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Bug introduced in v2.5.3 when running jetty or docker #561

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olanowak opened this issue Nov 10, 2022 · 8 comments
Open

Bug introduced in v2.5.3 when running jetty or docker #561

olanowak opened this issue Nov 10, 2022 · 8 comments

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@olanowak
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When I run mvn jetty:run I get this exception

[INFO] Started @4818ms
[INFO] Started Jetty Server
WARN [2022-11-10 15:14:35,073] (Reflections->scan->220): could not scan file /home/anowak/.m2/repository/edu/isi/karma-semanticlabeling/0.0.1-SNAPSHOT/karma-semanticlabeling-0.0.1-SNAPSHOT.jar!/edu/isi/karma/semanticlabeling/app/App.class with scanner TypeAnnotationsScanner
org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:30)
	at org.reflections.Reflections.scan(Reflections.java:217)
	at org.reflections.Reflections.scan(Reflections.java:166)
	at org.reflections.Reflections.<init>(Reflections.java:94)
	at org.reflections.Reflections.<init>(Reflections.java:135)
	at org.reflections.Reflections.<init>(Reflections.java:108)
	at edu.isi.karma.controller.history.CommandHistory.<clinit>(CommandHistory.java:91)
	at edu.isi.karma.rep.Workspace.<init>(Workspace.java:58)
	at edu.isi.karma.rep.WorkspaceManager.createWorkspaceWithPreferencesId(WorkspaceManager.java:66)
	at edu.isi.karma.webserver.KarmaServlet.doGet(KarmaServlet.java:126)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:687)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
	at org.eclipse.jetty.servlet.ServletHolder$NotAsync.service(ServletHolder.java:1450)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:799)
	at org.eclipse.jetty.servlet.ServletHandler$ChainEnd.doFilter(ServletHandler.java:1626)
	at org.eclipse.jetty.websocket.server.WebSocketUpgradeFilter.doFilter(WebSocketUpgradeFilter.java:228)
	at org.eclipse.jetty.servlet.FilterHolder.doFilter(FilterHolder.java:193)
	at org.eclipse.jetty.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1601)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:548)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:602)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:235)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1624)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:233)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1434)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:188)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:501)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1594)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:186)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1349)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:234)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:146)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.Server.handle(Server.java:516)
	at org.eclipse.jetty.server.HttpChannel.lambda$handle$1(HttpChannel.java:388)
	at org.eclipse.jetty.server.HttpChannel.dispatch(HttpChannel.java:633)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:380)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:277)
	at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:311)
	at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:105)
	at org.eclipse.jetty.io.ChannelEndPoint$1.run(ChannelEndPoint.java:104)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:338)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:315)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:173)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)
	at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:386)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:883)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:1034)
	at java.base/java.lang.Thread.run(Thread.java:829)
Caused by: org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:128)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:118)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:26)
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:27)
	... 50 more
Caused by: java.io.IOException: invalid constant type: 18
	at javassist.bytecode.ConstPool.readOne(ConstPool.java:1090)
	at javassist.bytecode.ConstPool.read(ConstPool.java:1033)
	at javassist.bytecode.ConstPool.<init>(ConstPool.java:149)
	at javassist.bytecode.ClassFile.read(ClassFile.java:737)
	at javassist.bytecode.ClassFile.<init>(ClassFile.java:108)
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:126)
	... 53 more
WARN [2022-11-10 15:14:35,080] (Reflections->scan->220): could not scan file /home/anowak/.m2/repository/edu/isi/karma-semanticlabeling/0.0.1-SNAPSHOT/karma-semanticlabeling-0.0.1-SNAPSHOT.jar!/edu/isi/karma/semanticlabeling/app/App.class with scanner SubTypesScanner
org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:30)
	at org.reflections.Reflections.scan(Reflections.java:217)
	at org.reflections.Reflections.scan(Reflections.java:166)
	at org.reflections.Reflections.<init>(Reflections.java:94)
	at org.reflections.Reflections.<init>(Reflections.java:135)
	at org.reflections.Reflections.<init>(Reflections.java:108)
	at edu.isi.karma.controller.history.CommandHistory.<clinit>(CommandHistory.java:91)
	at edu.isi.karma.rep.Workspace.<init>(Workspace.java:58)
	at edu.isi.karma.rep.WorkspaceManager.createWorkspaceWithPreferencesId(WorkspaceManager.java:66)
	at edu.isi.karma.webserver.KarmaServlet.doGet(KarmaServlet.java:126)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:687)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
	at org.eclipse.jetty.servlet.ServletHolder$NotAsync.service(ServletHolder.java:1450)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:799)
	at org.eclipse.jetty.servlet.ServletHandler$ChainEnd.doFilter(ServletHandler.java:1626)
	at org.eclipse.jetty.websocket.server.WebSocketUpgradeFilter.doFilter(WebSocketUpgradeFilter.java:228)
	at org.eclipse.jetty.servlet.FilterHolder.doFilter(FilterHolder.java:193)
	at org.eclipse.jetty.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1601)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:548)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:602)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:235)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1624)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:233)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1434)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:188)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:501)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1594)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:186)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1349)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:234)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:146)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.Server.handle(Server.java:516)
	at org.eclipse.jetty.server.HttpChannel.lambda$handle$1(HttpChannel.java:388)
	at org.eclipse.jetty.server.HttpChannel.dispatch(HttpChannel.java:633)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:380)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:277)
	at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:311)
	at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:105)
	at org.eclipse.jetty.io.ChannelEndPoint$1.run(ChannelEndPoint.java:104)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:338)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:315)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:173)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)
	at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:386)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:883)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:1034)
	at java.base/java.lang.Thread.run(Thread.java:829)
Caused by: org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:128)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:118)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:26)
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:27)
	... 50 more
Caused by: java.io.IOException: invalid constant type: 18
	at javassist.bytecode.ConstPool.readOne(ConstPool.java:1090)
	at javassist.bytecode.ConstPool.read(ConstPool.java:1033)
	at javassist.bytecode.ConstPool.<init>(ConstPool.java:149)
