Initial commit.

Planemo is a set of command-line utilities to assist in developing tools for the Galaxy project (http://galaxyproject.org/).

View the documentation at http://planemo.readthedocs.org/en/latest/ and in particular the quick start guide at http://planemo.readthedocs.org/en/latest/readme.html#quick-start.

Still a couple critical bugs before 0.1.0 - see TODO.rst for details.

.editorconfig

@@ -0,0 +1,21 @@
+# http://editorconfig.org
+
+root = true
+
+[*]
+indent_style = space
+indent_size = 4
+trim_trailing_whitespace = true
+insert_final_newline = true
+charset = utf-8
+end_of_line = lf
+
+[*.bat]
+indent_style = tab
+end_of_line = crlf
+
+[LICENSE]
+insert_final_newline = false
+
+[Makefile]
+indent_style = tab

.gitignore

@@ -0,0 +1,45 @@
+*.py[cod]
+
+# C extensions
+*.so
+
+# Packages
+*.egg
+*.egg-info
+dist
+build
+eggs
+parts
+bin
+var
+sdist
+develop-eggs
+.installed.cfg
+lib
+lib64
+
+# Installer logs
+pip-log.txt
+
+# Unit test / coverage reports
+.coverage
+.tox
+nosetests.xml
+htmlcov
+
+# Translations
+*.mo
+
+# Mr Developer
+.mr.developer.cfg
+.project
+.pydevproject
+
+# Complexity
+output/*.html
+output/*/index.html
+
+# Sphinx
+docs/_build
+
+.venv

.travis.yml

@@ -0,0 +1,17 @@
+# Config file for automatic testing at travis-ci.org
+
+language: python
+
+python:
+  - "3.4"
+  - "2.7"
+  - "2.6"
+  - "pypy"
+
+install:
+  - if [[ $TRAVIS_PYTHON_VERSION == 2.6 ]]; then pip install unittest2; fi
+  - pip install -r requirements.txt
+  - pip install pyflakes flake8
+
+# command to run tests, e.g. python setup.py test
+script: make lint && make test

CONTRIBUTING.rst

@@ -0,0 +1,115 @@
+============
+Contributing
+============
+
+Contributions are welcome, and they are greatly appreciated! Every
+little bit helps, and credit will always be given.
+
+You can contribute in many ways:
+
+Types of Contributions
+----------------------
+
+Report Bugs
+~~~~~~~~~~~
+
+Report bugs at https://github.com/jmchilton/planemo/issues.
+
+If you are reporting a bug, please include:
+
+* Your operating system name and version, versions of other relevant software 
+  such as Galaxy or Docker.
+* Links to relevant tools.
+* Any details about your local setup that might be helpful in troubleshooting.
+* Detailed steps to reproduce the bug.
+
+Fix Bugs
+~~~~~~~~
+
+Look through the GitHub issues for bugs. Anything tagged with "bug"
+is open to whoever wants to implement it.
+
+Implement Features
+~~~~~~~~~~~~~~~~~~
+
+Look through the GitHub issues for features. Anything tagged with "feature"
+is open to whoever wants to implement it.
+
+Write Documentation
+~~~~~~~~~~~~~~~~~~~
+
+Planemo could always use more documentation, whether as part of the
+official Planemo docs, in docstrings, or even on the web in blog posts,
+articles, and such.
+
+Submit Feedback
+~~~~~~~~~~~~~~~
+
+The best way to send feedback is to file an issue at https://github.com/jmchilton/planemo/issues.
+
+If you are proposing a feature:
+
+* Explain in detail how it would work.
+* Keep the scope as narrow as possible, to make it easier to implement.
+* This will hopefully become a community-driven project and contributions
+  are welcome :)
+
+Get Started!
+------------
+
+Ready to contribute? Here's how to set up `planemo` for local development.
+
+1. Fork the `planemo` repo on GitHub.
+2. Clone your fork locally::
+
+    $ git clone [email protected]:your_name_here/planemo.git
+
+3. Install your local copy into a virtualenv. Assuming you have virtualenvwrapper installed, this is how you set up your fork for local development::
+
+    $ mkvirtualenv planemo
+    $ cd planemo/
+    $ python setup.py develop
+
+4. Create a branch for local development::
+
+    $ git checkout -b name-of-your-bugfix-or-feature
+
+   Now you can make your changes locally.
+
+5. When you're done making changes, check that your changes pass ``flake8``
+and the tests::
+
+    $ flake8 planemo tests
+    $ python setup.py test
+
+To get ``flake8``, just ``pip install`` them into your virtualenv.
+
+.. including testing other Python versions with tox
+..    $ python setup.py test
+..    $ tox
+..
+..   To get flake8 and tox, just pip install them into your virtualenv.
+
+6. Commit your changes and push your branch to GitHub::
+
+    $ git add .
+    $ git commit -m "Your detailed description of your changes."
+    $ git push origin name-of-your-bugfix-or-feature
+
+7. Submit a pull request through the GitHub website.
+
+Pull Request Guidelines
+-----------------------
+
+Before you submit a pull request, check that it meets these guidelines:
+
+1. If the pull request adds functionality, the docs should be updated. Put
+   your new functionality into a function with a docstring.
+2. The pull request should work for Python 2.6, 2.7, and 3.4. Check
+   https://travis-ci.org/jmchilton/planemo/pull_requests
+   and make sure that the tests pass for all supported Python versions.
+
+.. Tips
+.. ----
+.. To run a subset of tests::
+..    $ python -m unittest tests.test_planemo

HISTORY.rst

@@ -0,0 +1,11 @@
+.. :changelog:
+
+History
+-------
+
+---------------------
+0.0.1 (2014-10-04)
+---------------------
+
+* Initial work on the project - commands for testing, linting, serving Galaxy
+  tools - and more experimental features involving Docker and Homebrew.