java.lang.IllegalStateException: Taxon [] already exists in the HDF5 file. Dupl icated taxa not allowed.

Google Groups | Marlee Labroo | 5 months ago
  1. 0

    error: number of sites and genotypes do not agree

    Google Groups | 5 months ago | Marlee Labroo
    java.lang.IllegalStateException: Taxon [] already exists in the HDF5 file. Dupl icated taxa not allowed.
  2. 0
    Check if there is no nexus running. If not, delete sonatype-work/nexus/nexus.lock .
  3. 0
    The application is unable to connect to the database. It could be resolved by configuring access privileges on the database side.
  4. Speed up your debug routine!

    Automated exception search integrated into your IDE

  5. 0
    Upgrade sbt-dependency-graph to 0.8.2 or later.
  6. 0
    Execute mvn dependency:tree from your project's root directory.

    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.IllegalStateException

      Taxon [] already exists in the HDF5 file. Dupl icated taxa not allowed.

      at net.maizegenetics.dna.snp.GenotypeTableBuilder.addTaxon()
    2. net.maizegenetics.dna
      GenotypeTableBuilder.addTaxon
      1. net.maizegenetics.dna.snp.GenotypeTableBuilder.addTaxon(GenotypeTableBuilder.java:743)
      2. net.maizegenetics.dna.snp.GenotypeTableBuilder.addTaxon(GenotypeTableBuilder.java:575)
      2 frames
    3. net.maizegenetics.analysis
      ProductionSNPCallerPluginV2.lambda$processData$105
      1. net.maizegenetics.analysis.gbs.v2.ProductionSNPCallerPluginV2.callGenotypes(ProductionSNPCallerPluginV2.java:294)
      2. net.maizegenetics.analysis.gbs.v2.ProductionSNPCallerPluginV2.lambda$processData$105(ProductionSNPCallerPluginV2.java:264)
      2 frames
    4. Java RT
      ReferencePipeline$Head.forEach
      1. java.util.Iterator.forEachRemaining(Unknown Source)
      2. java.util.Spliterators$IteratorSpliterator.forEachRemaining(Unknown Source)
      3. java.util.stream.ReferencePipeline$Head.forEach(Unknown Source)
      3 frames
    5. net.maizegenetics.analysis
      ProductionSNPCallerPluginV2.processData
      1. net.maizegenetics.analysis.gbs.v2.ProductionSNPCallerPluginV2.processData(ProductionSNPCallerPluginV2.java:263)
      1 frame
    6. net.maizegenetics.plugindef
      ThreadedPluginListener.run
      1. net.maizegenetics.plugindef.AbstractPlugin.performFunction(AbstractPlugin.java:110)
      2. net.maizegenetics.plugindef.AbstractPlugin.dataSetReturned(AbstractPlugin.java:1645)
      3. net.maizegenetics.plugindef.ThreadedPluginListener.run(ThreadedPluginListener.java:29)
      3 frames
    7. Java RT
      Thread.run
      1. java.util.concurrent.Executors$RunnableAdapter.call(Unknown Source)
      2. java.util.concurrent.FutureTask.run(Unknown Source)
      3. java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
      4. java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
      5. java.lang.Thread.run(Unknown Source)[pool-1-thread-1]
      5 frames