Closed billadelonge closed 2 years ago
Dear Laura, Thank you for your interest in using GenEra!
We just double-checked, and there was an error in the command, thanks for pointing it out. Could you please check if these commands work for you?
wget ftp://ftp.ncbi.nlm.nih.gov/blast/db/FASTA/nr.gz
wget ftp://ftp.ncbi.nlm.nih.gov/blast/db/FASTA/nr.gz.md5
md5sum -c *.md5
gunzip nr.gz
Best, Josué.
Also, please bear in mind that the nr file is huge (~130GB). Could it be that the file got corrupted because you ran out of storage space?
Hi Jose, Thanks, that helped, I seem to have to use https:// instead of ftp:// (found something about this online). However now I seem to have the same problem with the prot.accession2taxid it keeps getting corrupted. I checked and I seem to have enough space. Any suggestions? Best, Laura
Dear Laura,
My guess is that the solution should be very similar as with the NR, but I'm unable to test it right now, since I'm currently on vacations. Could you please contact my colleage Sodai? He will be able to help you out: jaruwatana.lotharukpong@tuebingen.mpg.de Otherwise, I'll be able to check the issue in a couple of weeks.
Best, Josué.
Okay! So this worked somehow
wget ftp://ftp.ncbi.nlm.nih.gov/pub/taxonomy/accession2taxid//prot.accession2taxid.gz
Dear Laura, I'm glad you found a solution! I'll close the issue, but please feel free to contact us again if you come across any further issues. Best, Josué.
Hi, I would love to give this a but I am currently struggling with installation, this bit doesn't work for me, as the file gets somehow corrupted I think and cannot gunzip it
Thanks! Laura