[med-svn] [python-cobra] branch upstream updated (eb3fb84 -> 4677731)

[Afif Elghraoui]

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afif-guest pushed a change to branch upstream
in repository python-cobra.

      from  eb3fb84   Imported Upstream version 0.4.0b2
       new  4677731   Imported Upstream version 0.4.0b3

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 .travis.yml                                  | 25 ++++++---
 INSTALL.md                                   | 33 ++++++------
 README.md                                    |  5 ++
 cobra/VERSION                                |  2 +-
 cobra/flux_analysis/deletion_worker.py       |  2 +-
 cobra/flux_analysis/phenotype_phase_plane.py | 26 ++++------
 cobra/io/__init__.py                         | 27 ++++------
 cobra/io/mat.py                              |  3 +-
 cobra/solvers/cglpk.pyx                      | 76 +++++++++++++++-------------
 cobra/test/__init__.py                       |  5 +-
 cobra/test/flux_analysis.py                  |  9 ++++
 setup.py                                     | 12 +++--
 12 files changed, 129 insertions(+), 96 deletions(-)

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