diff --git a/.gitignore b/.gitignore index 61ac93e..2e7d6f4 100644 --- a/.gitignore +++ b/.gitignore @@ -1,3 +1,4 @@ +github_deploy_key* *.swp # Byte-compiled / optimized / DLL files diff --git a/.travis.yml b/.travis.yml index 8989c22..1086be4 100644 --- a/.travis.yml +++ b/.travis.yml @@ -14,16 +14,19 @@ before_install: - sudo ln -s /run/shm /dev/shm install: - - conda install --yes python=$TRAVIS_PYTHON_VERSION atlas numpy scipy matplotlib pip pymongo flake8 pandas astropy pygments pytables + - conda install --yes python=$TRAVIS_PYTHON_VERSION atlas numpy scipy matplotlib pip pymongo flake8 pandas astropy pygments pytables sphinx - pip install restructuredtext-lint - pip install . script: - python setup.py test - rst-lint README.rst + - python setup.py build_sphinx + deploy: - provider: pypi + skip_cleanup: true distributions: sdist server: "https://pypi.python.org/pypi" user: fact-deploybot @@ -33,3 +36,6 @@ deploy: branch: master tags: true condition: $TRAVIS_PYTHON_VERSION = "3.5" + +after_deploy: + - ./.upload_docs.sh diff --git a/.upload_docs.sh b/.upload_docs.sh new file mode 100755 index 0000000..efe44d0 --- /dev/null +++ b/.upload_docs.sh @@ -0,0 +1,26 @@ +#!/bin/bash + +if [ "$TRAVIS_PYTHON_VERSION" == "3.6" ]; +then + + openssl aes-256-cbc -K $encrypted_51741ccedff4_key -iv $encrypted_51741ccedff4_iv -in github_deploy_key.enc -out github_deploy_key -d + chmod 600 github_deploy_key + eval `ssh-agent -s` + ssh-add github_deploy_key + + python setup.py build_sphinx + + cp -r ./build/sphinx/html ~/out + + cd ~/out + touch .nojekyll + git init + git remote add origin git@github.com:$TRAVIS_REPO_SLUG + git config user.name "TRAVIS CI" + git config user.email "deploybot@fact-project.org" + + git add . + git commit -m "Deploy to GitHub Pages" + + git push --force --quiet -u origin master:gh-pages > /dev/null 2>&1 +fi diff --git a/docs/Makefile b/docs/Makefile new file mode 100644 index 0000000..68c847f --- /dev/null +++ b/docs/Makefile @@ -0,0 +1,225 @@ +# Makefile for Sphinx documentation +# + +# You can set these variables from the command line. +SPHINXOPTS = +SPHINXBUILD = sphinx-build +PAPER = +BUILDDIR = _build + +# Internal variables. +PAPEROPT_a4 = -D latex_paper_size=a4 +PAPEROPT_letter = -D latex_paper_size=letter +ALLSPHINXOPTS = -d $(BUILDDIR)/doctrees $(PAPEROPT_$(PAPER)) $(SPHINXOPTS) . +# the i18n builder cannot share the environment and doctrees with the others +I18NSPHINXOPTS = $(PAPEROPT_$(PAPER)) $(SPHINXOPTS) . + +.PHONY: help +help: + @echo "Please use \`make ' where is one of" + @echo " html to make standalone HTML files" + @echo " dirhtml to make HTML files named index.html in directories" + @echo " singlehtml to make a single large HTML file" + @echo " pickle to make pickle files" + @echo " json to make JSON files" + @echo " htmlhelp to make HTML files and a HTML help project" + @echo " qthelp to make HTML files and a qthelp project" + @echo " applehelp to make an Apple Help Book" + @echo " devhelp to make HTML files and a Devhelp project" + @echo " epub to make an epub" + @echo " epub3 to make an epub3" + @echo " latex to make LaTeX files, you can set PAPER=a4 or PAPER=letter" + @echo " latexpdf to make LaTeX files and run them through pdflatex" + @echo " latexpdfja to make LaTeX files and run them through platex/dvipdfmx" + @echo " text to make text files" + @echo " man to make manual pages" + @echo " texinfo to make Texinfo files" + @echo " info to make Texinfo files and run them through makeinfo" + @echo " gettext to make PO message catalogs" + @echo " changes to make an overview of all changed/added/deprecated items" + @echo " xml to make Docutils-native XML files" + @echo " pseudoxml to make pseudoxml-XML files for display purposes" + @echo " linkcheck to check all external links for integrity" + @echo " doctest to run all doctests embedded in the documentation (if enabled)" + @echo " coverage to run coverage check of the documentation (if