Hi team, we are hitting LINX Circos plot failures that look like invalid line thickness handling (bezier thickness < 1). I checked upstream and this appears addressed in LINX v2.3 (commit 99290c0: “visualiser protect against invalid calculated line thickness values”). Current nf-core/oncoanalyser 2.3.0 still uses LINX 2.2, so this fix is likely not included yet. Could we plan a bump to LINX v2.3 (or later) in oncoanalyser, or suggest an interim workaround?

you could manually swap the container with:

process {
  withName: "LINX_VISUALISER" {
    container = "new/container/path"
  }
}

thank you for help!

Version 3.0 of oncoanalyser coming soon ! Simon's suggestion should also work 🙂

Thank you. I was about to ask the same question!