Jchem name to structure: Stacktrace loading class

While using the JChem Java API to run Jchem name to structure. Repeated "java.lang.NoClassDefFoundError"  with message "Could not initialize class chemaxon.marvin.io.formats.name.nameexport.GroupDictionary", was printed to the console by several chemaxon worker threads (IUPACNamerThread). This was observed immediately after "java.lang.ThreadDeath" was observed in the thread which, our code was calling from. 

 

* The class GroupDictionary is found in Jchem.jar.

* "jchem.jar" along with all other chemaxon JARs were in the class path.

* The experiment is not repeatable.

* Note that  Thread.stop()  is deprecated any may possibly be  interfering with class loading, 

Wiraj,

The related threading code has been improved in our development version. It is now faster, and avoids Thread.stop, which is indeed much better. So there is a good chance that this will fix your problem. This change will be released in 5.12, which is planned for the middle of December.

How critical is this problem for you currently, and what are your possibilities for upgrading to 5.12?

Best regards,

Daniel

 

Hi Daniel,

We are not likely to ship with 5.12.  Do you have an idea how this bug might affect results, on subsequent calls to MolExporter.exportToFormat(Molecule, String).

Thanks,

Wiraj

 

I wouldn't dare to guess how exact effects this can have, since that's quite dependend on the internals of the JVM. My intuition says later calls should be either failing clearly (exception or even JVM crash), or unaffected, but probably not hard-to-notice effects.

Would it be useful if I backported the fix to the next release of 5.11 (5.11.5)?

Daniel

Thanks for the offer, however we are not in a position to reintegrate at this time. We will install 5.12 in the next development cycle. 

Thanks,

Wiraj