Read the Docs build information Build id: 10717 Project: pydetlib-test2 Version: latest Commit: d55e55efe72d2212f02daeb822f20a2375baaab4 Date: 2019-06-12T02:16:52.191997Z State: finished Success: True [rtd-command-info] start-time: 2019-06-12T07:17:30.253000Z, end-time: 2019-06-12T07:17:45.355000Z, duration: 15, exit-code: 0 python3 -mvirtualenv --system-site-packages --no-download /user_builds/pydetlib-test2/envs/latest Using base prefix '/usr' New python executable in /user_builds/pydetlib-test2/envs/latest/bin/python3 Also creating executable in /user_builds/pydetlib-test2/envs/latest/bin/python Installing setuptools, pip, wheel...done. [rtd-command-info] start-time: 2019-06-12T07:17:45.420000Z, end-time: 2019-06-12T07:19:00.216000Z, duration: 74, exit-code: 0 python /user_builds/pydetlib-test2/envs/latest/bin/pip install --use-wheel -U --cache-dir /user_builds/pydetlib-test2/.cache/pip -I sphinx==1.3.5 Pygments==2.1.3 setuptools==20.1.1 docutils==0.12 mkdocs==0.15.0 mock==1.0.1 pillow==2.6.1 git+https://github.com/rtfd/readthedocs-sphinx-ext.git@0.6-alpha#egg=readthedocs-sphinx-ext sphinx-rtd-theme==0.1.9 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.5.4 recommonmark==0.1.1 Collecting sphinx==1.3.5 Using cached https://files.pythonhosted.org/packages/ff/91/45883bc962bda1be7e78039b41cc15e1eb3327ec75679eedd067b5d07bd5/Sphinx-1.3.5-py2.py3-none-any.whl Collecting Pygments==2.1.3 Using cached https://files.pythonhosted.org/packages/9e/d0/d692085518c6a2dc875fe421c866fb6a08e0d9796ca507803c1e545fa116/Pygments-2.1.3-py2.py3-none-any.whl Collecting setuptools==20.1.1 Using cached 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https://files.pythonhosted.org/packages/14/2c/cd551d81dbe15200be1cf41cd03869a46fe7226e7450af7a6545bfc474c9/idna-2.8-py2.py3-none-any.whl Collecting certifi>=2017.4.17 (from requests->readthedocs-sphinx-ext) Using cached https://files.pythonhosted.org/packages/60/75/f692a584e85b7eaba0e03827b3d51f45f571c2e793dd731e598828d380aa/certifi-2019.3.9-py2.py3-none-any.whl Collecting chardet<3.1.0,>=3.0.2 (from requests->readthedocs-sphinx-ext) Using cached https://files.pythonhosted.org/packages/bc/a9/01ffebfb562e4274b6487b4bb1ddec7ca55ec7510b22e4c51f14098443b8/chardet-3.0.4-py2.py3-none-any.whl Installing collected packages: MarkupSafe, Jinja2, Pygments, pytz, babel, sphinx-rtd-theme, six, snowballstemmer, alabaster, docutils, sphinx, setuptools, backports-abc, tornado, click, mkdocs-bootswatch, livereload, Markdown, mkdocs-bootstrap, PyYAML, mkdocs, mock, pillow, urllib3, idna, certifi, chardet, requests, nilsimsa, readthedocs-sphinx-ext, commonmark, recommonmark Running setup.py install for readthedocs-sphinx-ext: started Running setup.py install for readthedocs-sphinx-ext: finished with status 'done' Successfully installed Jinja2-2.10.1 Markdown-3.0.1 MarkupSafe-1.1.1 PyYAML-5.1.1 Pygments-2.1.3 alabaster-0.7.12 babel-2.7.0 backports-abc-0.5 certifi-2019.3.9 chardet-3.0.4 click-7.0 commonmark-0.5.4 docutils-0.12 idna-2.8 livereload-2.6.1 mkdocs-0.15.0 mkdocs-bootstrap-1.0.1 mkdocs-bootswatch-1.0 mock-1.0.1 nilsimsa-0.3.8 pillow-2.6.1 pytz-2019.1 readthedocs-sphinx-ext-0.5.4 recommonmark-0.1.1 requests-2.21.0 setuptools-28.8.0 six-1.12.0 snowballstemmer-1.2.1 sphinx-1.3.5 sphinx-rtd-theme-0.1.9 tornado-5.1.1 urllib3-1.24.3 You are using pip version 9.0.1, however version 19.1.1 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [rtd-command-info] start-time: 2019-06-12T07:19:00.278000Z, end-time: 2019-06-12T07:21:57.765000Z, duration: 177, exit-code: 0 python /user_builds/pydetlib-test2/envs/latest/bin/pip install --exists-action=w --cache-dir /user_builds/pydetlib-test2/.cache/pip -rlib/docs/requirements.txt Collecting sphinx>=1.4.5 (from -r lib/docs/requirements.txt (line 1)) Using cached https://files.pythonhosted.org/packages/7d/66/a4af242b4348b729b9d46ce5db23943ce9bca7da9bbe2ece60dc27f26420/Sphinx-1.8.5-py2.py3-none-any.whl Collecting ipython (from -r lib/docs/requirements.txt (line 2)) Using cached https://files.pythonhosted.org/packages/f7/62/2fef7db3a7b75e8099c3d9db2630ae5ba0b9eefefd91f7497862393d90e8/ipython-6.5.0-py3-none-any.whl Collecting ipyparallel (from -r lib/docs/requirements.txt (line 3)) Using cached https://files.pythonhosted.org/packages/3f/82/aaa7a357845a98d4028f27c799f0d3bb2fe55fc1247c73dc712b4ae2344c/ipyparallel-6.2.4-py2.py3-none-any.whl Collecting jupyter (from -r 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terminado, prometheus-client, notebook, widgetsnbextension, ipywidgets, qtconsole, jupyter-console, jupyter, kiwisolver, matplotlib, pandas, scipy, seaborn, brewer2mpl, dill, pockets, sphinxcontrib-napoleon, pypandoc Found existing installation: Sphinx 1.3.5 Uninstalling Sphinx-1.3.5: Successfully uninstalled Sphinx-1.3.5 Found existing installation: matplotlib 2.0.0 Not uninstalling matplotlib at /usr/local/lib/python3.4/dist-packages, outside environment /user_builds/pydetlib-test2/envs/latest Successfully installed Send2Trash-1.5.0 attrs-19.1.0 backcall-0.1.0 bleach-3.1.0 brewer2mpl-1.4.1 decorator-4.4.0 defusedxml-0.5.0 dill-0.2.9 entrypoints-0.3 ipykernel-5.1.1 ipyparallel-6.2.4 ipython-6.5.0 ipython-genutils-0.2.0 ipywidgets-7.4.2 jedi-0.13.3 jsonschema-3.0.1 jupyter-1.0.0 jupyter-client-5.2.4 jupyter-console-5.2.0 jupyter-core-4.4.0 kiwisolver-1.1.0 matplotlib-2.2.4 mistune-0.8.4 nbconvert-5.4.1 nbformat-4.4.0 notebook-5.7.8 packaging-19.0 pandas-0.18.0 pandocfilters-1.4.2 parso-0.4.0 pexpect-4.7.0 pickleshare-0.7.5 pockets-0.7.2 prometheus-client-0.7.0 prompt-toolkit-1.0.16 ptyprocess-0.6.0 pypandoc-1.4 pyrsistent-0.15.2 pyzmq-18.0.1 qtconsole-4.5.1 scipy-1.2.2 seaborn-0.9.0 simplegeneric-0.8.1 sphinx-1.8.5 sphinxcontrib-napoleon-0.7 sphinxcontrib-websupport-1.1.2 terminado-0.8.2 testpath-0.4.2 traitlets-4.3.2 typing-3.6.6 wcwidth-0.1.7 webencodings-0.5.1 widgetsnbextension-3.4.2 You are using pip version 9.0.1, however version 19.1.1 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [rtd-command-info] start-time: 2019-06-12T07:21:58.273000Z, end-time: 2019-06-12T07:21:58.303000Z, duration: 0, exit-code: 0 cat conf.py # -*- coding: utf-8 -*- # # src documentation build configuration file, created by # sphinx-quickstart on Tue Sep 30 09:45:40 2014. # # This file is execfile()d with the current directory set to its # containing dir. # # Note that not all possible configuration values are present in this # autogenerated file. # # All configuration values have a default; values that are commented out # serve to show the default. import sys import os from subprocess import Popen sys.path.append(os.path.abspath("../src/")) p = Popen(["./makeAllDocs.sh"]) p.communicate() from unittest.mock import MagicMock class Mock(MagicMock): @classmethod def __getattr__(cls, name): return Mock() MOCK_MODULES = ['pycuda', 'pycuda.driver', 'pycuda.compiler', 'pycuda.autoinit', 'h5py', 'brewer2mpl', 'matplotlib', 'matplotlib.pyplot', 'matplotlib.colors', 'matplotlib.axes', 'matplotlib.collections', 'matplotlib.offsetbox', 'matplotlib.transforms', 'iminuit.util', 'scipy.special', 'scipy', 'scipy.stats', 'matplotlib.patches', 'scipy.ndimage', 'scipy.ndimage.filters', 'iminuit', 'mpl_toolkits', 'mpl_toolkits.mplot3d', 'mpl_toolkits.axes_grid1', 'mpl_toolkits.axes_grid1.inset_locator', 'pandoc', 'pypandoc'] sys.modules.update((mod_name, Mock()) for mod_name in MOCK_MODULES) # 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. #sys.path.insert(0, os.path.abspath('.')) # -- 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.autodoc', 'sphinx.ext.viewcode', 'sphinxcontrib.napoleon', 'sphinx.ext.mathjax', 'sphinx.ext.intersphinx', 'sphinx.ext.autosectionlabel', 'sphinx.ext.apidoc' ] # Add any paths that contain templates here, relative to this directory. templates_path = ['_templates'] # The suffix of source filenames. source_suffix = '.rst' # The encoding of source files. #source_encoding = 'utf-8-sig' # The master toctree document. master_doc = 'index' # General information about the project. project = u'XFEL Detector Tools' copyright = u'2014, European X-ray Free Electron Laser Facility GmbH' # The version info for the project you're documenting, acts as replacement for # |version| and |release|, also used in various other places throughout the # built documents. # # The short X.Y version. version = '' # The full version, including alpha/beta/rc tags. release = '' # The language for content autogenerated by Sphinx. Refer to documentation # for a list of supported languages. #language = None # There are two options for replacing |today|: either, you set today to some # non-false value, then it is used: #today = '' # Else, today_fmt is used as the format for a strftime call. #today_fmt = '%B %d, %Y' # List of patterns, relative to source directory, that match files and # directories to ignore when looking for source files. exclude_patterns = ['_build'] # The reST default role (used for this markup: `text`) to use for all # documents. #default_role = None # If true, '()' will be appended to :func: etc. cross-reference text. #add_function_parentheses = True # If true, the current module name will be prepended to all description # unit titles (such as .. function::). #add_module_names = True # If true, sectionauthor and moduleauthor directives will be shown in the # output. They are ignored by default. #show_authors = False # The name of the Pygments (syntax highlighting) style to use. pygments_style = 'sphinx' # A list of ignored prefixes for module index sorting. #modindex_common_prefix = [] # If true, keep warnings as "system message" paragraphs in the built documents. #keep_warnings = False # -- 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 = '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 themes here, relative to this directory. #html_theme_path = [] # The name for this set of Sphinx documents. If None, it defaults to # " v documentation". #html_title = None # A shorter title for the navigation bar. Default is the same as html_title. #html_short_title = None # The name of an image file (relative to this directory) to place at the top # of the sidebar. #html_logo = None # The name of an image file (within the static path) to use as favicon of the # docs. This file should be a Windows icon file (.ico) being 16x16 or 32x32 # pixels large. #html_favicon = None # 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'] # Add any extra paths that contain custom files (such as robots.txt or # .htaccess) here, relative to this directory. These files are copied # directly to the root of the documentation. #html_extra_path = [] # If not '', a 'Last updated on:' timestamp is inserted at every page bottom, # using the given strftime format. #html_last_updated_fmt = '%b %d, %Y' # If true, SmartyPants will be used to convert quotes and dashes to # typographically correct entities. #html_use_smartypants = True # Custom sidebar templates, maps document names to template names. #html_sidebars = {} # Additional templates that should be rendered to pages, maps page names to # template names. #html_additional_pages = {} # If false, no module index is generated. #html_domain_indices = True # If false, no index is generated. #html_use_index = True # If true, the index is split into individual pages for each letter. #html_split_index = False # If true, links to the reST sources are added to the pages. #html_show_sourcelink = True # If true, "Created using Sphinx" is shown in the HTML footer. Default is True. #html_show_sphinx = True # If true, "(C) Copyright ..." is shown in the HTML footer. Default is True. #html_show_copyright = True # If true, an OpenSearch description file will be output, and all pages will # contain a tag referring to it. The value of this option must be the # base URL from which the finished HTML is served. #html_use_opensearch = '' # This is the file name suffix for HTML files (e.g. ".xhtml"). #html_file_suffix = None # Output file base name for HTML help builder. htmlhelp_basename = 'srcdoc' # -- 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': '', } # 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 = [ ('index', 'src.tex', u'XFEL Detector Tools', u'Steffen Hauf', 'manual'), ] # The name of an image file (relative to this directory) to place at the top of # the title page. #latex_logo = None # For "manual" documents, if this is true, then toplevel headings are parts, # not chapters. #latex_use_parts = False # If true, show page references after internal links. #latex_show_pagerefs = False # If true, show URL addresses after external links. #latex_show_urls = False # Documents to append as an appendix to all manuals. #latex_appendices = [] # If false, no module index is generated. #latex_domain_indices = True # -- Options for manual page output --------------------------------------- # One entry per manual page. List of tuples # (source start file, name, description, authors, manual section). man_pages = [ ('index', 'src', u'XFEL Detector Tools', [u'Author'], 1) ] # If true, show URL addresses after external links. #man_show_urls = False # -- 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 = [ ('index', 'src', u'XFEL Detector Tools', u'Author', 'src', 'One line description of project.', 'Miscellaneous'), ] # Documents to append as an appendix to all manuals. #texinfo_appendices = [] # If false, no module index is generated. #texinfo_domain_indices = True # How to display URL addresses: 'footnote', 'no', or 'inline'. #texinfo_show_urls = 'footnote' # If true, do not generate a @detailmenu in the "Top" node's menu. #texinfo_no_detailmenu = False # -- Options for Epub output ---------------------------------------------- # Bibliographic Dublin Core info. epub_title = u'XFEL Detector Tools' epub_author = u'Steffen Hauf' epub_publisher = u'European X-ray Free Electron Laser GmbH' epub_copyright = u'2014, Steffen Hauf' # The basename for the epub file. It defaults to the project name. #epub_basename = u'src' # The HTML theme for the epub output. Since the default themes are not optimized # for small screen space, using the same theme for HTML and epub output is # usually not wise. This defaults to 'epub', a theme designed to save visual # space. #epub_theme = 'epub' # The language of the text. It defaults to the language option # or en if the language is not set. #epub_language = '' # The scheme of the identifier. Typical schemes are ISBN or URL. #epub_scheme = '' # 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 tuple containing the cover image and cover page html template filenames. #epub_cover = () # A sequence of (type, uri, title) tuples for the guide element of content.opf. #epub_guide = () # HTML files that should be inserted before the pages created by sphinx. # The format is a list of tuples containing the path and title. #epub_pre_files = [] # HTML files shat should be inserted after the pages created by sphinx. # The format is a list of tuples containing the path and title. #epub_post_files = [] # A list of files that should not be packed into the epub file. epub_exclude_files = ['search.html'] # The depth of the table of contents in toc.ncx. #epub_tocdepth = 3 # Allow duplicate toc entries. #epub_tocdup = True # Choose between 'default' and 'includehidden'. #epub_tocscope = 'default' # Fix unsupported image types using the PIL. #epub_fix_images = False # Scale large images. #epub_max_image_width = 0 # How to display URL addresses: 'footnote', 'no', or 'inline'. #epub_show_urls = 'inline' # If false, no index is generated. #epub_use_index = True autoclass_content = 'both' napoleon_google_docstring = True napoleon_numpy_docstring = True napoleon_include_private_with_doc = True napoleon_include_special_with_doc = False napoleon_use_admonition_for_examples = False napoleon_use_admonition_for_notes = False napoleon_use_admonition_for_references = False napoleon_use_ivar = False napoleon_use_param = True napoleon_use_rtype = True intersphinx_mapping = { #'python': ('http://docs.python.org/2.7', None), 'python': ('https://python.readthedocs.io/en/latest/', None), 'numpy': ('http://docs.scipy.org/doc/numpy/', None), 'scipy': ('http://docs.scipy.org/doc/scipy/reference/', None), 'matplotlib': ('http://matplotlib.sourceforge.net/', None), 'sphinx': ('https://sphinx.readthedocs.io/en/latest/', None)} ########################################################################### # 