title: Spring-boot jersey crash with file not found exception when runs from jar. Running from source it works without any issue
body: <p>When I run it from Idea it works great. I generate jar using <code>gradle bootJar</code>. When I run it I am getting:</p>
  
  <pre><code>java -jar server-0.0.1-SNAPSHOT.jar                                     
  
    .   ____          _            __ _ _
   /\\ / ___'_ __ _ _(_)_ __  __ _ \ \ \ \
  ( ( )\___ | '_ | '_| | '_ \/ _` | \ \ \ \
   \\/  ___)| |_)| | | | | || (_| |  ) ) ) )
    '  |____| .__|_| |_|_| |_\__, | / / / /
   =========|_|==============|___/=/_/_/_/
   :: Spring Boot ::        (v2.1.9.RELEASE)
  
  2020-02-05 12:22:22.183  INFO 22473 --- [           main] pl.daniel.demo.DemoApplication     : Starting DemoApplication on daniel-core with PID 22473 (/home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar started by daniel in /home/daniel/tutorials/clean_architecture_tutorial/server/build/libs)
  2020-02-05 12:22:22.186  INFO 22473 --- [           main] pl.daniel.demo.DemoApplication     : No active profile set, falling back to default profiles: default
  2020-02-05 12:22:23.242  INFO 22473 --- [           main] .s.d.r.c.RepositoryConfigurationDelegate : Bootstrapping Spring Data repositories in DEFAULT mode.
  2020-02-05 12:22:23.265  INFO 22473 --- [           main] .s.d.r.c.RepositoryConfigurationDelegate : Finished Spring Data repository scanning in 15ms. Found 0 repository interfaces.
  2020-02-05 12:22:23.679  INFO 22473 --- [           main] trationDelegate$BeanPostProcessorChecker : Bean 'org.springframework.transaction.annotation.ProxyTransactionManagementConfiguration' of type [org.springframework.transaction.annotation.ProxyTransactionManagementConfiguration$$EnhancerBySpringCGLIB$$2ff842b0] is not eligible for getting processed by all BeanPostProcessors (for example: not eligible for auto-proxying)
  2020-02-05 12:22:24.027  INFO 22473 --- [           main] o.s.b.w.embedded.tomcat.TomcatWebServer  : Tomcat initialized with port(s): 9001 (http)
  2020-02-05 12:22:24.070  INFO 22473 --- [           main] o.apache.catalina.core.StandardService   : Starting service [Tomcat]
  2020-02-05 12:22:24.071  INFO 22473 --- [           main] org.apache.catalina.core.StandardEngine  : Starting Servlet engine: [Apache Tomcat/9.0.26]
  2020-02-05 12:22:24.184  INFO 22473 --- [           main] o.a.c.c.C.[Tomcat].[localhost].[/]       : Initializing Spring embedded WebApplicationContext
  2020-02-05 12:22:24.184  INFO 22473 --- [           main] o.s.web.context.ContextLoader            : Root WebApplicationContext: initialization completed in 1946 ms
  2020-02-05 12:22:24.219 ERROR 22473 --- [           main] o.s.b.web.embedded.tomcat.TomcatStarter  : Error starting Tomcat context. Exception: org.springframework.beans.factory.UnsatisfiedDependencyException. Message: Error creating bean with name 'org.springframework.boot.autoconfigure.jersey.JerseyAutoConfiguration': Unsatisfied dependency expressed through constructor parameter 1; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'jerseyConfig' defined in URL [jar:file:/home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes!/pl/daniel/demo/JerseyConfig.class]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Failed to instantiate [pl.daniel.demo.JerseyConfig]: Constructor threw exception; nested exception is org.glassfish.jersey.server.internal.scanning.ResourceFinderException: java.io.FileNotFoundException: /home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes (No such file or directory)
  2020-02-05 12:22:24.256  INFO 22473 --- [           main] o.apache.catalina.core.StandardService   : Stopping service [Tomcat]
  2020-02-05 12:22:24.265  WARN 22473 --- [           main] ConfigServletWebServerApplicationContext : Exception encountered during context initialization - cancelling refresh attempt: org.springframework.context.ApplicationContextException: Unable to start web server; nested exception is org.springframework.boot.web.server.WebServerException: Unable to start embedded Tomcat
  2020-02-05 12:22:24.277  INFO 22473 --- [           main] ConditionEvaluationReportLoggingListener : 
  
