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VEuPathDB / EdaNewIssues

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Mbio compute visualizations all 500 #655

Closed asizemore closed 12 months ago

asizemore commented 1 year ago

For all visualizations that are part of a compute (alpha div, beta div, ranked abund), the computation succeeds just fine but when we go to create the visualization, we see:

Screen Shot 2023-06-30 at 6 18 46 AM

This affects all studies.

Looks like its a compute service thing. The /meta endpoint gives a 500. Rserve is definitely writing the file.

Here's the compute service output

2023-06-30 07:09:01.329 [rid:     ][jid:][p:] WARN  ErrorMapper:65 - Caught Exception:
 jakarta.ws.rs.InternalServerErrorException: HTTP 500 Internal Server Error
    at org.glassfish.jersey.server.internal.MappableExceptionWrapperInterceptor.aroundWriteTo(MappableExceptionWrapperInterceptor.java:65) ~[service.jar:1.0.0]
    at org.glassfish.jersey.message.internal.WriterInterceptorExecutor.proceed(WriterInterceptorExecutor.java:139) ~[service.jar:1.0.0]
    at org.veupathdb.lib.container.jaxrs.server.middleware.PrometheusFilter.aroundWriteTo(PrometheusFilter.java:111) ~[service.jar:1.0.0]
    at org.glassfish.jersey.message.internal.WriterInterceptorExecutor.proceed(WriterInterceptorExecutor.java:139) ~[service.jar:1.0.0]
    at org.veupathdb.lib.container.jaxrs.server.middleware.RequestIdFilter.aroundWriteTo(RequestIdFilter.java:70) ~[service.jar:1.0.0]
    at org.glassfish.jersey.message.internal.WriterInterceptorExecutor.proceed(WriterInterceptorExecutor.java:139) ~[service.jar:1.0.0]
    at org.glassfish.jersey.message.internal.MessageBodyFactory.writeTo(MessageBodyFactory.java:1116) ~[service.jar:1.0.0]
    at org.glassfish.jersey.server.ServerRuntime$Responder.writeResponse(ServerRuntime.java:677) [service.jar:1.0.0]
    at org.glassfish.jersey.server.ServerRuntime$Responder.processResponse(ServerRuntime.java:385) [service.jar:1.0.0]
    at org.glassfish.jersey.server.ServerRuntime$Responder.process(ServerRuntime.java:375) [service.jar:1.0.0]
    at org.glassfish.jersey.server.ServerRuntime$1.run(ServerRuntime.java:264) [service.jar:1.0.0]
    at org.glassfish.jersey.internal.Errors$1.call(Errors.java:248) [service.jar:1.0.0]
    at org.glassfish.jersey.internal.Errors$1.call(Errors.java:244) [service.jar:1.0.0]
    at org.glassfish.jersey.internal.Errors.process(Errors.java:292) [service.jar:1.0.0]
    at org.glassfish.jersey.internal.Errors.process(Errors.java:274) [service.jar:1.0.0]
    at org.glassfish.jersey.internal.Errors.process(Errors.java:244) [service.jar:1.0.0]
    at org.glassfish.jersey.process.internal.RequestScope.runInScope(RequestScope.java:265) [service.jar:1.0.0]
    at org.glassfish.jersey.server.ServerRuntime.process(ServerRuntime.java:240) [service.jar:1.0.0]
    at org.glassfish.jersey.server.ApplicationHandler.handle(ApplicationHandler.java:697) [service.jar:1.0.0]
    at org.glassfish.jersey.grizzly2.httpserver.GrizzlyHttpContainer.service(GrizzlyHttpContainer.java:367) [service.jar:1.0.0]
    at org.glassfish.grizzly.http.server.HttpHandler$1.run(HttpHandler.java:190) [service.jar:1.0.0]
    at org.glassfish.grizzly.threadpool.AbstractThreadPool$Worker.doWork(AbstractThreadPool.java:535) [service.jar:1.0.0]
    at org.glassfish.grizzly.threadpool.AbstractThreadPool$Worker.run(AbstractThreadPool.java:515) [service.jar:1.0.0]
    at java.lang.Thread.run(Thread.java:833) [?:?]
Caused by: org.glassfish.jersey.message.internal.MessageBodyProviderNotFoundException: MessageBodyWriter not found for media type=text/plain, type=class org.veupathdb.service.eda.compute.controller.ComputeController$$Lambda$573/0x00000008012d5d98, genericType=class org.veupathdb.service.eda.compute.controller.ComputeController$$Lambda$573/0x00000008012d5d98.
    at org.glassfish.jersey.message.internal.WriterInterceptorExecutor$TerminalWriterInterceptor.aroundWriteTo(WriterInterceptorExecutor.java:224) ~[service.jar:1.0.0]
    at org.glassfish.jersey.message.internal.WriterInterceptorExecutor.proceed(WriterInterceptorExecutor.java:139) ~[service.jar:1.0.0]
    at org.glassfish.jersey.server.internal.JsonWithPaddingInterceptor.aroundWriteTo(JsonWithPaddingInterceptor.java:85) ~[service.jar:1.0.0]
    at org.glassfish.jersey.message.internal.WriterInterceptorExecutor.proceed(WriterInterceptorExecutor.java:139) ~[service.jar:1.0.0]
    at org.glassfish.jersey.server.internal.MappableExceptionWrapperInterceptor.aroundWriteTo(MappableExceptionWrapperInterceptor.java:61) ~[service.jar:1.0.0]
    ... 23 more
2023-06-30 07:09:01.330 [rid:     ][jid:][p:] WARN  PrometheusFilter:136 - Request end: POST /computes/rankedabundance/meta 500
asizemore commented 12 months ago

this has been fixed. closing