JSBML 1.6

We are pleased to announce the release of JSBML-1.6, which is now available for download from GitHub and Maven.

JSBML is a community-driven project to create a free, open-source, pure Java library for reading, writing, and manipulating SBML files and data streams. It is an alternative to the mixed Java/native code-based interface provided in libSBML.

For more details, please visit the JSBML project home page:

https://sbml.org/software/jsbml/

Major new features

• Convenient features, such as quick check for the presence of any specific SBase extension
• Improvements to the documentation (JavaDoc, users' guide, and the project's README file)
• Broader coverage of the offline validation capability
• Improved support for constraint-based modeling in the ModelBuilder: automatic creation of common unit definition objects.

Bug fixes

• Update the dependency to log4j to version 2.17.0 after the announcement of a major security issue in the previous version.
• JSBML core does no longer have dependencies to any of the packages
• Preventing ASTNode.astNodeToTree from recursive calls
• Correction of wrong comparisons with == where .equals() needs to be called for String comparison
• Fixed Incorrect usage of model annotation
• Fixed return type of createRenderCubicBezier method to RenderCubicBezier
• Fixed incorrect unit derivation

Thank you for your interest and support of JSBML and SBML in general.

When using JSBML, please cite

• N. Rodriguez et al. JSBML 1.0: providing a smorgasbord of options to encode systems biology models. Bioinformatics (2015), 31(20):3383–3386.
• A Dräger et al. JSBML: a flexible Java library for working with SBML. Bioinformatics (2011), 27(15):2167–2168.

The JSBML team.