  Error starting ApplicationContext. To display the conditions report re-run your application with 'debug' enabled.
  2020-02-05 12:22:24.283 ERROR 22473 --- [           main] o.s.boot.SpringApplication               : Application run failed
  
  org.springframework.context.ApplicationContextException: Unable to start web server; nested exception is org.springframework.boot.web.server.WebServerException: Unable to start embedded Tomcat
          at org.springframework.boot.web.servlet.context.ServletWebServerApplicationContext.onRefresh(ServletWebServerApplicationContext.java:156) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:543) ~[spring-context-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.boot.web.servlet.context.ServletWebServerApplicationContext.refresh(ServletWebServerApplicationContext.java:141) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.SpringApplication.refresh(SpringApplication.java:744) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.SpringApplication.refreshContext(SpringApplication.java:391) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.SpringApplication.run(SpringApplication.java:312) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at pl.daniel.demo.DemoApplication.main(DemoApplication.java:17) ~[classes!/:na]
          at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) ~[na:na]
          at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) ~[na:na]
          at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:na]
          at java.base/java.lang.reflect.Method.invoke(Method.java:566) ~[na:na]
          at org.springframework.boot.loader.MainMethodRunner.run(MainMethodRunner.java:48) ~[server-0.0.1-SNAPSHOT.jar:na]
          at org.springframework.boot.loader.Launcher.launch(Launcher.java:87) ~[server-0.0.1-SNAPSHOT.jar:na]
          at org.springframework.boot.loader.Launcher.launch(Launcher.java:51) ~[server-0.0.1-SNAPSHOT.jar:na]
          at org.springframework.boot.loader.JarLauncher.main(JarLauncher.java:52) ~[server-0.0.1-SNAPSHOT.jar:na]
  Caused by: org.springframework.boot.web.server.WebServerException: Unable to start embedded Tomcat
          at org.springframework.boot.web.embedded.tomcat.TomcatWebServer.initialize(TomcatWebServer.java:124) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.embedded.tomcat.TomcatWebServer.&lt;init&gt;(TomcatWebServer.java:86) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.embedded.tomcat.TomcatServletWebServerFactory.getTomcatWebServer(TomcatServletWebServerFactory.java:416) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.embedded.tomcat.TomcatServletWebServerFactory.getWebServer(TomcatServletWebServerFactory.java:180) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.servlet.context.ServletWebServerApplicationContext.createWebServer(ServletWebServerApplicationContext.java:180) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.servlet.context.ServletWebServerApplicationContext.onRefresh(ServletWebServerApplicationContext.java:153) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          ... 14 common frames omitted
  Caused by: org.springframework.beans.factory.UnsatisfiedDependencyException: Error creating bean with name 'org.springframework.boot.autoconfigure.jersey.JerseyAutoConfiguration': Unsatisfied dependency expressed through constructor parameter 1; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'jerseyConfig' defined in URL [jar:file:/home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes!/pl/daniel/demo/JerseyConfig.class]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Failed to instantiate [pl.daniel.demo.JerseyConfig]: Constructor threw exception; nested exception is org.glassfish.jersey.server.internal.scanning.ResourceFinderException: java.io.FileNotFoundException: /home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes (No such file or directory)
          at org.springframework.beans.factory.support.ConstructorResolver.createArgumentArray(ConstructorResolver.java:769) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:218) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1341) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1187) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:555) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:515) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:320) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:318) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.ConstructorResolver.instantiateUsingFactoryMethod(ConstructorResolver.java:392) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateUsingFactoryMethod(AbstractAutowireCapableBeanFactory.java:1321) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1160) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:555) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:515) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:320) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:318) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:204) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.boot.web.servlet.ServletContextInitializerBeans.getOrderedBeansOfType(ServletContextInitializerBeans.java:211) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.servlet.ServletContextInitializerBeans.getOrderedBeansOfType(ServletContextInitializerBeans.java:202) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.servlet.ServletContextInitializerBeans.addServletContextInitializerBeans(ServletContextInitializerBeans.java:96) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.servlet.ServletContextInitializerBeans.&lt;init&gt;(ServletContextInitializerBeans.java:85) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.servlet.context.ServletWebServerApplicationContext.getServletContextInitializerBeans(ServletWebServerApplicationContext.java:253) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.servlet.context.ServletWebServerApplicationContext.selfInitialize(ServletWebServerApplicationContext.java:227) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.springframework.boot.web.embedded.tomcat.TomcatStarter.onStartup(TomcatStarter.java:53) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5135) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1384) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1374) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264) ~[na:na]
          at org.apache.tomcat.util.threads.InlineExecutorService.execute(InlineExecutorService.java:75) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at java.base/java.util.concurrent.AbstractExecutorService.submit(AbstractExecutorService.java:140) ~[na:na]