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 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 else: SUFFIX = source_suffix[0] 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') html_static_path.append('/rtd_root/readthedocs/templates/sphinx/_static') # Add RTD Theme only if they aren't overriding it already using_rtd_theme = False if 'html_theme' in globals(): if html_theme in ['default']: # Allow people to bail with a hack of having an html_style if not 'html_style' in globals(): import sphinx_rtd_theme html_theme = 'sphinx_rtd_theme' html_style = None html_theme_options = {} if 'html_theme_path' in globals(): html_theme_path.append(sphinx_rtd_theme.get_html_theme_path()) else: html_theme_path = [sphinx_rtd_theme.get_html_theme_path()] using_rtd_theme = True else: import sphinx_rtd_theme html_theme = 'sphinx_rtd_theme' html_style = None html_theme_options = {} if 'html_theme_path' in globals(): html_theme_path.append(sphinx_rtd_theme.get_html_theme_path()) else: html_theme_path = [sphinx_rtd_theme.get_html_theme_path()] using_rtd_theme = True if globals().get('websupport2_base_url', False): websupport2_base_url = 'https://readthedocs.org/websupport' if 'http' not in settings.MEDIA_URL: websupport2_static_url = '/static/' else: websupport2_static_url = '/media//static' #Add project information to the template context. context = { 'using_theme': using_rtd_theme, 'html_theme': html_theme, 'current_version': "latest", 'MEDIA_URL': "/media/", 'PRODUCTION_DOMAIN': "exflrtd.desy.de", 'versions': [ ("latest", "/en/latest/"), ], 'downloads': [ ], 'subprojects': [ ], 'slug': 'pydetlib-test2', 'name': u'pydetlib_test2', 'rtd_language': u'en', 'canonical_url': 'http://exflrtd.desy.de/docs/pydetlib-test2/en/latest/', 'analytics_code': '', 'single_version': False, 'conf_py_path': '/doc/', 'api_host': 'https://readthedocs.org', 'github_user': 'None', 'github_repo': 'None', 'github_version': 'fix/building_readthedocs_2', 'display_github': False, 'bitbucket_user': 'None', 'bitbucket_repo': 'None', 'bitbucket_version': 'fix/building_readthedocs_2', 'display_bitbucket': False, 'READTHEDOCS': True, 'using_theme': (html_theme == "default"), 'new_theme': (html_theme == "sphinx_rtd_theme"), 'source_suffix': SUFFIX, 'user_analytics_code': '', 'global_analytics_code': 'UA-17997319-1', 'commit': 'd55e55ef', } if 'html_context' in globals(): html_context.update(context) else: html_context = context # Add custom RTD extension if 'extensions' in globals(): extensions.append("readthedocs_ext.readthedocs") else: extensions = ["readthedocs_ext.readthedocs"] [rtd-command-info] start-time: 2019-06-12T07:21:58.380000Z, end-time: 2019-06-12T07:23:14.279000Z, duration: 75, exit-code: 0 python /user_builds/pydetlib-test2/envs/latest/bin/sphinx-build -T -E -b readthedocs -d _build/doctrees-readthedocs -D language=en . _build/html Running Sphinx v1.8.5 [NbConvertApp] Converting notebook ../examples/gainMapStability.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in gainMapStability_files/ [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Writing 48113 bytes to ./gainMapStability.rst [NbConvertApp] Converting notebook ../examples/DataGeneratorExample.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in DataGeneratorExample_files/ [NbConvertApp] Making directory ./DataGeneratorExample_files [NbConvertApp] Writing 1984561 bytes to ./DataGeneratorExample.rst [NbConvertApp] Converting notebook ../examples/calculatorCreation.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Writing 15602 bytes to ./calculatorCreation.rst [NbConvertApp] Converting notebook ../examples/PlotExamples.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in PlotExamples_files/ [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Writing 23677 bytes to ./PlotExamples.rst rm: cannot remove ‘api/*’: No such file or directory Creating file ./api/XFELDetAna.rst. Creating file ./api/XFELDetAna.algorithms.rst. Creating file ./api/XFELDetAna.algorithms.cython.rst. Creating file ./api/XFELDetAna.algorithms.gpu.rst. Creating file ./api/XFELDetAna.algorithms.gpu.kernels.rst. Creating file ./api/XFELDetAna.algorithms.tests.rst. Creating file ./api/XFELDetAna.core.rst. Creating file ./api/XFELDetAna.detectors.rst. Creating file ./api/XFELDetAna.detectors.agipd.rst. Creating file ./api/XFELDetAna.detectors.agipd.dyrange_algorithms.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.kernels.rst. Creating file ./api/XFELDetAna.detectors.agipd.tests.rst. Creating file ./api/XFELDetAna.detectors.dssc.rst. Creating file ./api/XFELDetAna.detectors.edf_data.rst. Creating file ./api/XFELDetAna.detectors.epix.rst. Creating file ./api/XFELDetAna.detectors.fastccd.rst. Creating file ./api/XFELDetAna.detectors.generator.rst. Creating file ./api/XFELDetAna.detectors.jungfrau.rst. Creating file ./api/XFELDetAna.detectors.lpd.rst. Creating file ./api/XFELDetAna.detectors.pnccd.rst. Creating file ./api/XFELDetAna.plotting.rst. Creating file ./api/XFELDetAna.util.rst. Creating file ./api/modules.rst. loading translations [en]... done WARNING: extension 'sphinx.ext.apidoc' has no setup() function; is it really a Sphinx extension module? making output directory... loading intersphinx inventory from https://python.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from https://sphinx.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from http://matplotlib.sourceforge.net/objects.inv... intersphinx inventory has moved: http://matplotlib.sourceforge.net/objects.inv -> https://matplotlib.org/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/scipy/reference/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/scipy/reference/objects.inv -> https://docs.scipy.org/doc/scipy/reference/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/numpy/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/numpy/objects.inv -> https://docs.scipy.org/doc/numpy/objects.inv building [mo]: targets for 0 po files that are out of date building [readthedocs]: targets for 30 source files that are out of date updating environment: 30 added, 0 changed, 0 removed reading sources... 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RemovedInSphinx20Warning) /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:18: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:24: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:44: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:48: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:54: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:7: WARNING: toctree contains reference to nonexisting document 'api/XFELDetAna.algorithms.cython' /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator:38: WARNING: Unknown interpreted text role "method". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator.get:26: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:14: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:88: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/gpu/correct_common_mode.py:docstring of XFELDetAna.algorithms.gpu.correct_common_mode._gpuCommonMode:11: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:12: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:56: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst:49: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst WARNING: autodoc: failed to import module 'test_characterize_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_noise' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_rel_gain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_split_events' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_common_mode' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_relgain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_statistics' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_unitary' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'testing_base' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:69: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/core/reader.py:docstring of XFELDetAna.core.reader.ChunkReader.readChunks:8: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst:34: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst:20: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.agipd.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.agipd.rst:14: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.agipd.rst:38: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:5: WARNING: Unexpected section title or transition. ____________ /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:6: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:6: WARNING: Inline substitution_reference start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:7: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:8: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:15: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:18: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:20: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:20: WARNING: Inline substitution_reference start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:20: WARNING: Inline substitution_reference start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:21: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:22: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:29: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:5: WARNING: Unexpected section title or transition. ____________ /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:6: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:6: WARNING: Inline substitution_reference start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of 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Please use app.add_stylesheet() instead. app.builder.css_files.insert(0, theme_css) /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/characterize_relgain.py:docstring of XFELDetAna.algorithms.characterize_relgain.GainMapCalculator:9: WARNING: undefined label: _gainmapstability (if the link has no caption the label must precede a section header) generating indices... genindex py-modindex highlighting module code... [ 1%] XFELDetAna.algorithms.characterize_cti highlighting module code... [ 3%] XFELDetAna.algorithms.characterize_noise highlighting module code... [ 5%] XFELDetAna.algorithms.characterize_relgain highlighting module code... [ 6%] XFELDetAna.algorithms.correct_common_mode highlighting module code... [ 8%] XFELDetAna.algorithms.correct_cti highlighting module code... [ 10%] XFELDetAna.algorithms.correct_offset highlighting module code... [ 12%] XFELDetAna.algorithms.correct_relgain highlighting module code... 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Use sphinx.util.logging instead. app.info('done') [rtd-command-info] start-time: 2019-06-12T07:23:25.610000Z, end-time: 2019-06-12T07:24:24.502000Z, duration: 58, exit-code: 0 python /user_builds/pydetlib-test2/envs/latest/bin/sphinx-build -T -b json -d _build/doctrees-json -D language=en . _build/json Running Sphinx v1.8.5 mkdir: cannot create directory ‘_notebooks’: File exists [NbConvertApp] Converting notebook ../examples/gainMapStability.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in gainMapStability_files/ [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Writing 48113 bytes to ./gainMapStability.rst [NbConvertApp] Converting notebook ../examples/DataGeneratorExample.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in DataGeneratorExample_files/ [NbConvertApp] Making directory ./DataGeneratorExample_files [NbConvertApp] Writing 1984561 bytes to ./DataGeneratorExample.rst [NbConvertApp] Converting notebook ../examples/calculatorCreation.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Writing 15602 bytes to ./calculatorCreation.rst [NbConvertApp] Converting notebook ../examples/PlotExamples.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in PlotExamples_files/ [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Writing 23677 bytes to ./PlotExamples.rst Creating file ./api/XFELDetAna.rst. Creating file ./api/XFELDetAna.algorithms.rst. Creating file ./api/XFELDetAna.algorithms.cython.rst. Creating file ./api/XFELDetAna.algorithms.gpu.rst. Creating file ./api/XFELDetAna.algorithms.gpu.kernels.rst. Creating file ./api/XFELDetAna.algorithms.tests.rst. Creating file ./api/XFELDetAna.core.rst. Creating file ./api/XFELDetAna.detectors.rst. Creating file ./api/XFELDetAna.detectors.agipd.rst. Creating file ./api/XFELDetAna.detectors.agipd.dyrange_algorithms.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.kernels.rst. Creating file ./api/XFELDetAna.detectors.agipd.tests.rst. Creating file ./api/XFELDetAna.detectors.dssc.rst. Creating file ./api/XFELDetAna.detectors.edf_data.rst. Creating file ./api/XFELDetAna.detectors.epix.rst. Creating file ./api/XFELDetAna.detectors.fastccd.rst. Creating file ./api/XFELDetAna.detectors.generator.rst. Creating file ./api/XFELDetAna.detectors.jungfrau.rst. Creating file ./api/XFELDetAna.detectors.lpd.rst. Creating file ./api/XFELDetAna.detectors.pnccd.rst. Creating file ./api/XFELDetAna.plotting.rst. Creating file ./api/XFELDetAna.util.rst. Creating file ./api/modules.rst. loading translations [en]... done WARNING: extension 'sphinx.ext.apidoc' has no setup() function; is it really a Sphinx extension module? making output directory... loading intersphinx inventory from https://sphinx.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from https://python.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from http://matplotlib.sourceforge.net/objects.inv... intersphinx inventory has moved: http://matplotlib.sourceforge.net/objects.inv -> https://matplotlib.org/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/scipy/reference/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/scipy/reference/objects.inv -> https://docs.scipy.org/doc/scipy/reference/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/numpy/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/numpy/objects.inv -> https://docs.scipy.org/doc/numpy/objects.inv building [mo]: targets for 0 po files that are out of date building [json]: targets for 30 source files that are out of date updating environment: 30 added, 0 changed, 0 removed reading sources... [ 3%] _notebooks/DataGeneratorExample reading sources... [ 6%] _notebooks/PlotExamples reading sources... [ 10%] _notebooks/calculatorCreation reading sources... [ 13%] _notebooks/gainMapStability reading sources... [ 16%] _notebooks/index reading sources... [ 20%] api/XFELDetAna reading sources... [ 23%] api/XFELDetAna.algorithms reading sources... [ 26%] api/XFELDetAna.algorithms.gpu reading sources... [ 30%] api/XFELDetAna.algorithms.gpu.kernels reading sources... [ 33%] api/XFELDetAna.algorithms.tests reading sources... [ 36%] api/XFELDetAna.core reading sources... [ 40%] api/XFELDetAna.detectors reading sources... [ 43%] api/XFELDetAna.detectors.agipd reading sources... [ 46%] api/XFELDetAna.detectors.agipd.dyrange_algorithms reading sources... [ 50%] api/XFELDetAna.detectors.agipd.gpu reading sources... [ 53%] api/XFELDetAna.detectors.agipd.gpu.kernels reading sources... [ 56%] api/XFELDetAna.detectors.agipd.tests reading sources... [ 60%] api/XFELDetAna.detectors.dssc reading sources... [ 63%] api/XFELDetAna.detectors.edf_data reading sources... [ 66%] api/XFELDetAna.detectors.epix reading sources... [ 70%] api/XFELDetAna.detectors.fastccd reading sources... [ 73%] api/XFELDetAna.detectors.generator reading sources... [ 76%] api/XFELDetAna.detectors.jungfrau reading sources... [ 80%] api/XFELDetAna.detectors.lpd reading sources... [ 83%] api/XFELDetAna.detectors.pnccd reading sources... [ 86%] api/XFELDetAna.plotting reading sources... [ 90%] api/XFELDetAna.util reading sources... [ 93%] api/modules reading sources... [ 96%] index reading sources... [100%] installation /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/sphinx/websupport/__init__.py:25: RemovedInSphinx20Warning: sphinx.websupport module is now provided as sphinxcontrib-websupport. sphinx.websupport will be removed at Sphinx-2.0. Please use the package instead. RemovedInSphinx20Warning) /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:18: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:24: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:44: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:48: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:54: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:7: WARNING: toctree contains reference to nonexisting document 'api/XFELDetAna.algorithms.cython' /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator:38: WARNING: Unknown interpreted text role "method". