java.lang.IllegalArgumentException: At least one constraint must be defined for the EM algorithm.

Google Groups | Jaeki Hong | 2 years ago
  1. 0

    How should I define EM algorithm in Avocado configuration?

    Google Groups | 2 years ago | Jaeki Hong
    java.lang.IllegalArgumentException: At least one constraint must be defined for the EM algorithm.
  2. 0
    URI part of the request contains invalid characters. You may try to encode the path from the URI. Check RFC7230 and RFC3986 documentation below. https://www.ietf.org/rfc/rfc3986.txt and https://tools.ietf.org/html/rfc7230
  3. 0
    This error is caused by malformed HTTP request. You are trying to access unsecured page through https.
  4. Speed up your debug routine!

    Automated exception search integrated into your IDE

    Not finding the right solution?
    Take a tour to get the most out of Samebug.

    Tired of useless tips?

    Automated exception search integrated into your IDE

    Root Cause Analysis

    1. java.lang.IllegalArgumentException

      At least one constraint must be defined for the EM algorithm.

      at org.bdgenomics.avocado.genotyping.BiallelicGenotyper$.apply()
    2. org.bdgenomics.avocado
      CallGenotypes$$anonfun$apply$1$$anonfun$apply$4.apply
      1. org.bdgenomics.avocado.genotyping.BiallelicGenotyper$.apply(BiallelicGenotyper.scala:72)
      2. org.bdgenomics.avocado.genotyping.GenotyperCompanion$class.apply(Genotyper.scala:38)
      3. org.bdgenomics.avocado.genotyping.BiallelicGenotyper$.apply(BiallelicGenotyper.scala:43)
      4. org.bdgenomics.avocado.genotyping.CallGenotypes$$anonfun$apply$1$$anonfun$apply$4.apply(CallGenotypes.scala:40)
      5. org.bdgenomics.avocado.genotyping.CallGenotypes$$anonfun$apply$1$$anonfun$apply$4.apply(CallGenotypes.scala:40)
      5 frames
    3. Scala
      Option.fold
      1. scala.Option.fold(Option.scala:157)
      1 frame
    4. org.bdgenomics.avocado
      CallGenotypes$$anonfun$apply$1.apply
      1. org.bdgenomics.avocado.genotyping.CallGenotypes$$anonfun$apply$1.apply(CallGenotypes.scala:40)
      2. org.bdgenomics.avocado.genotyping.CallGenotypes$$anonfun$apply$1.apply(CallGenotypes.scala:43)
      2 frames
    5. Spark
      Timer.time
      1. org.apache.spark.rdd.Timer.time(Timer.scala:57)
      1 frame
    6. org.bdgenomics.avocado
      Avocado$$anonfun$callVariants$1.apply
      1. org.bdgenomics.avocado.genotyping.CallGenotypes$.apply(CallGenotypes.scala:36)
      2. org.bdgenomics.avocado.cli.Avocado$$anonfun$callVariants$1.apply(Avocado.scala:154)
      3. org.bdgenomics.avocado.cli.Avocado$$anonfun$callVariants$1.apply(Avocado.scala:148)
      3 frames
    7. Spark
      Timer.time
      1. org.apache.spark.rdd.Timer.time(Timer.scala:57)
      1 frame
    8. org.bdgenomics.avocado
      Avocado.run
      1. org.bdgenomics.avocado.cli.Avocado.callVariants(Avocado.scala:148)
      2. org.bdgenomics.avocado.cli.Avocado.run(Avocado.scala:213)
      2 frames
    9. org.bdgenomics.adam
      ADAMSparkCommand$class.run
      1. org.bdgenomics.adam.cli.ADAMSparkCommand$class.run(ADAMCommand.scala:57)
      1 frame
    10. org.bdgenomics.avocado
      Avocado.run
      1. org.bdgenomics.avocado.cli.Avocado.run(Avocado.scala:81)
      1 frame
    11. org.bdgenomics.adam
      ADAMCommandCompanion$class.main
      1. org.bdgenomics.adam.cli.ADAMCommandCompanion$class.main(ADAMCommand.scala:35)
      1 frame
    12. org.bdgenomics.avocado
      Avocado.main
      1. org.bdgenomics.avocado.cli.Avocado$.main(Avocado.scala:51)
      2. org.bdgenomics.avocado.cli.Avocado.main(Avocado.scala)
      2 frames
    13. Java RT
      Method.invoke
      1. sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
      2. sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
      3. sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
      4. java.lang.reflect.Method.invoke(Method.java:606)
      4 frames
    14. Spark
      SparkSubmit.main
      1. org.apache.spark.deploy.SparkSubmit$.launch(SparkSubmit.scala:358)
      2. org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:75)
      3. org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
      3 frames