A question regarding the new

table_sample_merge

feature: In the nextflow script I am doing

ch_multiqc_files = ch_multiqc_files.mix(SUMMARIZE_RESULTS.out.json.collect{ it[1] })

containing

[/mnt/volume/dev/epitopeprediction-2/work/7b/fb637d9cf034df6410c068d1105137/sample2_mhcflurry_mqc.json, /mnt/volume/dev/epitopeprediction-2/work/7b/fb637d9cf034df6410c068d1105137/sample2_mhcnuggets_mqc.json, /mnt/volume/dev/epitopeprediction-2/work/1d/9d0e08de838af2ddb67f46acc0cabb/sample1_mhcflurry_mqc.json, /mnt/volume/dev/epitopeprediction-2/work/1d/9d0e08de838af2ddb67f46acc0cabb/sample1_mhcnuggets_mqc.json]

Each file has this content

{
  "id": "peptide_binding_prediction",
  "section_name": "Peptide Binding Prediction",
  "description": "Summary of peptide binding predictions",
  "plot_type": "table",
  "pconfig": {
    "id": "peptide_binding_prediction_table",
    "title": "Peptide Binding Prediction Summary"
  },
  "data": {
    "sample2": {
      "Binders": 9,
      "Non-binders": 114,
      "Unsupported": 77,
      "Binders (%)": "7.32",
      "Non-binders (%)": "92.68"
    }
  }
}

And I added this to the

multiqc_config.yml

:

table_sample_merge:
  "MHCflurry": "_mhcflurry"
  "MHCnuggets": "_mhcnuggets"

I get the attached output, so samples are not merged. Can someone help me out here? Thanks!

Merging is done based on the sample names, not the filenames