          at org.apache.catalina.core.ContainerBase.startInternal(ContainerBase.java:909) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.StandardHost.startInternal(StandardHost.java:841) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1384) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1374) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264) ~[na:na]
          at org.apache.tomcat.util.threads.InlineExecutorService.execute(InlineExecutorService.java:75) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at java.base/java.util.concurrent.AbstractExecutorService.submit(AbstractExecutorService.java:140) ~[na:na]
          at org.apache.catalina.core.ContainerBase.startInternal(ContainerBase.java:909) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.StandardEngine.startInternal(StandardEngine.java:262) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.StandardService.startInternal(StandardService.java:421) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.core.StandardServer.startInternal(StandardServer.java:932) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.apache.catalina.startup.Tomcat.start(Tomcat.java:459) ~[tomcat-embed-core-9.0.26.jar!/:9.0.26]
          at org.springframework.boot.web.embedded.tomcat.TomcatWebServer.initialize(TomcatWebServer.java:105) ~[spring-boot-2.1.9.RELEASE.jar!/:2.1.9.RELEASE]
          ... 19 common frames omitted
  Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'jerseyConfig' defined in URL [jar:file:/home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes!/pl/daniel/demo/JerseyConfig.class]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Failed to instantiate [pl.daniel.demo.JerseyConfig]: Constructor threw exception; nested exception is org.glassfish.jersey.server.internal.scanning.ResourceFinderException: java.io.FileNotFoundException: /home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes (No such file or directory)
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateBean(AbstractAutowireCapableBeanFactory.java:1303) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1197) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:555) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:515) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:320) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:318) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.config.DependencyDescriptor.resolveCandidate(DependencyDescriptor.java:277) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.DefaultListableBeanFactory.doResolveDependency(DefaultListableBeanFactory.java:1255) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.DefaultListableBeanFactory.resolveDependency(DefaultListableBeanFactory.java:1175) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.ConstructorResolver.resolveAutowiredArgument(ConstructorResolver.java:857) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.ConstructorResolver.createArgumentArray(ConstructorResolver.java:760) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          ... 68 common frames omitted
  Caused by: org.springframework.beans.BeanInstantiationException: Failed to instantiate [pl.daniel.demo.JerseyConfig]: Constructor threw exception; nested exception is org.glassfish.jersey.server.internal.scanning.ResourceFinderException: java.io.FileNotFoundException: /home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes (No such file or directory)
          at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:184) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:87) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateBean(AbstractAutowireCapableBeanFactory.java:1295) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          ... 80 common frames omitted
  Caused by: org.glassfish.jersey.server.internal.scanning.ResourceFinderException: java.io.FileNotFoundException: /home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes (No such file or directory)
          at org.glassfish.jersey.server.internal.scanning.JarZipSchemeResourceFinderFactory.create(JarZipSchemeResourceFinderFactory.java:90) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.internal.scanning.JarZipSchemeResourceFinderFactory.create(JarZipSchemeResourceFinderFactory.java:66) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.internal.scanning.PackageNamesScanner.addResourceFinder(PackageNamesScanner.java:283) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.internal.scanning.PackageNamesScanner.init(PackageNamesScanner.java:199) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.internal.scanning.PackageNamesScanner.&lt;init&gt;(PackageNamesScanner.java:155) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.internal.scanning.PackageNamesScanner.&lt;init&gt;(PackageNamesScanner.java:111) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.ResourceConfig.packages(ResourceConfig.java:677) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.ResourceConfig.packages(ResourceConfig.java:657) ~[jersey-server-2.27.jar!/:na]
          at pl.daniel.demo.JerseyConfig.registerEndpoints(JerseyConfig.java:52) ~[classes!/:na]
          at pl.daniel.demo.JerseyConfig.&lt;init&gt;(JerseyConfig.java:29) ~[classes!/:na]
          at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) ~[na:na]
          at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62) ~[na:na]
          at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) ~[na:na]
          at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:490) ~[na:na]
          at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:172) ~[spring-beans-5.1.10.RELEASE.jar!/:5.1.10.RELEASE]
          ... 82 common frames omitted
  Caused by: java.io.FileNotFoundException: /home/daniel/tutorials/clean_architecture_tutorial/server/build/libs/server-0.0.1-SNAPSHOT.jar!/BOOT-INF/classes (No such file or directory)
          at java.base/java.io.FileInputStream.open0(Native Method) ~[na:na]
          at java.base/java.io.FileInputStream.open(FileInputStream.java:219) ~[na:na]
          at java.base/java.io.FileInputStream.&lt;init&gt;(FileInputStream.java:157) ~[na:na]
          at java.base/java.io.FileInputStream.&lt;init&gt;(FileInputStream.java:112) ~[na:na]
          at java.base/sun.net.www.protocol.file.FileURLConnection.connect(FileURLConnection.java:86) ~[na:na]
          at java.base/sun.net.www.protocol.file.FileURLConnection.getInputStream(FileURLConnection.java:184) ~[na:na]
          at java.base/java.net.URL.openStream(URL.java:1140) ~[na:na]
          at org.glassfish.jersey.server.internal.scanning.JarZipSchemeResourceFinderFactory.getInputStream(JarZipSchemeResourceFinderFactory.java:178) ~[jersey-server-2.27.jar!/:na]
          at org.glassfish.jersey.server.internal.scanning.JarZipSchemeResourceFinderFactory.create(JarZipSchemeResourceFinderFactory.java:88) ~[jersey-server-2.27.jar!/:na]
          ... 96 common frames omitted
  
  </code></pre>
  
  <p>I know that this is an issue related to jersey problem with scanning inside jars, I've tried each possible solution on the net I could find f.e.:</p>
  
  <p><a href="https://stackoverflow.com/questions/42218999/unable-to-run-generated-jar-from-spring-boot-jersey">Unable to run generated jar from spring-boot jersey</a></p>
  
  <p><a href="https://www.ivankrizsan.se/2016/12/06/jersey-and-spring-boot-standalone-jar-files/" rel="nofollow noreferrer">https://www.ivankrizsan.se/2016/12/06/jersey-and-spring-boot-standalone-jar-files/</a></p>
  
  <p><a href="https://github.com/spring-projects/spring-boot/issues/7496" rel="nofollow noreferrer">https://github.com/spring-projects/spring-boot/issues/7496</a></p>
  
  <p><a href="https://github.com/spring-projects/spring-boot/issues/3260" rel="nofollow noreferrer">https://github.com/spring-projects/spring-boot/issues/3260</a></p>
  
  <p><a href="https://stackoverflow.com/questions/50595221/spring-boot-and-jersey-produces-classnotfound">Spring Boot and Jersey produces ClassNotFound</a></p>
  
  <p><a href="https://github.com/jersey/jersey/pull/196" rel="nofollow noreferrer">https://github.com/jersey/jersey/pull/196</a></p>
  
  <p><a href="https://github.com/spring-projects/spring-boot/issues/1345" rel="nofollow noreferrer">https://github.com/spring-projects/spring-boot/issues/1345</a></p>
  
  <p><a href="https://stackoverflow.com/questions/42194680/spring-boot-application-wont-run-when-trying-to-run-from-the-jar-file">Spring boot application won&#39;t run when trying to run from the jar file</a></p>
  