	at javassist.bytecode.ClassFile.read(ClassFile.java:737)
	at javassist.bytecode.ClassFile.<init>(ClassFile.java:108)
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:126)
	... 53 more
WARN [2022-11-10 15:14:35,225] (Reflections->scan->220): could not scan file /home/anowak/.m2/repository/edu/isi/karma-semanticlabeling/0.0.1-SNAPSHOT/karma-semanticlabeling-0.0.1-SNAPSHOT.jar!/edu/isi/karma/semanticlabeling/app/App.class with scanner TypeAnnotationsScanner
org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:30)
	at org.reflections.Reflections.scan(Reflections.java:217)
	at org.reflections.Reflections.scan(Reflections.java:166)
	at org.reflections.Reflections.<init>(Reflections.java:94)
	at org.reflections.Reflections.<init>(Reflections.java:135)
	at org.reflections.Reflections.<init>(Reflections.java:108)
	at edu.isi.karma.webserver.ExecutionController.dynamicallyBuildCommandFactoryMap(ExecutionController.java:64)
	at edu.isi.karma.webserver.ExecutionController.<clinit>(ExecutionController.java:54)
	at edu.isi.karma.webserver.KarmaServlet.doGet(KarmaServlet.java:133)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:687)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
	at org.eclipse.jetty.servlet.ServletHolder$NotAsync.service(ServletHolder.java:1450)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:799)
	at org.eclipse.jetty.servlet.ServletHandler$ChainEnd.doFilter(ServletHandler.java:1626)
	at org.eclipse.jetty.websocket.server.WebSocketUpgradeFilter.doFilter(WebSocketUpgradeFilter.java:228)
	at org.eclipse.jetty.servlet.FilterHolder.doFilter(FilterHolder.java:193)
	at org.eclipse.jetty.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1601)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:548)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:602)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:235)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1624)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:233)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1434)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:188)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:501)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1594)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:186)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1349)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:234)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:146)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.Server.handle(Server.java:516)
	at org.eclipse.jetty.server.HttpChannel.lambda$handle$1(HttpChannel.java:388)
	at org.eclipse.jetty.server.HttpChannel.dispatch(HttpChannel.java:633)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:380)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:277)
	at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:311)
	at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:105)
	at org.eclipse.jetty.io.ChannelEndPoint$1.run(ChannelEndPoint.java:104)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:338)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:315)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:173)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)
	at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:386)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:883)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:1034)
	at java.base/java.lang.Thread.run(Thread.java:829)
Caused by: org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:128)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:118)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:26)
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:27)
	... 49 more
Caused by: java.io.IOException: invalid constant type: 18
	at javassist.bytecode.ConstPool.readOne(ConstPool.java:1090)
	at javassist.bytecode.ConstPool.read(ConstPool.java:1033)
	at javassist.bytecode.ConstPool.<init>(ConstPool.java:149)
	at javassist.bytecode.ClassFile.read(ClassFile.java:737)
	at javassist.bytecode.ClassFile.<init>(ClassFile.java:108)
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:126)
	... 52 more
WARN [2022-11-10 15:14:35,226] (Reflections->scan->220): could not scan file /home/anowak/.m2/repository/edu/isi/karma-semanticlabeling/0.0.1-SNAPSHOT/karma-semanticlabeling-0.0.1-SNAPSHOT.jar!/edu/isi/karma/semanticlabeling/app/App.class with scanner SubTypesScanner
org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:30)
	at org.reflections.Reflections.scan(Reflections.java:217)
	at org.reflections.Reflections.scan(Reflections.java:166)
	at org.reflections.Reflections.<init>(Reflections.java:94)
	at org.reflections.Reflections.<init>(Reflections.java:135)
	at org.reflections.Reflections.<init>(Reflections.java:108)
	at edu.isi.karma.webserver.ExecutionController.dynamicallyBuildCommandFactoryMap(ExecutionController.java:64)
	at edu.isi.karma.webserver.ExecutionController.<clinit>(ExecutionController.java:54)
	at edu.isi.karma.webserver.KarmaServlet.doGet(KarmaServlet.java:133)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:687)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
	at org.eclipse.jetty.servlet.ServletHolder$NotAsync.service(ServletHolder.java:1450)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:799)
	at org.eclipse.jetty.servlet.ServletHandler$ChainEnd.doFilter(ServletHandler.java:1626)
	at org.eclipse.jetty.websocket.server.WebSocketUpgradeFilter.doFilter(WebSocketUpgradeFilter.java:228)
	at org.eclipse.jetty.servlet.FilterHolder.doFilter(FilterHolder.java:193)
	at org.eclipse.jetty.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1601)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:548)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:602)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:235)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1624)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:233)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1434)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:188)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:501)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1594)
	at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:186)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1349)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:234)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:146)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
	at org.eclipse.jetty.server.Server.handle(Server.java:516)
	at org.eclipse.jetty.server.HttpChannel.lambda$handle$1(HttpChannel.java:388)
	at org.eclipse.jetty.server.HttpChannel.dispatch(HttpChannel.java:633)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:380)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:277)
	at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:311)
	at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:105)
	at org.eclipse.jetty.io.ChannelEndPoint$1.run(ChannelEndPoint.java:104)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:338)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:315)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:173)
	at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)
	at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:386)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:883)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:1034)
	at java.base/java.lang.Thread.run(Thread.java:829)
Caused by: org.reflections.ReflectionsException: could not create class file from App.class
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:128)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:118)
	at org.reflections.adapters.JavassistAdapter.getOfCreateClassObject(JavassistAdapter.java:26)
	at org.reflections.scanners.AbstractScanner.scan(AbstractScanner.java:27)
	... 49 more
Caused by: java.io.IOException: invalid constant type: 18
	at javassist.bytecode.ConstPool.readOne(ConstPool.java:1090)
	at javassist.bytecode.ConstPool.read(ConstPool.java:1033)
	at javassist.bytecode.ConstPool.<init>(ConstPool.java:149)
	at javassist.bytecode.ClassFile.read(ClassFile.java:737)
	at javassist.bytecode.ClassFile.<init>(ClassFile.java:108)
	at org.reflections.adapters.JavassistAdapter.createClassObject(JavassistAdapter.java:126)
	... 52 more

