Mercurial > repos > shellac > sam_consensus_v3
diff env/lib/python3.9/site-packages/ephemeris-0.10.6.dist-info/METADATA @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
| author | shellac |
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| date | Mon, 22 Mar 2021 18:12:50 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.9/site-packages/ephemeris-0.10.6.dist-info/METADATA Mon Mar 22 18:12:50 2021 +0000 @@ -0,0 +1,348 @@ +Metadata-Version: 2.1 +Name: ephemeris +Version: 0.10.6 +Summary: Ephemeris is an opinionated library and set of scripts for managing the bootstrapping of Galaxy project plugins - tools, index data, and workflows. +Home-page: https://github.com/galaxyproject/ephemeris +Author: Galaxy Project and Community +Author-email: jmchilton@gmail.com +License: AFL +Keywords: galaxy +Platform: UNKNOWN +Classifier: Development Status :: 5 - Production/Stable +Classifier: Intended Audience :: Developers +Classifier: Environment :: Console +Classifier: License :: OSI Approved :: Academic Free License (AFL) +Classifier: Operating System :: POSIX +Classifier: Topic :: Software Development +Classifier: Topic :: Software Development :: Code Generators +Classifier: Topic :: Software Development :: Testing +Classifier: Natural Language :: English +Classifier: Programming Language :: Python :: 2 +Classifier: Programming Language :: Python :: 2.7 +Requires-Dist: six (>=1.9.0) +Requires-Dist: PyYAML +Requires-Dist: bioblend (>=0.10.0) +Requires-Dist: Jinja2 +Requires-Dist: galaxy-tool-util (>=20.5.0.dev1) +Requires-Dist: galaxy-util (>=20.1.0.dev0) +Requires-Dist: futures ; python_version < "3" + + +.. image:: https://readthedocs.org/projects/pip/badge/?version=latest + :target: https://ephemeris.readthedocs.org + +.. image:: https://badge.fury.io/py/ephemeris.svg + :target: https://pypi.python.org/pypi/ephemeris/ + +.. image:: https://travis-ci.org/galaxyproject/ephemeris.png?branch=master + :target: https://travis-ci.org/galaxyproject/ephemeris + +.. image:: https://api.codacy.com/project/badge/Coverage/e12102174b4e452c871cd2bafedaec60 + :target: https://www.codacy.com/app/galaxyproject/ephemeris?utm_source=github.com&utm_medium=referral&utm_content=galaxyproject/ephemeris&utm_campaign=Badge_Coverage + +.. image:: https://api.codacy.com/project/badge/Grade/e12102174b4e452c871cd2bafedaec60 + :target: https://www.codacy.com/app/galaxyproject/ephemeris?utm_source=github.com&utm_medium=referral&utm_content=galaxyproject/ephemeris&utm_campaign=Badge_Grade + +Ephemeris is a small Python library and set of scripts for managing the +bootstrapping of Galaxy_ plugins - tools, index data, and workflows. + +* Free software: Academic Free License version 3.0 +* Documentation: https://ephemeris.readthedocs.org. +* Code: https://github.com/galaxyproject/ephemeris + + +.. _Galaxy: http://galaxyproject.org/ +.. _GitHub: https://github.com/ +.. _Docker: https://www.docker.com/ +.. _Homebrew: http://brew.sh/ +.. _linuxbrew: https://github.com/Homebrew/linuxbrew +.. _Vagrant: https://www.vagrantup.com/ +.. _Travis CI: http://travis-ci.org/ + + + + +History +------- + +.. to_doc + +--------------------- +0.10.6 (2020-05-04) +--------------------- + +* Wait for the correct repository (thanks to `@mvdbeek`_). `Pull + Request 158`_ +* Update dependencies + +--------------------- +0.10.5 (2020-02-29) +--------------------- + +* Fix `shed-tools test -t workflow_tools.yml` (thanks to `@nsoranzo`_). `Pull + Request 155`_ +* Fix installing tool dependencies from yaml list (thanks to `@mvdbeek`_). + `Pull Request 154`_ +* Cast exceptions to string using unicodify (thanks to `@mvdbeek`_). `Pull + Request 150`_ +* Add description when creating folders with setup_data_libraries (thanks to + `@abretaud`_). `Pull Request 149`_ + +--------------------- +0.10.4 (2019-10-05) +--------------------- + +* When polling for repo install