Failed

org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call het alt TTATA,TTA->T insertion at 1/5274547

Failing for the past 1 build (Since Failed#220 )
Took 0.29 sec.

Error Message

Class not found

Stacktrace

      java.io.IOException: Class not found
      at org.apache.xbean.asm5.ClassReader.a(Unknown Source)
      at org.apache.xbean.asm5.ClassReader.<init>(Unknown Source)
      at org.apache.spark.util.ClosureCleaner$.getClassReader(ClosureCleaner.scala:42)
      at org.apache.spark.util.ClosureCleaner$.getInnerClosureClasses(ClosureCleaner.scala:83)
      at org.apache.spark.util.ClosureCleaner$.org$apache$spark$util$ClosureCleaner$$clean(ClosureCleaner.scala:173)
      at org.apache.spark.util.ClosureCleaner$.clean(ClosureCleaner.scala:108)
      at org.apache.spark.SparkContext.clean(SparkContext.scala:2094)
      at org.apache.spark.rdd.RDD$$anonfun$map$1.apply(RDD.scala:370)
      at org.apache.spark.rdd.RDD$$anonfun$map$1.apply(RDD.scala:369)
      at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
      at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112)
      at org.apache.spark.rdd.RDD.withScope(RDD.scala:362)
      at org.apache.spark.rdd.RDD.map(RDD.scala:369)
      at org.bdgenomics.adam.rdd.ADAMContext$$anonfun$loadBam$1.apply(ADAMContext.scala:1509)
      at org.bdgenomics.adam.rdd.ADAMContext$$anonfun$loadBam$1.apply(ADAMContext.scala:1446)
      at scala.Option.fold(Option.scala:157)
      at org.apache.spark.rdd.Timer.time(Timer.scala:48)
      at org.bdgenomics.adam.rdd.ADAMContext.loadBam(ADAMContext.scala:1446)
      at org.bdgenomics.adam.rdd.ADAMContext$$anonfun$loadAlignments$1.apply(ADAMContext.scala:2904)
      at org.bdgenomics.adam.rdd.ADAMContext$$anonfun$loadAlignments$1.apply(ADAMContext.scala:2895)
      at scala.Option.fold(Option.scala:157)
      at org.apache.spark.rdd.Timer.time(Timer.scala:48)
      at org.bdgenomics.adam.rdd.ADAMContext.loadAlignments(ADAMContext.scala:2895)
      at org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite$$anonfun$36.apply$mcV$sp(BiallelicGenotyperSuite.scala:782)
      at org.bdgenomics.utils.misc.SparkFunSuite$$anonfun$sparkTest$1.apply$mcV$sp(SparkFunSuite.scala:102)
      at org.bdgenomics.utils.misc.SparkFunSuite$$anonfun$sparkTest$1.apply(SparkFunSuite.scala:98)
      at org.bdgenomics.utils.misc.SparkFunSuite$$anonfun$sparkTest$1.apply(SparkFunSuite.scala:98)
      at org.scalatest.Transformer$$anonfun$apply$1.apply$mcV$sp(Transformer.scala:22)
      at org.scalatest.OutcomeOf$class.outcomeOf(OutcomeOf.scala:85)
      at org.scalatest.OutcomeOf$.outcomeOf(OutcomeOf.scala:104)
      at org.scalatest.Transformer.apply(Transformer.scala:22)
      at org.scalatest.Transformer.apply(Transformer.scala:20)
      at org.scalatest.FunSuiteLike$$anon$1.apply(FunSuiteLike.scala:166)
      at org.scalatest.Suite$class.withFixture(Suite.scala:1122)
      at org.scalatest.FunSuite.withFixture(FunSuite.scala:1555)
      at org.scalatest.FunSuiteLike$class.invokeWithFixture$1(FunSuiteLike.scala:163)
      at org.scalatest.FunSuiteLike$$anonfun$runTest$1.apply(FunSuiteLike.scala:175)
      at org.scalatest.FunSuiteLike$$anonfun$runTest$1.apply(FunSuiteLike.scala:175)
      at org.scalatest.SuperEngine.runTestImpl(Engine.scala:306)
      at org.scalatest.FunSuiteLike$class.runTest(FunSuiteLike.scala:175)