enabled)" + @echo " dummy to check syntax errors of document sources" + +.PHONY: clean +clean: + rm -rf $(BUILDDIR)/* + +.PHONY: html +html: + $(SPHINXBUILD) -b html $(ALLSPHINXOPTS) $(BUILDDIR)/html + @echo + @echo "Build finished. The HTML pages are in $(BUILDDIR)/html." + +.PHONY: dirhtml +dirhtml: + $(SPHINXBUILD) -b dirhtml $(ALLSPHINXOPTS) $(BUILDDIR)/dirhtml + @echo + @echo "Build finished. The HTML pages are in $(BUILDDIR)/dirhtml." + +.PHONY: singlehtml +singlehtml: + $(SPHINXBUILD) -b singlehtml $(ALLSPHINXOPTS) $(BUILDDIR)/singlehtml + @echo + @echo "Build finished. The HTML page is in $(BUILDDIR)/singlehtml." + +.PHONY: pickle +pickle: + $(SPHINXBUILD) -b pickle $(ALLSPHINXOPTS) $(BUILDDIR)/pickle + @echo + @echo "Build finished; now you can process the pickle files." + +.PHONY: json +json: + $(SPHINXBUILD) -b json $(ALLSPHINXOPTS) $(BUILDDIR)/json + @echo + @echo "Build finished; now you can process the JSON files." + +.PHONY: htmlhelp +htmlhelp: + $(SPHINXBUILD) -b htmlhelp $(ALLSPHINXOPTS) $(BUILDDIR)/htmlhelp + @echo + @echo "Build finished; now you can run HTML Help Workshop with the" \ + ".hhp project file in $(BUILDDIR)/htmlhelp." + +.PHONY: qthelp +qthelp: + $(SPHINXBUILD) -b qthelp $(ALLSPHINXOPTS) $(BUILDDIR)/qthelp + @echo + @echo "Build finished; now you can run "qcollectiongenerator" with the" \ + ".qhcp project file in $(BUILDDIR)/qthelp, like this:" + @echo "# qcollectiongenerator $(BUILDDIR)/qthelp/pyfact.qhcp" + @echo "To view the help file:" + @echo "# assistant -collectionFile $(BUILDDIR)/qthelp/pyfact.qhc" + +.PHONY: applehelp +applehelp: + $(SPHINXBUILD) -b applehelp $(ALLSPHINXOPTS) $(BUILDDIR)/applehelp + @echo + @echo "Build finished. The help book is in $(BUILDDIR)/applehelp." + @echo "N.B. You won't be able to view it unless you put it in" \ + "~/Library/Documentation/Help or install it in your application" \ + "bundle." + +.PHONY: devhelp +devhelp: + $(SPHINXBUILD) -b devhelp $(ALLSPHINXOPTS) $(BUILDDIR)/devhelp + @echo + @echo "Build finished." + @echo "To view the help file:" + @echo "# mkdir -p $$HOME/.local/share/devhelp/pyfact" + @echo "# ln -s $(BUILDDIR)/devhelp $$HOME/.local/share/devhelp/pyfact" + @echo "# devhelp" + +.PHONY: epub +epub: + $(SPHINXBUILD) -b epub $(ALLSPHINXOPTS) $(BUILDDIR)/epub + @echo + @echo "Build finished. The epub file is in $(BUILDDIR)/epub." + +.PHONY: epub3 +epub3: + $(SPHINXBUILD) -b epub3 $(ALLSPHINXOPTS) $(BUILDDIR)/epub3 + @echo + @echo "Build finished. The epub3 file is in $(BUILDDIR)/epub3." + +.PHONY: latex +latex: + $(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) $(BUILDDIR)/latex + @echo + @echo "Build finished; the LaTeX files are in $(BUILDDIR)/latex." + @echo "Run \`make' in that directory to run these through (pdf)latex" \ + "(use \`make latexpdf' here to do that automatically)." + +.PHONY: latexpdf +latexpdf: + $(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) $(BUILDDIR)/latex + @echo "Running LaTeX files through pdflatex..." + $(MAKE) -C $(BUILDDIR)/latex all-pdf + @echo "pdflatex finished; the PDF files are in $(BUILDDIR)/latex." + +.PHONY: latexpdfja +latexpdfja: + $(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) $(BUILDDIR)/latex + @echo "Running LaTeX files through platex and dvipdfmx..." + $(MAKE) -C $(BUILDDIR)/latex all-pdf-ja + @echo "pdflatex finished; the PDF files are in $(BUILDDIR)/latex." + +.PHONY: text +text: + $(SPHINXBUILD) -b text $(ALLSPHINXOPTS) $(BUILDDIR)/text + @echo + @echo "Build finished. The text files are in $(BUILDDIR)/text." + +.PHONY: man +man: + $(SPHINXBUILD) -b man $(ALLSPHINXOPTS) $(BUILDDIR)/man + @echo + @echo "Build finished. The manual pages are in $(BUILDDIR)/man." + +.PHONY: texinfo +texinfo: + $(SPHINXBUILD) -b texinfo $(ALLSPHINXOPTS) $(BUILDDIR)/texinfo + @echo + @echo "Build finished. The Texinfo files are in $(BUILDDIR)/texinfo." + @echo "Run \`make' in that directory to run these through makeinfo" \ + "(use \`make info' here