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inception-project / inception

INCEpTION provides a semantic annotation platform offering intelligent annotation assistance and knowledge management.
https://inception-project.github.io
Apache License 2.0
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Missing new layer type when using activity link #2380

Closed UWinch closed 3 years ago

UWinch commented 3 years ago

Describe the bug When a document that has already been annotated is opened again via the activity link after a new layer was created the typesystem is not upgraded. The new layer can be selected in the layer dropdown but annotating with it causes an exception.

``` 2021-06-15 15:44:36 ERROR [admin] BratAnnotationEditor - Error: IllegalArgumentException: Undeclared type [webanno.custom.TestAnno]. Available types: uima.cas.TOP uima.cas.Integer uima.cas.Float ... org.dkpro.core.api.xml.type.XmlNode[] java.lang.IllegalArgumentException: Undeclared type [webanno.custom.TestAnno]. Available types: uima.cas.TOP uima.cas.Integer uima.cas.Float ... org.dkpro.core.api.xml.type.XmlNode[] at org.apache.uima.fit.util.CasUtil.getType(CasUtil.java:141) ~[uimafit-core-3.2.0.jar!/:3.2.0] at de.tudarmstadt.ukp.clarin.webanno.api.annotation.adapter.SpanOverlapBehavior.onCreate(SpanOverlapBehavior.java:74) ~[inception-api-annotation-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.api.annotation.adapter.SpanAdapter.handle(SpanAdapter.java:109) ~[inception-api-annotation-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.api.annotation.adapter.SpanAdapter.add(SpanAdapter.java:101) ~[inception-api-annotation-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.ui.annotation.detail.AnnotationDetailEditorPanel.createNewSpanAnnotation(AnnotationDetailEditorPanel.java:438) ~[inception-ui-annotation-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.ui.annotation.detail.AnnotationDetailEditorPanel.createNewAnnotation(AnnotationDetailEditorPanel.java:402) ~[inception-ui-annotation-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.ui.annotation.detail.AnnotationDetailEditorPanel.internalCommitAnnotation(AnnotationDetailEditorPanel.java:905) ~[inception-ui-annotation-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.ui.annotation.detail.AnnotationDetailEditorPanel.actionCreateOrUpdate(AnnotationDetailEditorPanel.java:686) ~[inception-ui-annotation-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.brat.annotation.BratAnnotationEditor.actionSpan(BratAnnotationEditor.java:464) [inception-brat-editor-0.19.6.jar!/:?] at de.tudarmstadt.ukp.clarin.webanno.brat.annotation.BratAnnotationEditor$1.respond(BratAnnotationEditor.java:267) [inception-brat-editor-0.19.6.jar!/:?] at org.apache.wicket.ajax.AbstractDefaultAjaxBehavior.onRequest(AbstractDefaultAjaxBehavior.java:630) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.core.request.handler.ListenerRequestHandler.internalInvoke(ListenerRequestHandler.java:306) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.core.request.handler.ListenerRequestHandler.invoke(ListenerRequestHandler.java:280) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.core.request.handler.ListenerRequestHandler.invokeListener(ListenerRequestHandler.java:222) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.core.request.handler.ListenerRequestHandler.respond(ListenerRequestHandler.java:208) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.request.cycle.RequestCycle$HandlerExecutor.respond(RequestCycle.java:906) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.request.RequestHandlerExecutor.execute(RequestHandlerExecutor.java:63) [wicket-request-9.2.0.jar!/:9.2.0] at org.apache.wicket.request.cycle.RequestCycle.execute(RequestCycle.java:293) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.request.cycle.RequestCycle.processRequest(RequestCycle.java:254) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.protocol.http.WicketFilter.processRequestCycle(WicketFilter.java:277) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.protocol.ws.AbstractUpgradeFilter.processRequestCycle(AbstractUpgradeFilter.java:67) [wicket-native-websocket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.protocol.http.WicketFilter.processRequest(WicketFilter.java:208) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.wicket.protocol.http.WicketFilter.doFilter(WicketFilter.java:307) [wicket-core-9.2.0.jar!/:9.2.0] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.springframework.orm.jpa.support.OpenEntityManagerInViewFilter.doFilterInternal(OpenEntityManagerInViewFilter.java:186) [spring-orm-5.3.3.jar!/:5.3.3] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119) [spring-web-5.3.3.jar!/:5.3.3] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at de.tudarmstadt.ukp.clarin.webanno.support.logging.LoggingFilter.doFilter(LoggingFilter.java:60) [inception-support-0.19.6.jar!/:?] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at de.tudarmstadt.ukp.clarin.webanno.api.dao.casstorage.OpenCasStorageSessionForRequestFilter.doFilter(OpenCasStorageSessionForRequestFilter.java:50) [inception-api-dao-0.19.6.jar!/:?] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:327) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:115) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:81) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:119) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:113) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:126) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:81) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:105) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.authentication.rememberme.RememberMeAuthenticationFilter.doFilter(RememberMeAuthenticationFilter.java:101) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.authentication.rememberme.RememberMeAuthenticationFilter.doFilter(RememberMeAuthenticationFilter.java:92) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:149) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:103) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:89) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.header.HeaderWriterFilter.doHeadersAfter(HeaderWriterFilter.java:90) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:75) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119) [spring-web-5.3.3.jar!/:5.3.3] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:110) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:80) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:55) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119) [spring-web-5.3.3.jar!/:5.3.3] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:336) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:211) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:183) [spring-security-web-5.4.2.jar!/:5.4.2] at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:358) [spring-web-5.3.3.jar!/:5.3.3] at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:271) [spring-web-5.3.3.jar!/:5.3.3] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:100) [spring-web-5.3.3.jar!/:5.3.3] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119) [spring-web-5.3.3.jar!/:5.3.3] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.springframework.web.filter.FormContentFilter.doFilterInternal(FormContentFilter.java:93) [spring-web-5.3.3.jar!/:5.3.3] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119) [spring-web-5.3.3.jar!/:5.3.3] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:201) [spring-web-5.3.3.jar!/:5.3.3] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119) [spring-web-5.3.3.jar!/:5.3.3] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:202) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:97) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:542) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:143) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:92) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:78) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:374) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:65) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:888) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1597) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128) [?:?] at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628) [?:?] at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) [tomcat-embed-core-9.0.41.jar!/:9.0.41] at java.lang.Thread.run(Thread.java:829) [?:?] 2021-06-15 15:44:37 ERROR [admin] ApplicationPageBase - admin: Error: IllegalArgumentException: Undeclared type [webanno.custom.TestAnno]. Available types: uima.cas.TOP uima.cas.Integer .... org.dkpro.core.api.xml.type.XmlNode[] ```

To Reproduce Steps to reproduce the behavior:

  1. Annotate in a document
  2. Create a new layer
  3. Go to the document via the activity link
  4. Try annotating with the new layer

Please complete the following information:

Additional context Probably this https://github.com/inception-project/inception/issues/2357 is the same problem.

reckart commented 3 years ago

@UWinch are you looking into this one?

UWinch commented 3 years ago

I'll have a look.