Kraken Standard Database about kraken HOT 4 CLOSED

Looks like your download was incomplete or corrupt.

Try downloading the .md5 file from ftp://ftp.ncbi.nih.gov/pub/taxonomy/ and check it was downloaded correctly.

from kraken.

I downloaded the md5 and it was downloaded correctly.
I also tried downloading gi_taxid_nucl.dmp.gz from ftp://ftp.ncbi.nih.gov/pub/taxonomy/gi_taxid_nucl.dmp.gz and running gzip to unpack the gz file and it works perfectly.

Is there any other reason like the version of kraken(I'm using 0.10.6) that could cause this error?

from kraken.

@gkarthik it's because there was a previously download file with the same name, so it saved it as a new name with .1 and then .2 extension.

See 2016-06-23 16:36:45 (4.74 MB/s) - “gi_taxid_nucl.dmp.gz.2” saved [1405001825] in your first post.

from kraken.

I dont recall the reason for the error but i do remember that it should not interfere with your database build. We have updated the method of downloading the taxonomy so this should no longer cause an issue with the newest version of Kraken.

from kraken.