You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
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 --outdirI 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_VERSIONSCommand exit status: 0Command 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 requestedWork dir: /Users/aa/Chip/nfcore/work/8d/a6f9cdb081d96f0ce078bf954a2304Tip: 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
The text was updated successfully, but these errors were encountered:
Sorry for the late reply, it's hard to say without any further info and I can not reproduce the error. But what I see is that your command is missing the --outdir it should be something such as --outdir your_results_dir
Description of the bug
Running the tests for my pipeline gave an error in the BWA index step.
Command used and terminal output
Relevant files
No response
System information
No response
The text was updated successfully, but these errors were encountered: