Hey all, i want to use the pipeline - but i fail to provide a valid file with the id's for example, i want to download the data corresponding to id

ANHJ00000000.1

which corresponds with data on ncbi. since the one id is non valid, the full pipeline fails. (which is odd on its own, since sra-tools -> prefetch downloads some binary archive) how can i identify invalid ids before running it? thank you!

Hi, not sure I understand your problem. What is the

ANHJ00000000.1

ID? is it an SRA, ENA, DDBJ or GEO ID?

hey - iam unsure it corresponds to an ncbi id:

<https://www.ncbi.nlm.nih.gov/nuccore/ANHJ00000000.1/>

Ahh I see. This is a genbank ID, which means it contains the sequence information about the species but not the raw data:

This entry is the master record for a whole genome shotgun sequencing project and contains no sequence data.

This is not what fetchngs is designed to do. fetchngs is designed to retrieve raw sequencing data from SRA/ENA/DDBJ or GEO ID. Check out the docs for more info: https://nf-co.re/fetchngs/1.12.0/docs/usage#srr--err--drr-ids I think you want the ID PRJNA177352 but I haven't tested it.

ah i see, i use metadata from a paper that seems to have mixed up "ids" most of them work perfectly fine, but some (as the one shown above) fail. thank you!

No worries, let me know if it works.