Nicolas Rodriguez
Andreas Dräger
Mike Hucka
David Emanuel Vetter
Roman Schulte
Bhavye Jain
Christoph Blessing
Leandro Watanabe
tmHamm
Onur101010
Jakob Admard
MeikeAi
Ibrahim Vazirabad
Alexander Dörr
Piero Dalle Pezze
Clemens82
Lisa Falk
marine3
Wrzodek
Alex Thomas
thortiede
RolandKeller5
Florian Mittag
Jan Rudolph
Victor Kofia
Tramy Nguyen
Eugen Netz
LeaBuchweitz
Thomas Zajac
2022-01-10
<p>This is a stable release of JSBML version 1.6.1. It comprises the two previously published snapshot releases, version 1.6 and version 1.6.1ɑ.</p>
<p>To access this version of JSBML via Maven, please use:</p>
<pre><code> <dependency>
<groupId>org.sbml.jsbml</groupId>
<artifactId>jsbml</artifactId>
<version>1.6.1</version>
</dependency>
</code></pre>
New Features
<ul>
<li>biojava-ontology was bumped to version 6.0.4.</li>
<li>Convenient features, such as quick check for the presence of any specific <code>SBase</code> extension</li>
<li>Improvements to the documentation (JavaDoc, users' guide, and the project's <code>README</code> file)</li>
<li>Broader coverage of the offline validation capability</li>
<li>Improved support for constraint-based modeling in the <code>ModelBuilder</code>: automatic creation of common unit definition objects.</li>
</ul>
Bug Fixes
<ul>
<li>Update the dependency to log4j to version 2.17.0 after the announcement of a major security issue in the previous version.</li>
<li>JSBML core does no longer have dependencies to any of the packages</li>
<li>Preventing <code>ASTNode.astNodeToTree</code> from recursive calls</li>
<li>Correction of wrong comparisons with <code>==</code> where <code>.equals()</code> needs to be called for <code>String</code> comparison</li>
<li>Fixed Incorrect usage of model annotation</li>
<li>Fixed return type of <code>createRenderCubicBezier</code> method to <code>RenderCubicBezier</code> Thanks to @eikept for this fix!</li>
<li>Fixed incorrect unit derivation. Thanks to @eikept for this analysis!</li>
</ul>
<p>When using JSBML, please cite:
☞ Rodriguez N., Thomas A., Watanabe L., Vazirabad I.Y., Kofia V. <em>et al</em>. JSBML 1.0: providing a smorgasbord of options to encode systems biology models. Bioinformatics (2015), 31(20):3383–3386. <a href="https://doi.org/10.1093%2Fbioinformatics%2Fbtv341">https://doi.org/10.1093%2Fbioinformatics%2Fbtv341</a></p>
https://doi.org/10.5281/zenodo.5833365
oai:zenodo.org:5833365
Zenodo
https://github.com/sbmlteam/jsbml/tree/jsbml-1.6.1
https://doi.org/10.5281/zenodo.595308
info:eu-repo/semantics/openAccess
Other (Open)
sbmlteam/jsbml: JSBML 1.6.1
info:eu-repo/semantics/other