The same happens when running docker container.
I believe it was introduced in v2.5.3 as running the same commands in earlier tags works fine.
@Bidisha010496
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Collaborator

This issue is fixed now. Kindly reopen this if you still see it.

@olanowak
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Author

olanowak commented Nov 16, 2022 •
edited

Thanks. It works when I run it locally.
But when trying to build the image the build gets stuck on downloading maven artifacts from repositories.

[WARNING] Failure to transfer edu.isi:commands-python:0.0.1-SNAPSHOT/maven-metadata.xml from http://repo.karma.isi.edu/artifactory/libs-release-local was cached in the local repository, resolution will not be reattempted until the update interval of KarmaRepo has elapsed or updates are forced. Original error: Could not transfer metadata edu.isi:commands-python:0.0.1-SNAPSHOT/maven-metadata.xml from/to KarmaRepo (http://repo.karma.isi.edu/artifactory/libs-release-local): Transfer failed for http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/commands-python/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from central: https://repo1.maven.org/maven2/edu/isi/commands-publish/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from cloudera-repo: https://repository.cloudera.com/artifactory/cloudera-repos/edu/isi/commands-publish/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from maven2.maven.org: https://repo1.maven.org/maven2/edu/isi/commands-publish/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from osgeo: https://repo.osgeo.org/repository/release/edu/isi/commands-publish/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from KarmaRepo: http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/commands-publish/0.0.1-SNAPSHOT/maven-metadata.xml

after printing it the process is stuck
It looks like the last repo is broken.

