search

nf-core / chipseq

ChIP-seq peak-calling, QC and differential analysis pipeline.
https://nf-co.re/chipseq
MIT License
177 stars 144 forks source link

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

Open Alhajuji opened 5 months ago

Alhajuji commented 5 months ago

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

No response

System information

No response