cromwell.util.AggregatedException: Failures during localizationCould not localize test.wdl -> /Users/davids/work/wdl/cromwell-executions/test/8a4e2219-90e2-4210-a753-26b149c18b51/call-cat/Users/davids/work/wdl/test.wdl

GitHub | djhshih | 5 months ago
  1. 0

    Localizations by hard-link and soft-link fail

    GitHub | 5 months ago | djhshih
    cromwell.util.AggregatedException: Failures during localizationCould not localize test.wdl -> /Users/davids/work/wdl/cromwell-executions/test/8a4e2219-90e2-4210-a753-26b149c18b51/call-cat/Users/davids/work/wdl/test.wdl
  2. 0

    Running in server mode, jobs that have localization error become immortal

    GitHub | 6 months ago | knoblett
    cromwell.util.AggregatedException: Failures during localizationCould not localize /foo/bar/baz -> /home/conradL/cromwell-executions/badLocalization/8c7774be-7917-4c6a-88c4-55e495bbb9ec/call-BillyBob/foo/bar/baz
  3. 0

    Call Caching bug for JES

    GitHub | 8 months ago | scottfrazer
    cromwell.util.AggregatedException: Item not found: cromwell-dev/w/54108c5b-29a7-430e-b16b-07bd8dba47e7/call-y/y-stdout.log
  4. Speed up your debug routine!

    Automated exception search integrated into your IDE

  5. 0

    Error reading existing file containing float

    GitHub | 6 months ago | snovod
    cromwell.util.AggregatedException: Error reading gs://broad-gotc-prod-storage/cromwell_execution/PairedEndSingleSampleWorkflow/9a7a405c-6b14-48cc-87e...

    Root Cause Analysis

    1. cromwell.util.AggregatedException

      Failures during localizationCould not localize test.wdl -> /Users/davids/work/wdl/cromwell-executions/test/8a4e2219-90e2-4210-a753-26b149c18b51/call-cat/Users/davids/work/wdl/test.wdl

      at cromwell.util.TryUtil$.sequenceIterable()
    2. cromwell.util
      TryUtil$.sequence
      1. cromwell.util.TryUtil$.sequenceIterable(TryUtil.scala:118)[cromwell-0.19.jar:0.19]
      2. cromwell.util.TryUtil$.sequence(TryUtil.scala:125)[cromwell-0.19.jar:0.19]
      2 frames
    3. cromwell.engine.backend
      LocalBackend$$anonfun$execute$1.apply
      1. cromwell.engine.backend.local.SharedFileSystem$class.adjustSharedInputPaths(SharedFileSystem.scala:228)[cromwell-0.19.jar:0.19]
      2. cromwell.engine.backend.local.LocalBackend.adjustSharedInputPaths(LocalBackend.scala:94)[cromwell-0.19.jar:0.19]
      3. cromwell.engine.backend.local.LocalBackend.adjustInputPaths(LocalBackend.scala:96)[cromwell-0.19.jar:0.19]
      4. cromwell.engine.backend.local.LocalBackend.instantiateCommand(LocalBackend.scala:246)[cromwell-0.19.jar:0.19]
      5. cromwell.engine.backend.BackendCallJobDescriptor.instantiateCommand$lzycompute(JobDescriptor.scala:52)[cromwell-0.19.jar:0.19]
      6. cromwell.engine.backend.BackendCallJobDescriptor.instantiateCommand(JobDescriptor.scala:52)[cromwell-0.19.jar:0.19]
      7. cromwell.engine.backend.local.LocalBackend$$anonfun$execute$1.apply(LocalBackend.scala:115)[cromwell-0.19.jar:0.19]
      8. cromwell.engine.backend.local.LocalBackend$$anonfun$execute$1.apply(LocalBackend.scala:113)[cromwell-0.19.jar:0.19]
      8 frames
    4. Scala
      Future$PromiseCompletingRunnable.run
      1. scala.concurrent.impl.Future$PromiseCompletingRunnable.liftedTree1$1(Future.scala:24)[cromwell-0.19.jar:0.19]
      2. scala.concurrent.impl.Future$PromiseCompletingRunnable.run(Future.scala:24)[cromwell-0.19.jar:0.19]
      2 frames
    5. Akka Actor
      ForkJoinExecutorConfigurator$AkkaForkJoinTask.exec
      1. akka.dispatch.TaskInvocation.run(AbstractDispatcher.scala:40)[cromwell-0.19.jar:0.19]
      2. akka.dispatch.ForkJoinExecutorConfigurator$AkkaForkJoinTask.exec(AbstractDispatcher.scala:397)[cromwell-0.19.jar:0.19]
      2 frames
    6. Scala
      ForkJoinWorkerThread.run
      1. scala.concurrent.forkjoin.ForkJoinTask.doExec(ForkJoinTask.java:260)[cromwell-0.19.jar:0.19]
      2. scala.concurrent.forkjoin.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1339)[cromwell-0.19.jar:0.19]
      3. scala.concurrent.forkjoin.ForkJoinPool.runWorker(ForkJoinPool.java:1979)[cromwell-0.19.jar:0.19]
      4. scala.concurrent.forkjoin.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:107)[cromwell-0.19.jar:0.19]
      4 frames