[med-svn] [python-cobra] branch upstream updated (6db8bde -> 5444318)

[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  6db8bde   New upstream version 0.8.2
      adds  5444318   New upstream version 0.9.0

No new revisions were added by this update.

Summary of changes:
 .travis.yml                                  |   2 +-
 appveyor.yml                                 |   2 +-
 cobra/__init__.py                            |   2 +-
 cobra/core/gene.py                           |   4 +-
 cobra/core/metabolite.py                     |   7 +-
 cobra/core/model.py                          |  65 ++++--
 cobra/core/reaction.py                       |  43 ++--
 cobra/core/solution.py                       |  11 +-
 cobra/flux_analysis/phenotype_phase_plane.py | 305 +++++++++++++++------------
 cobra/flux_analysis/summary.py               |  10 +-
 cobra/manipulation/validate.py               |   4 -
 cobra/test/data/iJO1366.pickle               | Bin 1810497 -> 1810487 bytes
 cobra/test/data/mini.pickle                  | Bin 32825 -> 33312 bytes
 cobra/test/data/raven.pickle                 | Bin 13758 -> 13310 bytes
 cobra/test/data/salmonella.pickle            | Bin 2151196 -> 2151186 bytes
 cobra/test/data/textbook_solution.pickle     | Bin 143584 -> 7330 bytes
 cobra/test/test_flux_analysis.py             |  22 +-
 cobra/test/test_manipulation.py              |   3 +-
 cobra/test/test_model.py                     |  27 +++
 cobra/util/util.py                           |   7 +
 release-notes/0.8.2.md                       |  13 +-
 release-notes/0.9.0.md                       |  30 +++
 release-notes/next-release.md                |   2 +
 scripts/compare-benchmark.py                 |  16 +-
 setup.cfg                                    |   2 +-
 setup.py                                     |   2 +-
 26 files changed, 365 insertions(+), 214 deletions(-)
 create mode 100644 release-notes/0.9.0.md

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