java.lang.AssertionError

assertion failed: Tried to find 'samtools' in '/home/project/avocado/avocado-core/target/scala-2.10.3/classes/htsjdk' but it is not a directory

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Solutions on the web8487

  • via Google Groups by Unknown author, 1 year ago
    assertion failed: Tried to find 'samtools' in '/home/project/avocado/avocado-core/target/scala-2.10.3/classes/htsjdk' but it is not a directory
  • assertion failed: Tried to find '$line32' in '/tmp/spark-c9fed3af-e85c-4bbf-b529-b1c9d22e904c' but it is not a directory
  • assertion failed: Tried to find '$line307' in '/tmp/spark-f77b358d-1d4a-4080-ab6d-4120a7a4e760/repl-00b6ec29-fc23-46af-9b40-22a66f0136c0' but it is not a directory
  • Stack trace

    • java.lang.AssertionError: assertion failed: Tried to find 'samtools' in '/home/project/avocado/avocado-core/target/scala-2.10.3/classes/htsjdk' but it is not a directory at scala.reflect.io.AbstractFile.subdirectoryNamed(AbstractFile.scala:254) at scala.tools.nsc.backend.jvm.BytecodeWriters$class.getFile(BytecodeWriters.scala:31) at scala.tools.nsc.backend.jvm.BytecodeWriters$class.scala$tools$nsc$backend$jvm$BytecodeWriters$$getFile(BytecodeWriters.scala:37) at scala.tools.nsc.backend.jvm.BytecodeWriters$ClassBytecodeWriter$class.writeClass(BytecodeWriters.scala:89) at scala.tools.nsc.backend.jvm.GenASM$AsmPhase$$anon$4.writeClass(GenASM.scala:67) at scala.tools.nsc.backend.jvm.GenASM$JBuilder.writeIfNotTooBig(GenASM.scala:458) at scala.tools.nsc.backend.jvm.GenASM$JPlainBuilder.genClass(GenASM.scala:1402) at scala.tools.nsc.backend.jvm.GenASM$AsmPhase.run(GenASM.scala:119) at scala.tools.nsc.Global$Run.compileUnitsInternal(Global.scala:1583) at scala.tools.nsc.Global$Run.compileUnits(Global.scala:1557) at scala.tools.nsc.Global$Run.compileSources(Global.scala:1553) at scala.tools.nsc.Global$Run.compile(Global.scala:1662) at xsbt.CachedCompiler0.run(CompilerInterface.scala:123) at xsbt.CachedCompiler0.run(CompilerInterface.scala:99) at xsbt.CompilerInterface.run(CompilerInterface.scala:27) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at sbt.compiler.AnalyzingCompiler.call(AnalyzingCompiler.scala:102) at sbt.compiler.AnalyzingCompiler.compile(AnalyzingCompiler.scala:48) at sbt.compiler.AnalyzingCompiler.compile(AnalyzingCompiler.scala:41) at sbt.compiler.AggressiveCompile$$anonfun$3$$anonfun$compileScala$1$1.apply$mcV$sp(AggressiveCompile.scala:99) at sbt.compiler.AggressiveCompile$$anonfun$3$$anonfun$compileScala$1$1.apply(AggressiveCompile.scala:99) at sbt.compiler.AggressiveCompile$$anonfun$3$$anonfun$compileScala$1$1.apply(AggressiveCompile.scala:99) at sbt.compiler.AggressiveCompile.sbt$compiler$AggressiveCompile$$timed(AggressiveCompile.scala:166) at sbt.compiler.AggressiveCompile$$anonfun$3.compileScala$1(AggressiveCompile.scala:98) at sbt.compiler.AggressiveCompile$$anonfun$3.apply(AggressiveCompile.scala:143) at sbt.compiler.AggressiveCompile$$anonfun$3.apply(AggressiveCompile.scala:87) at sbt.inc.IncrementalCompile$$anonfun$doCompile$1.apply(Compile.scala:39) at sbt.inc.IncrementalCompile$$anonfun$doCompile$1.apply(Compile.scala:37) at sbt.inc.IncrementalCommon.cycle(Incremental.scala:99) at sbt.inc.Incremental$$anonfun$1.apply(Incremental.scala:38) at sbt.inc.Incremental$$anonfun$1.apply(Incremental.scala:37) at sbt.inc.Incremental$.manageClassfiles(Incremental.scala:65) at sbt.inc.Incremental$.compile(Incremental.scala:37) at sbt.inc.IncrementalCompile$.apply(Compile.scala:27) at sbt.compiler.AggressiveCompile.compile2(AggressiveCompile.scala:157) at sbt.compiler.AggressiveCompile.compile1(AggressiveCompile.scala:71) at com.typesafe.zinc.Compiler.compile(Compiler.scala:193) at com.typesafe.zinc.Compiler.compile(Compiler.scala:174) at com.typesafe.zinc.Main$.run(Main.scala:98) at com.typesafe.zinc.Nailgun$.zinc(Nailgun.scala:93) at com.typesafe.zinc.Nailgun$.nailMain(Nailgun.scala:82) at com.typesafe.zinc.Nailgun.nailMain(Nailgun.scala) at sun.reflect.GeneratedMethodAccessor3.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at com.martiansoftware.nailgun.NGSession.run(NGSession.java:280)[INFO]

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