, arr_dark, arr, tid, rois, mask, [113] [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 5970) in paragraph at lines 17587--17590 []\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. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Chapter 5. [151] [152] Underfull \hbox (badness 10000) in paragraph at lines 19840--19841 []\T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , [153] (./scs-toolbox.ind [154] 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 [155] 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 81--82 []\T1/txtt/m/n/10 aggregate() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS Underfull \hbox (badness 5475) in paragraph at lines 83--84 []\T1/txtt/m/n/10 aggregator() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.hRIXS method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 84--85 []\T1/txtt/m/n/10 aggregator() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 87--89 []\T1/txtt/m/n/10 aggregators \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS at- Underfull \hbox (badness 10000) in paragraph at lines 92--94 []\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 96--97 []\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 98--100 []\T1/txtt/m/n/10 AVOID_DBL \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.hrixs.hRIXS at- Underfull \hbox (badness 10000) in paragraph at lines 105--107 []\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 105--107 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 108--110 []\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 110--112 []\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 110--112 \T1/qtm/m/it/10 box_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 118--119 []\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 125--126 []\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 126--128 []\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 128--130 []\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 132--133 []\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 134--135 []\T1/txtt/m/n/10 centroid() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 137--139 []\T1/txtt/m/n/10 centroid_one() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 141--143 []\T1/txtt/m/n/10 centroid_two() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.d etectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 145--146 []\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 146--148 []\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 148--150 []\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 150--152 []\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 150--152 \T1/qtm/m/it/10 box_scs.detectors.fccd.FastCCD method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 152--154 []\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 152--154 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCFormatter Underfull \hbox (badness 10000) in paragraph at lines 154--156 []\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 154--156 \T1/qtm/m/it/10 box_scs.detectors.DSSCFormatter method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 156--157 []\T1/txtt/m/n/10 combine_files() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs. DSSCFormatter [156] Underfull \hbox (badness 10000) in paragraph at lines 166--167 []\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 167--169 []\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 169--171 []\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 169--171 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 171--173 []\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 171--173 \T1/qtm/m/it/10 box_scs.detectors.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 173--174 []\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 185--187 []\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 185--187 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 187--189 []\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 193--195 []\T1/txtt/m/n/10 define_scan() \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 197--199 []\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 201--203 []\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 218--220 []\T1/txtt/m/n/10 ENERGY_INTERCEPT \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .detectors.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 224--226 []\T1/txtt/m/n/10 ENERGY_SLOPE \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 229--231 []\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 237--238 []\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 245--246 []\T1/txtt/m/n/10 find_curvature() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs .detectors.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 253--255 []\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 255--257 []\T1/txtt/m/n/10 find_rois_from_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule tool- [157] Underfull \hbox (badness 10000) in paragraph at lines 259--260 []\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 260--262 []\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 260--262 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 266--268 []\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 269--270 []\T1/txtt/m/n/10 from_run() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 278--280 []\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 282--284 []\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 285--287 []\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 287--289 []\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 290--292 []\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 292--294 []\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 295--297 []\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 297--299 []\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 300--302 []\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 300--302 \T1/qtm/m/it/10 box_scs.routines.boz.parameters method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 302--304 []\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 305--306 []\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 306--307 []\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 307--309 []\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 309--310 []\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 313--315 []\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 316--318 []\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 320--322 []\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 322--324 []\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 5475) in paragraph at lines 324--325 []\T1/txtt/m/n/10 get_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.hRIXS method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 325--327 []\T1/txtt/m/n/10 get_params() \T1/qtm/m/n/10 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\T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), [158] Underfull \hbox (badness 10000) in paragraph at lines 354--356 []\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 357--358 []\T1/txtt/m/n/10 get_undulator_config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 358--360 []\T1/txtt/m/n/10 get_undulator_config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod -ule tool- Underfull \hbox (badness 10000) in paragraph at lines 364--366 []\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 364--366 \T1/qtm/m/it/10 box_scs.detectors.dssc.DSSCBinner method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 370--371 []\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 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paragraph at lines 418--420 []\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 421--422 []\T1/txtt/m/n/10 integrate() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 425--427 []\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 429--431 []\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 433--435 []\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 437--439 []\T1/txtt/m/n/10 is_sase_3() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- [159] Underfull \hbox (badness 10000) in paragraph at lines 446--448 []\T1/txtt/m/n/10 knife_edge() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule tool- 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[]\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 478--480 []\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 480--482 []\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 484--486 []\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 486--488 []\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 490--492 []\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 492--493 []\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 496--498 []\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 498--500 []\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 500--501 []\T1/txtt/m/n/10 load_xgm() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.DSSCBinner Underfull \hbox (badness 10000) in paragraph at lines 517--519 []\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 524--525 []| \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 527--528 []| \T1/txtt/m/n/10 toolbox_scs.detectors.azimuthal_integrator\T1/qtm/m/n/10 , [160] Underfull \hbox (badness 10000) in paragraph at lines 542--543 []| \T1/txtt/m/n/10 toolbox_scs.misc.bunch_pattern_external\T1/qtm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 576--577 []\T1/txtt/m/n/10 normalize() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.dete ctors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 580--582 []\T1/txtt/m/n/10 npulses_has_changed() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule tool- Underfull \hbox (badness 10000) in paragraph at lines 587--588 []\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 592--593 []\T1/txtt/m/n/10 parabola() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detec tors.hrixs.hRIXS Underfull \hbox (badness 10000) in paragraph at lines 605--607 []\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 607--609 []\T1/txtt/m/n/10 plane_fitting_domain() \T1/qtm/m/n/10 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715--717 []\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 717--719 []\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 719--721 []\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 721--723 []\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 725--727 []\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 727--729 []\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 729--731 []\T1/txtt/m/n/10 setUpClass() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.tes t.test_utils.TestDataAccess [162] Underfull \hbox (badness 6526) in paragraph at lines 755--757 []\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 757--759 []\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 757--759 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC class Underfull \hbox (badness 10000) in paragraph at lines 759--761 []\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 759--761 \T1/qtm/m/it/10 box_scs.test.test_misc.TestDataAccess class Underfull \hbox (badness 10000) in paragraph at lines 761--763 []\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 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box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 791--793 []\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 791--793 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 793--795 []\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 793--795 \T1/qtm/m/it/10 box_scs.test.test_top_level.TestToolbox Underfull \hbox (badness 10000) in paragraph at lines 795--797 []\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 797--799 []\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 799--801 []\T1/txtt/m/n/10 test_prepare_arrays_size() 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(\T1/qtm/m/it/10 tool- Underfull \hbox (badness 10000) in paragraph at lines 813--815 []\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 813--815 \T1/qtm/m/it/10 box_scs.test.test_dssc_cls.TestDSSC method\T1/qtm/m/n/10 ), [163] Underfull \hbox (badness 10000) in paragraph at lines 822--824 []\T1/txtt/m/n/10 THRESHOLD \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.detect ors.hrixs.hRIXS at- Underfull \hbox (badness 10000) in paragraph at lines 929--931 []\T1/txtt/m/n/10 xgm_filter() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 tool-box_scs.det ectors.fccd.FastCCD [164] [165]) (./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 (169 pages, 697611 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: 2023-01-24T23:46:33.304956Z, end-time: 2023-01-24T23:46:33.393930Z, 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