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when pmultiqc is disable, then summary pipeline fails #151

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ypriverol opened this issue Apr 7, 2022 · 1 comment · Fixed by #152
Closed

when pmultiqc is disable, then summary pipeline fails #151

ypriverol opened this issue Apr 7, 2022 · 1 comment · Fixed by #152
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@ypriverol
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Description of the bug

@daichengxin when I disable the pmultiqc step, then the summary pipeline fails:

[43/caab3b] process > NFCORE_QUANTMS:QUANTMS:CUST... [100%] 1 of 1 ✔
[ef/92ac4c] process > NFCORE_QUANTMS:QUANTMS:SUMM... [100%] 1 of 1, failed: 1 ✘
Execution cancelled -- Finishing pending tasks before exit
-[nf-core/quantms] Pipeline completed with errors-
Error executing process > 'NFCORE_QUANTMS:QUANTMS:SUMMARYPIPELINE (1)'

Caused by:
  Missing output file(s) `*.db` expected by process `NFCORE_QUANTMS:QUANTMS:SUMMARYPIPELINE (1)`

Command executed:

  multiqc \
      --exp_design experimental_design.tsv \
      --mzMLs ./mzMLs \
      --raw_ids ./raw_ids \
      --config ./results/multiqc_config.yml \
      ./results \
      -o .
  
  cat <<-END_VERSIONS > versions.yml
  "NFCORE_QUANTMS:QUANTMS:SUMMARYPIPELINE":
      pmultiqc: $(multiqc --pmultiqc_version | sed -e "s/pmultiqc, version //g")
  END_VERSIONS

Command exit status:
  0

Command output:
  |         searching | ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 100% 4/4  

Command error:
  
    /// MultiQC 🔍 | v1.12
  
  |           multiqc | Search path : results
  |    custom_content | software_versions: Found 1 sample (html)
  |    custom_content | nf-core-quantms-summary: Found 1 sample (html)
  |           multiqc | Compressing plot data
  |           multiqc | Report      : multiqc_report.html
  |           multiqc | Data        : multiqc_data
  |           multiqc | Plots       : multiqc_plots
  |           multiqc | MultiQC complete

Command used and terminal output

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Relevant files

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System information

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@ypriverol ypriverol added the bug Something isn't working label Apr 7, 2022
@daichengxin
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#152

@ypriverol ypriverol linked a pull request Apr 9, 2022 that will close this issue
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