@Bidisha010496
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Fixed it. Please try the build.

@olanowak
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I'm afraid it still doesn't work

curl http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-util/0.0.1-SNAPSHOT/maven-metadata.xml
curl: (28) Failed to connect to repo.karma.isi.edu port 80 after 131075 ms: timeout

@Bidisha010496 Bidisha010496 reopened this Nov 29, 2022
@Bidisha010496
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Hi,

Are you trying to build from any particular branch other than the master?

@olanowak
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Yes. I use master and I have pulled all the changes. Local build e.g. mvn install works for me (probably I have all dependencies already in my .m2) but running docker container fails.

  1. First I built docker image with docker build -t karma .
  2. Then I'm trying to run it with docker run karma. This one fails every time:
➜  Dariah-karma git:(master) ✗ docker run -p 8080:8080 -v /home/anowak/repo/dariah/karma/karma_home:/karma_home  --env KARMA_USER_HOME=/karma_home 79454bb027a2            
[INFO] Scanning for projects...
Downloading from central: https://repo.maven.apache.org/maven2/org/codehaus/gmaven/gmaven-plugin/1.3/gmaven-plugin-1.3.pom
Downloaded from central: https://repo.maven.apache.org/maven2/org/codehaus/gmaven/gmaven-plugin/1.3/gmaven-plugin-1.3.pom (11 kB at 21 kB/s)
Downloading from central: https://repo.maven.apache.org/maven2/org/codehaus/gmaven/gmaven/1.3/gmaven-1.3.pom
Downloaded from central: https://repo.maven.apache.org/maven2/org/codehaus/gmaven/gmaven/1.3/gmaven-1.3.pom (43 kB at 135 kB/s)
Downloading from central: https://repo.maven.apache.org/maven2/org/codehaus/gmaven/gmaven-plugin/1.3/gmaven-plugin-1.3.jar
Downloaded from central: https://repo.maven.apache.org/maven2/org/codehaus/gmaven/gmaven-plugin/1.3/gmaven-plugin-1.3.jar (73 kB at 597 kB/s)
Downloading from central: https://repo.maven.apache.org/maven2/org/eclipse/jetty/jetty-maven-plugin/9.4.43.v20210629/jetty-maven-plugin-9.4.43.v20210629.pom
Downloaded from central: https://repo.maven.apache.org/maven2/org/eclipse/jetty/jetty-maven-plugin/9.4.43.v20210629/jetty-maven-plugin-9.4.43.v20210629.pom (13 kB at 171 kB/s)
Downloading from central: https://repo.maven.apache.org/maven2/org/eclipse/jetty/jetty-maven-plugin/9.4.43.v20210629/jetty-maven-plugin-9.4.43.v20210629.jar
Downloaded from central: https://repo.maven.apache.org/maven2/org/eclipse/jetty/jetty-maven-plugin/9.4.43.v20210629/jetty-maven-plugin-9.4.43.v20210629.jar (127 kB at 1.1 MB/s)
[INFO] 
[INFO] -------------------------< edu.isi:karma-web >--------------------------
[INFO] Building karma-web 0.0.1-SNAPSHOT
[INFO] --------------------------------[ war ]---------------------------------
[INFO] 
[INFO] >>> jetty-maven-plugin:9.4.43.v20210629:run (default-cli) > test-compile @ karma-web >>>
Downloading from central: https://repo1.maven.org/maven2/edu/isi/karma-common/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from maven2.maven.org: https://repo1.maven.org/maven2/edu/isi/karma-common/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from osgeo: https://repo.osgeo.org/repository/release/edu/isi/karma-common/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from cloudera-repo: https://repository.cloudera.com/artifactory/cloudera-repos/edu/isi/karma-common/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from KarmaRepo: http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-common/0.0.1-SNAPSHOT/maven-metadata.xml
[WARNING] Could not transfer metadata edu.isi:karma-common:0.0.1-SNAPSHOT/maven-metadata.xml from/to KarmaRepo (http://repo.karma.isi.edu/artifactory/libs-release-local): Transfer failed for http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-common/0.0.1-SNAPSHOT/maven-metadata.xml
[WARNING] Failure to transfer edu.isi:karma-common:0.0.1-SNAPSHOT/maven-metadata.xml from http://repo.karma.isi.edu/artifactory/libs-release-local was cached in the local repository, resolution will not be reattempted until the update interval of KarmaRepo has elapsed or updates are forced. Original error: Could not transfer metadata edu.isi:karma-common:0.0.1-SNAPSHOT/maven-metadata.xml from/to KarmaRepo (http://repo.karma.isi.edu/artifactory/libs-release-local): Transfer failed for http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-common/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from osgeo: https://repo.osgeo.org/repository/release/edu/isi/webkarma/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from central: https://repo1.maven.org/maven2/edu/isi/webkarma/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from cloudera-repo: https://repository.cloudera.com/artifactory/cloudera-repos/edu/isi/webkarma/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from maven2.maven.org: https://repo1.maven.org/maven2/edu/isi/webkarma/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from KarmaRepo: http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/webkarma/0.0.1-SNAPSHOT/maven-metadata.xml
[WARNING] Could not transfer metadata edu.isi:webkarma:0.0.1-SNAPSHOT/maven-metadata.xml from/to KarmaRepo (http://repo.karma.isi.edu/artifactory/libs-release-local): Transfer failed for http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/webkarma/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from cloudera-repo: https://repository.cloudera.com/artifactory/cloudera-repos/edu/isi/karma-typer/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from maven2.maven.org: https://repo1.maven.org/maven2/edu/isi/karma-typer/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from central: https://repo1.maven.org/maven2/edu/isi/karma-typer/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from osgeo: https://repo.osgeo.org/repository/release/edu/isi/karma-typer/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from KarmaRepo: http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-typer/0.0.1-SNAPSHOT/maven-metadata.xml
[WARNING] Could not transfer metadata edu.isi:karma-typer:0.0.1-SNAPSHOT/maven-metadata.xml from/to KarmaRepo (http://repo.karma.isi.edu/artifactory/libs-release-local): Transfer failed for http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-typer/0.0.1-SNAPSHOT/maven-metadata.xml
[WARNING] Failure to transfer edu.isi:karma-typer:0.0.1-SNAPSHOT/maven-metadata.xml from http://repo.karma.isi.edu/artifactory/libs-release-local was cached in the local repository, resolution will not be reattempted until the update interval of KarmaRepo has elapsed or updates are forced. Original error: Could not transfer metadata edu.isi:karma-typer:0.0.1-SNAPSHOT/maven-metadata.xml from/to KarmaRepo (http://repo.karma.isi.edu/artifactory/libs-release-local): Transfer failed for http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-typer/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from central: https://repo1.maven.org/maven2/edu/isi/karma-util/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from maven2.maven.org: https://repo1.maven.org/maven2/edu/isi/karma-util/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from osgeo: https://repo.osgeo.org/repository/release/edu/isi/karma-util/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from cloudera-repo: https://repository.cloudera.com/artifactory/cloudera-repos/edu/isi/karma-util/0.0.1-SNAPSHOT/maven-metadata.xml
Downloading from KarmaRepo: http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-util/0.0.1-SNAPSHOT/maven-metadata.xml

