RE: [XNAT Discussion] Error in image upload using curl
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Haas, Evan
Aug 15, 2012, 9:50:25 AM8/15/12
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Ly,
Could you share the REST call you used initially to create the reconstruction? In the meantime, I’ll try to reproduce the problem here.
Evan
From: xnat_di...@googlegroups.com [mailto:xnat_di...@googlegroups.com]
On Behalf Of Ly Nguyen
Sent: Tuesday, August 14, 2012 5:13 PM
To: xnat_di...@googlegroups.com
Subject: [XNAT Discussion] Error in image upload using curl
Hi,
I am trying to upload images to my test project on XNAT 1.6 virtual machine, these worked before, but I am now getting errors.
SUCCESSFUL
xnat@xnat2012:~$ curl -X PUT -u admin:admin "http://localhost:8080/xnat/data/archive/projects/test1/subjects/555555/experiments/1/reconstructions/something/"
ERROR
xnat@xnat2012:~$ curl -X PUT -u admin:admin "http://localhost:8080/xnat/data/archive/projects/test1/subjects/555555/experiments/1/reconstructions/something/files"
<html>
<head>
<title>Status page</title>
</head>
<body>
<h3>The server encountered an unexpected condition which prevented it from fulfilling the request</h3><p>You can get technical details <a href="http://www.w3.org/Protocols/rfc2616/rfc2616-sec10.html#sec10.5.1">here</a>.<br>
Please continue your visit at our <a href="/">home page</a>.
</p>
</body>
</html>
xnat@xnat2012:~$ echo $u
/home/xnat/Downloads/ibiclogo_brain.png
ERROR
xnat@xnat2012:~$ curl -X PUT -u admin:admin "http://localhost:8080/xnat/data/archive/projects/test1/subjects/555555/experiments/1/reconstructions/something/files/$u?inbody=true&format=PNG"
--data-binary @$u
<html>
<head>
<title>Status page</title>
</head>
<body>
<h3>The server encountered an unexpected condition which prevented it from fulfilling the request</h3><p>You can get technical details <a href="http://www.w3.org/Protocols/rfc2616/rfc2616-sec10.html#sec10.5.1">here</a>.<br>
Please continue your visit at our <a href="/">home page</a>.
</p>
</body>
</html>
pyXnat and XNATRestClient didn't work, so I found my way around with curl, but that now doesn't work either. Any clues as to what happened? Am I doing something wrong?
Thanks,
Ly
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Evan Haas
Aug 15, 2012, 12:17:14 PM8/15/12
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I tried these calls in the 1.6 VM (after creating a new project, subject, experiment, and reconstruction via REST calls) and they worked fine for me. What gets dumped to your log file when you get the error?
chen yang
Aug 15, 2012, 12:25:20 PM8/15/12
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Hi Even,
Can you create a new project, subject, experiment, and reconstruction via pyxant in 1.6 VM?
Thanks
Chen
On Wed, Aug 15, 2012 at 11:17 AM, Evan Haas <ha...@mir.wustl.edu> wrote:
I tried these calls in the 1.6 VM (after creating a new project, subject, experiment, and reconstruction via REST calls) and they worked fine for me. What gets dumped to your log file when you get the error?
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Evan Haas
Aug 15, 2012, 12:27:05 PM8/15/12
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No, I did all the calls through curl.
chen yang
Aug 15, 2012, 12:30:29 PM8/15/12
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Do you have any idea why pyxnat cannot work with XNAT 1.6?
On Wed, Aug 15, 2012 at 11:27 AM, Evan Haas <ha...@mir.wustl.edu> wrote:
No, I did all the calls through curl.
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Evan Haas
Aug 15, 2012, 12:35:40 PM8/15/12
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Chen,
Support for pyxnat in 1.6 is TBD. In the meantime, could you share some sample code (simplest possible example) that illustrates the problem? We'll try to take a look at it.
Evan
chen yang
Aug 15, 2012, 12:58:09 PM8/15/12
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We have some discussions about this issue in the following post:
.
