Release notes for cobrapy 0.12.1

New features

• Fix/feature that allows summaries to work properly for models with multiple exchange reactions for the same metabolite.
• Require a later optlang version so that Gurobi can now be used for quadratic problems.
• cobrapy can now extract primal values from a wider range of solver states. This is particularly useful to investigate problems in non-optimal states.

Fixes

• Test different solvers on more text cases than previously.
• Improve the way benchmarks are run.
• Restore automatic documentation builds on readthedocs.org.
• Correct a problem in how geomtric FBA retrieved solutions.
• Update the use of pandas interface of the sampler.
• Correct the sanity checks for the new ROOM implementation.

Deprecated features

Backwards incompatible changes

• cobrapy functions that return solution only raise OptimizationErrors rather than also potentially raising a RuntimeError.
• Linear MOMA is the new default method. It used to be MOMA which excludes GLPK as a solver due to being a quadratic optimization problem.