java.lang.NoClassDefFoundError: Could not initialize class edu.arizona.sista.reach.grounding.ReachKBKeyTransforms$

GitHub | GullyAPCBurns | 9 months ago
  1. 0

    Error when running latest versions of REACH on MITRE assembly documents (running remotely on CMU machines)

    GitHub | 9 months ago | GullyAPCBurns
    java.lang.NoClassDefFoundError: Could not initialize class edu.arizona.sista.reach.grounding.ReachKBKeyTransforms$
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    java.lang.NoClassDefFoundError: Could not initialize class
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    java.lang.NoClassDefFoundError: Could not initialize class
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    maven repo and 5.0-X version

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    java.lang.NoClassDefFoundError: Could not initialize class

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    Root Cause Analysis

    1. java.lang.NoClassDefFoundError

      Could not initialize class edu.arizona.sista.reach.grounding.ReachKBKeyTransforms$

      at edu.arizona.sista.reach.grounding.IMKBProteinMentionLookup.resolve()
    2. edu.arizona.sista
      ReachEntityLookup$$anonfun$augmentMention$1.apply
      1. edu.arizona.sista.reach.grounding.IMKBProteinMentionLookup.resolve(IMKBProteinMentionLookup.scala:22)
      2. edu.arizona.sista.reach.grounding.ReachEntityLookup$$anonfun$augmentMention$1.apply(ReachEntityLookup.scala:57)
      3. edu.arizona.sista.reach.grounding.ReachEntityLookup$$anonfun$augmentMention$1.apply(ReachEntityLookup.scala:56)
      3 frames
    3. Scala
      List.foreach
      1. scala.collection.immutable.List.foreach(List.scala:381)
      1 frame
    4. edu.arizona.sista
      ReachEntityLookup$$anonfun$apply$1.apply
      1. edu.arizona.sista.reach.grounding.ReachEntityLookup.augmentMention(ReachEntityLookup.scala:56)
      2. edu.arizona.sista.reach.grounding.ReachEntityLookup.edu$arizona$sista$reach$grounding$ReachEntityLookup$$resolveMention(ReachEntityLookup.scala:46)
      3. edu.arizona.sista.reach.grounding.ReachEntityLookup$$anonfun$apply$1.apply(ReachEntityLookup.scala:24)
      4. edu.arizona.sista.reach.grounding.ReachEntityLookup$$anonfun$apply$1.apply(ReachEntityLookup.scala:23)
      4 frames
    5. Scala
      AbstractTraversable.map
      1. scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:245)
      2. scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:245)
      3. scala.collection.Iterator$class.foreach(Iterator.scala:750)
      4. scala.collection.AbstractIterator.foreach(Iterator.scala:1202)
      5. scala.collection.IterableLike$class.foreach(IterableLike.scala:72)
      6. scala.collection.AbstractIterable.foreach(Iterable.scala:54)
      7. scala.collection.TraversableLike$class.map(TraversableLike.scala:245)
      8. scala.collection.AbstractTraversable.map(Traversable.scala:104)
      8 frames
    6. edu.arizona.sista
      ReachSystem$$anonfun$2.apply
      1. edu.arizona.sista.reach.grounding.ReachEntityLookup.apply(ReachEntityLookup.scala:23)
      2. edu.arizona.sista.reach.ReachSystem.extractEntitiesFrom(ReachSystem.scala:114)
      3. edu.arizona.sista.reach.ReachSystem$$anonfun$2.apply(ReachSystem.scala:65)
      4. edu.arizona.sista.reach.ReachSystem$$anonfun$2.apply(ReachSystem.scala:65)
      4 frames
    7. Scala
      AbstractTraversable.map
      1. scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:245)
      2. scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:245)
      3. scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
      4. scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
      5. scala.collection.TraversableLike$class.map(TraversableLike.scala:245)
      6. scala.collection.AbstractTraversable.map(Traversable.scala:104)
      6 frames
    8. edu.arizona.sista
      ReachCLI$$anonfun$processPapers$2.apply
      1. edu.arizona.sista.reach.ReachSystem.extractFrom(ReachSystem.scala:65)
      2. edu.arizona.sista.reach.ReachCLI$$anonfun$processPapers$2.apply(ReachCLI.scala:114)
      3. edu.arizona.sista.reach.ReachCLI$$anonfun$processPapers$2.apply(ReachCLI.scala:50)
      3 frames
    9. Scala
      ForkJoinWorkerThread.run
      1. scala.collection.parallel.mutable.ParArray$ParArrayIterator.foreach_quick(ParArray.scala:143)
      2. scala.collection.parallel.mutable.ParArray$ParArrayIterator.foreach(ParArray.scala:136)
      3. scala.collection.parallel.ParIterableLike$Foreach.leaf(ParIterableLike.scala:972)
      4. scala.collection.parallel.Task$$anonfun$tryLeaf$1.apply$mcV$sp(Tasks.scala:49)
      5. scala.collection.parallel.Task$$anonfun$tryLeaf$1.apply(Tasks.scala:48)
      6. scala.collection.parallel.Task$$anonfun$tryLeaf$1.apply(Tasks.scala:48)
      7. scala.collection.parallel.Task$class.tryLeaf(Tasks.scala:51)
      8. scala.collection.parallel.ParIterableLike$Foreach.tryLeaf(ParIterableLike.scala:969)
      9. scala.collection.parallel.AdaptiveWorkStealingTasks$WrappedTask$class.internal(Tasks.scala:159)
      10. scala.collection.parallel.AdaptiveWorkStealingForkJoinTasks$WrappedTask.internal(Tasks.scala:443)
      11. scala.collection.parallel.AdaptiveWorkStealingTasks$WrappedTask$class.compute(Tasks.scala:149)
      12. scala.collection.parallel.AdaptiveWorkStealingForkJoinTasks$WrappedTask.compute(Tasks.scala:443)
      13. scala.concurrent.forkjoin.RecursiveAction.exec(RecursiveAction.java:160)
      14. scala.concurrent.forkjoin.ForkJoinTask.doExec(ForkJoinTask.java:260)
      15. scala.concurrent.forkjoin.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1339)
      16. scala.concurrent.forkjoin.ForkJoinPool.runWorker(ForkJoinPool.java:1979)
      17. scala.concurrent.forkjoin.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:107)
      17 frames