JNAInchi and OSGi

[scootermorris]

I have a cheminformatics app for Cytoscape called chemViz that uses CDK. I was very excited to see that CDK was moving to use JNAInchi, but I have been unable to make it work with OSGi. The problem is that the native code is not on a classpath since it's part of the OSGi bundle. I can load native code using OSGi's implementation of System.loadLibrary(), which is bundle-aware, but System.load is not bundle aware, so JNA can't find the native modules. Do you have anyone who has successfully used JNAInchi in an OSGi setting?

[Mailaender]

I can confirm that trying to consume this library via @eclipse-m2e will crash

Caused by: java.lang.NoClassDefFoundError: io/github/dan2097/jnainchi/InchiOptions$InchiOptionsBuilder
	at org.openscience.cdk.inchi.InChIGenerator.<clinit>(InChIGenerator.java:101)
	at org.openscience.cdk.inchi.InChIGeneratorFactory.getInChIGenerator(InChIGeneratorFactory.java:141)

[Mailaender]

Maybe not the most elegant solution, but I simply repackaged the library

OpenChrom/openchrom@2e3f054

The p2 update site is public.

[Mailaender]

It also solves these crashes

jna-inchi/jna-inchi-api/src/main/java/io/github/dan2097/jnainchi/JnaInchi.java

Line 828 in d70d332

throw new RuntimeException("Error loading InChI native code. Please check that the binaries for your platform (" + platform + ") have been included on the classpath.", libraryLoadingError);