to do that automatically)." + +.PHONY: info +info: + $(SPHINXBUILD) -b texinfo $(ALLSPHINXOPTS) $(BUILDDIR)/texinfo + @echo "Running Texinfo files through makeinfo..." + make -C $(BUILDDIR)/texinfo info + @echo "makeinfo finished; the Info files are in $(BUILDDIR)/texinfo." + +.PHONY: gettext +gettext: + $(SPHINXBUILD) -b gettext $(I18NSPHINXOPTS) $(BUILDDIR)/locale + @echo + @echo "Build finished. The message catalogs are in $(BUILDDIR)/locale." + +.PHONY: changes +changes: + $(SPHINXBUILD) -b changes $(ALLSPHINXOPTS) $(BUILDDIR)/changes + @echo + @echo "The overview file is in $(BUILDDIR)/changes." + +.PHONY: linkcheck +linkcheck: + $(SPHINXBUILD) -b linkcheck $(ALLSPHINXOPTS) $(BUILDDIR)/linkcheck + @echo + @echo "Link check complete; look for any errors in the above output " \ + "or in $(BUILDDIR)/linkcheck/output.txt." + +.PHONY: doctest +doctest: + $(SPHINXBUILD) -b doctest $(ALLSPHINXOPTS) $(BUILDDIR)/doctest + @echo "Testing of doctests in the sources finished, look at the " \ + "results in $(BUILDDIR)/doctest/output.txt." + +.PHONY: coverage +coverage: + $(SPHINXBUILD) -b coverage $(ALLSPHINXOPTS) $(BUILDDIR)/coverage + @echo "Testing of coverage in the sources finished, look at the " \ + "results in $(BUILDDIR)/coverage/python.txt." + +.PHONY: xml +xml: + $(SPHINXBUILD) -b xml $(ALLSPHINXOPTS) $(BUILDDIR)/xml + @echo + @echo "Build finished. The XML files are in $(BUILDDIR)/xml." + +.PHONY: pseudoxml +pseudoxml: + $(SPHINXBUILD) -b pseudoxml $(ALLSPHINXOPTS) $(BUILDDIR)/pseudoxml + @echo + @echo "Build finished. The pseudo-XML files are in $(BUILDDIR)/pseudoxml." + +.PHONY: dummy +dummy: + $(SPHINXBUILD) -b dummy $(ALLSPHINXOPTS) $(BUILDDIR)/dummy + @echo + @echo "Build finished. Dummy builder generates no files." diff --git a/docs/conf.py b/docs/conf.py new file mode 100644 index 0000000..6c899ab --- /dev/null +++ b/docs/conf.py @@ -0,0 +1,442 @@ +#!/usr/bin/env python3 +# -*- coding: utf-8 -*- +# +# pyfact documentation build configuration file, created by +# sphinx-quickstart on Mon Apr 10 12:17:42 2017. +# +# 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. + +# If extensions (or modules to document with autodoc) are in another directory, +# add these directories to sys.path here. If the directory is relative to the +# documentation root, use os.path.abspath to make it absolute, like shown here. +# +# import os +# import sys +# sys.path.insert(0, os.path.abspath('.')) + +# -- 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.todo', + 'sphinx.ext.viewcode', + 'sphinx.ext.napoleon', +] + +# Napoleon settings +napoleon_google_docstring = False +napoleon_numpy_docstring = True +napoleon_include_init_with_doc = False +napoleon_include_private_with_doc = False +napoleon_include_special_with_doc = True +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 + +# Add any paths that contain templates here, relative to this directory. +templates_path = ['_templates'] + +# The suffix(es) of source filenames. +# You can specify multiple suffix as a list of string: +# +# source_suffix = ['.rst', '.md'] +source_suffix = '.rst' + +# The encoding of source files. +# +# source_encoding = 'utf-8-sig' + +# The master toctree document. +master_doc = 'index' + +# General information about the project. +project = 'pyfact' +copyright = '2017, Author' +author = 'Author' + +# 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. +# +# This is also used if you do content translation via gettext catalogs. +# Usually you set "language" from the command line for these cases. +language = 'en' + +# 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. +# This patterns also effect to html_static_path and html_extra_path +exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store'] + +# 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 + +# If true, `todo` and `todoList` produce output, else they produce nothing. +todo_include_todos = True + + +# -- Options for HTML output ---------------------------------------------- + +# The theme to use for HTML and HTML Help pages. See the documentation for +# a list of builtin themes. +# +html_theme = 'alabaster' + +# 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. +# " v documentation" by default. +# +# html_title = 'pyfact v' + +# 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 (relative to this directory) to use as a 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 None, a 'Last updated on:' timestamp is inserted at every page +# bottom, using the given strftime format. +# The empty string is equivalent to '%b %d, %Y'. +# +# html_last_updated_fmt = None + +# 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 + +# Language to be used for generating the HTML full-text search index. +# Sphinx supports the following languages: +# 'da', 'de', 'en', 'es', 'fi', 'fr', 'h', 'it', 'ja' +# 'nl', 'no', 'pt', 'ro', 'r', 'sv', 'tr', 'zh' +# +# html_search_language = 'en' + +# A dictionary with options for the search language support, empty by default. +# 'ja' uses this config value. +# 'zh' user can custom change `jieba` dictionary path. +# +# html_search_options = {'type': 'default'} + +# The name of a javascript file (relative to the configuration directory) that +# implements a search results scorer. If empty, the default will be used. +# +# html_search_scorer = 'scorer.js' + +# Output file base name for HTML help builder. +htmlhelp_basename = 'pyfactdoc' + +# -- Options for LaTeX output --------------------------------------------- + +latex_elements = { + # The paper size ('letterpaper' or 'a4paper'). + # + # 'papersize': 'letterpaper', + + # The font size ('10pt', '11pt' or '12pt'). + # + # 'pointsize': '10pt', + + # Additional stuff for the LaTeX preamble. + # + # 'preamble': '', + + # Latex figure (float) alignment + # + # 'figure_align': 'htbp', +} + +# Grouping the document tree into LaTeX files. List of tuples +# (source start file, target name, title, +# author, documentclass [howto, manual, or own class]). +latex_documents = [ + (master_doc, 'pyfact.tex', 'pyfact Documentation', + 'Author', '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 = [] + +# It false, will not define \strong, \code, itleref, \crossref ... but only +# \sphinxstrong, ..., \sphinxtitleref, ... To help avoid clash with user added +# packages. +# +# latex_keep_old_macro_names = True + +# 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 = [ + (master_doc, 'pyfact', 'pyfact Documentation', + [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 = [ + (master_doc, 'pyfact', 'pyfact Documentation', + author, 'pyfact', '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 = project +epub_author = author +epub_publisher = author +epub_copyright = copyright + +# The basename for the epub file. It defaults to the project name. +# epub_basename = project + +# 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 that 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 Pillow. +# +# 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 diff --git a/docs/fact.auxservices.rst b/docs/fact.auxservices.rst new file mode 100644 index 0000000..ab6031f --- /dev/null +++ b/docs/fact.auxservices.rst @@ -0,0 +1,28 @@ +fact.auxservices package +======================== + +.. automodule:: fact.auxservices + :members: + :undoc-members: + :show-inheritance: + +Submodules +---------- + +fact.auxservices.base module +---------------------------- + +.. automodule:: fact.auxservices.base + :members: + :undoc-members: + :show-inheritance: + +fact.auxservices.services module +-------------------------------- + +.. automodule:: fact.auxservices.services + :members: + :undoc-members: + :show-inheritance: + + diff --git a/docs/fact.credentials.rst b/docs/fact.credentials.rst new file mode 100644 index 0000000..1a71aab --- /dev/null +++ b/docs/fact.credentials.rst @@ -0,0 +1,8 @@ +fact.credentials package +======================== + +.. automodule:: fact.credentials + :members: + :undoc-members: + :show-inheritance: + diff --git a/docs/fact.factdb.rst b/docs/fact.factdb.rst new file mode 100644 index 0000000..961f958 --- /dev/null +++ b/docs/fact.factdb.rst @@ -0,0 +1,36 @@ +fact.factdb package +=================== + +.. automodule:: fact.factdb + :members: + :undoc-members: + :show-inheritance: + +Submodules +---------- + +fact.factdb.database module +--------------------------- + +.. automodule:: fact.factdb.database + :members: + :undoc-members: + :show-inheritance: + +fact.factdb.models module +------------------------- + +.. automodule:: fact.factdb.models + :members: + :undoc-members: + :show-inheritance: + +fact.factdb.utils module +------------------------ + +.. automodule:: fact.factdb.utils + :members: + :undoc-members: + :show-inheritance: + + diff --git a/docs/fact.plotting.rst b/docs/fact.plotting.rst new file mode 100644 index 0000000..c6100c2 --- /dev/null +++ b/docs/fact.plotting.rst @@ -0,0 +1,44 @@ +fact.plotting package +===================== + +.. automodule:: fact.plotting + :members: + :undoc-members: + :show-inheritance: + +Submodules +---------- + +fact.plotting.analysis module +----------------------------- + +.. automodule:: fact.plotting.analysis + :members: + :undoc-members: + :show-inheritance: + +fact.plotting.core module +------------------------- + +.. automodule:: fact.plotting.core + :members: + :undoc-members: + :show-inheritance: + +fact.plotting.utils module +-------------------------- + +.. automodule:: fact.plotting.utils + :members: + :undoc-members: + :show-inheritance: + +fact.plotting.viewer module +--------------------------- + +.. automodule:: fact.plotting.viewer + :members: + :undoc-members: + :show-inheritance: + + diff --git a/docs/fact.rst b/docs/fact.rst new file mode 100644 index 0000000..07948f6 --- /dev/null +++ b/docs/fact.rst @@ -0,0 +1,79 @@ +fact package +============ + +.. automodule:: fact + :members: + :undoc-members: + :show-inheritance: + +Subpackages +----------- + +.. toctree:: + + fact.auxservices + fact.credentials + fact.factdb + fact.plotting + fact.slowdata + +Submodules +---------- + +fact.analysis module +-------------------- + +.. automodule:: fact.analysis + :members: + :undoc-members: + :show-inheritance: + +fact.encrypt_credentials module +------------------------------- + +.. automodule:: fact.encrypt_credentials + :members: + :undoc-members: + :show-inheritance: + +fact.geometry module +-------------------- + +.. automodule:: fact.geometry + :members: + :undoc-members: + :show-inheritance: + +fact.io module +-------------- + +.. automodule:: fact.io + :members: + :undoc-members: + :show-inheritance: + +fact.pixels module +------------------ + +.. automodule:: fact.pixels + :members: + :undoc-members: + :show-inheritance: + +fact.qla module +--------------- + +.. automodule:: fact.qla + :members: + :undoc-members: + :show-inheritance: + +fact.time module +---------------- + +.. automodule:: fact.time + :members: + :undoc-members: + :show-inheritance: + + diff --git a/docs/fact.slowdata.rst b/docs/fact.slowdata.rst new file mode 100644 index 0000000..654edc7 --- /dev/null +++ b/docs/fact.slowdata.rst @@ -0,0 +1,36 @@ +fact.slowdata package +===================== + +.. automodule:: fact.slowdata + :members: + :undoc-members: + :show-inheritance: + +Submodules +---------- + +fact.slowdata.correlation module +-------------------------------- + +.. automodule:: fact.slowdata.correlation + :members: + :undoc-members: + :show-inheritance: + +fact.slowdata.settings module +----------------------------- + +.. automodule:: fact.slowdata.settings + :members: + :undoc-members: + :show-inheritance: + +fact.slowdata.tools module +-------------------------- + +.. automodule:: fact.slowdata.tools + :members: + :undoc-members: + :show-inheritance: + + diff --git a/docs/index.rst b/docs/index.rst new file mode 100644 index 0000000..db38fac --- /dev/null +++ b/docs/index.rst @@ -0,0 +1,24 @@ +.. pyfact documentation master file, created by + sphinx-quickstart on Mon Apr 10 12:17:42 2017. + You can adapt this file completely to your liking, but it should at least + contain the root `toctree` directive. + +Welcome to pyfact's documentation! +================================== + +Contents: + +.. toctree:: + :maxdepth: 4 + + fact + setup + + +Indices and tables +================== + +* :ref:`genindex` +* :ref:`modindex` +* :ref:`search` + diff --git a/docs/make.bat b/docs/make.bat new file mode 100644 index 0000000..0edf987 --- /dev/null +++ b/docs/make.bat @@ -0,0 +1,281 @@ +@ECHO OFF + +REM Command file for Sphinx documentation + +if "%SPHINXBUILD%" == "" ( + set SPHINXBUILD=sphinx-build +) +set BUILDDIR=_build +set ALLSPHINXOPTS=-d %BUILDDIR%/doctrees %SPHINXOPTS% . +set I18NSPHINXOPTS=%SPHINXOPTS% . +if NOT "%PAPER%" == "" ( + set ALLSPHINXOPTS=-D latex_paper_size=%PAPER% %ALLSPHINXOPTS% + set I18NSPHINXOPTS=-D latex_paper_size=%PAPER% %I18NSPHINXOPTS% +) + +if "%1" == "" goto help + +if "%1" == "help" ( + :help + echo.Please use `make ^` where ^ is one of + echo. html to make standalone HTML files + echo. dirhtml to make HTML files named index.html in directories + echo. singlehtml to make a single large HTML file + echo. pickle to make pickle files + echo. json to make JSON files + echo. htmlhelp to make HTML files and a HTML help project + echo. qthelp to make HTML files and a qthelp project + echo. devhelp to make HTML files and a Devhelp project + echo. epub to make an epub + echo. epub3 to make an epub3 + echo. latex to make LaTeX files, you can set PAPER=a4 or PAPER=letter + echo. text to make text files + echo. man to make manual pages + echo. texinfo to make Texinfo files + echo. gettext to make PO message catalogs + echo. changes to make an overview over all changed/added/deprecated items + echo. xml to make Docutils-native XML files + echo. pseudoxml to make pseudoxml-XML files for display purposes + echo. linkcheck to check all external links for integrity + echo. doctest to run all doctests embedded in the documentation if enabled + echo. coverage to run coverage check of the documentation if enabled + echo. dummy to check syntax errors of document sources + goto end +) + +if "%1" == "clean" ( + for /d %%i in (%BUILDDIR%\*) do rmdir /q /s %%i + del /q /s %BUILDDIR%\* + goto end +) + + +REM Check if sphinx-build is available and fallback to Python version if any +%SPHINXBUILD% 1>NUL 2>NUL +if errorlevel 9009 goto sphinx_python +goto sphinx_ok + +:sphinx_python + +set SPHINXBUILD=python -m sphinx.__init__ +%SPHINXBUILD% 2> nul +if errorlevel 9009 ( + echo. + echo.The 'sphinx-build' command was not found. Make sure you have Sphinx + echo.installed, then set the SPHINXBUILD environment variable to point + echo.to the full path of the 'sphinx-build' executable. Alternatively you + echo.may add the Sphinx directory to PATH. + echo. + echo.If you don't have Sphinx installed, grab it from + echo.http://sphinx-doc.org/ + exit /b 1 +) + +:sphinx_ok + + +if "%1" == "html" ( + %SPHINXBUILD% -b html %ALLSPHINXOPTS% %BUILDDIR%/html + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The HTML pages are in %BUILDDIR%/html. + goto end +) + +if "%1" == "dirhtml" ( + %SPHINXBUILD% -b dirhtml %ALLSPHINXOPTS% %BUILDDIR%/dirhtml + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The HTML pages are in %BUILDDIR%/dirhtml. + goto end +) + +if "%1" == "singlehtml" ( + %SPHINXBUILD% -b singlehtml %ALLSPHINXOPTS% %BUILDDIR%/singlehtml + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The HTML pages are in %BUILDDIR%/singlehtml. + goto end +) + +if "%1" == "pickle" ( + %SPHINXBUILD% -b pickle %ALLSPHINXOPTS% %BUILDDIR%/pickle + if errorlevel 1 exit /b 1 + echo. + echo.Build finished; now you can process the pickle files. + goto end +) + +if "%1" == "json" ( + %SPHINXBUILD% -b json %ALLSPHINXOPTS% %BUILDDIR%/json + if errorlevel 1 exit /b 1 + echo. + echo.Build finished; now you can process the JSON files. + goto end +) + +if "%1" == "htmlhelp" ( + %SPHINXBUILD% -b htmlhelp %ALLSPHINXOPTS% %BUILDDIR%/htmlhelp + if errorlevel 1 exit /b 1 + echo. + echo.Build finished; now you can run HTML Help Workshop with the ^ +.hhp project file in %BUILDDIR%/htmlhelp. + goto end +) + +if "%1" == "qthelp" ( + %SPHINXBUILD% -b qthelp %ALLSPHINXOPTS% %BUILDDIR%/qthelp + if errorlevel 1 exit /b 1 + echo. + echo.Build finished; now you can run "qcollectiongenerator" with the ^ +.qhcp project file in %BUILDDIR%/qthelp, like this: + echo.