org.bdgenomics.formats.avro.Genotype

Google Groups | someya sayeh | 8 months ago
  1. 0

    adam2vcf

    Google Groups | 8 months ago | someya sayeh
    org.bdgenomics.formats.avro.Genotype

    Root Cause Analysis

    1. org.bdgenomics.formats.avro.Genotype

      No message provided

      at org.bdgenomics.adam.rdd.variation.GenotypeRDDFunctions$$anonfun$10.apply()
    2. org.bdgenomics.adam
      GenotypeRDDFunctions$$anonfun$10.apply
      1. org.bdgenomics.adam.rdd.variation.GenotypeRDDFunctions$$anonfun$10.apply(VariationRDDFunctions.scala:153)
      1 frame
    3. Spark
      RDD$$anonfun$keyBy$1.apply
      1. org.apache.spark.rdd.RDD$$anonfun$keyBy$1.apply(RDD.scala:1324)
      2. org.apache.spark.rdd.RDD$$anonfun$keyBy$1.apply(RDD.scala:1324)
      2 frames
    4. Scala
      Iterator$$anon$11.next
      1. scala.collection.Iterator$$anon$11.next(Iterator.scala:328)
      2. scala.collection.Iterator$$anon$11.next(Iterator.scala:328)
      2 frames
    5. Spark
      Executor$TaskRunner.run
      1. org.apache.spark.util.collection.ExternalSorter.spillToPartitionFiles(ExternalSorter.scala:371)
      2. org.apache.spark.util.collection.ExternalSorter.insertAll(ExternalSorter.scala:211)
      3. org.apache.spark.shuffle.sort.SortShuffleWriter.write(SortShuffleWriter.scala:63)
      4. org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:68)
      5. org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:41)
      6. org.apache.spark.scheduler.Task.run(Task.scala:64)
      7. org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:203)
      7 frames
    6. Java RT
      Thread.run
      1. java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
      2. java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
      3. java.lang.Thread.run(Thread.java:745)
      3 frames