Added project skeleton

DESCRIPTION.rst

@@ -0,0 +1 @@
+# circtools - a versataile circular RNA toolbox 

MANIFEST.in

@@ -0,0 +1,5 @@
+include README.rst
+include LICENSE
+include DESCRIPTION.rst
+recursive-include data *
+recursive-include scripts *

setup.py

@@ -0,0 +1,126 @@
+"""A setuptools based setup module.
+
+See:
+https://packaging.python.org/en/latest/distributing.html
+https://github.com/pypa/sampleproject
+"""
+
+# Always prefer setuptools over distutils
+from codecs import open
+from os import path
+from setuptools import setup
+
+here = path.abspath(path.dirname(__file__))
+
+# Get the long description from the relevant file
+with open(path.join(here, 'DESCRIPTION.rst'), encoding='utf-8') as f:
+    long_description = f.read()
+
+setup(
+    name='circtools',
+
+    # Versions should comply with PEP440.  For a discussion on single-sourcing
+    # the version across setup.py and the project code, see
+    # https://packaging.python.org/en/latest/single_source_version.html
+    version='0.0.1',
+
+    description='circtools - a circular RNA toolbox',
+    long_description=long_description,
+
+    # The project's main homepage.
+    url='https://github.com/dieterich-lab/FUCHS',
+
+    # Author details
+
+    author='Tobias Jakobi',
+    author_email='Tobias.Jakobi@med.Uni-Heidelberg.DE',
+
+    # Choose your license
+    license='GNU General Public License (GPL)',
+
+    # See https://pypi.python.org/pypi?%3Aaction=list_classifiers
+    classifiers=[
+        # How mature is this project? Common values are
+
+        # Development Status :: 1 - Planning
+        # Development Status :: 2 - Pre-Alpha
+        # Development Status :: 3 - Alpha
+        # Development Status :: 4 - Beta
+        # Development Status :: 5 - Production/Stable
+        # Development Status :: 6 - Mature
+        # Development Status :: 7 - Inactive
+
+        'Development Status :: 3 - Alpha',
+
+        # Indicate who your project is intended for
+        'Intended Audience :: Researchers',
+        'Topic :: Software Development :: Build Tools',
+
+        # Pick your license as you wish (should match "license" above)
+        'License :: GNU General Public License (GPL) 3.0',
+
+        # Specify the Python versions you support here. In particular, ensure
+        # that you indicate whether you support Python 2, Python 3 or both.
+        # 'Programming Language :: Python :: 2',
+        # 'Programming Language :: Python :: 2.6',
+        # 'Programming Language :: Python :: 2.7',
+        # 'Programming Language :: Python :: 3',
+        # 'Programming Language :: Python :: 3.2',
+        # 'Programming Language :: Python :: 3.3',
+        'Programming Language :: Python :: 3.4',
+    ],
+
+    # What does your project relate to?
+    keywords='circular RNA bioinformatics',
+
+    # You can just specify the packages manually here if your project is
+    # simple. Or you can use find_packages().
+    packages=['circtools'],
+
+    # List run-time dependencies here.  These will be installed by pip when
+    # your project is installed. For an analysis of "install_requires" vs pip's
+    # requirements files see:
+    # https://packaging.python.org/en/latest/requirements.html
+    install_requires=[
+        'pybedtools>=0.7.8',
+    ],
+
+    # List additional groups of dependencies here (e.g. development
+    # dependencies). You can install these using the following syntax,
+    # for example:
+    # $ pip install -e .[dev,test]
+    # extras_require={
+    #     'dev': ['check-manifest'],
+    #     'test': ['coverage'],
+    # },
+
+    # If there are data files included in your packages that need to be
+    # installed, specify them here.  If using Python 2.6 or less, then these
+    # have to be included in MANIFEST.in as well.
+    package_data={
+        'circtools': ['data/*'],
+        'circtools': ['scripts/*'],
+    },
+
+    # Although 'package_data' is the preferred approach, in some case you may
+    # need to place data files outside of your packages. See:
+    # http://docs.python.org/3.4/distutils/setupscript.html#installing-additional-files # noqa
+    # In this case, 'data_file' will be installed into '<sys.prefix>/my_data'
+    # data_files=[('my_data', ['data/data_file'])],
+
+    # To provide executable scripts, use entry points in preference to the
+    # "scripts" keyword. Entry points provide cross-platform support and allow
+    # pip to create the appropriate form of executable for the target platform.
+
+    zip_safe=False,
+
+    entry_points={
+        'console_scripts': [
+            'circtools=circtools:main'
+        ],
+    },
+
+    scripts=[
+        'scripts/circtools',
+    ]
+)