java.lang.ArrayStoreException: org.bdgenomics.formats.avro.Genotype

GitHub | heuermh | 3 weeks ago
  1. 0

    GitHub comment 1336#270691995

    GitHub | 3 weeks ago | heuermh
    org.apache.spark.SparkException: Job aborted due to stage failure: Task 1 in stage 0.0 failed 1 times, most recent failure: Lost task 1.0 in stage 0.0 (TID 1, localhost): java.lang.ArrayStoreException: org.bdgenomics.formats.avro.Genotype
  2. 0

    Apache Spark User List - Flatten list

    nabble.com | 1 year ago
    org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 37.0 failed 1 times, most recent failure: Lost task 0.0 in stage 37.0 (TID 73, localhost): java.lang.ArrayStoreException: org.apache.spark.sql.catalyst.expressions.GenericRowWithSchema

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    Root Cause Analysis

    1. java.lang.ArrayStoreException

      org.bdgenomics.formats.avro.Genotype

      at scala.runtime.ScalaRunTime$.array_update()
    2. Scala
      AbstractIterator.toArray
      1. scala.runtime.ScalaRunTime$.array_update(ScalaRunTime.scala:88)
      2. scala.Array$.slowcopy(Array.scala:81)
      3. scala.Array$.copy(Array.scala:107)
      4. scala.collection.mutable.ResizableArray$class.copyToArray(ResizableArray.scala:77)
      5. scala.collection.mutable.ArrayBuffer.copyToArray(ArrayBuffer.scala:47)
      6. scala.collection.TraversableOnce$class.copyToArray(TraversableOnce.scala:241)
      7. scala.collection.AbstractTraversable.copyToArray(Traversable.scala:105)
      8. scala.collection.TraversableOnce$class.toArray(TraversableOnce.scala:249)
      9. scala.collection.AbstractTraversable.toArray(Traversable.scala:105)
      10. scala.collection.TraversableOnce$class.toArray(TraversableOnce.scala:252)
      11. scala.collection.AbstractIterator.toArray(Iterator.scala:1157)
      11 frames
    3. Spark
      Executor$TaskRunner.run
      1. org.apache.spark.rdd.RDD$$anonfun$collect$1$$anonfun$12.apply(RDD.scala:927)
      2. org.apache.spark.rdd.RDD$$anonfun$collect$1$$anonfun$12.apply(RDD.scala:927)
      3. org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1858)
      4. org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1858)
      5. org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:66)
      6. org.apache.spark.scheduler.Task.run(Task.scala:89)
      7. org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:227)
      7 frames
    4. Java RT
      Thread.run
      1. java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
      2. java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
      3. java.lang.Thread.run(Thread.java:745)
      3 frames