[med-svn] [python-cobra] branch upstream updated (dd7da32 -> ca2efe8)

[Afif Elghraoui]

This is an automated email from the git hooks/post-receive script.

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

      from  dd7da32   Imported Upstream version 0.5.8
       new  ca2efe8   Imported Upstream version 0.5.9

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                       |   3 +-
 CONTRIBUTING.rst                  |  14 +++----
 INSTALL.rst                       |   4 +-
 appveyor.yml                      |   1 +
 appveyor/build_glpk.py            |   4 +-
 cobra/VERSION                     |   2 +-
 cobra/io/mat.py                   |  84 +++++++++++++++++++++++++++++---------
 cobra/io/sbml.py                  |  25 +++++++-----
 cobra/io/sbml3.py                 |   4 +-
 cobra/manipulation/delete.py      |  50 +++++++++++------------
 cobra/test/data/raven.mat         | Bin 0 -> 2519 bytes
 cobra/test/data/raven.pickle      | Bin 0 -> 11233 bytes
 cobra/test/data/update_pickles.py |   5 ++-
 cobra/test/test_io.py             |  37 ++++++++++-------
 cobra/test/test_manipulation.py   |  11 +++++
 15 files changed, 156 insertions(+), 88 deletions(-)
 create mode 100644 cobra/test/data/raven.mat
 create mode 100644 cobra/test/data/raven.pickle

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