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Outgoing request stream error known issue : effects FC upgrade to 27?

esalinasesalinas BroadMember, Broadie ✭✭✭

I've seen the error "Outgoing request stream error". See below:

wm8b1-75c:27_issue esalinas$ head -1000 *
==> empty.json <==
{

}

==> test_27.wdl <==
task hi_task
{
command <<<

    echo "hi"
    >>>
runtime {
    docker:"ubuntu:14.04"
    }

}


workflow floats_wf {

    call hi_task


}

wm8b1-75c:27_issue esalinas$ java -jar ~/broadinstitute/cromwell-27.jar run test_27.wdl  empty.json 
[2017-06-16 10:05:15,97] [info] Slf4jLogger started
[2017-06-16 10:05:16,03] [info] RUN sub-command
[2017-06-16 10:05:16,03] [info]   WDL file: /Users/esalinas/qc_pon_wdl/27_issue/test_27.wdl
[2017-06-16 10:05:16,03] [info]   Inputs: /Users/esalinas/qc_pon_wdl/27_issue/empty.json
[2017-06-16 10:05:16,06] [info] SingleWorkflowRunnerActor: Submitting workflow
[2017-06-16 10:05:16,27] [info] Running with database db.url = jdbc:hsqldb:mem:56843bde-88a0-4c6b-a90e-2c8b0b5725c1;shutdown=false;hsqldb.tx=mvcc
[2017-06-16 10:05:20,99] [info] Running migration RenameWorkflowOptionsInMetadata with a read batch size of 100000 and a write batch size of 100000
[2017-06-16 10:05:21,00] [info] [RenameWorkflowOptionsInMetadata] 100%
[2017-06-16 10:05:21,05] [info] Metadata summary refreshing every 2 seconds.
[2017-06-16 10:05:21,08] [info] Workflow 1ca49f2f-edb3-4372-b047-54f56c62c845 submitted.
[2017-06-16 10:05:21,08] [info] SingleWorkflowRunnerActor: Workflow submitted 1ca49f2f-edb3-4372-b047-54f56c62c845
[2017-06-16 10:05:21,60] [info] 1 new workflows fetched
[2017-06-16 10:05:21,60] [info] WorkflowManagerActor Starting workflow 1ca49f2f-edb3-4372-b047-54f56c62c845
[2017-06-16 10:05:21,60] [info] WorkflowManagerActor Successfully started WorkflowActor-1ca49f2f-edb3-4372-b047-54f56c62c845
[2017-06-16 10:05:21,61] [info] Retrieved 1 workflows from the WorkflowStoreActor
[2017-06-16 10:05:21,74] [info] MaterializeWorkflowDescriptorActor [1ca49f2f]: Call-to-Backend assignments: floats_wf.hi_task -> Local
[2017-06-16 10:05:22,96] [info] WorkflowExecutionActor-1ca49f2f-edb3-4372-b047-54f56c62c845 [1ca49f2f]: Starting calls: floats_wf.hi_task:NA:1
[2017-06-16 10:05:23,85] [info] BackgroundConfigAsyncJobExecutionActor [1ca49f2ffloats_wf.hi_task:NA:1]: echo "hi"
[2017-06-16 10:05:23,86] [info] BackgroundConfigAsyncJobExecutionActor [1ca49f2ffloats_wf.hi_task:NA:1]: executing: docker run \
  --rm -i \
   \
  --entrypoint /bin/bash \
  -v /Users/esalinas/qc_pon_wdl/27_issue/cromwell-executions/floats_wf/1ca49f2f-edb3-4372-b047-54f56c62c845/call-hi_task:/cromwell-executions/floats_wf/1ca49f2f-edb3-4372-b047-54f56c62c845/call-hi_task \
  library/[email protected]:30204139c6ab96ebd75d72f34db390f28c4decd5e563488b4e485bf979397b67 /cromwell-executions/floats_wf/1ca49f2f-edb3-4372-b047-54f56c62c845/call-hi_task/execution/script
[2017-06-16 10:05:23,88] [info] BackgroundConfigAsyncJobExecutionActor [1ca49f2ffloats_wf.hi_task:NA:1]: job id: 7580
[2017-06-16 10:05:23,89] [info] BackgroundConfigAsyncJobExecutionActor [1ca49f2ffloats_wf.hi_task:NA:1]: Status change from - to WaitingForReturnCodeFile
[2017-06-16 10:05:24,66] [info] BackgroundConfigAsyncJobExecutionActor [1ca49f2ffloats_wf.hi_task:NA:1]: Status change from WaitingForReturnCodeFile to Done
[2017-06-16 10:05:24,98] [info] WorkflowExecutionActor-1ca49f2f-edb3-4372-b047-54f56c62c845 [1ca49f2f]: Workflow floats_wf complete. Final Outputs:
{

}
[2017-06-16 10:05:25,01] [info] WorkflowManagerActor WorkflowActor-1ca49f2f-edb3-4372-b047-54f56c62c845 is in a terminal state: WorkflowSucceededState
[2017-06-16 10:05:25,94] [info] SingleWorkflowRunnerActor workflow finished with status 'Succeeded'.
{
  "outputs": {

  },
  "id": "1ca49f2f-edb3-4372-b047-54f56c62c845"
}
[2017-06-16 10:05:25,98] [error] Outgoing request stream error
akka.stream.AbruptTerminationException: Processor actor [Actor[akka://cromwell-system/user/StreamSupervisor-1/flow-6-0-unknown-operation#-1456197455]] terminated abruptly
[2017-06-16 10:05:25,98] [error] Outgoing request stream error
akka.stream.AbruptTerminationException: Processor actor [Actor[akka://cromwell-system/user/StreamSupervisor-1/flow-2-0-unknown-operation#1225212460]] terminated abruptly
wm8b1-75c:27_issue esalinas$ 


It is a known issue (see http://gatkforums.broadinstitute.org/wdl/discussion/9699/outgoing-request-stream-error-when-running-cromwell)

Does/will this impact any upgrade of firecloud to cromwell 27?

Best Answer

Answers

  • esalinasesalinas BroadMember, Broadie ✭✭✭
    edited June 2017

    @Ruchi I think FC got C27 now. I'm interested to exercise/try the "write_lines" functionalities in C27 via FC!

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