  <p>I've even added:
  <a href="https://docs.spring.io/spring-boot/docs/1.5.x/reference/htmlsingle/#howto-extract-specific-libraries-when-an-executable-jar-runs" rel="nofollow noreferrer">https://docs.spring.io/spring-boot/docs/1.5.x/reference/htmlsingle/#howto-extract-specific-libraries-when-an-executable-jar-runs</a> to build file.</p>
  
  <pre><code>bootJar {
      requiresUnpack '**/api-0.0.1-SNAPSHOT.jar'
  }
  </code></pre>
  
  <p>my project is multimodule. It consist of</p>
  
  <pre><code>  - root
    ---- api
    ---- server
  </code></pre>
  
  <p>Api is only about jaxrs interfaces and server is spring boot with jersey. Here detailed list of files:</p>
  
  <pre><code>.
  ├── api
  │   ├── build.gradle
  │   └── src
  │       └── main
  │           └── java
  │               └── pl
  │                   └── daniel
  │                       └── demo
  │                           ├── model
  │                           │   ├── ApiErrorMessage.java
  │                           │   └── UserDto.java
  │                           └── resources
  │                               ├── ApiResource.java
  │                               ├── UserRolesResource.java
  │                               └── UsersResource.java
  ├── build.gradle
  ├── gradle
  │   └── wrapper
  │       ├── gradle-wrapper.jar
  │       └── gradle-wrapper.properties
  ├── gradlew
  ├── gradlew.bat
  ├── README.md
  ├── server
  │   ├── build.gradle
  │   └── src
  │       ├── integration
  │       │   └── java
  │       │       └── pl
  │       │           └── daniel
  │       │               └── demo
  │       │                   ├── BaseIT.java
  │       │                   ├── DatabaseContainerTest.java
  │       │                   └── resources
  │       │                       ├── ApiResourceTest.java
  │       │                       └── ResourceIT.java
  │       ├── main
  │       │   ├── java
  │       │   │   └── pl
  │       │   │       └── daniel
  │       │   │           └── demo
  │       │   │               ├── BasicAuthenticationRestSecurityFilter.java
  │       │   │               ├── CombinedSwaggerResourcesProvider.java
  │       │   │               ├── DemoApplication.java
  │       │   │               ├── GenericExceptionMapper.java
  │       │   │               ├── JerseyConfig.java
  │       │   │               └── resources
  │       │   │                   ├── ApiController.java
  │       │   │                   ├── UserRolesController.java
  │       │   │                   ├── UsersController.java
  │       │   └── resources
  │       │       ├── application.yaml
  │       │       └── static
  │       │           ├── index.html
  │       │           └── ui
  │       └── test
  │           └── java
  │               └── pl
  │                   └── daniel
  │                       └── demo
  │                           └── resources
  │                               ├── ApiResourceTest.java
  │                               ├── UserRolesResourceTest.java
  │                               └── UsersResourceTest.java
  ├── settings.gradle
  
  </code></pre>
  
  <p>Also I've removed api project, and move all of its classes to server project, but the error stills remains the same.</p>
  
  <p>It is my jersey conf class:</p>
  
  <pre><code>@Component
  @ApplicationPath("/api")
  public class JerseyConfig extends ResourceConfig {
  
      private static final String RESOURCE_PACKAGE_NAME = JerseyConfig.class.getPackage().getName();
  
      public JerseyConfig() {
          this.registerEndpoints();
          this.configureSwagger2();
          property(ServletProperties.FILTER_FORWARD_ON_404, true);
      }
  
      public void configureSwagger2() {
          BeanConfig swaggerConfig = new BeanConfig();
          swaggerConfig.setBasePath("/api");
          SwaggerConfigLocator.getInstance().putConfig(SwaggerContextService.CONFIG_ID_DEFAULT, swaggerConfig);
  
          packages(getClass().getPackage().getName(),
                  ApiListingResource.class.getPackage().getName());
      }
  
  
      private void registerEndpoints() {
          //packages(RESOURCE_PACKAGE_NAME);
          register(ApiResource.class);
          register(UserRolesResource.class);
          register(UsersResource.class);
      }
  }
  </code></pre>
  
  <p>I am running out of options. Kindly please help me.</p>