v0.11.0

What's Changed

[0.11.0] - 2026-05-04

Added

• Replace Degraded model class with layout-driven emission for external flux (celldesigner)
• Add snap_arcs option to size-changing tidy helpers (sbgn,celldesigner,cli)
• Clean up visualize page title and add favicon (cli)
• Implement arithmetic feComposite operator and fix ARTIHMETIC typo (drawing,rendering)
• Re-export ReaderResult and WriterResult from momapy.io (io)

Changed

• Replace EmptySet/Degraded model elements with process flags (sbgn,celldesigner)
• Expose font and text attributes as instance fields (sbgn,celldesigner)

Documentation

• Document external source/sink invariant on Reaction and StoichiometricProcess (model)
• Add ID assignment sections to SBGN-ML and CellDesigner I/O pages (api)
• Use favicon as header logo
• Add favicon and switch yellow brand color to amber
• Add API reference landing page (api)
• Align API reference with public re-export facades (api)

Fixed

• Resolve modulation alias layouts from arc, not model identity (celldesigner.writer)
• Exclude compartments from tidy's label-fit step (celldesigner.utils)
• Skip modulation referencing degraded species (celldesigner)
• Add pickling of _singleton_to_key (layout model mapping)
• Mark _MultiMixin._make_subunit_shape as abstractmethod (sbgn)
• Resolve relative @import against stylesheet directory; remove os.chdir hack (styling)

Miscellaneous

• Remove speculative # TO DO markers (builder)
• Remove resolved TODO comments on Reactant.base and Product.base (celldesigner)

Other

• Merge branch 'develop'

Styling

• Align species default sizes and colors with CellDesigner conventions (celldesigner.layout)

Installation

pip install momapy==0.11.0

Links

• Documentation
• PyPI