status, ensure the correct revision is being + checked (thanks to `@natefoo`_). `Pull Request 146`_ +* Add install_tool_deps command (thanks to `@innovate-invent`_). `Pull Request + 145`_ + +--------------------- +0.10.3 (2019-07-18) +--------------------- + +* Add install-tool-deps command that will install tool dependencies + (thanks to `@innovate-invent`_). `Pull Request 130`_ +* Require galaxy-tool-util instead of galaxy-lib (thanks to `@nsoranzo`_). + `Pull Request 143`_ +* Release to PyPI on tag (thanks to `@mvdbeek`_). `Pull Request 142`_ +* Make Data library creation more robust + (thanks to `@erasche`_). `Pull Request 138`_ +* Make tool testing more robust (thanks to + `@mvdbeek`_). `Pull Request 137`_, `Pull Request 136`_ + +--------------------- +0.10.2 (2019-06-04) +--------------------- + +* Fix default message check (thanks to `@mvdbeek`_). `Pull Request 135`_ + +--------------------- +0.10.1 (2019-06-04) +--------------------- + +* Fix timeout handling when installing repositories + (thanks to `@mvdbeek`_). `Pull Request 134`_ + +--------------------- +0.10.0 (2019-05-29) +--------------------- + +* fix doc building and regenerate (thanks to `@martenson`_). `Pull Request + 129`_ +* fix default for 'parallel_tests' typo (thanks to `@martenson`_). `Pull + Request 127`_ +* Include some additional stats for xunit reporting (thanks to `@mvdbeek`_). + `Pull Request 126`_ +* Handle timeout gracefully for UWSGI connection (thanks to `@pcm32`_). `Pull + Request 123`_ +* Update Docs for User Name (Should be Email) (thanks to `@rdvelazquez`_). + `Pull Request 122`_ +* remove the python invocation from usage examples (thanks to `@martenson`_). + `Pull Request 121`_ +* Fix crash when too_with_panel is empty (thanks to `@jvanbraekel`_). `Pull + Request 120`_ +* Test tools in parallel, with regular user permissions, without a shared + filesystem (thanks to `@mvdbeek`_). `Pull Request 118`_ +* use latest documentation dependencies to fix documentation build issue + (thanks to `@rhpvorderman`_). `Pull Request 114`_ +* Refactor shed tool functionality. Removed deprecated options from + shed-tools CLI. + shed-tools update now also accepts tool list, so tools in galaxy can + be selectively updated. Improved algorithm leads to much faster + skipping of already installed tools, which makes the installation + of tools much faster on an already populated galaxy. + (thanks to `@rhpvorderman`_). + `Pull Request 104`_ +* Add ``pytest``, enable coverage testing (thanks to `@rhpvorderman`_). + `Pull Request 105`_ +* Make ``setup_data_libraries.py`` check for existence before recreation of + libraries. + (thanks to `@Slugger70`_). + `Pull Request 103`_ +* Catch failures on requests to the installed repo list when doing post- + timeout spinning on installation in ``shed-tools`` (thanks to `@natefoo`_). + `Pull Request 97`_ +* Fix coverage reporting on codacy (thanks to `@rhpvorderman`_). + `Pull Request 106`_ +* Run-data-managers now outputs stderr of failed jobs (thanks to `@rhpvorderman`_). + `Pull Request 110`_ + +--------------------- +0.9.0 (2018-05-23) +--------------------- + +* Update data managers when updating tools (thanks to `@rhpvorderman`_). + `Pull Request 78`_, `Issue 69`_ +* Run data managers aggressive parallelization and refactoring (thanks to + `@rhpvorderman`_). + `Pull Request 79`_ +* Makes publishing of imported workflows available (thanks to `@pcm32`_). + `Pull Request 74`_ +* Add option to test tools on update/install for Galaxy 18.05 (thanks to `@jmchilton`_). + `Pull Request 81`_ +* Upload 2.0 support for data library creation (thanks to `@jmchilton`_). + `Pull Request 89`_ +* Fixes to revision parsing in tools.yaml (thanks to `@bgruening`_). + `Pull Request 70`_ +* Add Codacy monitoring and badge (thanks to `@jmchilton`_). + `Pull Request 73`_ +* Fix typo in project organization document (thanks to `@blankenberg`_). + `Pull Request 86`_ +* Fix hardcoded log paths (thanks to `@rhpvorderman`_). + `Pull Request 85`_ +* Fix ``shed-tools`` update argparse handling (thanks to `@rhpvorderman`_). + `Pull Request 88`_ +* Fix a few lint issues (thanks to `@jmchilton`_). + `Pull Request 90`_ + +--------------------- +0.8.0 (2017-12-29) +--------------------- + +* Many new documentation enhancements (thanks to @rhpvorderman, and others) +* rename of shed-install to shed-tools and add a new --latest and --revision argument (thanks to @rhpvorderman) +* many fixes and new tests by (thanks to @mvdbeek) +* Parallelization of run-data-managers (thanks to @rhpvorderman) +* run-data-managers now uses more advanced templating for less repetitive input yamls (thanks to @rhpvorderman) +* run-data-managers now checks if a genome index is already present before running the data manager (thanks to @rhpvorderman) +* ephemeris will now use https by default instead of http (thanks to @bgruening) + +--------------------- +0.7.0 (2017-06-27) +--------------------- + +* Many new documentation enhancements (thanks to @rhpvorderman, @erasche, and others) - + docs are now published to https://readthedocs.org/projects/ephemeris/. +* Fix problem with empty list options related to running data managers (thanks to @rhpvorderman). +* Enable data managers to run with API keys (thanks to @rhpvorderman). +* Add sleep command to wait for a Galaxy API to become available (thanks to @erasche). +* Preserve readable order of keys while processing tool lists (thanks to @drosofff). + +--------------------- +0.6.1 (2017-04-17) +--------------------- + +* Add Python 2 and 3 testing for all scripts against galaxy-docker-stable along with various + refactoring to reduce code duplication and Python 3 fixes. `#36 + <https://github.com/galaxyproject/ephemeris/pull/36>`__ + +--------------------- +0.6.0 (2017-04-10) +--------------------- + +* Add new connection options for setting up data libraries. + +--------------------- +0.5.1 (2017-04-07) +--------------------- + +* Fix new ``run-data-managers`` CLI entrypoint. + +--------------------- +0.5.0 (2017-04-06) +--------------------- + +* Add ``run-data-managers`` tool to trigger DM with multiple values and in order. `#30 <https://github.com/galaxyproject/ephemeris/pull/30>`_ +* The workflow install tool now supports a directory of workflows. `#27 <https://github.com/galaxyproject/ephemeris/pull/27>`_ +* enable global options in a tool yaml files, like `install_resolver_dependencies: true` `#26 <https://github.com/galaxyproject/ephemeris/pull/26>`_ +* Mention mimum required galaxy versions. `#23 <https://github.com/galaxyproject/ephemeris/pull/23>`_ (thanks to @mvdbeek) + + +--------------------- +0.4.0 (2016-09-07) +--------------------- + +* Be more generic in determining a server time-out (thanks to @afgane). +* Get tool list entrypoint and improvements (thanks to @mvdbeek). +* Rename ``tool_panel_section_name`` to ``tool_panel_section_label`` like + ansible-galaxy-tools (thanks to @nturaga). +* Add missing file ``tool_list.yaml.sample`` (thanks to @nturaga). + +--------------------- +0.3.0 (2016-08-26) +--------------------- + +* More robust shed-install script, install dependencies by default, improve logging + (thanks to @mvdbeek). + +--------------------- +0.2.0 (2016-08-15) +--------------------- + +* Add tool generate a tool list from a Galaxy workflow file + (thanks to @drosofff). +* Fix various code quality issues including adding beta support + for Python 3 (thanks in part to @mvdbeek). + +--------------------- +0.1.0 (2016-06-15) +--------------------- + +* Setup project, pull in scripts from `ansible-galaxy-tools + <https://github.com/galaxyproject/ansible-galaxy-tools>`__ + and adapt them for usage as a library. + +.. github_links +.. _Pull Request 158: https://github.com/galaxyproject/ephemeris/pull/158 +.. _Pull Request 155: https://github.com/galaxyproject/ephemeris/pull/155 +.. _Pull Request 154: https://github.com/galaxyproject/ephemeris/pull/154 +.. _Pull Request 150: https://github.com/galaxyproject/ephemeris/pull/150 +.. _Pull Request 149: https://github.com/galaxyproject/ephemeris/pull/149 +.. _Pull Request 146: https://github.com/galaxyproject/ephemeris/pull/146 +.. _Pull Request 145: https://github.com/galaxyproject/ephemeris/pull/145 +.. _Pull Request 130: https://github.com/galaxyproject/ephemeris/pull/130 +.. _Pull Request 143: https://github.com/galaxyproject/ephemeris/pull/143 +.. _Pull Request 142: https://github.com/galaxyproject/ephemeris/pull/142 +.. _Pull Request 138: https://github.com/galaxyproject/ephemeris/pull/138 +.. _Pull Request 137: https://github.com/galaxyproject/ephemeris/pull/137 +.. _Pull Request 136: https://github.com/galaxyproject/ephemeris/pull/136 +.. _Pull Request 135: https://github.com/galaxyproject/ephemeris/pull/135 +.. _Pull Request 134: https://github.com/galaxyproject/ephemeris/pull/134 +.. _Pull Request 129: https://github.com/galaxyproject/ephemeris/pull/129 +.. _Pull Request 127: https://github.com/galaxyproject/ephemeris/pull/127 +.. _Pull Request 126: https://github.com/galaxyproject/ephemeris/pull/126 +.. _Pull Request 123: https://github.com/galaxyproject/ephemeris/pull/123 +.. _Pull Request 122: https://github.com/galaxyproject/ephemeris/pull/122 +.. _Pull Request 121: https://github.com/galaxyproject/ephemeris/pull/121 +.. _Pull Request 120: https://github.com/galaxyproject/ephemeris/pull/120 +.. _Pull Request 118: https://github.com/galaxyproject/ephemeris/pull/118 +.. _Pull Request 114: https://github.com/galaxyproject/ephemeris/pull/114 +.. _Pull Request 97: https://github.com/galaxyproject/ephemeris/pull/97 +.. _Pull Request 103: https://github.com/galaxyproject/ephemeris/pull/103 +.. _Pull Request 104: https://github.com/galaxyproject/ephemeris/pull/104 +.. _Pull Request 105: https://github.com/galaxyproject/ephemeris/pull/105 +.. _Pull Request 106: https://github.com/galaxyproject/ephemeris/pull/106 +.. _Pull Request 110: https://github.com/galaxyproject/ephemeris/pull/110 +.. _Pull Request 74: https://github.com/galaxyproject/ephemeris/pull/74 +.. _Issue 69: https://github.com/galaxyproject/ephemeris/issues/69 +.. _Pull Request 73: https://github.com/galaxyproject/ephemeris/pull/73 +.. _Pull Request 78: https://github.com/galaxyproject/ephemeris/pull/78 +.. _Pull Request 70: https://github.com/galaxyproject/ephemeris/pull/70 +.. _Pull Request 86: https://github.com/galaxyproject/ephemeris/pull/86 +.. _Pull Request 79: https://github.com/galaxyproject/ephemeris/pull/79 +.. _Pull Request 85: https://github.com/galaxyproject/ephemeris/pull/85 +.. _Pull Request 81: https://github.com/galaxyproject/ephemeris/pull/81 +.. _Pull Request 90: https://github.com/galaxyproject/ephemeris/pull/90 +.. _Pull Request 89: https://github.com/galaxyproject/ephemeris/pull/89 +.. _Pull Request 88: https://github.com/galaxyproject/ephemeris/pull/88 +.. _@abretaud: https://github.com/abretaud +.. _@bgruening: https://github.com/bgruening +.. _@blankenberg: https://github.com/blankenberg +.. _@rhpvorderman: https://github.com/rhpvorderman +.. _@pcm32: https://github.com/pcm32 +.. _@jmchilton: https://github.com/jmchilton +.. _@Slugger70: https://github.com/Slugger70 +.. _@natefoo: https://github.com/natefoo +.. _@martenson: https://github.com/martenson +.. _@mvdbeek: https://github.com/mvdbeek +.. _@rdvelazquez: https://github.com/rdvelazquez +.. _@jvanbraekel: https://github.com/jvanbraekel +.. _@innovate-invent: https://github.com/innovate-invent +.. _@erasche: https://github.com/erasche +.. _@nsoranzo: https://github.com/nsoranzo + +.. _bioblend: https://github.com/galaxyproject/bioblend/ +.. _nose: https://nose.readthedocs.org/en/latest/ + +