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nf-core / demultiplex

Demultiplexing pipeline for sequencing data
https://nf-co.re/demultiplex
MIT License
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Individual Multiqc reports per lane / flow cell #181

Closed jenmuell closed 5 months ago

jenmuell commented 5 months ago

Description of the bug

I demultiplexed a NovaSeq XP run with bcl2fastq and we used lane loading. Each of the lane had samples with similar indices. All workflow steps worked nicely as expected but I had problems with the MultiQC report. For all samples with the same index the reads were combined in the "general statistics" and the "clusters by sample" visualization. In addition, only one version of the sample names was mentioned. Maybe it would be good to have a MultiQC report for each individual id of the samplesheet or do you know a trick how I can force my preferred output?

Thanks a lot for the nice pipeline.

Command used and terminal output

No response

Relevant files

My sample sheet had the same shape as follows: id,samplesheet,lane,flowcell DDMMYY_SERIAL_NUMBER_FC_L1,/path/to/SampleSheet.csv,1,/path/to/sequencer/output DDMMYY_SERIAL_NUMBER_FC_L2,/path/to/SampleSheet.csv,2,/path/to/sequencer/output

System information

Nextflow 23.10.1 nf-core/demultiplex v1.4.0-gaaaf544

jenmuell commented 5 months ago

Sorry for that. Found my mistake due to additional config file