I will provide more information later.
Thanks
Chen
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Ly Nguyen
Aug 15, 2012, 1:27:38 PM8/15/12
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Hi Evan,
I also had trouble on PUT calls for the subjects level and experiment level, so I have to manually create those through the interface. Then I would be able to PUT a reconstruction:
xnat@xnat2012:~$ curl -X PUT -u admin:admin "http://localhost:8080/xnat/data/archive/projects/test1/subjects/555555/experiments/1/reconstructions/something/"
Are velocity and turbine logs what we should be looking at? There is also xdat and restlet.
xnat@xnat2012:/var/lib/tomcat6/webapps/xnat/logs$ cat velocity.log
2012-08-14 16:49:58,038 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:49:58,038 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:49:58,088 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:50:02,383 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:02,439 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:50:04,614 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,630 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,636 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,637 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,637 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,642 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:35,843 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:53:35,843 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:53:35,891 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:53:45,378 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:45,444 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:53:56,248 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,269 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,277 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,277 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,278 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,278 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 17:23:04,815 [http-8080-1] ERROR velocity - Left side ($data.getSession().getAttribute("user").getUsername()) of '==' operation has null value. If a reference, it may not be in the context. Operation not possible. navigations//NoMenuTop.vm [line 8, column 64]
xnat@xnat2012:/var/lib/tomcat6/webapps/xnat/logs$ cat turbine.log
2012-08-14 16:49:58,024 [http-8080-1] ERROR org.apache.turbine.services.velocity.TurbineVelocityService - Class java.util.ArrayList.get threw Exception
java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
at java.util.ArrayList.rangeCheck(ArrayList.java:571)
at java.util.ArrayList.get(ArrayList.java:349)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:616)
at org.apache.velocity.runtime.parser.node.ASTMethod.execute(ASTMethod.java:260)
at org.apache.velocity.runtime.parser.node.ASTReference.execute(ASTReference.java:207)
at org.apache.velocity.runtime.parser.node.ASTReference.value(ASTReference.java:357)
at org.apache.velocity.runtime.parser.node.ASTSetDirective.render(ASTSetDirective.java:135)
at org.apache.velocity.runtime.parser.node.SimpleNode.render(SimpleNode.java:271)
at org.apache.velocity.Template.merge(Template.java:296)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:492)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:461)
at org.apache.turbine.services.velocity.TurbineVelocityService.executeRequest(TurbineVelocityService.java:415)
at org.apache.turbine.services.velocity.TurbineVelocityService.handleRequest(TurbineVelocityService.java:281)
at org.apache.turbine.services.velocity.TurbineVelocity.handleRequest(TurbineVelocity.java:71)
at org.apache.turbine.modules.screens.VelocityScreen.buildTemplate(VelocityScreen.java:119)
at org.apache.turbine.modules.screens.TemplateScreen.doBuild(TemplateScreen.java:101)
at org.apache.turbine.modules.Screen.build(Screen.java:57)
at org.apache.turbine.modules.ScreenLoader.eval(ScreenLoader.java:104)
at org.apache.turbine.modules.layouts.VelocityOnlyLayout.doBuild(VelocityOnlyLayout.java:92)
at org.apache.turbine.modules.Layout.build(Layout.java:53)
at org.apache.turbine.modules.LayoutLoader.exec(LayoutLoader.java:98)
at org.apache.turbine.modules.pages.DefaultPage.doBuild(DefaultPage.java:146)
at org.apache.turbine.modules.Page.build(Page.java:53)
at org.apache.turbine.modules.PageLoader.exec(PageLoader.java:98)
