Error: Incomplete database file

[guang yan]

Hi Ben,

How should this error be solved?

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[Ben Bolduc]

It looks like no sequences were read into the database file.

Could you check the contents of “vcontact/merged.faa” and ensure there are sequences and they’re in the appropriate format?

And if a previous run failed, try to run it in a fresh output directory.

-Ben

[guang yan]

Hi Ben,

Thank you for your reply！

I would like to ask if the gene-to-genome mapping file format is like this ？

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[Ben Bolduc]

Yes, that appears to be correctly formatted! I would add ‘protein_id’, ‘contig_id’ and ‘keywords’ to your header.

-Ben

[guang yan]

When running vcontact2:ERROR:vcontact2: Unable to identify file format for gene-to-genome.txt.

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[Ben Bolduc]

Can you change the extension of your gene-to-genome.txt to “csv”?

-Ben