I would like to download the full nt database to run a BLAST search on a large genome through HPC. I have installed BLAST using conda and set up accordingly.
When I run the step below (edited from the manual (https://www.ncbi.nlm.nih.gov/books/NBK569850/) for the nr database):
~/miniconda3/envs/blast/bin/update_blastdb.pl --passive --decompress nt
I get the error:
**Connected to NCBI Downloading nt (90 volumes) ... Downloading nt.00.tar.gz...corrupt download, trying again. Downloading nt.00.tar.gz...corrupt download, trying again. too many failures, aborting download!**
Has anyone else encountered this issue? Thanks.
If you have an intrusion prevention/detection device and/or a firewall between the server and internet then this could be causing the problem you see. You will need to make sure your connections are allowed through.
Thanks for your reply. I thought the --passive option should get round this (--passive Use passive FTP, useful when behind a firewall or working in the cloud) but it still doesn't allow. Any advice would be great
See my comment below. If @Istvan's solution works for you then great.