A small fix to the pipeline: https://github.com/nf-core/rnafusion/pull/816. I'll be on holiday starting from tomorrow so could someone finish and push a patch release with it? 😛 thanks!

Are you talking to me ? 😄

Well then, bump version: https://github.com/nf-core/rnafusion/pull/818

Afterwards: https://github.com/nf-core/rnafusion/pull/817

Thanks Maxime 🙂

✅ rnafusion/test_full completed successfully! 🎉 Run Name fabulous_tuckerman Duration 46m 11s Status ✅ Success Tasks Completed: 26 Jun 1, 2026 at 4:12 PM

✅ rnafusion/test_full completed successfully! 🎉 Run Name mighty_einstein Duration 32m 44s Status ✅ Success Tasks Completed: 26 Jun 2, 2026 at 7:39 AM

✅ rnafusion/test_full completed successfully! 🎉 Run Name special_fermi Duration 34m 29s Status ✅ Success Tasks Completed: 26 Jun 2, 2026 at 7:39 AM

This issue is breaking the references download: https://github.com/Clinical-Genomics/fusion-report/issues/91

H

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At least the version i made contains an alternative to create a DB using local files entirely

I can certainly add the fix on my branch so that once @Annick Renevey or someone from Clinical Genetics in Stockholm has reviewed (and hopefully approved) we have a functional fusion-report version again

That would be awesome, no real rush on my side to get this fixed. I'm mainly pointing it out 😛

The strict syntax PR is done btw: https://github.com/nf-core/rnafusion/pull/814 (only failure is the above issue and a lint issue I can't reproduce locally, but working on that one now)

Worst case I can fix it, do another minor release and let Clingen take it over again

Someone needs to integrate all my fixes 😄

They surely will!

A small addition to the test datasets for an upcoming feature in rnafusion: https://github.com/nf-core/test-datasets/pull/2113

I re-implemented fastq merging, anyone around to take a look at it? https://github.com/nf-core/rnafusion/pull/821

Hi does anybody have anything against adding an optional subsampling step to the pipeline? We've noticed extremely long runtimes in some highly covered samples (especially for fusioncatcher/fusioninspector). Subsampling seems to fix that issue for most samples

Anyone around for a review? github.com/nf-core/rnafusion/pull/829 I'd love to release soon to be able to run the pipeline using the last Nextflow version

@Annick Renevey seems like the fusion report download is broken again 😁 github.com/nf-core/rnafusion/…/107698550771?pr=829

depictio Depictio dashboard for rnafusion: feedback wanted Depictio (open source, from EMBL) turns the output of a workflow run into an interactive dashboard you can share, so nobody has to write a Shiny or Streamlit app for each project. Point a template at any run of a pipeline and you get the same dashboard, which you can edit (UI & YAML), version and comment. ✂️ The rnafusion dashboard template shows the fusions callers agree on, each caller's read evidence, breakpoints, FusionInspector validation and the protein domains each fusion would keep. Note: the demo run has a single sample, so sample comparisons look sparse. 🙌 We need your help! Feedback and ideas welcome in #C0AFS06G9HR (all templates and details there) or in the rnafusion GitHub discussion.

Seems like the fusionreport issues only occur in the reference builder and they seem to be related to the remote resources pulled in by the tool. I'll try updating fusionreport and see if that fixes the issues, but I doubt it. Would anyone mind if a release would happen with this broken tool in it?

Version 4.1.3 is broken too 😕

Okay I decided to temporarily disable the download of the fusiongdb2 database until this is fixed in fusionreport, can I get a review? github.com/nf-core/rnafusion/pull/838

@Annick Renevey or @Anabella Trigila seems like a review from one of you is required for me to do the release. Could you take a quick look once you find some time? github.com/nf-core/rnafusion/pull/840