legacyIO is really just simphenyIO
do not need to keep old patches in git
Merge pull request #23 from danielhyduke/update_pickles

updated the pickles and added a tag to track the version of cobrapy that...
Merge pull request #24 from aebrahim/oven_reorg

Slight reorganization of the oven
Merge pull request #26 from danielhyduke/master

Updated pickles to use sets for the private attribute Reaction._genes
Merge pull request #27 from danielhyduke/master

updated the sbml unit test to run on jython
Merge pull request #28 from danielhyduke/master

Fixed a bug in update_pickles where the name was pointing at a gene not ...
Merge pull request #30 from danielhyduke/master

patch for [cobrapy] reaction stoichiometry doubled on deletion (#29)
remove dist directory

Binary assets such as an egg should be downloaded from other sources
(where downloads are tracked). Additionally these do not need to be
version controlled.
load gene reaction rule from mat
Merge pull request #31 from aebrahim/gpr_load

load gene reaction rule from mat
update ez_setup.py
suppress stderr from git describe in version
add setuptools installation to gitignore
Merge pull request #33 from aebrahim/install_update

Install update
deprecated the assess_objective function and added in a reaction module with assess functions
update_pickles.py now uses legacy sbml for iJO1366

This prevents reaction names with _LPAREN_e_RPAREN_ for exchange
reactions.

The pickles were also all updated.
update file permissions
add conditional test for ABBREVIATION in sbml

Causes gene reading to fail when loading sbml when "ABBREVIATION" was missing
Merge pull request #37 from pillmill/sbml_bugfix

add conditional test for ABBREVIATION in sbml