Hi,
here is the error I have whatever public study I import in our internal cbioportal instance (during the "Rendering" step) :
{"portalVersion":"3.6.19-dirty-SNAPSHOT","dbVersion":"2.12.8","gitBranch":"11f1579f156a2762af9120effdaa26518a0e1da5","gitCommitId":"11f1579f156a2762af9120effdaa26518a0e1da5","gitCommitIdDescribe":"v3.6.19-dirty","gitCommitIdDescribeShort":"v3.6.19-dirty","gitCommitMessageFull":"use new frontend commit of v3.6.19","gitCommitMessageShort":"use new frontend commit of v3.6.19","gitCommitMessageUserEmail":"i...@ino.bio","gitCommitMessageUserName":"Ino de Bruijn","gitDirty":true}
Hereafter you will find the error obtained with the public dataset downloaded here :
https://cbioportal-datahub.s3.amazonaws.com/all_phase2_target_2018_pub.tar.gzThank you in advance for your help
{"req":{"method":"POST","url":"
http://31.10.14.160:8081/api/session/custom_data/fetch","data":["all_phase2_target_2018_pub"],"headers":{"content-type":"application/json"}},"xhr":{},"text":"<!doctype html><html lang=\"en\"><head><title>HTTP Status 500 – Internal Server Error</title><style type=\"text/css\">body {font-family:Tahoma,Arial,sans-serif;} h1, h2, h3, b {color:white;background-color:#525D76;} h1 {font-size:22px;} h2 {font-size:16px;} h3 {font-size:14px;} p {font-size:12px;} a {color:black;} .line {height:1px;background-color:#525D76;border:none;}</style></head><body><h1>HTTP Status 500 – Internal Server Error</h1><hr class=\"line\" /><p><b>Type</b> Exception Report</p><p><b>Message</b> Request processing failed; nested exception is org.springframework.web.client.HttpServerErrorException$InternalServerError: 500 : [{"timestamp":"2021-07-23T13:35:33.620+00:00","status":500,"error":"Internal Server Error","message":"","path":"/api/sessions/my_portal/custom_data/query/fetch"}]</p><p><b>Description</b> The server encountered an unexpected condition that prevented it from fulfilling the request.</p><p><b>Exception</b></p><pre>org.springframework.web.util.NestedServletException: Request processing failed; nested exception is org.springframework.web.client.HttpServerErrorException$InternalServerError: 500 : [{"timestamp":"2021-07-23T13:35:33.620+00:00","status":500,"error":"Internal Server Error","message":"","path":"/api/sessions/my_portal/custom_data/query/fetch"}]\n\torg.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1014)\n\torg.springframework.web.servlet.FrameworkServlet.doPost(FrameworkServlet.java:909)\n\tjavax.servlet.http.HttpServlet.service(HttpServlet.java:652)\n\torg.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:883)\n\tjavax.servlet.http.HttpServlet.service(HttpServlet.java:733)\n\torg.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)\n\torg.mskcc.cbio.portal.util.XssFilter.doFilter(XssFilter.java:65)\n\torg.cbioportal.web.util.ResettableHttpServletRequestFilter.doFilter(ResettableHttpServletRequestFilter.java:29)\n\torg.apache.catalina.filters.HttpHeaderSecurityFilter.doFilter(HttpHeaderSecurityFilter.java:126)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:320)\n\torg.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:126)\n\torg.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:90)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:118)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:137)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:111)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:158)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.authentication.AbstractAuthenticationProcessingFilter.doFilter(AbstractAuthenticationProcessingFilter.java:200)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.header.HeaderWriterFilter.doHeadersAfter(HeaderWriterFilter.java:92)\n\torg.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:77)\n\torg.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:56)\n\torg.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:105)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:215)\n\torg.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:178)\n\torg.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:358)\n\torg.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:271)\n\tcom.vlkan.hrrs.servlet.HrrsFilter.doFilter(HrrsFilter.java:85)\n\torg.apache.catalina.filters.CorsFilter.handleNonCORS(CorsFilter.java:364)\n\torg.apache.catalina.filters.CorsFilter.doFilter(CorsFilter.java:170)\n\torg.mskcc.cbio.portal.util.RequestBodyGZipFilter.doFilter(RequestBodyGZipFilter.java:72)\n\torg.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:358)\n\torg.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:271)\n</pre><p><b>Root Cause</b></p><pre>org.springframework.web.client.HttpServerErrorException$InternalServerError: 500 : [{"timestamp":"2021-07-23T13:35:33.620+00:00","status":500,"error":"Internal Server Error","message":"","path":"/api/sessions/my_portal/custom_data/query/fetch"}]\n\torg.springframework.web.client.HttpServerErrorException.create(HttpServerErrorException.java:100)\n\torg.springframework.web.client.DefaultResponseErrorHandler.handleError(DefaultResponseErrorHandler.java:172)\n\torg.springframework.web.client.DefaultResponseErrorHandler.handleError(DefaultResponseErrorHandler.java:112)\n\torg.springframework.web.client.ResponseErrorHandler.handleError(ResponseErrorHandler.java:63)\n\torg.springframework.web.client.RestTemplate.handleResponse(RestTemplate.java:782)\n\torg.springframework.web.client.RestTemplate.doExecute(RestTemplate.java:740)\n\torg.springframework.web.client.RestTemplate.execute(RestTemplate.java:674)\n\torg.springframework.web.client.RestTemplate.exchange(RestTemplate.java:612)\n\torg.cbioportal.web.SessionServiceController.fetchCustomProperties(SessionServiceController.java:472)\n\torg.cbioportal.web.SessionServiceController$$FastClassBySpringCGLIB$$6b4f2f08.invoke(<generated>)\n\torg.springframework.cglib.proxy.MethodProxy.invoke(MethodProxy.java:218)\n\torg.springframework.aop.framework.CglibAopProxy$CglibMethodInvocation.invokeJoinpoint(CglibAopProxy.java:771)\n\torg.