datasets not working with for loop

[pedres]

Hi, I am trying to download a set of several bacterial genomes using a for loop with datasets installed with conda (16.17.1)

for z in cat taxIDs.txt ; do datasets download genome taxon $z --filename "$z" --reference; done The error for each genome is Error: 2749991 appears to be an invalid tax name. This could be due to unexpected special characters

However, running a command for each genome works perfectly datasets download genome taxon 2749991 --filename 2749991 --reference

Thanks a lot for your help, taxIDs.txt

Manuel

[pedres]

Solved. I prepared the taxIDs.txt in windows, Preparing it in linux solved the problem Apologies Manuel

[pedres]

Solved. I prepared the taxIDs.txt in windows, Preparing it in linux solved the problem Apologies Manuel