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systems-biology

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jeremymchacon
jeremymchacon commented Aug 25, 2020

Hello maintainers of the amazing package,

I recently updated cobrapy and am experienced unexpected behavior with cobra.test.create_test_model("salmonella")

Two things are unusual:

  1. Now, many warnings are given during loading of the model, whereas none were given in a previous version. Here are a few of the warnings:

`Model does not contain SBML fbc package information.
SBML package

pyPESTO
yannikschaelte
yannikschaelte commented May 31, 2020

Matplotlib offers various ways of defining colors, in particular via the standard colors cycle ('C0-10'), as hex or as a RBGA tuple https://matplotlib.org/3.1.1/tutorials/colors/colors.html. If I see it correctly, the pypesto visualization routines currently only allow RGBA values. It would be preferable to allow for any color input. This should be rather easily possible by rewriting how passed co

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