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:163)\n\torg.springframework.aop.framework.CglibAopProxy$CglibMethodInvocation.proceed(CglibAopProxy.java:749)\n\torg.springframework.aop.framework.adapter.MethodBeforeAdviceInterceptor.invoke(MethodBeforeAdviceInterceptor.java:56)\n\torg.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)\n\torg.springframework.aop.framework.CglibAopProxy$CglibMethodInvocation.proceed(CglibAopProxy.java:749)\n\torg.springframework.aop.aspectj.AspectJAfterAdvice.invoke(AspectJAfterAdvice.java:47)\n\torg.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)\n\torg.springframework.aop.framework.CglibAopProxy$CglibMethodInvocation.proceed(CglibAopProxy.java:749)\n\torg.springframework.aop.interceptor.ExposeInvocationInterceptor.invoke(ExposeInvocationInterceptor.java:95)\n\torg.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:186)\n\torg.springframework.aop.framework.CglibAopProxy$CglibMethodInvocation.proceed(CglibAopProxy.java:749)\n\torg.springframework.aop.framework.CglibAopProxy$DynamicAdvisedInterceptor.intercept(CglibAopProxy.java:691)\n\torg.cbioportal.web.SessionServiceController$$EnhancerBySpringCGLIB$$1af4f98d.fetchCustomProperties(<generated>)\n\tjava.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)\n\tjava.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)\n\tjava.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)\n\tjava.base/java.lang.reflect.Method.invoke(Unknown Source)\n\torg.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:190)\n\torg.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:138)\n\torg.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:105)\n\torg.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:879)\n\torg.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:793)\n\torg.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:87)\n\torg.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:1040)\n\torg.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:943)\n\torg.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1006)\n\torg.springframework.web.servlet.FrameworkServlet.doPost(FrameworkServlet.java:909)\n\tjavax.servlet.http.HttpServlet.service(HttpServlet.java:652)\n\torg.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:883)\n\tjavax.servlet.http.HttpServlet.service(HttpServlet.java:733)\n\torg.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)\n\torg.mskcc.cbio.portal.util.XssFilter.doFilter(XssFilter.java:65)\n\torg.cbioportal.web.util.ResettableHttpServletRequestFilter.doFilter(ResettableHttpServletRequestFilter.java:29)\n\torg.apache.catalina.filters.HttpHeaderSecurityFilter.doFilter(HttpHeaderSecurityFilter.java:126)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:320)\n\torg.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:126)\n\torg.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:90)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:118)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:137)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:111)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:158)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.authentication.AbstractAuthenticationProcessingFilter.doFilter(AbstractAuthenticationProcessingFilter.java:200)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.header.HeaderWriterFilter.doHeadersAfter(HeaderWriterFilter.java:92)\n\torg.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:77)\n\torg.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:56)\n\torg.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:105)\n\torg.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)\n\torg.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:215)\n\torg.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:178)\n\torg.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:358)\n\torg.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:271)\n\tcom.vlkan.hrrs.servlet.HrrsFilter.doFilter(HrrsFilter.java:85)\n\torg.apache.catalina.filters.CorsFilter.handleNonCORS(CorsFilter.java:364)\n\torg.apache.catalina.filters.CorsFilter.doFilter(CorsFilter.java:170)\n\torg.mskcc.cbio.portal.util.RequestBodyGZipFilter.doFilter(RequestBodyGZipFilter.java:72)\n\torg.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:358)\n\torg.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:271)\n</pre><p><b>Note</b> The full stack trace of the root cause is available in the server logs.</p><hr class=\"line\" /><h3>Apache Tomcat/8.5.61</h3></body></html>","statusText":"","statusCode":500,"status":500,"statusType":5,"info":false,"ok":false,"redirect":false,"clientError":false,"serverError":true,"error":{"status":500,"method":"POST","url":"
http://31.10.14.160:8081/api/session/custom_data/fetch"},"created":false,"accepted":false,"noContent":false,"badRequest":false,"unauthorized":false,"notAcceptable":false,"forbidden":false,"notFound":false,"unprocessableEntity":false,"headers":{"access-control-allow-origin":"*","access-control-expose-headers":"total-count,sample-count","cache-control":"no-cache, no-store, max-age=0, must-revalidate","connection":"close","content-language":"en","content-type":"text/html;charset=utf-8","date":"Fri, 23 Jul 2021 13:35:33 GMT","expires":"0","pragma":"no-cache","transfer-encoding":"chunked","x-content-type-options":"nosniff","x-frame-options":"DENY","x-xss-protection":"1; mode=block"},"header":{"access-control-allow-origin":"*","access-control-expose-headers":"total-count,sample-count","cache-control":"no-cache, no-store, max-age=0, must-revalidate","connection":"close","content-language":"en","content-type":"text/html;charset=utf-8","date":"Fri, 23 Jul 2021 13:35:33 GMT","expires":"0","pragma":"no-cache","transfer-encoding":"chunked","x-content-type-options":"nosniff","x-frame-options":"DENY","x-xss-protection":"1; mode=block"},"type":"text/html","charset":"utf-8","links":{},"body":null,"url":"
http://31.10.14.160:8081/study/summary?id=all_phase2_target_2018_pub"}