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Failed to access ‘*.jsd.qc’ (ENCSR936XTK test sample)

See original GitHub issue

When attempting to run AQUAS on the test sample datasets (ENCSR936XTK FASTQs), I receive:

[2018-09-13 15:32:39,95] [error] WorkflowManagerActor Workflow 0846c6f1-989d-4622-8512-b1aebfb5ea97 failed (during ExecutingWorkflowState): Job chip.fingerprint:NA:1 exited with return code 1 which has not been declared as a valid return code.

which seems to arise from

ln: failed to access ‘*.jsd.qc’: No such file or directory.

Any suggestions would be greatly appreciated. Thank you!

Details: I installed AQUAS on a SGE cluster. Cromwell: cromwell-34 Conda: conda 4.3.30


Issue Analytics

  • State:closed
  • Created 5 years ago
  • Comments:46 (21 by maintainers)

github_iconTop GitHub Comments

leepc12commented, Jan 22, 2019

Can you send me one of your R1 FASTQs with 38 bp reads? My Dropbox account is leepc12 at gmail dot com.

dcdxycommented, Jan 31, 2019

Thanks very much for the fix! It looks like my pipeline runs were successful.

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