      at org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.org$scalatest$BeforeAndAfter$$super$runTest(BiallelicGenotyperSuite.scala:43)
      at org.scalatest.BeforeAndAfter$class.runTest(BeforeAndAfter.scala:200)
      at org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.runTest(BiallelicGenotyperSuite.scala:43)
      at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:208)
      at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:208)
      at org.scalatest.SuperEngine$$anonfun$traverseSubNodes$1$1.apply(Engine.scala:413)
      at org.scalatest.SuperEngine$$anonfun$traverseSubNodes$1$1.apply(Engine.scala:401)
      at scala.collection.immutable.List.foreach(List.scala:318)
      at org.scalatest.SuperEngine.traverseSubNodes$1(Engine.scala:401)
      at org.scalatest.SuperEngine.org$scalatest$SuperEngine$$runTestsInBranch(Engine.scala:396)
      at org.scalatest.SuperEngine.runTestsImpl(Engine.scala:483)
      at org.scalatest.FunSuiteLike$class.runTests(FunSuiteLike.scala:208)
      at org.scalatest.FunSuite.runTests(FunSuite.scala:1555)
      at org.scalatest.Suite$class.run(Suite.scala:1424)
      at org.scalatest.FunSuite.org$scalatest$FunSuiteLike$$super$run(FunSuite.scala:1555)
      at org.scalatest.FunSuiteLike$$anonfun$run$1.apply(FunSuiteLike.scala:212)
      at org.scalatest.FunSuiteLike$$anonfun$run$1.apply(FunSuiteLike.scala:212)
      at org.scalatest.SuperEngine.runImpl(Engine.scala:545)
      at org.scalatest.FunSuiteLike$class.run(FunSuiteLike.scala:212)
      at org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.org$scalatest$BeforeAndAfter$$super$run(BiallelicGenotyperSuite.scala:43)
      at org.scalatest.BeforeAndAfter$class.run(BeforeAndAfter.scala:241)
      at org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.run(BiallelicGenotyperSuite.scala:43)
      at org.scalatest.Suite$class.callExecuteOnSuite$1(Suite.scala:1492)
      at org.scalatest.Suite$$anonfun$runNestedSuites$1.apply(Suite.scala:1528)
      at org.scalatest.Suite$$anonfun$runNestedSuites$1.apply(Suite.scala:1526)
      at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33)
      at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:108)
      at org.scalatest.Suite$class.runNestedSuites(Suite.scala:1526)
      at org.scalatest.tools.DiscoverySuite.runNestedSuites(DiscoverySuite.scala:29)
      at org.scalatest.Suite$class.run(Suite.scala:1421)
      at org.scalatest.tools.DiscoverySuite.run(DiscoverySuite.scala:29)
      at org.scalatest.tools.SuiteRunner.run(SuiteRunner.scala:55)
      at org.scalatest.tools.Runner$$anonfun$doRunRunRunDaDoRunRun$3.apply(Runner.scala:2563)
      at org.scalatest.tools.Runner$$anonfun$doRunRunRunDaDoRunRun$3.apply(Runner.scala:2557)
      at scala.collection.immutable.List.foreach(List.scala:318)
      at org.scalatest.tools.Runner$.doRunRunRunDaDoRunRun(Runner.scala:2557)
      at org.scalatest.tools.Runner$$anonfun$runOptionallyWithPassFailReporter$2.apply(Runner.scala:1044)
      at org.scalatest.tools.Runner$$anonfun$runOptionallyWithPassFailReporter$2.apply(Runner.scala:1043)
      at org.scalatest.tools.Runner$.withClassLoaderAndDispatchReporter(Runner.scala:2722)
      at org.scalatest.tools.Runner$.runOptionallyWithPassFailReporter(Runner.scala:1043)
      at org.scalatest.tools.Runner$.main(Runner.scala:860)
      at org.scalatest.tools.Runner.main(Runner.scala)