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator.get:26: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:14: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:88: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/gpu/correct_common_mode.py:docstring of XFELDetAna.algorithms.gpu.correct_common_mode._gpuCommonMode:11: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:12: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:56: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst:49: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst WARNING: autodoc: failed to import module 'test_characterize_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_noise' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_rel_gain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_split_events' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_common_mode' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_relgain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_statistics' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_unitary' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'testing_base' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:69: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/core/reader.py:docstring of XFELDetAna.core.reader.ChunkReader.readChunks:8: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst:34: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst:5: WARNING: duplicate label subpackages, other instance in 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/user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:5: WARNING: Unexpected section title or transition. ____________ /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:6: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:6: WARNING: Inline substitution_reference start-string without end-string. 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile:44: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile:50: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:4: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:10: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:22: WARNING: Block quote ends without a 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.fill:19: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.fill:22: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.getG0Calibration:8: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.getHigerGainCalibration:8: WARNING: Definition list ends without a 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XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapCurrSourceChunk:4: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapCurrSourceChunk:10: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapFitter:4: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapFitter:20: WARNING: Inline emphasis start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainSpectraFitter:6: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/jf_chunk_reader.py:docstring of XFELDetAna.detectors.jungfrau.jf_chunk_reader.JFChunkReader.readChunks:10: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.generator.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst:39: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.generator.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst:14: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.pnccd.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.pnccd.rst:19: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.plotting.rst:5: WARNING: duplicate label submodules, other instance in 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Welcome to XFEL Detector Tools' documentation! =============================== looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 3%] _notebooks/DataGeneratorExample writing output... [ 6%] _notebooks/PlotExamples writing output... [ 10%] _notebooks/calculatorCreation writing output... [ 13%] _notebooks/gainMapStability writing output... [ 16%] _notebooks/index writing output... [ 20%] api/XFELDetAna writing output... [ 23%] api/XFELDetAna.algorithms writing output... [ 26%] api/XFELDetAna.algorithms.gpu writing output... [ 30%] api/XFELDetAna.algorithms.gpu.kernels writing output... [ 33%] api/XFELDetAna.algorithms.tests writing output... [ 36%] api/XFELDetAna.core writing output... [ 40%] api/XFELDetAna.detectors writing output... [ 43%] api/XFELDetAna.detectors.agipd writing output... [ 46%] api/XFELDetAna.detectors.agipd.dyrange_algorithms writing output... 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[100%] installation /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/characterize_relgain.py:docstring of XFELDetAna.algorithms.characterize_relgain.GainMapCalculator:9: WARNING: undefined label: _gainmapstability (if the link has no caption the label must precede a section header) generating indices... genindex py-modindex highlighting module code... [ 1%] XFELDetAna.algorithms.characterize_cti highlighting module code... [ 3%] XFELDetAna.algorithms.characterize_noise highlighting module code... [ 5%] XFELDetAna.algorithms.characterize_relgain highlighting module code... [ 6%] XFELDetAna.algorithms.correct_common_mode highlighting module code... [ 8%] XFELDetAna.algorithms.correct_cti highlighting module code... [ 10%] XFELDetAna.algorithms.correct_offset highlighting module code... [ 12%] XFELDetAna.algorithms.correct_relgain highlighting module code... [ 13%] XFELDetAna.algorithms.correction highlighting module code... 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[rtd-command-info] start-time: 2019-06-12T07:24:29.893000Z, end-time: 2019-06-12T07:25:23.260000Z, duration: 53, exit-code: 0 python /user_builds/pydetlib-test2/envs/latest/bin/sphinx-build -T -b readthedocssinglehtmllocalmedia -d _build/doctrees-readthedocssinglehtmllocalmedia -D language=en . _build/localmedia Running Sphinx v1.8.5 mkdir: cannot create directory ‘_notebooks’: File exists [NbConvertApp] Converting notebook ../examples/gainMapStability.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in gainMapStability_files/ [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Writing 48113 bytes to ./gainMapStability.rst [NbConvertApp] Converting notebook ../examples/DataGeneratorExample.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in DataGeneratorExample_files/ [NbConvertApp] Making directory ./DataGeneratorExample_files [NbConvertApp] Writing 1984561 bytes to ./DataGeneratorExample.rst [NbConvertApp] Converting notebook ../examples/calculatorCreation.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Writing 15602 bytes to ./calculatorCreation.rst [NbConvertApp] Converting notebook ../examples/PlotExamples.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in PlotExamples_files/ [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Writing 23677 bytes to ./PlotExamples.rst Creating file ./api/XFELDetAna.rst. Creating file ./api/XFELDetAna.algorithms.rst. Creating file ./api/XFELDetAna.algorithms.cython.rst. Creating file ./api/XFELDetAna.algorithms.gpu.rst. Creating file ./api/XFELDetAna.algorithms.gpu.kernels.rst. Creating file ./api/XFELDetAna.algorithms.tests.rst. Creating file ./api/XFELDetAna.core.rst. Creating file ./api/XFELDetAna.detectors.rst. Creating file ./api/XFELDetAna.detectors.agipd.rst. Creating file ./api/XFELDetAna.detectors.agipd.dyrange_algorithms.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.kernels.rst. Creating file ./api/XFELDetAna.detectors.agipd.tests.rst. Creating file ./api/XFELDetAna.detectors.dssc.rst. Creating file ./api/XFELDetAna.detectors.edf_data.rst. Creating file ./api/XFELDetAna.detectors.epix.rst. Creating file ./api/XFELDetAna.detectors.fastccd.rst. Creating file ./api/XFELDetAna.detectors.generator.rst. Creating file ./api/XFELDetAna.detectors.jungfrau.rst. Creating file ./api/XFELDetAna.detectors.lpd.rst. Creating file ./api/XFELDetAna.detectors.pnccd.rst. Creating file ./api/XFELDetAna.plotting.rst. Creating file ./api/XFELDetAna.util.rst. Creating file ./api/modules.rst. loading translations [en]... done WARNING: extension 'sphinx.ext.apidoc' has no setup() function; is it really a Sphinx extension module? making output directory... loading intersphinx inventory from https://sphinx.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from http://matplotlib.sourceforge.net/objects.inv... intersphinx inventory has moved: http://matplotlib.sourceforge.net/objects.inv -> https://matplotlib.org/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/scipy/reference/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/scipy/reference/objects.inv -> https://docs.scipy.org/doc/scipy/reference/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/numpy/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/numpy/objects.inv -> https://docs.scipy.org/doc/numpy/objects.inv loading intersphinx inventory from https://python.readthedocs.io/en/latest/objects.inv... building [mo]: targets for 0 po files that are out of date building [readthedocssinglehtmllocalmedia]: all documents updating environment: 30 added, 0 changed, 0 removed reading sources... [ 3%] _notebooks/DataGeneratorExample reading sources... [ 6%] _notebooks/PlotExamples reading sources... [ 10%] _notebooks/calculatorCreation reading sources... [ 13%] _notebooks/gainMapStability reading sources... [ 16%] _notebooks/index reading sources... [ 20%] api/XFELDetAna reading sources... [ 23%] api/XFELDetAna.algorithms reading sources... [ 26%] api/XFELDetAna.algorithms.gpu reading sources... [ 30%] api/XFELDetAna.algorithms.gpu.kernels reading sources... [ 33%] api/XFELDetAna.algorithms.tests reading sources... [ 36%] api/XFELDetAna.core reading sources... [ 40%] api/XFELDetAna.detectors reading sources... [ 43%] api/XFELDetAna.detectors.agipd reading sources... [ 46%] api/XFELDetAna.detectors.agipd.dyrange_algorithms reading sources... [ 50%] api/XFELDetAna.detectors.agipd.gpu reading sources... [ 53%] api/XFELDetAna.detectors.agipd.gpu.kernels reading sources... [ 56%] api/XFELDetAna.detectors.agipd.tests reading sources... [ 60%] api/XFELDetAna.detectors.dssc reading sources... [ 63%] api/XFELDetAna.detectors.edf_data reading sources... [ 66%] api/XFELDetAna.detectors.epix reading sources... [ 70%] api/XFELDetAna.detectors.fastccd reading sources... [ 73%] api/XFELDetAna.detectors.generator reading sources... [ 76%] api/XFELDetAna.detectors.jungfrau reading sources... [ 80%] api/XFELDetAna.detectors.lpd reading sources... [ 83%] api/XFELDetAna.detectors.pnccd reading sources... [ 86%] api/XFELDetAna.plotting reading sources... [ 90%] api/XFELDetAna.util reading sources... [ 93%] api/modules reading sources... [ 96%] index reading sources... [100%] installation /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/sphinx/websupport/__init__.py:25: RemovedInSphinx20Warning: sphinx.websupport module is now provided as sphinxcontrib-websupport. sphinx.websupport will be removed at Sphinx-2.0. Please use the package instead. RemovedInSphinx20Warning) /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:18: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:24: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:44: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:48: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:54: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:7: WARNING: toctree contains reference to nonexisting document 'api/XFELDetAna.algorithms.cython' /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator:38: WARNING: Unknown interpreted text role "method". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator.get:26: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:14: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:88: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/gpu/correct_common_mode.py:docstring of XFELDetAna.algorithms.gpu.correct_common_mode._gpuCommonMode:11: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:12: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:56: WARNING: duplicate label module contents, other instance in 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'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_rel_gain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_split_events' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_common_mode' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_relgain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_statistics' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_unitary' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'testing_base' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:69: WARNING: duplicate label module contents, other 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:7: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:8: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:15: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:5: WARNING: Unexpected section title or transition. ____________ /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:6: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:6: WARNING: Inline substitution_reference start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:7: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:8: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:15: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:18: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:20: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:20: WARNING: Inline substitution_reference start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:20: WARNING: Inline substitution_reference start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:21: WARNING: Undefined substitution referenced: "___________ |". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:21: WARNING: Undefined substitution referenced: "___________ |". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRangeSingleAsic.get_data:25: WARNING: Undefined substitution referenced: "____________". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/process.py:docstring of 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile:44: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile:50: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:4: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:10: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:22: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.WriteImage:3: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.WriteImage:5: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.WriteImage:18: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.WriteImage:31: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.edf_data.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.dssc.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.edf_data.rst:24: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.dssc.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.epix.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.edf_data.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.epix.rst:14: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.edf_data.rst 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.fill:19: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.fill:22: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.getG0Calibration:8: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.getHigerGainCalibration:8: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.getHigerGainCalibration:10: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.getHigerGainCalibration:10: WARNING: Inline emphasis start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator.getHigerGainCalibration:12: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapCurrSourceChunk:4: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapCurrSourceChunk:10: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapFitter:4: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainMapFitter:20: WARNING: Inline emphasis start-string without end-string. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/characterize_jfgain.py:docstring of XFELDetAna.detectors.jungfrau.characterize_jfgain._gainSpectraFitter:6: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/jungfrau/jf_chunk_reader.py:docstring of XFELDetAna.detectors.jungfrau.jf_chunk_reader.JFChunkReader.readChunks:10: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.generator.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst:39: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.generator.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst:14: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.jungfrau.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.pnccd.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.pnccd.rst:19: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.lpd.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.plotting.rst:5: WARNING: duplicate label submodules, other instance in 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Welcome to XFEL Detector Tools' documentation! =============================== looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done assembling single document... installation _notebooks/index _notebooks/gainMapStability _notebooks/DataGeneratorExample _notebooks/calculatorCreation _notebooks/PlotExamples api/modules api/XFELDetAna api/XFELDetAna.algorithms api/XFELDetAna.algorithms.gpu api/XFELDetAna.algorithms.gpu.kernels api/XFELDetAna.algorithms.tests api/XFELDetAna.core api/XFELDetAna.detectors api/XFELDetAna.detectors.agipd api/XFELDetAna.detectors.agipd.dyrange_algorithms api/XFELDetAna.detectors.agipd.gpu api/XFELDetAna.detectors.agipd.gpu.kernels api/XFELDetAna.detectors.agipd.tests api/XFELDetAna.detectors.dssc api/XFELDetAna.detectors.edf_data api/XFELDetAna.detectors.epix api/XFELDetAna.detectors.fastccd api/XFELDetAna.detectors.generator api/XFELDetAna.detectors.jungfrau api/XFELDetAna.detectors.lpd api/XFELDetAna.detectors.pnccd api/XFELDetAna.plotting api/XFELDetAna.util /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/characterize_relgain.py:docstring of XFELDetAna.algorithms.characterize_relgain.GainMapCalculator:9: WARNING: undefined label: _gainmapstability (if the link has no caption the label must precede a section header) writing... done writing additional files... copying images... 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Please use app.add_stylesheet() instead. app.builder.css_files.insert(0, theme_css) WARNING: html_static_path entry '/user_builds/pydetlib-test2/checkouts/latest/lib/docs/_static' does not exist WARNING: html_static_path entry '/rtd_root/readthedocs/templates/sphinx/_static' does not exist done copying extra files... done dumping object inventory... done build succeeded, 139 warnings. The HTML page is in _build/localmedia. [rtd-command-info] start-time: 2019-06-12T07:25:24.911000Z, end-time: 2019-06-12T07:26:17.566000Z, duration: 52, exit-code: 0 python /user_builds/pydetlib-test2/envs/latest/bin/sphinx-build -b latex -D language=en -d _build/doctrees . _build/latex Running Sphinx v1.8.5 mkdir: cannot create directory ‘_notebooks’: File exists [NbConvertApp] Converting notebook ../examples/gainMapStability.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in gainMapStability_files/ [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Writing 48113 bytes to ./gainMapStability.rst [NbConvertApp] Converting notebook ../examples/DataGeneratorExample.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in DataGeneratorExample_files/ [NbConvertApp] Making directory ./DataGeneratorExample_files [NbConvertApp] Writing 1984561 bytes to ./DataGeneratorExample.rst [NbConvertApp] Converting notebook ../examples/calculatorCreation.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Writing 15602 bytes to ./calculatorCreation.rst [NbConvertApp] Converting notebook ../examples/PlotExamples.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in PlotExamples_files/ [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Writing 23677 bytes to ./PlotExamples.rst Creating file ./api/XFELDetAna.rst. Creating file ./api/XFELDetAna.algorithms.rst. Creating file ./api/XFELDetAna.algorithms.cython.rst. Creating file ./api/XFELDetAna.algorithms.gpu.rst. Creating file ./api/XFELDetAna.algorithms.gpu.kernels.rst. Creating file ./api/XFELDetAna.algorithms.tests.rst. Creating file ./api/XFELDetAna.core.rst. Creating file ./api/XFELDetAna.detectors.rst. Creating file ./api/XFELDetAna.detectors.agipd.rst. Creating file ./api/XFELDetAna.detectors.agipd.dyrange_algorithms.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.kernels.rst. Creating file ./api/XFELDetAna.detectors.agipd.tests.rst. Creating file ./api/XFELDetAna.detectors.dssc.rst. Creating file ./api/XFELDetAna.detectors.edf_data.rst. Creating file ./api/XFELDetAna.detectors.epix.rst. Creating file ./api/XFELDetAna.detectors.fastccd.rst. Creating file ./api/XFELDetAna.detectors.generator.rst. Creating file ./api/XFELDetAna.detectors.jungfrau.rst. Creating file ./api/XFELDetAna.detectors.lpd.rst. Creating file ./api/XFELDetAna.detectors.pnccd.rst. Creating file ./api/XFELDetAna.plotting.rst. Creating file ./api/XFELDetAna.util.rst. Creating file ./api/modules.rst. loading translations [en]... done WARNING: extension 'sphinx.ext.apidoc' has no setup() function; is it really a Sphinx extension module? making output directory... loading intersphinx inventory from https://python.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from https://sphinx.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from http://docs.scipy.org/doc/scipy/reference/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/scipy/reference/objects.inv -> https://docs.scipy.org/doc/scipy/reference/objects.inv loading intersphinx inventory from http://matplotlib.sourceforge.net/objects.inv... intersphinx inventory has moved: http://matplotlib.sourceforge.net/objects.inv -> https://matplotlib.org/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/numpy/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/numpy/objects.inv -> https://docs.scipy.org/doc/numpy/objects.inv building [mo]: targets for 0 po files that are out of date building [latex]: all documents updating environment: 30 added, 0 changed, 0 removed reading sources... [ 3%] _notebooks/DataGeneratorExample reading sources... [ 6%] _notebooks/PlotExamples reading sources... [ 10%] _notebooks/calculatorCreation reading sources... [ 13%] _notebooks/gainMapStability reading sources... [ 16%] _notebooks/index reading sources... [ 20%] api/XFELDetAna reading sources... [ 23%] api/XFELDetAna.algorithms reading sources... [ 26%] api/XFELDetAna.algorithms.gpu reading sources... [ 30%] api/XFELDetAna.algorithms.gpu.kernels reading sources... [ 33%] api/XFELDetAna.algorithms.tests reading sources... [ 36%] api/XFELDetAna.core reading sources... [ 40%] api/XFELDetAna.detectors reading sources... [ 43%] api/XFELDetAna.detectors.agipd reading sources... [ 46%] api/XFELDetAna.detectors.agipd.dyrange_algorithms reading sources... [ 50%] api/XFELDetAna.detectors.agipd.gpu reading sources... [ 53%] api/XFELDetAna.detectors.agipd.gpu.kernels reading sources... [ 56%] api/XFELDetAna.detectors.agipd.tests reading sources... 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator:38: WARNING: Unknown interpreted text role "method". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator.get:26: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:14: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:88: WARNING: duplicate label module 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'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_rel_gain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_split_events' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_common_mode' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:7: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:8: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:15: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of 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Welcome to XFEL Detector Tools' documentation! =============================== looking for now-outdated files... none found pickling environment... done checking consistency... done processing src.tex...index installation _notebooks/index _notebooks/gainMapStability _notebooks/DataGeneratorExample _notebooks/calculatorCreation _notebooks/PlotExamples api/modules api/XFELDetAna api/XFELDetAna.algorithms api/XFELDetAna.algorithms.gpu api/XFELDetAna.algorithms.gpu.kernels api/XFELDetAna.algorithms.tests api/XFELDetAna.core api/XFELDetAna.detectors api/XFELDetAna.detectors.agipd api/XFELDetAna.detectors.agipd.dyrange_algorithms api/XFELDetAna.detectors.agipd.gpu api/XFELDetAna.detectors.agipd.gpu.kernels api/XFELDetAna.detectors.agipd.tests api/XFELDetAna.detectors.dssc api/XFELDetAna.detectors.edf_data api/XFELDetAna.detectors.epix api/XFELDetAna.detectors.fastccd api/XFELDetAna.detectors.generator api/XFELDetAna.detectors.jungfrau api/XFELDetAna.detectors.lpd api/XFELDetAna.detectors.pnccd api/XFELDetAna.plotting api/XFELDetAna.util resolving references... /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/characterize_relgain.py:docstring of XFELDetAna.algorithms.characterize_relgain.GainMapCalculator:9: WARNING: undefined label: _gainmapstability (if the link has no caption the label must precede a section header) writing... done copying images... 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[rtd-command-info] start-time: 2019-06-12T07:26:17.655000Z, end-time: 2019-06-12T07:26:24.688000Z, duration: 7, exit-code: 0 pdflatex -interaction=nonstopmode /user_builds/pydetlib-test2/checkouts/latest/doc/_build/latex/src.tex This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2015/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (/user_builds/pydetlib-test2/checkouts/latest/doc/_build/latex/src.tex LaTeX2e <2014/05/01> Babel <3.9l> and hyphenation patterns for 2 languages loaded. 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[5] [6] Chapter 3. LaTeX Warning: Hyper reference `api/XFELDetAna.algorithms:XFELDetAna.algorithms .characterize_relgain.GainMapCalculator' on page 7 undefined on input line 131. Underfull \hbox (badness 10000) in paragraph at lines 143--144 []\T1/ptm/b/n/10 :raw-latex:`\begin{equation*} p'_{i,k}(v_i) = \frac{p_{i,k}(v_ i)}{\sum_{k=-1}^{1} p_{i,k}(v_i) } Underfull \hbox (badness 10000) in paragraph at lines 149--150 []\T1/ptm/b/n/10 :raw-latex:`\begin{equation*} \lan-gle px_{x,y,c} \ran-gle = \ frac{\sum_{i=0}^{N} LaTeX Warning: Hyper reference `api/XFELDetAna.algorithms:XFELDetAna.algorithms .characterize_relgain.GainMapCalculator' on page 7 undefined on input line 153. 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[135] [136] [137] Underfull \hbox (badness 10000) in paragraph at lines 8926--8928 []\T1/ptm/m/n/10 Usually the [138] [139] [140] Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 []\T1/ptm/m/it/10 ax\T1/ptm/m/n/10 , \T1/ptm/m/it/10 d\T1/ptm/m/n/10 , \T1/ptm/ m/it/10 cmap=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 norm=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 \T1/ptm/m/it/10 vmin=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 vmax=None\T1/ptm/m/n/ 10 , \T1/ptm/m/it/10 al-pha=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 \T1/ptm/m/it/10 linewidths=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 edge-col-ors='f ace'\T1/ptm/m/n/10 , \T1/ptm/m/it/10 re- Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 \T1/ptm/m/it/10 duce_C_function=\T1/ptm/m/n/10 , [141] Underfull \hbox (badness 6792) in paragraph at lines 9508--9508 []\T1/ptm/m/it/10 data\T1/ptm/m/n/10 , \T1/ptm/m/it/10 axes\T1/ptm/m/n/10 , \T1 /ptm/m/it/10 ax-is-Names\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ti-tle=None\T1/ptm/m/n /10 , [142] Underfull \hbox (badness 10000) in paragraph at lines 9534--9535 []\T1/pcr/b/n/10 will be passed to the matplotlib fill_between() function. [143] [144] [145] [146] [147] LaTeX Warning: Hyper reference `api/XFELDetAna.util:XFELDetAna.util.knumpy.axis Meaning' on page 148 undefined on input line 10546. [148] [149] LaTeX Warning: Hyper reference `api/XFELDetAna.util:XFELDetAna.util.knumpy.axis Meaning' on page 150 undefined on input line 11082. LaTeX Warning: Hyper reference `api/XFELDetAna.util:XFELDetAna.util.knumpy.axis Meaning' on page 150 undefined on input line 11090. LaTeX Warning: Hyper reference `api/XFELDetAna.util:XFELDetAna.util.knumpy.axis Meaning' on page 150 undefined on input line 11098. [150] [151] [152] [153] [154] LaTeX Warning: Hyper reference `api/XFELDetAna.util:XFELDetAna.util.knumpy.axis Meaning' on page 155 undefined on input line 12132. [155] [156] LaTeX Warning: Hyper reference `api/XFELDetAna.util:XFELDetAna.util.knumpy.axis Meaning' on page 157 undefined on input line 12590. 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LaTeX Warning: Reference `api/XFELDetAna:module-XFELDetAna.xfelpycaltools' on p age 166 undefined on input line 13306. LaTeX Warning: Reference `api/XFELDetAna:module-XFELDetAna.xfelreaders' on page 166 undefined on input line 13307. LaTeX Warning: Reference `api/XFELDetAna:module-XFELDetAna.xfelsettings' on pag e 166 undefined on input line 13308. [166] No file src.ind. (./src.aux) Package rerunfilecheck Warning: File `src.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/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on src.pdf (170 pages, 2466281 bytes). Transcript written on src.log. [rtd-command-info] start-time: 2019-06-12T07:26:24.776000Z, end-time: 2019-06-12T07:26:24.860000Z, duration: 0, exit-code: 0 makeindex -s python.ist src.idx This is makeindex, version 2.15 [TeX Live 2015/dev] (kpathsea + Thai support). Scanning style file ./python.ist.......done (7 attributes redefined, 0 ignored). Scanning input file src.idx.....done (1001 entries accepted, 0 rejected). Sorting entries...........done (11139 comparisons). Generating output file src.ind.....done (1458 lines written, 0 warnings). Output written in src.ind. Transcript written in src.ilg. [rtd-command-info] start-time: 2019-06-12T07:26:24.916000Z, end-time: 2019-06-12T07:26:32.445000Z, duration: 7, exit-code: 0 pdflatex -interaction=nonstopmode /user_builds/pydetlib-test2/checkouts/latest/doc/_build/latex/src.tex This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2015/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (/user_builds/pydetlib-test2/checkouts/latest/doc/_build/latex/src.tex LaTeX2e <2014/05/01> Babel <3.9l> and hyphenation patterns for 2 languages loaded. 