mRNA and rRNA percentages missing from MultiQC output

[Jakob37]

Description of the bug

Previously the MultiQC output from Tomte included mRNA and rRNA percentage values.

Since the latest updates, these are no longer part of the MultiQC output.

I could see in my run that the values were calculated, just not included in MultiQC (i.e. not put in the multiqc_data folder).

It might be an issue with the recent MultiQC issues. It was recently discussed, but claimed to be fixed: MultiQC/MultiQC#2608

I have tried the current MultiQC version (1.22.3) and also swapping the container to the most recent version (1.23).

Needs more investigation though, to understand why the CollectRnaSeqMetrics files are calculated but not put in the multiqc_data folder.

Command used and terminal output

Running the dev branch, commit: 00e5eb320ebb6a5a913ff136f45adf7171c7a75a

Relevant files

No response

System information

No response

[Lucpen]

Thanks for making an issue, I assume that updating to the newest version of the container didn't help, right?

[Jakob37]

Thanks for making an issue, I assume that updating to the newest version of the container didn't help, right?

Exactly, assuming that I did everything correctly, using the latest MultiQC version (1.23) did not help.

[Lucpen]

This should be solved when merging the new template as the multiQC version will be updated to 1.25
In test runs the produced multiQC includes both mRNA and rRNA 😄