Hi! I'm trying to run the pipeline, and I'm encoutering a problem running

nf-core/slamseq	v1.0.0

. Despite the documentation saying that it accepts more columns than group, condition, control, reads, https://nf-co.re/slamseq/1.0.0/docs/usage/#--input my run fails when my tsv sample contains a column called name. Does anyone know what the problem may be please? thank you group condition control reads name slz1 4tU 0 JIN8812A11_S103_L005_R1_001.fastq.gz 20_slz1_4tU slz1 4tU 0 JIN8812A11_S103_L006_R1_001.fastq.gz 20_slz1_4tU slz1 DMSO 1 JIN8812A12_S104_L005_R1_001.fastq.gz 20_slz1_DMSO slz1 DMSO 1 JIN8812A12_S104_L006_R1_001.fastq.gz 20_slz1_DMSO

what is the exact error you get?

Error executing process > 'checkDesign (design.tsv)' Caused by: Process

checkDesign (design.tsv)

terminated with an error exit status (1) Command executed: check_design.py design.tsv nfcore_slamseq_design.txt Command exit status: 1 Command output: ERROR: Please check design file header: group,condition,control,reads,name != group,condition,control,reads Command wrapper: ERROR: Please check design file header: group,condition,control,reads,name != group,condition,control,reads

looking at the code, it seems that you need to add not just

name

but also

type

and

time

(but probably can leave them empty)

I can do that thanks

(be aware that this pipeline hasn’t been update in 5 years, so could need some love probably 🙂 )

Thank you for responding so quickly!