at org.apache.turbine.Turbine.doGet(Turbine.java:751)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:617)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.nrg.xnat.restlet.util.UpdateExpirationCookie.doFilter(UpdateExpirationCookie.java:101)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:368)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:109)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:83)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:97)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:100)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:78)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatArcSpecFilter.doFilter(XnatArcSpecFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:54)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatBasicAuthenticationFilter.doFilter(XnatBasicAuthenticationFilter.java:127)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AbstractAuthenticationProcessingFilter.doFilter(AbstractAuthenticationProcessingFilter.java:187)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:105)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatExpiredPasswordFilter.doFilter(XnatExpiredPasswordFilter.java:40)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:79)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.ConcurrentSessionFilter.doFilter(ConcurrentSessionFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.channel.ChannelProcessingFilter.doFilter(ChannelProcessingFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:169)
at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:470)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:300)
at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:859)
at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:588)
at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:489)
at java.lang.Thread.run(Thread.java:679)
2012-08-14 16:53:35,831 [http-8080-1] ERROR org.apache.turbine.services.velocity.TurbineVelocityService - Class java.util.ArrayList.get threw Exception
java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
at java.util.ArrayList.rangeCheck(ArrayList.java:571)
at java.util.ArrayList.get(ArrayList.java:349)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:616)
at org.apache.velocity.runtime.parser.node.ASTMethod.execute(ASTMethod.java:260)
at org.apache.velocity.runtime.parser.node.ASTReference.execute(ASTReference.java:207)
at org.apache.velocity.runtime.parser.node.ASTReference.value(ASTReference.java:357)
at org.apache.velocity.runtime.parser.node.ASTSetDirective.render(ASTSetDirective.java:135)
at org.apache.velocity.runtime.parser.node.SimpleNode.render(SimpleNode.java:271)
at org.apache.velocity.Template.merge(Template.java:296)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:492)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:461)
at org.apache.turbine.services.velocity.TurbineVelocityService.executeRequest(TurbineVelocityService.java:415)
at org.apache.turbine.services.velocity.TurbineVelocityService.handleRequest(TurbineVelocityService.java:281)
at org.apache.turbine.services.velocity.TurbineVelocity.handleRequest(TurbineVelocity.java:71)
at org.apache.turbine.modules.screens.VelocityScreen.buildTemplate(VelocityScreen.java:119)
at org.apache.turbine.modules.screens.TemplateScreen.doBuild(TemplateScreen.java:101)
at org.apache.turbine.modules.Screen.build(Screen.java:57)
at org.apache.turbine.modules.ScreenLoader.eval(ScreenLoader.java:104)
at org.apache.turbine.modules.layouts.VelocityOnlyLayout.doBuild(VelocityOnlyLayout.java:92)
at org.apache.turbine.modules.Layout.build(Layout.java:53)
at org.apache.turbine.modules.LayoutLoader.exec(LayoutLoader.java:98)
at org.apache.turbine.modules.pages.DefaultPage.doBuild(DefaultPage.java:146)
at org.apache.turbine.modules.Page.build(Page.java:53)
at org.apache.turbine.modules.PageLoader.exec(PageLoader.java:98)
at org.apache.turbine.Turbine.doGet(Turbine.java:751)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:617)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.nrg.xnat.restlet.util.UpdateExpirationCookie.doFilter(UpdateExpirationCookie.java:101)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:368)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:109)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:83)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:97)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:100)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:78)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatArcSpecFilter.doFilter(XnatArcSpecFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:54)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatBasicAuthenticationFilter.doFilter(XnatBasicAuthenticationFilter.java:127)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AbstractAuthenticationProcessingFilter.doFilter(AbstractAuthenticationProcessingFilter.java:187)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:105)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatExpiredPasswordFilter.doFilter(XnatExpiredPasswordFilter.java:40)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:79)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.ConcurrentSessionFilter.doFilter(ConcurrentSessionFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.channel.ChannelProcessingFilter.doFilter(ChannelProcessingFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:169)
at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:470)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:300)
at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:859)
at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:588)
at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:489)
at java.lang.Thread.run(Thread.java:679)
I also had trouble on PUT calls for the subjects level and experiment level, so I have to manually create those through the interface. Then I would be able to PUT a reconstruction:
