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Killed with a warning? #74

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cahuparo opened this issue May 29, 2024 · 0 comments
Open

Killed with a warning? #74

cahuparo opened this issue May 29, 2024 · 0 comments

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@cahuparo
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When running the pipeline in an Apple M3 Max:

ERROR ~ Error executing process > 'PATHOGENSURVEILLANCE:ASSIGN_REFERENCES:KHMER_TRIMLOWABUND (22_335)'

Caused by:
  Process `PATHOGENSURVEILLANCE:ASSIGN_REFERENCES:KHMER_TRIMLOWABUND (22_335)` terminated with an error exit status (137)


Command executed:

  trim-low-abund.py \
      -M 32e9 \
      -C 3 -Z 18 -V \
      22-335_R1_subset.fastq.gz 22-335_R2_subset.fastq.gz
  
  cat <<-END_VERSIONS > versions.yml
  "PATHOGENSURVEILLANCE:ASSIGN_REFERENCES:KHMER_TRIMLOWABUND":
      khmer: $( trim-low-abund.py --version 2>&1 | grep ^khmer | sed 's/^khmer //' )
  END_VERSIONS

Command exit status:
  137

Command output:
  (empty)

Command error:
  WARNING: The requested image's platform (linux/amd64) does not match the detected host platform (linux/arm64/v8) and no specific platform was requested
  .command.sh: line 5:    35 Killed                  trim-low-abund.py -M 32e9 -C 3 -Z 18 -V 22-335_R1_subset.fastq.gz 22-335_R2_subset.fastq.gz

Work dir:
  /Users/nanopore/Documents/pathogensurveillance/work/07/77ca44600e0766b81c283fea32b375

Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out`

 -- Check '.nextflow.log' file for details
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