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nextflow cluster profile not found?

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Mar 21st, 2017
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  1. bash-4.1$ nextflow run brainstorm/bwa-nextflow-benchmark -with-timeline timeline.html -with-trace -with-dag flowchart.png -profile cluster
  2. N E X T F L O W ~ version 0.24.0
  3. Launching `brainstorm/bwa-nextflow-benchmark` [amazing_cori] - revision: 9cc871964a [master]
  4. Unknown configuration profile: 'cluster'
  5. bash-4.1$ cat nextflow.config
  6. manifest {
  7. homePage = 'http://umccr.github.io'
  8. description = 'BWA AWS vs NCI test'
  9. }
  10.  
  11. aws {
  12. region = 'ap-southeast-2'
  13. }
  14.  
  15. standard {
  16. process.executor = 'local'
  17. }
  18.  
  19. cluster {
  20. process.executor = 'pbs'
  21. process.queue = 'normalexpress'
  22. process.memory = '8GB'
  23. }
  24.  
  25. cloud {
  26. imageId = 'ami-f3dfdd90'
  27. instanceType = 't2.small'
  28. bootStorageSize = '10GB'
  29. userName = 'ubuntu'
  30. /* process.executor = 'k8s'
  31. spotPrice = '1.8'
  32. */
  33. }
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