xnat@xnat2012:~$ curl -X PUT -u admin:admin "http://localhost:8080/xnat/data/archive/projects/test1/subjects/555555/experiments/1/reconstructions/something/"
xnat@xnat2012:/var/lib/tomcat6/webapps/xnat/logs$ cat velocity.log
2012-08-14 16:49:58,038 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:49:58,038 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:49:58,088 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:50:02,383 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:02,439 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:50:04,614 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,630 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,636 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,637 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,637 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:50:04,642 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:35,843 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:53:35,843 [http-8080-1] ERROR velocity - VMProxyArg.setObject() : Programmer error : I am a constant! No setting! : dataType / "xnat:projectData"
2012-08-14 16:53:35,891 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:53:45,378 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:45,444 [http-8080-1] ERROR velocity - Left side ($om.getItem().getGenericSchemaElement().getPrimaryElements().indexOf("xnat:experimentData")) of '!=' operation has null value. Operation not possible. navigations//Breadcrumb.vm [line 177, column 102]
2012-08-14 16:53:56,248 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,269 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,277 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,277 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,278 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 16:53:56,278 [http-8080-1] ERROR velocity - #parse() error : null argument
2012-08-14 17:23:04,815 [http-8080-1] ERROR velocity - Left side ($data.getSession().getAttribute("user").getUsername()) of '==' operation has null value. If a reference, it may not be in the context. Operation not possible. navigations//NoMenuTop.vm [line 8, column 64]
xnat@xnat2012:/var/lib/tomcat6/webapps/xnat/logs$ cat turbine.log
2012-08-14 16:49:58,024 [http-8080-1] ERROR org.apache.turbine.services.velocity.TurbineVelocityService - Class java.util.ArrayList.get threw Exception
java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
at java.util.ArrayList.rangeCheck(ArrayList.java:571)
at java.util.ArrayList.get(ArrayList.java:349)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:616)
at org.apache.velocity.runtime.parser.node.ASTMethod.execute(ASTMethod.java:260)
at org.apache.velocity.runtime.parser.node.ASTReference.execute(ASTReference.java:207)
at org.apache.velocity.runtime.parser.node.ASTReference.value(ASTReference.java:357)
at org.apache.velocity.runtime.parser.node.ASTSetDirective.render(ASTSetDirective.java:135)
at org.apache.velocity.runtime.parser.node.SimpleNode.render(SimpleNode.java:271)
at org.apache.velocity.Template.merge(Template.java:296)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:492)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:461)
at org.apache.turbine.services.velocity.TurbineVelocityService.executeRequest(TurbineVelocityService.java:415)
at org.apache.turbine.services.velocity.TurbineVelocityService.handleRequest(TurbineVelocityService.java:281)
at org.apache.turbine.services.velocity.TurbineVelocity.handleRequest(TurbineVelocity.java:71)
at org.apache.turbine.modules.screens.VelocityScreen.buildTemplate(VelocityScreen.java:119)
at org.apache.turbine.modules.screens.TemplateScreen.doBuild(TemplateScreen.java:101)
at org.apache.turbine.modules.Screen.build(Screen.java:57)
at org.apache.turbine.modules.ScreenLoader.eval(ScreenLoader.java:104)
at org.apache.turbine.modules.layouts.VelocityOnlyLayout.doBuild(VelocityOnlyLayout.java:92)
at org.apache.turbine.modules.Layout.build(Layout.java:53)
at org.apache.turbine.modules.LayoutLoader.exec(LayoutLoader.java:98)
at org.apache.turbine.modules.pages.DefaultPage.doBuild(DefaultPage.java:146)
at org.apache.turbine.modules.Page.build(Page.java:53)
at org.apache.turbine.modules.PageLoader.exec(PageLoader.java:98)
at org.apache.turbine.Turbine.doGet(Turbine.java:751)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:617)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.nrg.xnat.restlet.util.UpdateExpirationCookie.doFilter(UpdateExpirationCookie.java:101)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:368)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:109)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:83)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:97)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:100)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:78)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatArcSpecFilter.doFilter(XnatArcSpecFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:54)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatBasicAuthenticationFilter.doFilter(XnatBasicAuthenticationFilter.java:127)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AbstractAuthenticationProcessingFilter.doFilter(AbstractAuthenticationProcessingFilter.java:187)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:105)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatExpiredPasswordFilter.doFilter(XnatExpiredPasswordFilter.java:40)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:79)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.ConcurrentSessionFilter.doFilter(ConcurrentSessionFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.channel.ChannelProcessingFilter.doFilter(ChannelProcessingFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:169)
