JPA runtime exception: java.lang.ClassNotFoundException: javassist.bytecode.ClassFile

Everything is fine if running the project from IDEA, but getting the following runtime exception (jar mode, not graalvm):

~/Documents/dev/src/Notes/NotesServerApp asmirnov$java -jar app-micronaut/build/libs/app-micronaut-1.1-all.jar
01:20:56.763 [main] INFO  io.micronaut.runtime.Micronaut - Startup completed in 6349ms. Server Running: http://localhost:8080
01:21:04.933 [pool-1-thread-1] INFO  o.h.jpa.internal.util.LogHelper - HHH000204: Processing PersistenceUnitInfo [name: NotesProductionPersistenceUnit]
01:21:04.975 [pool-1-thread-1] INFO  org.hibernate.Version - HHH000412: Hibernate Core {[WORKING]}
01:21:05.142 [pool-1-thread-1] INFO  o.h.annotations.common.Version - HCANN000001: Hibernate Commons Annotations {5.1.0.Final}
01:21:05.220 [pool-1-thread-1] ERROR i.m.h.s.netty.RoutingInBoundHandler - Unexpected error occurred: Error instantiating bean of type  [name.antonsmirnov.notes.controller.rest.ListNotesController]

Message: javassist/bytecode/ClassFile
Path Taken: ListNotesController.useCase
io.micronaut.context.exceptions.BeanInstantiationException: Error instantiating bean of type  [name.antonsmirnov.notes.controller.rest.ListNotesController]

