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Bug #14429

open

[CWL] Initial work dir error

Added by Jiayong Li over 7 years ago. Updated about 2 years ago.

Status:
New
Priority:
Normal
Assigned To:
-
Category:
-
Target version:
Future
Story points:
-
Release:
Postponed
Release relationship:
Auto

Description

I used the following simple cwl to do gzip using initial work dir.

gzip.cwl

cwlVersion: v1.0
class: CommandLineTool
requirements:
  DockerRequirement:
    dockerPull: arvados/jobs
  InitialWorkDirRequirement:
    listing:
      - $(inputs.infile)
inputs:
  infile: File
outputs:
  outfile:
    type: File
    outputBinding:
      glob: "*.gz" 
baseCommand: gzip
arguments:
  - $(inputs.infile.basename)

Run: https://workbench.e51c5.arvadosapi.com/container_requests/e51c5-xvhdp-uzdzlsqwwodcz0e

Error message:

gzip: foo: Device or resource busy

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 #1

Updated by Jiayong Li over 7 years ago

  • Status changed from New to In Progress
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 #2

Updated by Jiayong Li over 7 years ago

  • Description updated (diff)
  • Status changed from In Progress to New
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 #3

Updated by Peter Amstutz over 7 years ago 

requirements:
  DockerRequirement:
    dockerPull: arvados/jobs
  InitialWorkDirRequirement:
    listing:
      - entry: $(inputs.infile)
        writable: true
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 #4

Updated by Peter Amstutz about 3 years ago

  • Release set to 60
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 #5

Updated by Peter Amstutz about 2 years ago

  • Target version set to Future
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