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Error running the pipline test in the BWA index step #376

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Alhajuji opened this issue Jan 19, 2024 · 0 comments
Open

Error running the pipline test in the BWA index step #376

Alhajuji opened this issue Jan 19, 2024 · 0 comments
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bug Something isn't working

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@Alhajuji
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Description of the bug

Running the tests for my pipeline gave an error in the BWA index step.

Command used and terminal output

I run this command:

nextflow run nf-core/chipseq -profile test,docker --outdir

I had this error:

-[nf-core/chipseq] Pipeline completed with errors-
ERROR ~ Error executing process > 'NFCORE_CHIPSEQ:CHIPSEQ:PREPARE_GENOME:BWA_INDEX (genome.fa)'

Caused by:
  Missing output file(s) `bwa` expected by process `NFCORE_CHIPSEQ:CHIPSEQ:PREPARE_GENOME:BWA_INDEX (genome.fa)`

Command executed:

  mkdir bwa
  bwa \
      index \
       \
      -p bwa/genome \
      genome.fa
  
  cat <<-END_VERSIONS > versions.yml
  "NFCORE_CHIPSEQ:CHIPSEQ:PREPARE_GENOME:BWA_INDEX":
      bwa: $(echo $(bwa 2>&1) | sed 's/^.*Version: //; s/Contact:.*$//')
  END_VERSIONS

Command exit status:
  0

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

Work dir:
  /Users/aa/Chip/nfcore/work/8d/a6f9cdb081d96f0ce078bf954a2304

Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`

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

Relevant files

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System information

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@Alhajuji Alhajuji added the bug Something isn't working label Jan 19, 2024
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