chip-seq-pipeline2: Failed to access ‘*.jsd.qc’ (ENCSR936XTK test sample)
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
About this issue
- Original URL
- State: closed
- Created 6 years ago
- Comments: 46 (21 by maintainers)
Commits related to this issue
- fix for issue #22 — committed to ENCODE-DCC/chip-seq-pipeline2 by leepc12 6 years ago
- fix typo in template input JSON files (issue #22) — committed to ENCODE-DCC/chip-seq-pipeline2 by leepc12 5 years ago
- fix for issue #22 (no trimming for fastqs shorter than chip.trim_bp) — committed to ENCODE-DCC/chip-seq-pipeline2 by leepc12 5 years ago
Can you send me one of your R1 FASTQs with 38 bp reads? My Dropbox account is leepc12 at gmail dot com.