ephemeris 0.9.0

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

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)

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).

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

Add new connection options for setting up data libraries.

Fix new run-data-managers CLI entrypoint.

Add run-data-managers tool to trigger DM with multiple values and in order. #30

The workflow install tool now supports a directory of workflows. #27

enable global options in a tool yaml files, like install_resolver_dependencies: true #26

Mention mimum required galaxy versions. #23 (thanks to @mvdbeek)

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).

More robust shed-install script, install dependencies by default, improve logging (thanks to @mvdbeek).

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).

Setup project, pull in scripts from ansible-galaxy-tools and adapt them for usage as a library.