Wrong sample names in multiqc general table

[LouisLeNezet]

Description of the bug

Hi,
When using sarek for the mapping steps the names in the multiqc general statistics table are a bit strange

In the image above I think that 1-ADN13260_1.md and 1-ADN13260_1-lane1 should both be named 1-ADN13260_1 and that 1-ADN13260_1.1-ADN13260_1-lane1_1 should simply be ADN13260_1-lane1_1.

Command used and terminal output

nextflow run nf-core/sarek -profile singularity -r 3.4.4 --step "mapping" --skip_tools : "mosdepth,baserecalibrator" --outdir results --input file.csv

Relevant files

No response

System information

No response

[asp8200]

Could you share your file.csv with us?

[LouisLeNezet]

The file just looked like:

patient,sample,lane,fastq_1,fastq_2
14123,1-ADN13364_1,lane1,R1.fastq.gz,R2.fastq.gz