Timeout when downloading the ncbi nr blast database I am experiencing timeout problems when downloading the NCBI nr preformatted blast database using the update_blastdb script (version 504861).
I run the script with the following paramters
update_blastdb --decompress --passive --verbose nr

and I get the following error message (in verbose mode)
Downloading nr (45 volumes) ...
Downloading nr.00.tar.gz...Net::FTP=GLOB(0x5610fb59b8f8)&gt;&gt;&gt; PASV
Net::FTP=GLOB(0x5610fb59b8f8)&lt;&lt;&lt; 227 Entering Passive Mode (165,112,9,229,195,144).
Net::FTP=GLOB(0x5610fb59b8f8)&gt;&gt;&gt; RETR nr.00.tar.gz
Net::FTP=GLOB(0x5610fb59b8f8)&lt;&lt;&lt; 150 Opening BINARY mode data connection for nr.00.tar.gz (18745730730 bytes)
Net::FTP: Net::Cmd::getline(): timeout at /usr/share/perl/5.26/Net/FTP/dataconn.pm line 82.
Unable to close datastream at /usr/bin/update_blastdb line 202.
Net::FTP=GLOB(0x5610fb59b8f8)&gt;&gt;&gt; PASV
Net::FTP: Net::Cmd::getline(): unexpected EOF on command channel: Connection reset by peer at /usr/bin/update_blastdb line 203.
Failed to download nr.00.tar.gz.md5!
Net::FTP: Net::Cmd::_is_closed(): unexpected EOF on command channel: Connection reset by peer at /usr/bin/update_blastdb line 101.
Net::FTP: Net::Cmd::_is_closed(): unexpected EOF on command channel: Connection reset by peer at /usr/bin/update_blastdb line 101.

The timeout happens after ~35 minutes and a file that is approximately 18GB big is being downloaded, which matches the expected filesize. The checksum file (nr.00.tar.gz.md5) is not downloaded. So I'm not sure which of the two files is actually the problem.
I tested downloading the nt database and everything seems to work fine, so I don't think the script is the problem. For comparison, this is the nt download output for the first file
Downloading nt.00.tar.gz...Net::FTP=GLOB(0x562575a73168)&gt;&gt;&gt; PASV
Net::FTP=GLOB(0x562575a73168)&lt;&lt;&lt; 227 Entering Passive Mode (165,112,9,229,196,51).
Net::FTP=GLOB(0x562575a73168)&gt;&gt;&gt; RETR nt.00.tar.gz
Net::FTP=GLOB(0x562575a73168)&lt;&lt;&lt; 150 Opening BINARY mode data connection for nt.00.tar.gz (4065912989 bytes)
Net::FTP=GLOB(0x562575a73168)&lt;&lt;&lt; 226 Transfer complete
Net::FTP=GLOB(0x562575a73168)&gt;&gt;&gt; PASV
Net::FTP=GLOB(0x562575a73168)&lt;&lt;&lt; 227 Entering Passive Mode (165,112,9,229,195,107).
Net::FTP=GLOB(0x562575a73168)&gt;&gt;&gt; RETR nt.00.tar.gz.md5
Net::FTP=GLOB(0x562575a73168)&lt;&lt;&lt; 150 Opening BINARY mode data connection for nt.00.tar.gz.md5 (47 bytes)
Net::FTP=GLOB(0x562575a73168)&lt;&lt;&lt; 226 Transfer complete

Any help would be appreciated.
Same here. I used axel to download it a week ago, but fail to get finished. Also, the downloaded taxa zipped file (60Mb) doesn't match md5sum. Apparently, they update the FTP files every 30 minutes or 1 hour.