Message: javassist/bytecode/ClassFile
Path Taken: ListNotesController.useCase
	at io.micronaut.context.DefaultBeanContext.doCreateBean(DefaultBeanContext.java:1555)
	at io.micronaut.context.DefaultBeanContext.createAndRegisterSingleton(DefaultBeanContext.java:2248)
	at io.micronaut.context.DefaultBeanContext.getBeanForDefinition(DefaultBeanContext.java:1917)
	at io.micronaut.context.DefaultBeanContext.getBeanInternal(DefaultBeanContext.java:1892)
	at io.micronaut.context.DefaultBeanContext.getBean(DefaultBeanContext.java:1007)
	at name.antonsmirnov.notes.$Configuration$GetListNotesUseCase1Definition.build(Unknown Source)
	at io.micronaut.context.DefaultBeanContext.doCreateBean(DefaultBeanContext.java:1535)
	at io.micronaut.context.DefaultBeanContext.createAndRegisterSingleton(DefaultBeanContext.java:2248)
	at io.micronaut.context.DefaultBeanContext.getBeanForDefinition(DefaultBeanContext.java:1917)
	at io.micronaut.context.DefaultBeanContext.getBeanInternal(DefaultBeanContext.java:1892)
	at io.micronaut.context.DefaultBeanContext.getBean(DefaultBeanContext.java:1021)
	at io.micronaut.context.AbstractBeanDefinition.getBeanForField(AbstractBeanDefinition.java:1379)
	at io.micronaut.context.AbstractBeanDefinition.injectBeanField(AbstractBeanDefinition.java:714)
	at name.antonsmirnov.notes.controller.rest.$ListNotesControllerDefinition.injectBean(Unknown Source)
	at name.antonsmirnov.notes.controller.rest.$ListNotesControllerDefinition.build(Unknown Source)
	at io.micronaut.context.DefaultBeanContext.doCreateBean(DefaultBeanContext.java:1535)
	at io.micronaut.context.DefaultBeanContext.createAndRegisterSingleton(DefaultBeanContext.java:2248)
	at io.micronaut.context.DefaultBeanContext.getBeanForDefinition(DefaultBeanContext.java:1917)
	at io.micronaut.context.DefaultBeanContext.getBeanInternal(DefaultBeanContext.java:1892)
	at io.micronaut.context.DefaultBeanContext.getBean(DefaultBeanContext.java:577)
	at io.micronaut.context.DefaultBeanContext$BeanExecutionHandle.getTarget(DefaultBeanContext.java:2769)
	at io.micronaut.context.DefaultBeanContext$BeanExecutionHandle.invoke(DefaultBeanContext.java:2790)
	at io.micronaut.web.router.AbstractRouteMatch.execute(AbstractRouteMatch.java:235)
	at io.micronaut.web.router.RouteMatch.execute(RouteMatch.java:122)
	at io.micronaut.http.server.netty.RoutingInBoundHandler.lambda$buildResultEmitter$19(RoutingInBoundHandler.java:1408)
	at io.reactivex.internal.operators.flowable.FlowableCreate.subscribeActual(FlowableCreate.java:71)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.Flowable.subscribe(Flowable.java:14865)
	at io.micronaut.reactive.rxjava2.RxInstrumentedFlowable.subscribeActual(RxInstrumentedFlowable.java:68)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.internal.operators.flowable.FlowableMap.subscribeActual(FlowableMap.java:37)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.Flowable.subscribe(Flowable.java:14865)
	at io.micronaut.reactive.rxjava2.RxInstrumentedFlowable.subscribeActual(RxInstrumentedFlowable.java:68)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.internal.operators.flowable.FlowableSwitchIfEmpty.subscribeActual(FlowableSwitchIfEmpty.java:32)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.Flowable.subscribe(Flowable.java:14865)
	at io.micronaut.reactive.rxjava2.RxInstrumentedFlowable.subscribeActual(RxInstrumentedFlowable.java:68)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.Flowable.subscribe(Flowable.java:14868)
	at io.micronaut.http.context.ServerRequestTracingPublisher.lambda$subscribe$0(ServerRequestTracingPublisher.java:52)
	at io.micronaut.http.context.ServerRequestContext.with(ServerRequestContext.java:52)
	at io.micronaut.http.context.ServerRequestTracingPublisher.subscribe(ServerRequestTracingPublisher.java:52)
	at io.reactivex.internal.operators.flowable.FlowableFromPublisher.subscribeActual(FlowableFromPublisher.java:29)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.Flowable.subscribe(Flowable.java:14865)
	at io.micronaut.reactive.rxjava2.RxInstrumentedFlowable.subscribeActual(RxInstrumentedFlowable.java:68)
	at io.reactivex.Flowable.subscribe(Flowable.java:14918)
	at io.reactivex.Flowable.subscribe(Flowable.java:14865)
	at io.reactivex.internal.operators.flowable.FlowableSubscribeOn$SubscribeOnSubscriber.run(FlowableSubscribeOn.java:82)
	at io.reactivex.internal.schedulers.ExecutorScheduler$ExecutorWorker$BooleanRunnable.run(ExecutorScheduler.java:288)
	at io.reactivex.internal.schedulers.ExecutorScheduler$ExecutorWorker.run(ExecutorScheduler.java:253)
	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
	at java.lang.Thread.run(Thread.java:745)
Caused by: java.lang.NoClassDefFoundError: javassist/bytecode/ClassFile
	at org.hibernate.boot.archive.scan.spi.ClassFileArchiveEntryHandler.toClassFile(ClassFileArchiveEntryHandler.java:61)
	at org.hibernate.boot.archive.scan.spi.ClassFileArchiveEntryHandler.handleEntry(ClassFileArchiveEntryHandler.java:47)
	at org.hibernate.boot.archive.internal.JarFileBasedArchiveDescriptor.visitArchive(JarFileBasedArchiveDescriptor.java:147)
	at org.hibernate.boot.archive.scan.spi.AbstractScannerImpl.scan(AbstractScannerImpl.java:47)
	at org.hibernate.boot.model.process.internal.ScanningCoordinator.coordinateScan(ScanningCoordinator.java:76)
	at org.hibernate.boot.model.process.spi.MetadataBuildingProcess.prepare(MetadataBuildingProcess.java:98)
	at org.hibernate.jpa.boot.internal.EntityManagerFactoryBuilderImpl.<init>(EntityManagerFactoryBuilderImpl.java:234)
	at org.hibernate.jpa.boot.internal.EntityManagerFactoryBuilderImpl.<init>(EntityManagerFactoryBuilderImpl.java:174)
	at org.hibernate.jpa.boot.spi.Bootstrap.getEntityManagerFactoryBuilder(Bootstrap.java:76)
	at org.hibernate.jpa.HibernatePersistenceProvider.getEntityManagerFactoryBuilder(HibernatePersistenceProvider.java:171)
	at org.hibernate.jpa.HibernatePersistenceProvider.getEntityManagerFactoryBuilderOrNull(HibernatePersistenceProvider.java:119)
	at org.hibernate.jpa.HibernatePersistenceProvider.getEntityManagerFactoryBuilderOrNull(HibernatePersistenceProvider.java:61)
	at org.hibernate.jpa.HibernatePersistenceProvider.createEntityManagerFactory(HibernatePersistenceProvider.java:50)
	at javax.persistence.Persistence.createEntityManagerFactory(Persistence.java:79)
	at javax.persistence.Persistence.createEntityManagerFactory(Persistence.java:54)
	at name.antonsmirnov.notes.Configuration.<init>(Application.kt:12)
	at name.antonsmirnov.notes.$ConfigurationDefinition.build(Unknown Source)
	at io.micronaut.context.DefaultBeanContext.doCreateBean(DefaultBeanContext.java:1535)
	... 55 common frames omitted
Caused by: java.lang.ClassNotFoundException: javassist.bytecode.ClassFile
	at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
	at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
	at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:331)
	at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
	... 73 common frames omitted

Any transitive dependencies lost?

[4ntoine]

Is there any possibility to configure it without using of “application.yaml” in resources and having 100500 micronaut-specific annotations in source code and 100500 micronaut-specific modules dependencies ?

[graemerocher]

Since you are creating the entity manager yourself it is using whatever the defaults you request. The Hibernate defaults are such that a bytecode provider is necessary and in this case javassist. This is not a Micronaut problem but a problem with the way you have configured your application.

You have a few options.

1. Add javassist to your classpath
2. Don’t use bytecode enhancement but instead build time enhancment. See the example here which uses Hibernate’s plugin to do this https://github.com/micronaut-projects/micronaut-data/blob/master/examples/example-jpa/build.gradle#L6
3. Switch to another bytecode provider (like bytebuddy) that is on the classpath