Hi John, Is the issue the packaging or the guava version? Either way - I will make sure that is resolved that for next release but I’m not familiar with glassfish/weld.
Are you using anything for the dependency management? The CDK jar with decencies is a no thrills "drop this on your class path and go” distribution. For large projects you’re better off only including what you need. In your case if you’re doing some simple molfile handling you probably only need ‘cdk-io’ and ‘cdk-data’ (or ‘cdk-silent’). For example, using maven you could specify these modules with a custom version of guava. > <dependency> > <groupId>org.openscience.cdk</groupId> > <artifactId>cdk-io</artifactId> > <version>1.5.7</version> > </dependency> > <dependency> > <groupId>org.openscience.cdk</groupId> > <artifactId>cdk-data</artifactId> > <version>1.5.7</version> > </dependency> > <dependency> > <groupId>com.google.guava</groupId> > <artifactId>guava</artifactId> > <version>17.0</version> > </dependency> Maven will then pull in the CDK modules and required dependencies but will use a newer version of guava you’ve request. More info in the README for the maven repos. You can also build with a new guava version as follows. > git clone … etc > cd cdk/ > mvn versions:set -DartifactId=guava -DnewVersion=17.0 > mvn clean install -DskipTests The bundled jar is located > bundle/target/cdk-1.5.8-SNAPSHOT.jar Hope that helps, J On Aug 25, 2014, at 2:58 PM, John K Sterling <[email protected]> wrote: > Hi All - > > I've been integrating with CDK for some basic mol file analysis. My > application runs in glassfish, and using targeted jars I haven't had > any issues. I've been extending the usage and am now importing the > entire cdk jar - which raises a well known issue with the version of > guava that is imported: > > WELD-001408 Unsatisfied dependencies for type [Set<Service>] with > qualifiers [@Default] at injection point [[BackedAnnotatedParameter] > Parameter 1 of [BackedAnnotatedConstructor] @Inject > com.google.common.util.concurrent.ServiceManager(Set<Service>)] > > > The situation is described here: https://java.net/jira/browse/GLASSFISH-20579 > > I assume others have run into this? Given you have embedded guava I > can't really resolve it without crippling CDI (which I'd prefer not to > do) or repackaging cdk with a newer version of guava. > > Anyone else have better recommendations? > > > jks > > ------------------------------------------------------------------------------ > Slashdot TV. > Video for Nerds. Stuff that matters. > http://tv.slashdot.org/ > _______________________________________________ > Cdk-user mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/cdk-user ------------------------------------------------------------------------------ Slashdot TV. Video for Nerds. Stuff that matters. http://tv.slashdot.org/ _______________________________________________ Cdk-user mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/cdk-user
