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PavlidisLab / Gemma

Genomics data re-analysis
Apache License 2.0
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java.io.IOException: Created but could not read? java.io.IOException: Created but could not read? #246

Closed arteymix closed 3 weeks ago

arteymix commented 3 years ago 
ERROR ubic.gemma.web.controller.expression.arrayDesign.ArrayDesignControllerImpl.downloadAnnotationFile(216) | java.io.IOException: Created but could not read?
java.io.IOException: Created but could not read?
        at ubic.gemma.web.controller.expression.arrayDesign.ArrayDesignControllerImpl.downloadAnnotationFile(ArrayDesignControllerImpl.java:213)
        at sun.reflect.GeneratedMethodAccessor5546.invoke(Unknown Source)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:498)
        at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:317)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:183)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:166)
        at org.springframework.aop.interceptor.ExposeInvocationInterceptor.invoke(ExposeInvocationInterceptor.java:91)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:204)
        at com.sun.proxy.$Proxy697.downloadAnnotationFile(Unknown Source)
        at sun.reflect.GeneratedMethodAccessor5545.invoke(Unknown Source)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:498)
        at org.springframework.web.bind.annotation.support.HandlerMethodInvoker.invokeHandlerMethod(HandlerMethodInvoker.java:176)
        at org.springframework.web.servlet.mvc.annotation.AnnotationMethodHandlerAdapter.invokeHandlerMethod(AnnotationMethodHandlerAdapter.java:440)
        at org.springframework.web.servlet.mvc.annotation.AnnotationMethodHandlerAdapter.handle(AnnotationMethodHandlerAdapter.java:428)
        at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:933)
        at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:867)
        at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:951)
        at org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:842)
        at javax.servlet.http.HttpServlet.service(HttpServlet.java:655)
        at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:827)
        at javax.servlet.http.HttpServlet.service(HttpServlet.java:764)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231)
arteymix commented 2 years ago

This has been coming up recently, and we will need it for the RESTful API gene annotation endpoint.

@oganm have you noticed any issues downloading gene annotations on your side for certain platforms?

arteymix commented 2 years ago

More information is needed to reproduce this error. I've made some improvements in 0708662 to better address this issue.