[med-svn] [python-cobra] 02/07: Merge tag 'upstream/0.4.2_b1'

[Afif Elghraoui]

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commit 6d86bd8ae32819318719f313d8bfce5a5f74a283
Merge: 9c687a2 191cd73
Author: Afif Elghraoui <afif at ghraoui.name>
Date:   Sat Jul 16 20:12:43 2016 -0700

    Merge tag 'upstream/0.4.2_b1'
    
    Upstream version 0.4.2~b1

 .gitignore                           |   1 +
 INSTALL.md                           |  11 +--
 README.md                            |   7 +-
 appveyor.yml                         |  20 +++--
 appveyor/build_glpk.py               |   4 +-
 cobra/VERSION                        |   2 +-
 cobra/core/DictList.py               |   4 +-
 cobra/io/json.py                     |   4 +-
 cobra/io/mat.py                      |  10 ++-
 cobra/io/sbml.py                     |   5 ++
 cobra/manipulation/modify.py         |  52 +++++++++++-
 cobra/solvers/gurobi_solver.py       |   5 +-
 cobra/solvers/mosek.py               |   2 +
 cobra/test/flux_analysis.py          |  42 ++++++----
 cobra/test/manipulation.py           |  25 ++++++
 cobra/test/solvers.py                |   2 +-
 documentation_builder/loopless.ipynb | 156 +++++++++++++++++++++++++----------
 ez_setup.py                          |  77 ++++++++++++-----
 setup.py                             |   4 +-
 19 files changed, 318 insertions(+), 115 deletions(-)

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