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Could not evaluate expression: write_lines(array_of_files) on AWS

See original GitHub issue

I’m running a modified version of the paired-fastq-to-unmapped-bam workflow on Cromwell 36 running on AWS. However, it seems to fail at write_lines(). Any idea why this might be happening? Is there flaw in the AWS implementation of this function? I can post my modified WDL if needed but all that’s different from the official workflow that I have removed the disks blocks, since they fail on AWS (see #4274)

2018-10-18 06:51:48,151 cromwell-system-akka.dispatchers.backend-dispatcher-3190 ERROR - Failed command instantiation
java.lang.Exception: Failed command instantiation
        at cromwell.backend.standard.StandardAsyncExecutionActor.instantiatedCommand(StandardAsyncExecutionActor.scala:565)
        at cromwell.backend.standard.StandardAsyncExecutionActor.instantiatedCommand$(StandardAsyncExecutionActor.scala:500)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.instantiatedCommand$lzycompute(AwsBatchAsyncBackendJobExecutionActor.scala:74)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.instantiatedCommand(AwsBatchAsyncBackendJobExecutionActor.scala:74)
        at cromwell.backend.standard.StandardAsyncExecutionActor.commandScriptContents(StandardAsyncExecutionActor.scala:313)
        at cromwell.backend.standard.StandardAsyncExecutionActor.commandScriptContents$(StandardAsyncExecutionActor.scala:312)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.commandScriptContents(AwsBatchAsyncBackendJobExecutionActor.scala:74)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.batchJob$lzycompute(AwsBatchAsyncBackendJobExecutionActor.scala:132)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.batchJob(AwsBatchAsyncBackendJobExecutionActor.scala:131)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.executeAsync(AwsBatchAsyncBackendJobExecutionActor.scala:342)
        at cromwell.backend.standard.StandardAsyncExecutionActor.executeOrRecover(StandardAsyncExecutionActor.scala:943)
        at cromwell.backend.standard.StandardAsyncExecutionActor.executeOrRecover$(StandardAsyncExecutionActor.scala:935)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.executeOrRecover(AwsBatchAsyncBackendJobExecutionActor.scala:74)
        at cromwell.backend.async.AsyncBackendJobExecutionActor.$anonfun$robustExecuteOrRecover$1(AsyncBackendJobExecutionActor.scala:65)
        at cromwell.core.retry.Retry$.withRetry(Retry.scala:38)
        at cromwell.backend.async.AsyncBackendJobExecutionActor.withRetry(AsyncBackendJobExecutionActor.scala:61)
        at cromwell.backend.async.AsyncBackendJobExecutionActor.cromwell$backend$async$AsyncBackendJobExecutionActor$$robustExecuteOrRecover(AsyncBackendJobExecutionActor.scala:65)
        at cromwell.backend.async.AsyncBackendJobExecutionActor$$anonfun$receive$1.applyOrElse(AsyncBackendJobExecutionActor.scala:88)
        at scala.PartialFunction$OrElse.applyOrElse(PartialFunction.scala:172)
        at scala.PartialFunction$OrElse.applyOrElse(PartialFunction.scala:172)
        at akka.actor.Actor.aroundReceive(Actor.scala:517)
        at akka.actor.Actor.aroundReceive$(Actor.scala:515)
        at cromwell.backend.impl.aws.AwsBatchAsyncBackendJobExecutionActor.aroundReceive(AwsBatchAsyncBackendJobExecutionActor.scala:74)
        at akka.actor.ActorCell.receiveMessage(ActorCell.scala:588)
        at akka.actor.ActorCell.invoke(ActorCell.scala:557)
        at akka.dispatch.Mailbox.processMailbox(Mailbox.scala:258)
        at akka.dispatch.Mailbox.run(Mailbox.scala:225)
        at akka.dispatch.Mailbox.exec(Mailbox.scala:235)
        at akka.dispatch.forkjoin.ForkJoinTask.doExec(ForkJoinTask.java:260)
        at akka.dispatch.forkjoin.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1339)
        at akka.dispatch.forkjoin.ForkJoinPool.runWorker(ForkJoinPool.java:1979)
        at akka.dispatch.forkjoin.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:107)
Caused by: common.exception.AggregatedMessageException: Error(s):
Could not evaluate expression: write_lines(array_of_files): null (Service: S3Client; Status Code: 403; Request ID: null)
        at common.validation.Validation$ValidationTry$.toTry$extension1(Validation.scala:68)
        at common.validation.Validation$ValidationTry$.toTry$extension0(Validation.scala:64)
        at cromwell.backend.standard.StandardAsyncExecutionActor.instantiatedCommand(StandardAsyncExecutionActor.scala:563)
        ... 31 common frames omitted