^> qcollectiongenerator %BUILDDIR%\qthelp\pyfact.qhcp + echo.To view the help file: + echo.^> assistant -collectionFile %BUILDDIR%\qthelp\pyfact.ghc + goto end +) + +if "%1" == "devhelp" ( + %SPHINXBUILD% -b devhelp %ALLSPHINXOPTS% %BUILDDIR%/devhelp + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. + goto end +) + +if "%1" == "epub" ( + %SPHINXBUILD% -b epub %ALLSPHINXOPTS% %BUILDDIR%/epub + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The epub file is in %BUILDDIR%/epub. + goto end +) + +if "%1" == "epub3" ( + %SPHINXBUILD% -b epub3 %ALLSPHINXOPTS% %BUILDDIR%/epub3 + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The epub3 file is in %BUILDDIR%/epub3. + goto end +) + +if "%1" == "latex" ( + %SPHINXBUILD% -b latex %ALLSPHINXOPTS% %BUILDDIR%/latex + if errorlevel 1 exit /b 1 + echo. + echo.Build finished; the LaTeX files are in %BUILDDIR%/latex. + goto end +) + +if "%1" == "latexpdf" ( + %SPHINXBUILD% -b latex %ALLSPHINXOPTS% %BUILDDIR%/latex + cd %BUILDDIR%/latex + make all-pdf + cd %~dp0 + echo. + echo.Build finished; the PDF files are in %BUILDDIR%/latex. + goto end +) + +if "%1" == "latexpdfja" ( + %SPHINXBUILD% -b latex %ALLSPHINXOPTS% %BUILDDIR%/latex + cd %BUILDDIR%/latex + make all-pdf-ja + cd %~dp0 + echo. + echo.Build finished; the PDF files are in %BUILDDIR%/latex. + goto end +) + +if "%1" == "text" ( + %SPHINXBUILD% -b text %ALLSPHINXOPTS% %BUILDDIR%/text + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The text files are in %BUILDDIR%/text. + goto end +) + +if "%1" == "man" ( + %SPHINXBUILD% -b man %ALLSPHINXOPTS% %BUILDDIR%/man + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The manual pages are in %BUILDDIR%/man. + goto end +) + +if "%1" == "texinfo" ( + %SPHINXBUILD% -b texinfo %ALLSPHINXOPTS% %BUILDDIR%/texinfo + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The Texinfo files are in %BUILDDIR%/texinfo. + goto end +) + +if "%1" == "gettext" ( + %SPHINXBUILD% -b gettext %I18NSPHINXOPTS% %BUILDDIR%/locale + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The message catalogs are in %BUILDDIR%/locale. + goto end +) + +if "%1" == "changes" ( + %SPHINXBUILD% -b changes %ALLSPHINXOPTS% %BUILDDIR%/changes + if errorlevel 1 exit /b 1 + echo. + echo.The overview file is in %BUILDDIR%/changes. + goto end +) + +if "%1" == "linkcheck" ( + %SPHINXBUILD% -b linkcheck %ALLSPHINXOPTS% %BUILDDIR%/linkcheck + if errorlevel 1 exit /b 1 + echo. + echo.Link check complete; look for any errors in the above output ^ +or in %BUILDDIR%/linkcheck/output.txt. + goto end +) + +if "%1" == "doctest" ( + %SPHINXBUILD% -b doctest %ALLSPHINXOPTS% %BUILDDIR%/doctest + if errorlevel 1 exit /b 1 + echo. + echo.Testing of doctests in the sources finished, look at the ^ +results in %BUILDDIR%/doctest/output.txt. + goto end +) + +if "%1" == "coverage" ( + %SPHINXBUILD% -b coverage %ALLSPHINXOPTS% %BUILDDIR%/coverage + if errorlevel 1 exit /b 1 + echo. + echo.Testing of coverage in the sources finished, look at the ^ +results in %BUILDDIR%/coverage/python.txt. + goto end +) + +if "%1" == "xml" ( + %SPHINXBUILD% -b xml %ALLSPHINXOPTS% %BUILDDIR%/xml + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The XML files are in %BUILDDIR%/xml. + goto end +) + +if "%1" == "pseudoxml" ( + %SPHINXBUILD% -b pseudoxml %ALLSPHINXOPTS% %BUILDDIR%/pseudoxml + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. The