0.19.0

Release notes for cobrapy 0.19.0

We now have an official code of conduct and a committee of three people to handle
reports! You can contact them at conduct@opencobra.org.
You can also contact them individually at:

• Maureen Carey
• Svetlana Kutuzova
• Greg Medlock

Many thanks to them for taking on this responsibility.

New features

• Deletion result DataFrames as returned by functions from cobra.deletions
  now have a new knockout accessor. See the docs on usage examples.
• All summaries are now persistent objects. The same summary can be displayed in
  multiple ways. The underlying data for the summary can also be accessed.
• The model summary now displays elementary (by default carbon) uptake and secretion.
• The JSON schema is now available as a stand-alone JSON file.

Fixes

• Remove the frozenset indexing in deletion DataFrames that is now unsupported
  in pandas.
• Summaries for models, metabolites, and reactions are now calculated instantaneously
  and thus also work with model contexts.
• JSON models can now contain infinity and NaN values as bounds.
• The Matlab bridge for reading Matlab models should be restored. Any testing or
  problem reports are greatly appreciated.

Deprecated features

• We are progressively updating our codebase. That means that more and more parts will
  require Python 3.6+.

Backwards incompatible changes

• Deletion result DataFrames have no frozenset index anymore but now carry the
  deleted elements in the ids column.