at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:470)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:300)
at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:859)
at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:588)
at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:489)
at java.lang.Thread.run(Thread.java:679)
2012-08-14 16:53:35,831 [http-8080-1] ERROR org.apache.turbine.services.velocity.TurbineVelocityService - Class java.util.ArrayList.get threw Exception
java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
at java.util.ArrayList.rangeCheck(ArrayList.java:571)
at java.util.ArrayList.get(ArrayList.java:349)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:616)
at org.apache.velocity.runtime.parser.node.ASTMethod.execute(ASTMethod.java:260)
at org.apache.velocity.runtime.parser.node.ASTReference.execute(ASTReference.java:207)
at org.apache.velocity.runtime.parser.node.ASTReference.value(ASTReference.java:357)
at org.apache.velocity.runtime.parser.node.ASTSetDirective.render(ASTSetDirective.java:135)
at org.apache.velocity.runtime.parser.node.SimpleNode.render(SimpleNode.java:271)
at org.apache.velocity.Template.merge(Template.java:296)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:492)
at org.apache.velocity.app.Velocity.mergeTemplate(Velocity.java:461)
at org.apache.turbine.services.velocity.TurbineVelocityService.executeRequest(TurbineVelocityService.java:415)
at org.apache.turbine.services.velocity.TurbineVelocityService.handleRequest(TurbineVelocityService.java:281)
at org.apache.turbine.services.velocity.TurbineVelocity.handleRequest(TurbineVelocity.java:71)
at org.apache.turbine.modules.screens.VelocityScreen.buildTemplate(VelocityScreen.java:119)
at org.apache.turbine.modules.screens.TemplateScreen.doBuild(TemplateScreen.java:101)
at org.apache.turbine.modules.Screen.build(Screen.java:57)
at org.apache.turbine.modules.ScreenLoader.eval(ScreenLoader.java:104)
at org.apache.turbine.modules.layouts.VelocityOnlyLayout.doBuild(VelocityOnlyLayout.java:92)
at org.apache.turbine.modules.Layout.build(Layout.java:53)
at org.apache.turbine.modules.LayoutLoader.exec(LayoutLoader.java:98)
at org.apache.turbine.modules.pages.DefaultPage.doBuild(DefaultPage.java:146)
at org.apache.turbine.modules.Page.build(Page.java:53)
at org.apache.turbine.modules.PageLoader.exec(PageLoader.java:98)
at org.apache.turbine.Turbine.doGet(Turbine.java:751)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:617)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.nrg.xnat.restlet.util.UpdateExpirationCookie.doFilter(UpdateExpirationCookie.java:101)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:368)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:109)
at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:83)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:97)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:100)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:78)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatArcSpecFilter.doFilter(XnatArcSpecFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:54)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:35)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatBasicAuthenticationFilter.doFilter(XnatBasicAuthenticationFilter.java:127)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.AbstractAuthenticationProcessingFilter.doFilter(AbstractAuthenticationProcessingFilter.java:187)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:105)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.nrg.xnat.security.XnatExpiredPasswordFilter.doFilter(XnatExpiredPasswordFilter.java:40)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:79)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.session.ConcurrentSessionFilter.doFilter(ConcurrentSessionFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.access.channel.ChannelProcessingFilter.doFilter(ChannelProcessingFilter.java:109)
at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:380)
at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:169)
at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)
at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:470)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:300)
at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:859)
at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:588)
at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:489)
at java.lang.Thread.run(Thread.java:679)
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