pseudo-XML files are in %BUILDDIR%/pseudoxml. + goto end +) + +if "%1" == "dummy" ( + %SPHINXBUILD% -b dummy %ALLSPHINXOPTS% %BUILDDIR%/dummy + if errorlevel 1 exit /b 1 + echo. + echo.Build finished. Dummy builder generates no files. + goto end +) + +:end diff --git a/docs/setup.rst b/docs/setup.rst new file mode 100644 index 0000000..31789b1 --- /dev/null +++ b/docs/setup.rst @@ -0,0 +1,7 @@ +setup module +============ + +.. automodule:: setup + :members: + :undoc-members: + :show-inheritance: diff --git a/fact/__init__.py b/fact/__init__.py index 642e346..b488670 100644 --- a/fact/__init__.py +++ b/fact/__init__.py @@ -2,6 +2,8 @@ from . import plotting from . import auxservices +__version__ = '0.9.3' + __all__ = [ 'fjd', 'iso2dt', @@ -10,4 +12,6 @@ 'night', 'night_integer', 'datestr', + 'plotting', + 'auxservices', ] diff --git a/fact/credentials/__init__.py b/fact/credentials/__init__.py index b589986..c76e58d 100644 --- a/fact/credentials/__init__.py +++ b/fact/credentials/__init__.py @@ -19,6 +19,7 @@ def get_credentials(): On the first call, you will be prompted for the FACT password The folling credentials are stored: + - telegram - token diff --git a/fact/io.py b/fact/io.py index b95b12b..dd59dae 100644 --- a/fact/io.py +++ b/fact/io.py @@ -233,7 +233,7 @@ def to_h5py(filename, df, key='data', mode='w', dtypes=None, index=True, **kwarg index: bool If bool, also save the index of the dataframe - All **kwargs are passed to h5py.create_dataset + All `**kwargs` are passed to h5py.create_dataset ''' assert mode in ('w', 'a'), 'mode has to be either "a" or "w"' diff --git a/fact/plotting/__init__.py b/fact/plotting/__init__.py index 9416a3e..1907965 100755 --- a/fact/plotting/__init__.py +++ b/fact/plotting/__init__.py @@ -1,11 +1,5 @@ ''' This module contains functions to plot fact data into the camera view. -Most of the functions get added to matplotlib, so you can just use e.g. - -import matplotlib.pyplot as plt -import fact.plotting as fplot -plt.factcamera(data) -plt.show() The Viewer class starts a GUI with tkinter, that let's you click through events. You will only have access to the Viewer if you have installed diff --git a/fact/plotting/core.py b/fact/plotting/core.py index fc06ed0..fc48645 100644 --- a/fact/plotting/core.py +++ b/fact/plotting/core.py @@ -40,7 +40,7 @@ def camera( picker=False, ): ''' - Attributes + Parameters ---------- data : array like with shape 1440 @@ -51,10 +51,10 @@ def camera( the colormap to use for plotting the 'dataset' [default: gray] vmin : float - the minimum for the colorbar, if None min(dataset[event]) is used + the minimum for the colorbar, if None min(data) is used [default: None] vmax : float - the maximum for the colorbar, if None max(dataset[event]) is used + the maximum for the colorbar, if None max(data) is used [default: None] pixelcoords : the coordinates for the pixels in form [x-values, y-values] if None, the package resource is used diff --git a/fact/time.py b/fact/time.py index 898e4eb..1616387 100644 --- a/fact/time.py +++ b/fact/time.py @@ -4,7 +4,7 @@ So this time is related to unix time, since it has the same offset (unix time is the number of seconds since 01.01.1970 - (what time? noon? midnight??)) +(what time? noon? midnight??)) but it is also related to 'the' Modified Julian Date (MJD), which is used by astronomers in the sense, that it also counts days. diff --git a/github_deploy_key.enc b/github_deploy_key.enc new file mode 100644 index 0000000..0459abd Binary files /dev/null and b/github_deploy_key.enc differ diff --git a/setup.py b/setup.py index fe4bc08..595e9ef 100644 --- a/setup.py +++ b/setup.py @@ -1,9 +1,10 @@ from setuptools import setup +from fact import __version__ setup( name='pyfact', - version='0.9.3', + version=__version__, description='A module containing useful methods for working with fact', url='http://github.com/fact-project/pyfact', author='Maximilian Noethe, Dominik Neise',