adding packaging materials

MANIFEST.in

@@ -0,0 +1,8 @@
+# license
+include LICENSE
+
+# requirements
+include requirements.txt
+
+# examples
+recursive-include examples *

Sequential_WC_Simulator/__init__.py

@@ -0,0 +1 @@
+__version__ = '0.0.1'

docs/conf.py

@@ -19,6 +19,7 @@
 import os
 import sys
 sys.path.insert(0, os.path.abspath('..'))
+import Sequential_WC_Simulator
 
 # -- General configuration ------------------------------------------------
 
@@ -63,9 +64,9 @@
 # built documents.
 #
 # The short X.Y version.
-version = u'0.0.1'
+version = Sequential_WC_Simulator.__version__
 # The full version, including alpha/beta/rc tags.
-release = u'0.0.1'
+release = version
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.

docs/requirements.txt

@@ -1,2 +1,2 @@
 Sphinx
-sphinx_rtd_theme
+sphinx_rtd_theme

setup.cfg

@@ -0,0 +1,13 @@
+[metadata]
+description-file = README.rst
+
+[bdist_wheel]
+universal = 1
+
+[coverage:run]
+source = 
+    Sequential_WC_Simulator
+
+[sphinx-apidocs]
+packages = 
+    Sequential_WC_Simulator

setup.py

@@ -0,0 +1,27 @@
+from setuptools import setup, find_packages
+import Sequential_WC_Simulator
+
+# parse requirements.txt
+install_requires = [line.rstrip() for line in open('requirements.txt')]
+
+setup(
+    name="Sequential_WC_Simulator",
+    version=Sequential_WC_Simulator.__version__,
+    description="Sequential whole-cell model simulator",
+    url="https://github.com/KarrLab/Sequential_WC_Simulator",
+    download_url='https://github.com/KarrLab/Sequential_WC_Simulator/tarball/{}'.format(Sequential_WC_Simulator.__version__),
+    author="Arthur Goldberg",
+    author_email="[email protected]",
+    license="MIT",
+    keywords='whole-cell systems cell molecular biology',
+    packages=find_packages(exclude=['tests', 'tests.*']),
+    install_requires=install_requires,
+    classifiers=[
+        'Development Status :: 3 - Alpha',
+        'Intended Audience :: Science/Research',
+        'License :: OSI Approved :: MIT License',
+        'Programming Language :: Python',
+        'Topic :: Scientific/Engineering',
+        'Topic :: Scientific/Engineering :: Bio-Informatics',
+    ],
+)

tests/requirements.txt

@@ -1,5 +0,0 @@
-coverage
-junit2html
-nose
-nose2unitth
-coveralls