And if I just try to curl this repo http://repo.karma.isi.edu/artifactory/libs-release-local/edu/isi/karma-util/0.0.1-SNAPSHOT/maven-metadata.xml it ends with timeout

I converted Dockerfile so it would just run jetty and use the war I built outside of Docker. Karma works fine in this scenario but openrdf-sesame does not... (I get Unknown repository: karma_models when trying to access http://localhost:8080/openrdf-sesame/repositories/karma_models. Moreover I can see in Karma logs that the SPARQL query run against this endpoint fails) . This is my altered Dockerfile:

FROM jetty:9.4-jdk11

USER jetty
ENV TZ=Europe/Warsaw
COPY target/karma-web-*-SNAPSHOT.war  /var/lib/jetty/webapps/root.war
COPY external_webapps/cleaningService.war  /var/lib/jetty/webapps/cleaningService.war
COPY external_webapps/cluster-1.0.war  /var/lib/jetty/webapps/clusterService.war
COPY external_webapps/openrdf-sesame.war  /var/lib/jetty/webapps/openrdf-sesame.war
COPY external_webapps/openrdf-workbench.war /var/lib/jetty/webapps/openrdf-workbench.war

USER root
RUN apt-get update && apt-get install -y telnet wget iputils-ping
RUN chgrp -R 0 / 2> /dev/null || true && \
    chmod -R g=u / 2> /dev/null || true
USER jetty

EXPOSE 8080

@olanowak
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olanowak commented Dec 2, 2022 •
edited

The issue with repo.karma.isi.edu remains.
But I was able to resolve all other problems by using dockerized tomcat and config from karma-app/conf

@Bidisha010496
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I have already removed dependency on repo.karma.isi.edu from the repo. It should not be attempting to download the dependencies remotely.

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