"ERROR: Database check failed" with snpEff and possible fix

[fpusan]

Thanks for the nice software! Hopefully this is not duplicated. I got this error when trying to run snippy, installed with mamba, on a gbk reference.

WARNING_GENE_NOT_FOUND: Too many 'WARNING_GENE_NOT_FOUND' warnings, no further warnings will be shown.
WARNING_FRAMES_ZERO: All frames are zero! This seems rather odd, please check that 'frame' information in your 'genes' file is accurate.
ERROR: CDS check file '/data/fer/Betsy/mysnps/reference/./ref/cds.fa' not found.
ERROR: Protein check file '/data/fer/Betsy/mysnps/reference/./ref/protein.fa' not found.
ERROR: Database check failed.

Fix was forcing conda to use snpEff version 4 instead of 5, with conda install -c bioconda snpEff=4. Snippy ran to completion and the output seems ok so far.

[G4ce99]

Thank you so much for the fix! I just had the exact same problem.

[Ankitapal1995]

Thank you so much for fixing this issue.

[anacmj24]

It worked for me as well! Thanks heaps!

[crarlus]

I found that snpEff=5.0 also works but snpEff=5.1 does NOT

[Kiratrea]

This seems to have fixed the problem I was having, thanks!