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I've been trying to get the databases to download and get the taxonomy working.
lastly I got this error.
Reading NCBI_DATABASE/nucl_gb.accession2taxid.gz.
Error in readBin(inn, what = raw(0L), size = 1L, n = BFR.SIZE) :
error reading from the connection
In addition: Warning message:
In readBin(inn, what = raw(0L), size = 1L, n = BFR.SIZE) :
invalid or incomplete compressed data
packageVersion('taxonomizr')
[1] ‘0.6.0’
The text was updated successfully, but these errors were encountered:
A bit more output might be useful for debugging but that sounds like it may be a download problem. Could you redownload NCBI_DATABASE/nucl_gb.accession2taxid.gz and/or check to see that its filesize is close to the expected 8263483 KB or that its md5 matches:
ftp://ftp.ncbi.nih.gov/pub/taxonomy/accession2taxid/nucl_gb.accession2taxid.gz.md5
That's good it ended up working for you. The package has had a few hard to replicate reports of download problems lately e.g. #27. Not sure what's causing them but I think when I get a chance I'll add an automatic md5 check after the download to at least catch when they happen. Thanks for the bug report.
I've been trying to get the databases to download and get the taxonomy working.
lastly I got this error.
Reading NCBI_DATABASE/nucl_gb.accession2taxid.gz.
Error in readBin(inn, what = raw(0L), size = 1L, n = BFR.SIZE) :
error reading from the connection
In addition: Warning message:
In readBin(inn, what = raw(0L), size = 1L, n = BFR.SIZE) :
invalid or incomplete compressed data
The text was updated successfully, but these errors were encountered: