Release notes for cobrapy 0.12.0

New features

• Add geometric FBA as a method.
• Add (linear) ROOM as a flux simulation method.
• Allow a reference solution to be used with deletion methods when using MOMA or ROOM.

Fixes

• Extend MOMA docstrings and add references.
• Vastly improve the time needed for adding MOMA/ROOM constraints.
• Copy metabolites added from other models.
• Change .summary methods to use a fractional threshold.
• Fix unexpected behavior in loopless FBA.
• Some internal improvements related to dependencies and continuous integration.

Backwards incompatible changes

• The find_essential_* functions no longer accept a reference solution. As their method of choice FBA doesn’t accept one anyway.