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at lines 3407--3407 \T1/ptm/m/it/10 block-Size\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 noisemap\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 crange\T1/ptm/m/n/10 , \T1/ptm/m/it/10 mem- Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 Cells\T1/ptm/m/n/10 , \T1/ptm/m/it/10 stack\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 sig\T1/ptm/m/n/10 , \T1/ptm/m/it/10 bs=4\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 cellTable=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 gain- Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 Code=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3407--3407 \T1/ptm/m/it/10 shape=None\T1/ptm/m/n/10 , Underfull 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Underfull \hbox (badness 10000) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 al-lowed- Underfull \hbox (badness 10000) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 Devs\T1/ptm/m/n/10 , Overfull \hbox (27.04456pt too wide) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 noiseMap=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Overfull \hbox (28.14453pt too wide) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 method='means'\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 de-vi-a-tion- Overfull \hbox (21.78412pt too wide) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 Type='relative'\T1/ptm/m/n/10 , Overfull \hbox (14.44444pt too wide) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Overfull \hbox (1.76465pt too wide) in paragraph at lines 3707--3707 \T1/ptm/m/it/10 **kwargs\T1/pcr/m/n/10 ) [92] Underfull \hbox (badness 10000) in paragraph at lines 3835--3838 []\T1/pcr/b/n/10 restrictPeaks \T1/ptm/m/n/10 (\T1/pcr/m/sl/10 List of peak ind exes to restrict evaluation [93] Underfull \hbox (badness 10000) in paragraph at lines 3971--3971 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 block- Underfull \hbox (badness 10000) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 Size\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 ori-en- Underfull \hbox (badness 10000) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 ta-tion\T1/ptm/m/n/10 , Overfull \hbox (4.78467pt too wide) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 cores=4\T1/ptm/m/n/10 , Overfull \hbox (9.05455pt too wide) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Overfull \hbox (26.44444pt too wide) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Overfull \hbox (13.76465pt too wide) in paragraph at lines 3971--3971 \T1/ptm/m/it/10 **kwargs\T1/pcr/m/n/10 ) [94] Underfull \hbox (badness 10000) in paragraph at lines 4108--4108 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ctiVec-tor\T1/ptm/m/n/1 0 , \T1/ptm/m/it/10 axis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4108--4108 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Overfull \hbox (1.76465pt too wide) in paragraph at lines 4238--4238 \T1/ptm/m/it/10 **kwargs\T1/pcr/m/n/10 ) [96] Underfull \hbox (badness 10000) in paragraph at lines 4321--4321 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 cor-rec-tion-Map\T1/ptm /m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4321--4321 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , \T1/ptm/m/it/10 check_dims=True\T1/ptm /m/n/10 , [97] Underfull \hbox (badness 10000) in paragraph at lines 4452--4452 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 bins\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4452--4452 \T1/ptm/m/it/10 range\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , [98] Underfull \hbox (badness 5954) in paragraph at lines 4506--4508 []\T1/ptm/m/n/10 complete sen-sor but on a per- [99] [100] [101] Underfull \hbox (badness 10000) in paragraph at lines 4874--4875 []\T1/pcr/b/n/10 function. For any 1-d vector in this list it will be Underfull \hbox (badness 10000) in paragraph at lines 4877--4878 []\T1/pcr/b/n/10 to mask/remove data as is done with the data block. [102] Underfull \hbox (badness 10000) in paragraph at lines 4883--4884 []\T1/pcr/b/n/10 where True denotes remove of an image at this position. Underfull \hbox (badness 10000) in paragraph at lines 4886--4887 []\T1/pcr/b/n/10 indices is given, the evaluation function is NOT evaluated. Underfull \hbox (badness 10000) in paragraph at lines 4907--4907 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 fil-l-Value=None\T1/ptm /m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4907--4907 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dType= for immediate help. ... l.5102 \item {} \begin{description} Underfull \hbox (badness 5711) in paragraph at lines 5135--5138 []\T1/ptm/m/n/10 the iden-ti-fied pat- [105] Underfull \hbox (badness 10000) in paragraph at lines 5289--5289 \T1/ptm/m/it/10 nCells=1, dType=\T1/ptm/m/n/10 , [106] Underfull \hbox (badness 10000) in paragraph at lines 5363--5363 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5363--5363 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5416--5416 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5416--5416 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 Pulse=False\T1/ptm/m/n/10 , \T1/ptm/m/it/10 statsPer- Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 Gain=False\T1/ptm/m/n/10 , \T1/ptm/m/it/10 thresh- Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 old-High=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 thresh- Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 old-Low=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 thresh- Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 oldA-gain-st-Noise=False\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 std=True\T1/ptm/m/n/10 , \T1/ptm/m/it/10 min-Max=True\T1/ptm/m/ n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 mean=True\T1/ptm/m/n/10 , \T1/ptm/m/it/10 me-dian=False\T1/ptm/ m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5469--5469 \T1/ptm/m/it/10 noiseMap=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 gains=1\T1/ptm/m/ n/10 , [107] Underfull \hbox (badness 10000) in paragraph at lines 5583--5583 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5583--5583 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , [108] Underfull \hbox (badness 10000) in paragraph at lines 5636--5636 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5636--5636 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5677--5677 []\T1/ptm/m/it/10 offsetmap\T1/ptm/m/n/10 , \T1/ptm/m/it/10 noisemap\T1/ptm/m/n /10 , [109] Underfull \hbox (badness 10000) in paragraph at lines 5786--5786 []\T1/ptm/m/it/10 offsetmap\T1/ptm/m/n/10 , \T1/ptm/m/it/10 noisemap\T1/ptm/m/n /10 , [110] Underfull \hbox (badness 10000) in paragraph at lines 5860--5860 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , \T1/ptm/m/it/10 par-al-lel=Tru e\T1/ptm/m/n/10 , [111] [112] Underfull \hbox (badness 10000) in paragraph at lines 6185--6185 []\T1/ptm/m/it/10 functionsToProfile\T1/ptm/m/n/10 , \T1/ptm/m/it/10 val-uesTo- VaryCpu\T1/ptm/m/n/10 , \T1/ptm/m/it/10 val-uesTo- Underfull \hbox (badness 10000) in paragraph at lines 6185--6185 \T1/ptm/m/it/10 VaryGpu=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 nRe-peats=None\T1/ ptm/m/n/10 , \T1/ptm/m/it/10 val-uesTo-P-re- Underfull \hbox (badness 7081) in paragraph at lines 6197--6197 []\T1/ptm/m/it/10 filename\T1/ptm/m/n/10 , \T1/ptm/m/it/10 read-Fun\T1/ptm/m/n/ 10 , \T1/ptm/m/it/10 size\T1/ptm/m/n/10 , \T1/ptm/m/it/10 chunk-Size\T1/ptm/m/n /10 , \T1/ptm/m/it/10 *args\T1/ptm/m/n/10 , [113] Overfull \hbox (131.85474pt too wide) in paragraph at lines 6306--6306 []\T1/ptm/m/it/10 asic, Overfull \hbox (124.35486pt too wide) in paragraph at lines 6306--6306 \T1/ptm/m/it/10 in- Overfull \hbox (145.64474pt too wide) in paragraph at lines 6306--6306 \T1/ptm/m/it/10 put_file, Overfull \hbox (129.35486pt too wide) in paragraph at lines 6306--6306 \T1/ptm/m/it/10 out- Overfull \hbox (172.30466pt too wide) in paragraph at lines 6306--6306 \T1/ptm/m/it/10 put_file_name, Overfull \hbox (181.83458pt too wide) in paragraph at lines 6306--6306 \T1/ptm/m/it/10 max_part=None, Overfull \hbox (173.7644pt too wide) in paragraph at lines 6306--6306 \T1/ptm/m/it/10 col_spec=[0]\T1/pcr/m/n/10 ) [114] [115] Overfull \hbox (101.85474pt too wide) in paragraph at lines 6498--6498 []\T1/ptm/m/it/10 asic, Overfull \hbox (94.35486pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 in- Overfull \hbox (115.64474pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 put_file, Overfull \hbox (99.35486pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 out- Overfull \hbox (142.30466pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 put_file_name, Overfull \hbox (151.83458pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 max_part=None, Overfull \hbox (140.2644pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 col_spec=[0], Overfull \hbox (105.2549pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 back- Overfull \hbox (151.74435pt too wide) in paragraph at lines 6498--6498 \T1/ptm/m/it/10 ing_store=True\T1/pcr/m/n/10 ) [116] [117] Overfull \hbox (29.85474pt too wide) in paragraph at lines 6729--6729 []\T1/ptm/m/it/10 asic\T1/ptm/m/n/10 , Overfull \hbox (22.35486pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 in- Overfull \hbox (55.9647pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 put_fname\T1/ptm/m/n/10 , Overfull \hbox (59.85419pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 pixel_v_list\T1/ptm/m/n/10 , Overfull \hbox (60.41425pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 pixel_u_list\T1/ptm/m/n/10 , Overfull \hbox (69.29413pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 mem_cell_list\T1/ptm/m/n/10 , Overfull \hbox (62.17444pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 n_processes\T1/ptm/m/n/10 , Overfull \hbox (65.96419pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 safety_factor\T1/ptm/m/n/10 , Overfull \hbox (27.35486pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 out- Overfull \hbox (55.9647pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 put_fname\T1/ptm/m/n/10 , Overfull \hbox (69.83406pt too wide) in paragraph at lines 6729--6729 \T1/ptm/m/it/10 reuse_results\T1/pcr/m/n/10 ) Overfull \hbox (11.85474pt too wide) in paragraph at lines 6779--6779 []\T1/ptm/m/it/10 asic\T1/ptm/m/n/10 , Overfull \hbox (4.35486pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 in- Overfull \hbox (65.82457pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 put_fname=None\T1/ptm/m/n/10 , Overfull \hbox (9.35486pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 out- Overfull \hbox (65.82457pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 put_fname=None\T1/ptm/m/n/10 , Overfull \hbox (74.71419pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 safety_factor=1000\T1/ptm/m/n/10 , Overfull \hbox (66.56442pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 plot_prefix=None\T1/ptm/m/n/10 , Overfull \hbox (55.83444pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 plot_dir=None\T1/ptm/m/n/10 , Overfull \hbox (8.97473pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 cre- Overfull \hbox (60.63423pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 ate_plots=False\T1/ptm/m/n/10 , Overfull \hbox (64.62431pt too wide) in paragraph at lines 6779--6779 \T1/ptm/m/it/10 log_level='info'\T1/pcr/m/n/10 ) [118] Overfull \hbox (30.16438pt too wide) in paragraph at lines 6881--6881 []\T1/ptm/m/it/10 list_to_check\T1/ptm/m/n/10 , Overfull \hbox (32.12476pt too wide) in paragraph at lines 6887--6887 []\T1/ptm/m/it/10 file_name\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 6893--6893 []\T1/ptm/m/it/10 asic\T1/ptm/m/n/10 , \T1/ptm/m/it/10 in- Underfull \hbox (badness 10000) in paragraph at lines 6893--6893 \T1/ptm/m/it/10 put_file\T1/ptm/m/n/10 , Overfull \hbox (5.85419pt too wide) in paragraph at lines 6893--6893 \T1/ptm/m/it/10 pixel_v_list\T1/ptm/m/n/10 , Overfull \hbox (6.41425pt too wide) in paragraph at lines 6893--6893 \T1/ptm/m/it/10 pixel_u_list\T1/ptm/m/n/10 , Overfull \hbox (15.29413pt too wide) in paragraph at lines 6893--6893 \T1/ptm/m/it/10 mem_cell_list\T1/ptm/m/n/10 , Overfull \hbox (15.69415pt too wide) in paragraph at lines 6893--6893 \T1/ptm/m/it/10 safety_factor\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 6899--6899 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , Overfull \hbox (23.85419pt too wide) in paragraph at lines 6905--6905 []\T1/ptm/m/it/10 pixel_v_list\T1/ptm/m/n/10 , Overfull \hbox (24.41425pt too wide) in paragraph at lines 6905--6905 \T1/ptm/m/it/10 pixel_u_list\T1/ptm/m/n/10 , Overfull \hbox (33.29413pt too wide) in paragraph at lines 6905--6905 \T1/ptm/m/it/10 mem_cell_list\T1/ptm/m/n/10 , Overfull \hbox (35.32454pt too wide) in paragraph at lines 6905--6905 \T1/ptm/m/it/10 n_gain_stages\T1/ptm/m/n/10 , Overfull \hbox (22.74435pt too wide) in paragraph at lines 6905--6905 \T1/ptm/m/it/10 n_intervals\T1/ptm/m/n/10 , Overfull \hbox (71.82416pt too wide) in paragraph at lines 6905--6905 \T1/ptm/m/it/10 n_diff_changes_stored\T1/pcr/m/n/10 ) Overfull \hbox (14.12476pt too wide) in paragraph at lines 6917--6917 []\T1/ptm/m/it/10 file_name\T1/pcr/m/n/10 ) [119] Overfull \hbox (18.97485pt too wide) in paragraph at lines 6961--6961 []\T1/ptm/m/it/10 shape, Overfull \hbox (4.35486pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 in- Overfull \hbox (25.64474pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 put_file, Overfull \hbox (43.5045pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 asics=None, Overfull \hbox (33.05455pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 nCells=1, Overfull \hbox (15.45485pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 mem- Overfull \hbox (38.05455pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 Cells=352, Overfull \hbox (50.44444pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 dType=, Overfull \hbox (61.83458pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 max_part=None, Overfull \hbox (50.2644pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 col_spec=[0], Overfull \hbox (9.35486pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 out- Overfull \hbox (53.50461pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 put_file=None, Overfull \hbox (74.71419pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 safety_factor=1000, Overfull \hbox (104.43364pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 reuse_gather_results=True, Overfull \hbox (108.42351pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 reuse_process_results=True, Overfull \hbox (37.76465pt too wide) in paragraph at lines 6961--6961 \T1/ptm/m/it/10 **kwargs\T1/pcr/m/n/10 ) Overfull \hbox (7.07484pt too wide) in paragraph at lines 6975--6975 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 pro- Overfull \hbox (31.70407pt too wide) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 cess_results\T1/ptm/m/n/10 , Overfull \hbox (37.2843pt too wide) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 asics=array([ Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 9\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 10\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 11\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 12\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 13\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 14\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 15\T1/ptm/m/n/10 , Overfull \hbox (0.96486pt too wide) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 16])\T1/ptm/m/n/10 , Overfull \hbox (21.05455pt too wide) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Overfull \hbox (38.44444pt too wide) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Overfull \hbox (25.76465pt too wide) in paragraph at lines 6975--6975 \T1/ptm/m/it/10 **kwargs\T1/pcr/m/n/10 ) [120] [121] Underfull \hbox (badness 10000) in paragraph at lines 7172--7172 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 7172--7172 \T1/ptm/m/it/10 thresh- Underfull \hbox (badness 10000) in paragraph at lines 7172--7172 \T1/ptm/m/it/10 oldMap\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 7172--7172 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Overfull \hbox (14.44444pt too wide) in paragraph at lines 7172--7172 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Overfull \hbox (1.76465pt too wide) in paragraph at lines 7172--7172 \T1/ptm/m/it/10 **kwargs\T1/pcr/m/n/10 ) [122] [123] Underfull \hbox (badness 10000) in paragraph at lines 7323--7325 []\T1/ptm/m/n/10 Usually the Underfull \hbox (badness 10000) in paragraph at lines 7363--7371 []\T1/ptm/m/n/10 __init__(self,FileName) Get-N-u-mIm-ages(self) def Get-Data(se lf,Index, Underfull \hbox (badness 10000) in paragraph at lines 7363--7371 \T1/ptm/m/n/10 DataType=^^Q^^P,Pos=None,Size=None): Get-Pixel(self,Index,Positi on) Get-H-eader(self,Index) Get-Static- Overfull \hbox (4.81061pt too wide) in paragraph at lines 7363--7371 \T1/ptm/m/n/10 Header(self,Index) WriteIm-age (self,Header,Data,Append=1,DataTy pe=^^Q^^P,WriteAsUnsigened=0,ByteOrder=^^Q^^P) [124] [125] [126] [127] [128] [129] Underfull \hbox (badness 10000) in paragraph at lines 8018--8018 []\T1/ptm/m/it/10 filename\T1/ptm/m/n/10 , \T1/ptm/m/it/10 path='/stream'\T1/pt m/m/n/10 , Overfull \hbox (37.07484pt too wide) in paragraph at lines 8105--8105 []\T1/ptm/m/it/10 shape\T1/ptm/m/n/10 , Overfull \hbox (81.04456pt too wide) in paragraph at lines 8105--8105 \T1/ptm/m/it/10 noiseMap=None\T1/ptm/m/n/10 , Overfull \hbox (51.05455pt too wide) in paragraph at lines 8105--8105 \T1/ptm/m/it/10 nCells=1\T1/ptm/m/n/10 , Overfull \hbox (68.44444pt too wide) in paragraph at lines 8105--8105 \T1/ptm/m/it/10 dType=\T1/ptm/m/n/10 , Overfull \hbox (55.76465pt too wide) in paragraph at lines 8105--8105 \T1/ptm/m/it/10 **kwargs\T1/pcr/m/n/10 ) [130] [131] [132] Underfull \hbox (badness 10000) in paragraph at lines 8385--8385 []\T1/ptm/m/it/10 h\T1/ptm/m/n/10 , \T1/ptm/m/it/10 x_values\T1/ptm/m/n/10 , Overfull \hbox (20.07457pt too wide) in paragraph at lines 8416--8416 []\T1/ptm/m/it/10 cells\T1/ptm/m/n/10 , Overfull \hbox (38.04451pt too wide) in paragraph at lines 8416--8416 \T1/ptm/m/it/10 cellTable\T1/ptm/m/n/10 , Overfull \hbox (37.30455pt too wide) in paragraph at lines 8416--8416 \T1/ptm/m/it/10 sc_width\T1/ptm/m/n/10 , Overfull \hbox (40.07457pt too wide) in paragraph at lines 8416--8416 \T1/ptm/m/it/10 sc_height\T1/ptm/m/n/10 , Overfull \hbox (10.35486pt too wide) in paragraph at lines 8416--8416 \T1/ptm/m/it/10 in- Overfull \hbox (18.20482pt too wide) in paragraph at lines 8416--8416 \T1/ptm/m/it/10 put\T1/pcr/m/n/10 ) Overfull \hbox (8.56117pt too wide) in paragraph at lines 8422--8425 [] Underfull \hbox (badness 10000) in paragraph at lines 8426--8429 [] Underfull \hbox (badness 10000) in paragraph at lines 8447--8447 \T1/ptm/m/it/10 cal-Method\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8447--8447 \T1/ptm/m/it/10 fit_segment\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8447--8447 \T1/ptm/m/it/10 par_ini\T1/ptm/m/n/10 , [133] Underfull \hbox (badness 10000) in paragraph at lines 8508--8508 []\T1/ptm/m/it/10 cells\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8508--8508 \T1/ptm/m/it/10 x_vals\T1/ptm/m/n/10 , Overfull \hbox (1.19469pt too wide) in paragraph at lines 8508--8508 \T1/ptm/m/it/10 par_ini\T1/ptm/m/n/10 , [134] Underfull \hbox (badness 10000) in paragraph at lines 8596--8596 []\T1/ptm/m/it/10 filename\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8596--8596 \T1/ptm/m/it/10 read- Underfull \hbox (badness 10000) in paragraph at lines 8596--8596 \T1/ptm/m/it/10 Fun\T1/ptm/m/n/10 , \T1/ptm/m/it/10 size\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8596--8596 \T1/ptm/m/it/10 chunk-Size\T1/ptm/m/n/10 , Overfull \hbox (23.16454pt too wide) in paragraph at lines 8596--8596 \T1/ptm/m/it/10 filesRange=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8596--8596 \T1/ptm/m/it/10 *args\T1/ptm/m/n/10 , [135] [136] [137] Underfull \hbox (badness 10000) in paragraph at lines 8926--8928 []\T1/ptm/m/n/10 Usually the [138] [139] [140] Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 []\T1/ptm/m/it/10 ax\T1/ptm/m/n/10 , \T1/ptm/m/it/10 d\T1/ptm/m/n/10 , \T1/ptm/ m/it/10 cmap=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 norm=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 \T1/ptm/m/it/10 vmin=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 vmax=None\T1/ptm/m/n/ 10 , \T1/ptm/m/it/10 al-pha=None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 \T1/ptm/m/it/10 linewidths=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 edge-col-ors='f ace'\T1/ptm/m/n/10 , \T1/ptm/m/it/10 re- Underfull \hbox (badness 10000) in paragraph at lines 9388--9388 \T1/ptm/m/it/10 duce_C_function=\T1/ptm/m/n/10 , [141] Underfull \hbox (badness 6792) in paragraph at lines 9508--9508 []\T1/ptm/m/it/10 data\T1/ptm/m/n/10 , \T1/ptm/m/it/10 axes\T1/ptm/m/n/10 , \T1 /ptm/m/it/10 ax-is-Names\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ti-tle=None\T1/ptm/m/n /10 , [142] Underfull \hbox (badness 10000) in paragraph at lines 9534--9535 []\T1/pcr/b/n/10 will be passed to the matplotlib fill_between() function. [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] Underfull \hbox (badness 10000) in paragraph at lines 12899--12899 []\T1/ptm/m/it/10 host=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 port=None\T1/ptm/m/ n/10 , \T1/ptm/m/it/10 read-Han- Underfull \hbox (badness 10000) in paragraph at lines 12919--12919 []\T1/ptm/m/it/10 host=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 port=None\T1/ptm/m/ n/10 , \T1/ptm/m/it/10 read-Han- [159] [160] [161] [162] Chapter 5. [163] [164] Overfull \hbox (0.6225pt too wide) in paragraph at lines 13214--13215 []\T1/pcr/m/n/10 XFELDetAna.algorithms.characterize_cti\T1/ptm/m/n/10 , Overfull \hbox (12.6225pt too wide) in paragraph at lines 13215--13216 []\T1/pcr/m/n/10 XFELDetAna.algorithms.characterize_noise\T1/ptm/m/n/10 , Overfull \hbox (24.6225pt too wide) in paragraph at lines 13216--13217 []\T1/pcr/m/n/10 XFELDetAna.algorithms.characterize_relgain\T1/ptm/m/n/10 , Overfull \hbox (18.6225pt too wide) in paragraph at lines 13217--13218 []\T1/pcr/m/n/10 XFELDetAna.algorithms.correct_common_mode\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13219--13220 []\T1/pcr/m/n/10 XFELDetAna.algorithms.correct_offset\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13220--13221 []\T1/pcr/m/n/10 XFELDetAna.algorithms.correct_relgain\T1/ptm/m/n/10 , Overfull \hbox (54.6225pt too wide) in paragraph at lines 13223--13224 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.calc_offset_and_noise\T1/ptm/m/n/10 , Overfull \hbox (42.6225pt too wide) in paragraph at lines 13224--13225 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.correct_common_mode\T1/ptm/m/n/10 , Overfull \hbox (12.6225pt too wide) in paragraph at lines 13225--13226 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.correct_offset\T1/ptm/m/n/10 , Overfull \hbox (18.6225pt too wide) in paragraph at lines 13226--13227 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.correct_relgain\T1/ptm/m/n/10 , Overfull \hbox (102.6225pt too wide) in paragraph at lines 13228--13229 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.calc_offset_and_noise\T1/ptm /m/n/10 , Overfull \hbox (90.6225pt too wide) in paragraph at lines 13229--13230 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.correct_common_mode\T1/ptm/m /n/10 , Overfull \hbox (138.6225pt too wide) in paragraph at lines 13230--13231 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.correct_common_mode_batcher\ T1/ptm/m/n/10 , Overfull \hbox (78.6225pt too wide) in paragraph at lines 13231--13232 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.simple_correction\T1/ptm/m/n /10 , Overfull \hbox (48.6225pt too wide) in paragraph at lines 13232--13233 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.split_events\T1/ptm/m/n/10 , Overfull \hbox (36.6225pt too wide) in paragraph at lines 13233--13234 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.statistics\T1/ptm/m/n/10 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 13234--13235 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.util\T1/ptm/m/n/10 , Overfull \hbox (60.6225pt too wide) in paragraph at lines 13235--13236 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.xfelgpukernels\T1/ptm/m/n/10 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 13236--13237 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.split_events\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13237--13238 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.statistics\T1/ptm/m/n/10 , Overfull \hbox (18.6225pt too wide) in paragraph at lines 13239--13240 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.xfelcalgputools\T1/ptm/m/n/10 , Overfull \hbox (60.6225pt too wide) in paragraph at lines 13255--13256 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.characterize_dynrange\T1/ptm/m/n/10 , Overfull \hbox (42.6225pt too wide) in paragraph at lines 13256--13257 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.dyrange_algorithms\T1/ptm/m/n/10 , Overfull \hbox (84.6225pt too wide) in paragraph at lines 13257--13258 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.dyrange_algorithms.gather\T1/ptm/m/ n/10 , Overfull \hbox (90.6225pt too wide) in paragraph at lines 13258--13259 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.dyrange_algorithms.process\T1/ptm/m /n/10 , Overfull \hbox (72.6225pt too wide) in paragraph at lines 13259--13260 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.dyrange_algorithms.util\T1/ptm/m/n/ 10 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 13261--13262 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.gpu.kernels\T1/ptm/m/n/10 , Overfull \hbox (90.6225pt too wide) in paragraph at lines 13262--13263 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.gpu.kernels.threshold_gain\T1/ptm/m /n/10 , [165] Overfull \hbox (42.6225pt too wide) in paragraph at lines 13263--13264 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.gpu.threshold_gain\T1/ptm/m/n/10 , Overfull \hbox (18.6225pt too wide) in paragraph at lines 13264--13265 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.merge_dynrange\T1/ptm/m/n/10 , Overfull \hbox (18.6225pt too wide) in paragraph at lines 13267--13268 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.threshold_gain\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13271--13272 []\T1/pcr/m/n/10 XFELDetAna.detectors.edf_data.EdfFile\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13272--13273 []\T1/pcr/m/n/10 XFELDetAna.detectors.edf_data.loadedf\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13273--13274 []\T1/pcr/m/n/10 XFELDetAna.detectors.edf_data.reader\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13278--13279 []\T1/pcr/m/n/10 XFELDetAna.detectors.fastccd.readerh5\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13280--13281 []\T1/pcr/m/n/10 XFELDetAna.detectors.generator.reader\T1/ptm/m/n/10 , Overfull \hbox (66.6225pt too wide) in paragraph at lines 13282--13283 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.characterize_jfgain\T1/ptm/m/n/1 0 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 13283--13284 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.fitFuncs\T1/ptm/m/n/10 , Overfull \hbox (42.6225pt too wide) in paragraph at lines 13284--13285 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.jf_chunk_reader\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13285--13286 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.reader\T1/ptm/m/n/10 , Overfull \hbox (6.6225pt too wide) in paragraph at lines 13286--13287 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.readerPSI\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13291--13292 []\T1/pcr/m/n/10 XFELDetAna.detectors.pnccd.frm6reader\T1/ptm/m/n/10 , [166] (./src.ind Underfull \hbox (badness 10000) in paragraph at lines 8--9 []\T1/pcr/m/n/10 _axisFuncWrapper() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 9--11 []\T1/pcr/m/n/10 _commonmodeBase3d \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule X FELDe- Overfull \hbox (26.01056pt too wide) in paragraph at lines 9--11 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode\T1/ptm/m/n/10 ) , Overfull \hbox (26.01056pt too wide) in paragraph at lines 11--13 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 13--15 []\T1/pcr/m/n/10 _commonmodeBase3dBitonicZ1 Underfull \hbox (badness 10000) in paragraph at lines 13--15 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Overfull \hbox (26.01056pt too wide) in paragraph at lines 13--15 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 15--16 []\T1/pcr/m/n/10 _decorateModule() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule X FELDe- Underfull \hbox (badness 5331) in paragraph at lines 16--18 []\T1/pcr/m/n/10 _fill_between_steps() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 18--20 []\T1/pcr/m/n/10 _fit_spectrum() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFE LDe- Underfull \hbox (badness 10000) in paragraph at lines 18--20 \T1/ptm/m/it/10 tAna.detectors.jungfrau.characterize_jfgain\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 20--22 []\T1/pcr/m/n/10 _gainMapCurrSourceChunk() Underfull \hbox (badness 10000) in paragraph at lines 20--22 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 20--22 \T1/ptm/m/it/10 tAna.detectors.jungfrau.characterize_jfgain\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/pcr/m/n/10 _gainMapFitter() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XF ELDe- Underfull \hbox (badness 10000) in paragraph at lines 22--24 \T1/ptm/m/it/10 tAna.detectors.jungfrau.characterize_jfgain\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 24--26 []\T1/pcr/m/n/10 _gainSpectraFitter() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ul e XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 24--26 \T1/ptm/m/it/10 tAna.detectors.jungfrau.characterize_jfgain\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 26--28 []\T1/pcr/m/n/10 _gpuCommonMode() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XF ELDe- Underfull \hbox (badness 10000) in paragraph at lines 26--28 \T1/ptm/m/it/10 tAna.algorithms.gpu.correct_common_mode\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 28--30 []\T1/pcr/m/n/10 _gpuCommonMode2D() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 28--30 \T1/ptm/m/it/10 tAna.algorithms.gpu.correct_common_mode\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 30--32 []\T1/pcr/m/n/10 _gpuCommonMode3D() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 30--32 \T1/ptm/m/it/10 tAna.algorithms.gpu.correct_common_mode\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 38--40 []\T1/pcr/m/n/10 add_can_expand \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 40--42 []\T1/pcr/m/n/10 add_can_expand \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 40--42 \T1/ptm/m/it/10 tAna.util.knumpy.krbMaskedArray at-tribute\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 42--43 []\T1/pcr/m/n/10 add_docstring() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFE LDe- Underfull \hbox (badness 10000) in paragraph at lines 44--45 []\T1/pcr/m/n/10 add_newdoc_ufunc() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 45--46 []\T1/pcr/m/n/10 add_newdocs() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 46--48 []\T1/pcr/m/n/10 AgipdDynamicRange \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFE LDe- Underfull \hbox (badness 10000) in paragraph at lines 46--48 \T1/ptm/m/it/10 tAna.detectors.agipd.characterize_dynrange\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 48--50 []\T1/pcr/m/n/10 AgipdDynamicRangeGatherSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 48--50 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Overfull \hbox (11.28064pt too wide) in paragraph at lines 48--50 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.gather\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 50--52 []\T1/pcr/m/n/10 AgipdDynamicRangeSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 50--52 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Overfull \hbox (15.04054pt too wide) in paragraph at lines 50--52 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 52--54 []\T1/pcr/m/n/10 AgipdMergeDynamicRange \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class i n XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 55--57 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (21.62013pt too wide) in paragraph at lines 55--57 \T1/ptm/m/it/10 tAna.algorithms.characterize_noise.NoiseCalculator Underfull \hbox (badness 10000) in paragraph at lines 57--59 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (22.55005pt too wide) in paragraph at lines 57--59 \T1/ptm/m/it/10 tAna.algorithms.characterize_noise.OffsetCalculator Underfull \hbox (badness 10000) in paragraph at lines 59--61 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (44.73009pt too wide) in paragraph at lines 59--61 \T1/ptm/m/it/10 tAna.algorithms.characterize_relgain.GainMapCalculator [167] Underfull \hbox (badness 10000) in paragraph at lines 61--63 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (2.07982pt too wide) in paragraph at lines 61--63 \T1/ptm/m/it/10 tAna.algorithms.correct_offset.OffsetCorrection Underfull \hbox (badness 10000) in paragraph at lines 63--65 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (38.16962pt too wide) in paragraph at lines 63--65 \T1/ptm/m/it/10 tAna.algorithms.correct_relgain.RelativeGainCorrection Underfull \hbox (badness 10000) in paragraph at lines 65--67 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (6.0305pt too wide) in paragraph at lines 65--67 \T1/ptm/m/it/10 tAna.algorithms.histogram.HistogramCalculator Underfull \hbox (badness 10000) in paragraph at lines 67--69 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 67--69 \T1/ptm/m/it/10 tAna.algorithms.split_event.PatternClassifier Underfull \hbox (badness 10000) in paragraph at lines 69--71 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 69--71 \T1/ptm/m/it/10 tAna.algorithms.statistics.MaxCalculator Underfull \hbox (badness 10000) in paragraph at lines 71--73 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 71--73 \T1/ptm/m/it/10 tAna.algorithms.statistics.MeanCalculator Underfull \hbox (badness 10000) in paragraph at lines 73--75 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 73--75 \T1/ptm/m/it/10 tAna.algorithms.statistics.MinCalculator Underfull \hbox (badness 10000) in paragraph at lines 75--77 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 75--77 \T1/ptm/m/it/10 tAna.algorithms.statistics.StatCalculator Underfull \hbox (badness 10000) in paragraph at lines 77--79 []\T1/pcr/m/n/10 algorithmDescription() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 77--79 \T1/ptm/m/it/10 tAna.algorithms.statistics.StdCalculator Underfull \hbox (badness 10000) in paragraph at lines 79--81 []\T1/pcr/m/n/10 algorithmDescription() 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(\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 123--124 []\T1/pcr/m/n/10 ascontiguousarray() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 125--126 []\T1/pcr/m/n/10 asfortranarray() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XF ELDe- Underfull \hbox (badness 10000) in paragraph at lines 128--129 []\T1/pcr/m/n/10 AsyncHandler \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 129--130 []\T1/pcr/m/n/10 AsyncServer \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- [168] Underfull \hbox (badness 10000) in paragraph at lines 137--139 []\T1/pcr/m/n/10 axis_scales \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 137--139 \T1/ptm/m/it/10 tAna.util.knumpy.krbMaskedArray at-tribute\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 149--151 []\T1/pcr/m/n/10 baseArrayType \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 149--151 \T1/ptm/m/it/10 tAna.util.knumpy.krbMaskedArray at-tribute\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 151--153 []\T1/pcr/m/n/10 biggest_entries() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule X FELDe- Overfull \hbox (15.04054pt too wide) in paragraph at lines 151--153 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 153--154 []\T1/pcr/m/n/10 binary_repr() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 155--156 []\T1/pcr/m/n/10 bitwise_and() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 156--157 []\T1/pcr/m/n/10 bitwise_not() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 158--159 []\T1/pcr/m/n/10 bitwise_xor() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 163--164 []\T1/pcr/m/n/10 broadcast_arrays() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 164--165 []\T1/pcr/m/n/10 broadcast_to() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFEL De- Underfull \hbox (badness 10000) in paragraph at lines 166--167 []\T1/pcr/m/n/10 busday_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFEL De- Underfull \hbox (badness 10000) in paragraph at lines 167--168 []\T1/pcr/m/n/10 busday_offset() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFE LDe- Underfull \hbox (badness 10000) in paragraph at lines 168--169 []\T1/pcr/m/n/10 byte_bounds() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 172--174 []\T1/pcr/m/n/10 calc_gain_median() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (66.14977pt too wide) in paragraph at lines 172--174 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.ProcessDrscs Underfull \hbox (badness 10000) in paragraph at lines 174--176 []\T1/pcr/m/n/10 calc_gain_regions() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (66.14977pt too wide) in paragraph at lines 174--176 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.ProcessDrscs Underfull \hbox (badness 10000) in paragraph at lines 176--178 []\T1/pcr/m/n/10 calc_thresholds() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (66.14977pt too wide) in paragraph at lines 176--178 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.ProcessDrscs Underfull \hbox (badness 10000) in paragraph at lines 178--180 []\T1/pcr/m/n/10 calculate_mapped_asic() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe - Overfull \hbox (162.59938pt too wide) in paragraph at lines 178--180 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRang eGatherSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 180--182 []\T1/pcr/m/n/10 calculate_mapped_asic() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe - Overfull \hbox (139.36955pt too wide) in paragraph at lines 180--182 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRan geSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 187--189 []\T1/pcr/m/n/10 charge_sharing() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XF ELDe- Underfull \hbox (badness 10000) in paragraph at lines 189--191 []\T1/pcr/m/n/10 check_file_exists() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Overfull \hbox (15.04054pt too wide) in paragraph at lines 189--191 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 191--193 []\T1/pcr/m/n/10 check_file_exists() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 191--193 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.util\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 193--195 []\T1/pcr/m/n/10 check_file_number() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (162.59938pt too wide) in paragraph at lines 193--195 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRang eGatherSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 195--197 []\T1/pcr/m/n/10 check_file_number() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (139.36955pt too wide) in paragraph at lines 195--197 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRan geSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 197--199 []\T1/pcr/m/n/10 check_for_single_index() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELD e- Overfull \hbox (162.59938pt too wide) in paragraph at lines 197--199 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRang eGatherSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 199--201 []\T1/pcr/m/n/10 check_for_single_index() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELD e- Overfull \hbox (139.36955pt too wide) in paragraph at lines 199--201 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRan geSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 201--203 []\T1/pcr/m/n/10 check_lists_continous() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe - Overfull \hbox (66.14977pt too wide) in paragraph at lines 201--203 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.ProcessDrscs Underfull \hbox (badness 10000) in paragraph at lines 203--205 []\T1/pcr/m/n/10 check_output_file_exist() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFEL De- Overfull \hbox (162.59938pt too wide) in paragraph at lines 203--205 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRang eGatherSingleAsic Underfull \hbox (badness 10000) in paragraph at lines 205--207 []\T1/pcr/m/n/10 check_output_file_exist() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFEL De- Overfull \hbox (139.36955pt too wide) in paragraph at lines 205--207 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.AgipdDynamicRan geSingleAsic [169] Underfull \hbox (badness 10000) in paragraph at lines 207--209 []\T1/pcr/m/n/10 Chi2Functor \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 209--211 []\T1/pcr/m/n/10 chi_square_fit() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XF ELDe- Underfull \hbox (badness 10000) in paragraph at lines 213--215 []\T1/pcr/m/n/10 classify() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 213--215 \T1/ptm/m/it/10 tAna.algorithms.split_event.PatternClassifier Underfull \hbox (badness 10000) in paragraph at lines 215--217 []\T1/pcr/m/n/10 clearSum() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (80.11983pt too wide) in paragraph at lines 215--217 \T1/ptm/m/it/10 tAna.detectors.jungfrau.characterize_jfgain.JFGainMapCalculator Underfull \hbox (badness 10000) in paragraph at lines 221--223 []\T1/pcr/m/n/10 collect_incoming_data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe - Underfull \hbox (badness 10000) in paragraph at lines 223--224 []\T1/pcr/m/n/10 column_stack() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFEL De- Underfull \hbox (badness 10000) in paragraph at lines 224--225 []\T1/pcr/m/n/10 common_type() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 225--227 []\T1/pcr/m/n/10 commonmode3d \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe - Overfull \hbox (26.01056pt too wide) in paragraph at lines 225--227 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 227--229 []\T1/pcr/m/n/10 commonmode3dBitonic \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Overfull \hbox (26.01056pt too wide) in paragraph at 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842--844 \T1/ptm/m/it/10 tAna.core.mapcalculator.MapCalculator Underfull \hbox (badness 10000) in paragraph at lines 844--845 []\T1/pcr/m/n/10 MapCalculator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Underfull \hbox (badness 7963) in paragraph at lines 845--847 []\T1/pcr/m/n/10 MASK \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe-tAna.algorithms.se lection.DataSelector Underfull \hbox (badness 10000) in paragraph at lines 847--848 []\T1/pcr/m/n/10 mask_indices() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFEL De- Underfull \hbox (badness 10000) in paragraph at lines 854--856 []\T1/pcr/m/n/10 MaxCalculator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 858--859 []\T1/pcr/m/n/10 maximum_sctype() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XF ELDe- Underfull \hbox (badness 10000) in paragraph at lines 859--860 []\T1/pcr/m/n/10 MAY_SHARE_BOUNDS() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 860--861 []\T1/pcr/m/n/10 MAY_SHARE_EXACT() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule X FELDe- Underfull \hbox (badness 10000) in paragraph at lines 861--862 []\T1/pcr/m/n/10 may_share_memory() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 863--865 []\T1/pcr/m/n/10 MeanCalculator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe - [177] Underfull \hbox (badness 10000) in paragraph at lines 866--868 []\T1/pcr/m/n/10 median3d \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Overfull \hbox (26.01056pt too wide) in paragraph at lines 866--868 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 868--870 []\T1/pcr/m/n/10 median3dBitonic \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFE LDe- Overfull \hbox (26.01056pt too wide) in paragraph at lines 868--870 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 870--872 []\T1/pcr/m/n/10 median3dNetwork() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule X FELDe- Overfull \hbox (61.64029pt too wide) in paragraph at lines 870--872 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode_batcher\T1/ptm/ m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 873--875 []\T1/pcr/m/n/10 MergeDrscs \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 878--879 []\T1/pcr/m/n/10 min_scalar_type() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule X FELDe- Underfull \hbox (badness 10000) in paragraph at lines 879--881 []\T1/pcr/m/n/10 MinCalculator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 882--883 []\T1/pcr/m/n/10 mintypecode() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 886--888 []\T1/pcr/m/n/10 ModuleDeprecationWarning() 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\T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode_batcher\T1/ptm/ m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 937--939 []\T1/pcr/m/n/10 oddeven_merge_sort() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ul e XFELDe- Overfull \hbox (61.64029pt too wide) in paragraph at lines 937--939 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode_batcher\T1/ptm/ m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 939--941 []\T1/pcr/m/n/10 oddeven_merge_sort_range() Underfull \hbox (badness 10000) in paragraph at lines 939--941 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Overfull \hbox (61.64029pt too wide) in paragraph at lines 939--941 \T1/ptm/m/it/10 tAna.algorithms.gpu.kernels.correct_common_mode_batcher\T1/ptm/ m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 941--943 []\T1/pcr/m/n/10 OffsetCalculator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFEL De- Underfull \hbox (badness 10000) in paragraph at lines 943--945 []\T1/pcr/m/n/10 OffsetCorrection \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFEL De- [178] Underfull \hbox (badness 10000) in paragraph at lines 951--952 []\T1/pcr/m/n/10 outputPipe() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe - Underfull \hbox (badness 10000) in paragraph at lines 955--956 []\T1/pcr/m/n/10 P2pInterface \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 956--957 []\T1/pcr/m/n/10 PackageLoader() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFE LDe- Underfull \hbox (badness 10000) in paragraph at lines 959--961 []\T1/pcr/m/n/10 parabola() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 961--963 []\T1/pcr/m/n/10 ParallelProcess \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELD e- Overfull \hbox (15.04054pt too wide) in paragraph at lines 961--963 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 964--966 []\T1/pcr/m/n/10 PatternClassifier \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFE LDe- Underfull \hbox (badness 10000) in paragraph at lines 966--968 []\T1/pcr/m/n/10 patternkernels \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELDe - Underfull \hbox (badness 10000) in paragraph at lines 968--970 []\T1/pcr/m/n/10 PatternSelector \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 971--972 []\T1/pcr/m/n/10 pertinent_kwargs() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Overfull \hbox (12.9701pt too wide) in paragraph at lines 975--977 []\T1/pcr/m/n/10 pkernel \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe-tAna.util.patte rn_kernels.patternkernels Underfull \hbox (badness 10000) in paragraph at lines 993--994 []\T1/pcr/m/n/10 prepare_maxwell() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule X FELDe- Underfull \hbox (badness 10000) in paragraph at lines 994--996 []\T1/pcr/m/n/10 print() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Overfull \hbox (15.04054pt too wide) in paragraph at lines 994--996 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process\T1/ptm/m/n/10 ) , Underfull \hbox (badness 10000) in paragraph at lines 996--998 []\T1/pcr/m/n/10 printFormattedLogs() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 998--1000 []\T1/pcr/m/n/10 process() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (75.75061pt too wide) in paragraph at lines 998--1000 \T1/ptm/m/it/10 tAna.detectors.agipd.characterize_dynrange.AgipdDynamicRange Underfull \hbox (badness 10000) in paragraph at lines 1000--1002 []\T1/pcr/m/n/10 process() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (76.21066pt too wide) in paragraph at lines 1000--1002 \T1/ptm/m/it/10 tAna.detectors.agipd.merge_dynrange.AgipdMergeDynamicRange Underfull \hbox (badness 10000) in paragraph at lines 1002--1004 []\T1/pcr/m/n/10 process_data_point() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 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\T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELD e- Underfull \hbox (badness 10000) in paragraph at lines 1029--1031 []\T1/pcr/m/n/10 ravel_multi_index() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1031--1033 []\T1/pcr/m/n/10 read_data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (74.74982pt too wide) in paragraph at lines 1031--1033 \T1/ptm/m/it/10 tAna.detectors.agipd.dyrange_algorithms.process.ParallelProcess [179] Underfull \hbox (badness 10000) in paragraph at lines 1033--1035 []\T1/pcr/m/n/10 readChunks() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1033--1035 \T1/ptm/m/it/10 tAna.core.reader.ChunkReader method\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 1035--1037 []\T1/pcr/m/n/10 readChunks() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe- Overfull \hbox (39.88052pt too wide) in paragraph at lines 1035--1037 \T1/ptm/m/it/10 tAna.detectors.jungfrau.jf_chunk_reader.JFChunkReader Underfull \hbox (badness 10000) in paragraph at lines 1037--1039 []\T1/pcr/m/n/10 readData() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1039--1040 []\T1/pcr/m/n/10 readData() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1040--1042 []\T1/pcr/m/n/10 readData() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1042--1043 []\T1/pcr/m/n/10 readData() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1043--1045 []\T1/pcr/m/n/10 readData() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1045--1047 []\T1/pcr/m/n/10 readData() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule XFELDe- Underfull \hbox (badness 10000) in paragraph at lines 1047--1049 []\T1/pcr/m/n/10 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lines 1082--1084 []\T1/pcr/m/n/10 reset() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe-tAna.algorithms .characterize_cti.CTICalculator Overfull \hbox (64.39992pt too wide) in paragraph at lines 1084--1086 []\T1/pcr/m/n/10 reset() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe-tAna.algorithms .characterize_noise.NoiseCalculator Overfull \hbox (87.50987pt too wide) in paragraph at lines 1086--1088 []\T1/pcr/m/n/10 reset() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe-tAna.algorithms .characterize_relgain.GainMapCalculator Overfull \hbox (118.9301pt too wide) in paragraph at lines 1088--1090 []\T1/pcr/m/n/10 reset() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe-tAna.algorithms .correct_common_mode.CommonModeCorrection Overfull \hbox (111.83972pt too wide) in paragraph at lines 1090--1092 []\T1/pcr/m/n/10 reset() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 XFELDe-tAna.algorithms .gpu.calc_offset_and_noise.GpuOffsetNoiseCalc Overfull \hbox (48.81029pt too wide) in paragraph at lines 1092--1094 []\T1/pcr/m/n/10 reset() 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XFELDetAna.algorithms.gpu.kernels.simple_correction Overfull \hbox (46.1225pt too wide) in paragraph at lines 1367--1368 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.split_events Overfull \hbox (34.1225pt too wide) in paragraph at lines 1368--1369 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.statistics Underfull \hbox (badness 10000) in paragraph at lines 1369--1370 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.util Overfull \hbox (58.1225pt too wide) in paragraph at lines 1370--1372 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.kernels.xfelgpukernels Underfull \hbox (badness 10000) in paragraph at lines 1372--1373 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.split_events Underfull \hbox (badness 10000) in paragraph at lines 1373--1374 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.statistics Underfull \hbox (badness 10000) in paragraph at lines 1374--1375 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.util \T1/ptm/m/n/10 (\T1/ptm/m/it/10 mod-ule\T1/ptm/m/n/10 ), Overfull \hbox (16.1225pt too wide) in paragraph at lines 1375--1376 []\T1/pcr/m/n/10 XFELDetAna.algorithms.gpu.xfelcalgputools Underfull \hbox (badness 10000) in paragraph at lines 1379--1380 []\T1/pcr/m/n/10 XFELDetAna.algorithms.statistics \T1/ptm/m/n/10 (\T1/ptm/m/it/ 10 mod- Underfull \hbox (badness 10000) in paragraph at lines 1381--1382 []\T1/pcr/m/n/10 XFELDetAna.algorithms.unitary \T1/ptm/m/n/10 (\T1/ptm/m/it/10 mod-ule\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 1385--1386 []\T1/pcr/m/n/10 XFELDetAna.core.mapcalculator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 mod-ule\T1/ptm/m/n/10 ), Overfull \hbox (58.1225pt too wide) in paragraph at lines 1391--1393 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.characterize_dynrange Overfull \hbox (40.1225pt too wide) in paragraph at lines 1393--1394 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.dyrange_algorithms Overfull \hbox (82.1225pt too wide) in paragraph at lines 1394--1396 []\T1/pcr/m/n/10 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XFELDetAna.detectors.agipd.merge_dynrange Underfull \hbox (badness 10000) in paragraph at lines 1407--1408 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.tests \T1/ptm/m/n/10 (\T1/ptm/m/it/ 10 mod- Overfull \hbox (16.1225pt too wide) in paragraph at lines 1408--1409 []\T1/pcr/m/n/10 XFELDetAna.detectors.agipd.threshold_gain Underfull \hbox (badness 10000) in paragraph at lines 1410--1411 []\T1/pcr/m/n/10 XFELDetAna.detectors.dssc.reader \T1/ptm/m/n/10 (\T1/ptm/m/it/ 10 mod- Underfull \hbox (badness 10000) in paragraph at lines 1411--1412 []\T1/pcr/m/n/10 XFELDetAna.detectors.edf_data \T1/ptm/m/n/10 (\T1/ptm/m/it/10 mod-ule\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 1412--1413 []\T1/pcr/m/n/10 XFELDetAna.detectors.edf_data.EdfFile Underfull \hbox (badness 10000) in paragraph at lines 1413--1414 []\T1/pcr/m/n/10 XFELDetAna.detectors.edf_data.loadedf Underfull \hbox (badness 10000) in paragraph at lines 1414--1415 []\T1/pcr/m/n/10 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XFELDetAna.detectors.jungfrau.characterize_jfgain Underfull \hbox (badness 10000) in paragraph at lines 1425--1426 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.fitFuncs Overfull \hbox (40.1225pt too wide) in paragraph at lines 1426--1428 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.jf_chunk_reader Underfull \hbox (badness 10000) in paragraph at lines 1428--1429 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.reader Overfull \hbox (4.1225pt too wide) in paragraph at lines 1429--1430 []\T1/pcr/m/n/10 XFELDetAna.detectors.jungfrau.readerPSI [184] Underfull \hbox (badness 10000) in paragraph at lines 1434--1435 []\T1/pcr/m/n/10 XFELDetAna.detectors.pnccd.frm6reader Underfull \hbox (badness 10000) in paragraph at lines 1438--1439 []\T1/pcr/m/n/10 XFELDetAna.plotting.histogram \T1/ptm/m/n/10 (\T1/ptm/m/it/10 mod-ule\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 1440--1441 []\T1/pcr/m/n/10 XFELDetAna.plotting.simpleplot \T1/ptm/m/n/10 (\T1/ptm/m/it/10 mod-ule\T1/ptm/m/n/10 ), [185]) (./src.aux) Package rerunfilecheck Warning: File `src.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on src.pdf (189 pages, 2525457 bytes). Transcript written on src.log. [rtd-command-info] start-time: 2019-06-12T07:26:32.578000Z, end-time: 2019-06-12T07:26:32.613000Z, duration: 0, exit-code: 0 mv -f /user_builds/pydetlib-test2/checkouts/latest/doc/_build/latex/src.pdf /user_builds/pydetlib-test2/artifacts/latest/sphinx_pdf/pydetlib-test2.pdf [rtd-command-info] start-time: 2019-06-12T07:26:33.899000Z, end-time: 2019-06-12T07:27:25.884000Z, duration: 51, exit-code: 0 python /user_builds/pydetlib-test2/envs/latest/bin/sphinx-build -T -b epub -d _build/doctrees-epub -D language=en . _build/epub Running Sphinx v1.8.5 mkdir: cannot create directory ‘_notebooks’: File exists [NbConvertApp] Converting notebook ../examples/gainMapStability.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in gainMapStability_files/ [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Making directory ./gainMapStability_files [NbConvertApp] Writing 48113 bytes to ./gainMapStability.rst [NbConvertApp] Converting notebook ../examples/DataGeneratorExample.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in DataGeneratorExample_files/ [NbConvertApp] Making directory ./DataGeneratorExample_files [NbConvertApp] Writing 1984561 bytes to ./DataGeneratorExample.rst [NbConvertApp] Converting notebook ../examples/calculatorCreation.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Writing 15602 bytes to ./calculatorCreation.rst [NbConvertApp] Converting notebook ../examples/PlotExamples.ipynb to rst /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/nbconvert/utils/pandoc.py:52: RuntimeWarning: You are using an unsupported version of pandoc (2.2.1). Your version must be at least (1.12.1) but less than (2.0.0). Refer to http://pandoc.org/installing.html. Continuing with doubts... check_pandoc_version() [NbConvertApp] Support files will be in PlotExamples_files/ [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Making directory ./PlotExamples_files [NbConvertApp] Writing 23677 bytes to ./PlotExamples.rst Creating file ./api/XFELDetAna.rst. Creating file ./api/XFELDetAna.algorithms.rst. Creating file ./api/XFELDetAna.algorithms.cython.rst. Creating file ./api/XFELDetAna.algorithms.gpu.rst. Creating file ./api/XFELDetAna.algorithms.gpu.kernels.rst. Creating file ./api/XFELDetAna.algorithms.tests.rst. Creating file ./api/XFELDetAna.core.rst. Creating file ./api/XFELDetAna.detectors.rst. Creating file ./api/XFELDetAna.detectors.agipd.rst. Creating file ./api/XFELDetAna.detectors.agipd.dyrange_algorithms.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.rst. Creating file ./api/XFELDetAna.detectors.agipd.gpu.kernels.rst. Creating file ./api/XFELDetAna.detectors.agipd.tests.rst. Creating file ./api/XFELDetAna.detectors.dssc.rst. Creating file ./api/XFELDetAna.detectors.edf_data.rst. Creating file ./api/XFELDetAna.detectors.epix.rst. Creating file ./api/XFELDetAna.detectors.fastccd.rst. Creating file ./api/XFELDetAna.detectors.generator.rst. Creating file ./api/XFELDetAna.detectors.jungfrau.rst. Creating file ./api/XFELDetAna.detectors.lpd.rst. Creating file ./api/XFELDetAna.detectors.pnccd.rst. Creating file ./api/XFELDetAna.plotting.rst. Creating file ./api/XFELDetAna.util.rst. Creating file ./api/modules.rst. loading translations [en]... done WARNING: extension 'sphinx.ext.apidoc' has no setup() function; is it really a Sphinx extension module? making output directory... loading intersphinx inventory from http://matplotlib.sourceforge.net/objects.inv... intersphinx inventory has moved: http://matplotlib.sourceforge.net/objects.inv -> https://matplotlib.org/objects.inv loading intersphinx inventory from https://python.readthedocs.io/en/latest/objects.inv... loading intersphinx inventory from http://docs.scipy.org/doc/scipy/reference/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/scipy/reference/objects.inv -> https://docs.scipy.org/doc/scipy/reference/objects.inv loading intersphinx inventory from http://docs.scipy.org/doc/numpy/objects.inv... intersphinx inventory has moved: http://docs.scipy.org/doc/numpy/objects.inv -> https://docs.scipy.org/doc/numpy/objects.inv loading intersphinx inventory from https://sphinx.readthedocs.io/en/latest/objects.inv... building [mo]: targets for 0 po files that are out of date building [epub]: targets for 30 source files that are out of date updating environment: 30 added, 0 changed, 0 removed reading sources... [ 3%] _notebooks/DataGeneratorExample reading sources... [ 6%] _notebooks/PlotExamples reading sources... [ 10%] _notebooks/calculatorCreation reading sources... [ 13%] _notebooks/gainMapStability reading sources... [ 16%] _notebooks/index reading sources... [ 20%] api/XFELDetAna reading sources... [ 23%] api/XFELDetAna.algorithms reading sources... [ 26%] api/XFELDetAna.algorithms.gpu reading sources... [ 30%] api/XFELDetAna.algorithms.gpu.kernels reading sources... [ 33%] api/XFELDetAna.algorithms.tests reading sources... [ 36%] api/XFELDetAna.core reading sources... [ 40%] api/XFELDetAna.detectors reading sources... [ 43%] api/XFELDetAna.detectors.agipd reading sources... [ 46%] api/XFELDetAna.detectors.agipd.dyrange_algorithms reading sources... [ 50%] api/XFELDetAna.detectors.agipd.gpu reading sources... [ 53%] api/XFELDetAna.detectors.agipd.gpu.kernels reading sources... [ 56%] api/XFELDetAna.detectors.agipd.tests reading sources... [ 60%] api/XFELDetAna.detectors.dssc reading sources... [ 63%] api/XFELDetAna.detectors.edf_data reading sources... [ 66%] api/XFELDetAna.detectors.epix reading sources... [ 70%] api/XFELDetAna.detectors.fastccd reading sources... [ 73%] api/XFELDetAna.detectors.generator reading sources... [ 76%] api/XFELDetAna.detectors.jungfrau reading sources... [ 80%] api/XFELDetAna.detectors.lpd reading sources... [ 83%] api/XFELDetAna.detectors.pnccd reading sources... [ 86%] api/XFELDetAna.plotting reading sources... [ 90%] api/XFELDetAna.util reading sources... [ 93%] api/modules reading sources... [ 96%] index reading sources... [100%] installation /user_builds/pydetlib-test2/envs/latest/lib/python3.4/site-packages/sphinx/websupport/__init__.py:25: RemovedInSphinx20Warning: sphinx.websupport module is now provided as sphinxcontrib-websupport. sphinx.websupport will be removed at Sphinx-2.0. Please use the package instead. RemovedInSphinx20Warning) /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:18: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:24: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:44: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:48: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/_notebooks/gainMapStability.rst:54: WARNING: Unknown interpreted text role "raw-latex". /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:7: WARNING: toctree contains reference to nonexisting document 'api/XFELDetAna.algorithms.cython' /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator:38: WARNING: Unknown interpreted text role "method". /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/histogram.py:docstring of XFELDetAna.algorithms.histogram.HistogramCalculator.get:26: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:14: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst:88: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/algorithms/gpu/correct_common_mode.py:docstring of XFELDetAna.algorithms.gpu.correct_common_mode._gpuCommonMode:11: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:5: WARNING: duplicate label subpackages, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:12: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst:56: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst:49: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.rst WARNING: autodoc: failed to import module 'test_characterize_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_noise' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_rel_gain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_characterize_split_events' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_common_mode' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_cti' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_offset' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_correct_relgain' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_statistics' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'test_unitary' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' WARNING: autodoc: failed to import module 'testing_base' from module 'XFELDetAna.algorithms.tests'; the following exception was raised: No module named 'psutil' /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst:69: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.gpu.kernels.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/core/reader.py:docstring of XFELDetAna.core.reader.ChunkReader.readChunks:8: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst:5: WARNING: duplicate label submodules, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.core.rst:34: WARNING: duplicate label module contents, other instance in /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.algorithms.tests.rst /user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst:5: WARNING: duplicate label subpackages, other instance in 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/user_builds/pydetlib-test2/checkouts/latest/lib/docs/api/XFELDetAna.detectors.rst /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:5: WARNING: Unexpected section title or transition. ____________ /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:6: WARNING: Block quote ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/agipd/dyrange_algorithms/gather.py:docstring of XFELDetAna.detectors.agipd.dyrange_algorithms.gather.AgipdDynamicRangeGatherSingleAsic.get_data:6: WARNING: Inline substitution_reference start-string without end-string. 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/user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile:44: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile:50: WARNING: Definition list ends without a blank line; unexpected unindent. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:4: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:10: WARNING: Unexpected indentation. /user_builds/pydetlib-test2/checkouts/latest/lib/src/XFELDetAna/detectors/edf_data/EdfFile.py:docstring of XFELDetAna.detectors.edf_data.EdfFile.EdfFile.GetData:22: WARNING: Block quote ends without a 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