java.lang.IllegalStateException: Could not read the fastaFileInputStream.

GitHub | yoyohashao | 3 months ago
  1. 0

    ERROR:Is there something wrong with my JVM?

    GitHub | 3 months ago | yoyohashao
    java.lang.IllegalStateException: Could not read the fastaFileInputStream.
  2. 0

    An unknown error occurred while attempting to perform this command

    GitHub | 2 years ago | tech-boy101
    java.io.IOException: The handle is invalid
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  4. 0

    /help menu bug?

    GitHub | 2 years ago | gofirst2220
    java.io.IOException: The handle is invalid
  5. 0

    Stream closed exception in logs

    GitHub | 2 years ago | yegor256
    java.lang.IllegalArgumentException: java.io.IOException: Stream closed

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    Root Cause Analysis

    1. java.io.IOException

      Is a directory

      at sun.nio.ch.FileDispatcherImpl.read0()
    2. Java RT
      BufferedReader.readLine
      1. sun.nio.ch.FileDispatcherImpl.read0(Native Method)
      2. sun.nio.ch.FileDispatcherImpl.read(FileDispatcherImpl.java:46)
      3. sun.nio.ch.IOUtil.readIntoNativeBuffer(IOUtil.java:223)
      4. sun.nio.ch.IOUtil.read(IOUtil.java:197)
      5. sun.nio.ch.FileChannelImpl.read(FileChannelImpl.java:159)
      6. sun.nio.ch.ChannelInputStream.read(ChannelInputStream.java:65)
      7. sun.nio.ch.ChannelInputStream.read(ChannelInputStream.java:109)
      8. sun.nio.ch.ChannelInputStream.read(ChannelInputStream.java:103)
      9. sun.nio.cs.StreamDecoder.readBytes(StreamDecoder.java:284)
      10. sun.nio.cs.StreamDecoder.implRead(StreamDecoder.java:326)
      11. sun.nio.cs.StreamDecoder.read(StreamDecoder.java:178)
      12. java.io.InputStreamReader.read(InputStreamReader.java:184)
      13. java.io.BufferedReader.fill(BufferedReader.java:161)
      14. java.io.BufferedReader.readLine(BufferedReader.java:324)
      15. java.io.BufferedReader.readLine(BufferedReader.java:389)
      15 frames
    3. uk.ac.ebi
      LoadFastaFileImpl.loadSequences
      1. uk.ac.ebi.interpro.scan.business.sequence.fasta.LoadFastaFileImpl.loadSequences(LoadFastaFileImpl.java:62)
      1 frame
    4. Java RT
      Method.invoke
      1. sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
      2. sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
      3. sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
      4. java.lang.reflect.Method.invoke(Method.java:498)
      4 frames
    5. Spring AOP
      ReflectiveMethodInvocation.proceed
      1. org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:302)
      2. org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:190)
      3. org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:157)
      3 frames
    6. Spring Tx
      TransactionInterceptor.invoke
      1. org.springframework.transaction.interceptor.TransactionInterceptor$1.proceedWithInvocation(TransactionInterceptor.java:99)
      2. org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:281)
      3. org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:96)
      3 frames
    7. Spring AOP
      JdkDynamicAopProxy.invoke
      1. org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
      2. org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207)
      2 frames
    8. com.sun.proxy
      $Proxy93.loadSequences
      1. com.sun.proxy.$Proxy93.loadSequences(Unknown Source)
      1 frame
    9. uk.ac.ebi
      StepExecutionTransactionImpl.executeInTransaction
      1. uk.ac.ebi.interpro.scan.management.model.implementations.stepInstanceCreation.proteinLoad.FastaFileLoadStep.execute(FastaFileLoadStep.java:245)
      2. uk.ac.ebi.interpro.scan.jms.activemq.StepExecutionTransactionImpl.executeInTransaction(StepExecutionTransactionImpl.java:86)
      2 frames
    10. Java RT
      Method.invoke
      1. sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
      2. sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
      3. sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
      4. java.lang.reflect.Method.invoke(Method.java:498)
      4 frames
    11. Spring AOP
      ReflectiveMethodInvocation.proceed
      1. org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:302)
      2. org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:190)
      3. org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:157)
      3 frames
    12. Spring Tx
      TransactionInterceptor.invoke
      1. org.springframework.transaction.interceptor.TransactionInterceptor$1.proceedWithInvocation(TransactionInterceptor.java:99)
      2. org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:281)
      3. org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:96)
      3 frames
    13. Spring AOP
      JdkDynamicAopProxy.invoke
      1. org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
      2. org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207)
      2 frames
    14. com.sun.proxy
      $Proxy96.executeInTransaction
      1. com.sun.proxy.$Proxy96.executeInTransaction(Unknown Source)
      1 frame
    15. uk.ac.ebi
      LocalJobQueueListener.onMessage
      1. uk.ac.ebi.interpro.scan.jms.worker.LocalJobQueueListener.onMessage(LocalJobQueueListener.java:189)
      1 frame
    16. Spring Framework
      DefaultMessageListenerContainer$AsyncMessageListenerInvoker.run
      1. org.springframework.jms.listener.AbstractMessageListenerContainer.doInvokeListener(AbstractMessageListenerContainer.java:746)
      2. org.springframework.jms.listener.AbstractMessageListenerContainer.invokeListener(AbstractMessageListenerContainer.java:684)
      3. org.springframework.jms.listener.AbstractMessageListenerContainer.doExecuteListener(AbstractMessageListenerContainer.java:651)
      4. org.springframework.jms.listener.AbstractPollingMessageListenerContainer.doReceiveAndExecute(AbstractPollingMessageListenerContainer.java:315)
      5. org.springframework.jms.listener.AbstractPollingMessageListenerContainer.receiveAndExecute(AbstractPollingMessageListenerContainer.java:253)
      6. org.springframework.jms.listener.DefaultMessageListenerContainer$AsyncMessageListenerInvoker.invokeListener(DefaultMessageListenerContainer.java:1150)
      7. org.springframework.jms.listener.DefaultMessageListenerContainer$AsyncMessageListenerInvoker.executeOngoingLoop(DefaultMessageListenerContainer.java:1142)
      8. org.springframework.jms.listener.DefaultMessageListenerContainer$AsyncMessageListenerInvoker.run(DefaultMessageListenerContainer.java:1039)
      8 frames
    17. Java RT
      Thread.run
      1. java.lang.Thread.run(Thread.java:745)
      1 frame