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file type requested not found in NCBI #232

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mvalvano opened this issue Aug 27, 2024 · 1 comment
Open

file type requested not found in NCBI #232

mvalvano opened this issue Aug 27, 2024 · 1 comment

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@mvalvano
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I am trying to download protein fast files from complete genomes
My code is:

% ncbi-genome-download -s genbank bacteria -l complete -F protein-fasta -g "Enterobacter" -o /Users/mvalvano/
ncbi_genomes/enterobacter-faa --flat-output -P -p 4

I get the errors below. It looks that if finds something but there is no file with the requested structure.

ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz

What should I do?
Thanks

@katievigil
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@mvalvano I am getting the same error did you ever figure it out?
(base) [kvigil@qbd234 protein]$ ncbi-genome-download --formats protein-fasta viral -o /work/kvigil/onr.raw.data.sup.trim/rawdata/results/trimmed
/epi2me_wf_metagenomics/ref_database/protein/
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'
ERROR: No entry for file ending in '_protein.faa.gz'

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