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10XGenomics / cellranger

10x Genomics Single Cell Analysis
https://www.10xgenomics.com/support/software/cell-ranger
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StageException: Could not QC barcodes: return code -9 #102

Closed amirshams84 closed 3 years ago

amirshams84 commented 3 years ago

Hi I am receiving the following error and the QC script crashes `[error] Pipestance failed. Error log at: AAAGLTJM5/MAKE_FASTQS_CS/MAKE_FASTQS/MAKE_QC_SUMMARY/fork0/chnk05-u91b4ae111a/_errors

Log message: Traceback (most recent call last): File "/usr/local/apps/cellranger/4.0.0/external/martian/adapters/python/martian_shell.py", line 587, in _main stage.main() File "/usr/local/apps/cellranger/4.0.0/external/martian/adapters/python/martian_shell.py", line 552, in main self._run(lambda: self._module.main(args, outs)) File "/usr/local/apps/cellranger/4.0.0/external/martian/adapters/python/martian_shell.py", line 521, in _run cmd() File "/usr/local/apps/cellranger/4.0.0/external/martian/adapters/python/martian_shell.py", line 552, in self._run(lambda: self._module.main(args, outs)) File "/usr/local/apps/cellranger/4.0.0/mro/tenkit/stages/make_fastqs/make_qc_summary/init.py", line 302, in main martian.throw("Could not QC barcodes: return code %s" % e.returncode) File "/usr/local/apps/cellranger/4.0.0/external/martian/adapters/python/martian.py", line 259, in throw raise StageException(message) StageException: Could not QC barcodes: return code -9`

evolvedmicrobe commented 3 years ago

Please contact support@10xgenomics.com for help with this issue, the 9 return code likely means that something sent a SIGKILL to the process and ended it prematurely.