European Variation Archive submission eva-sub-cli validation failure: "Sample name concordance check"

Question

[askhat]

UPD: After I added more samples to the submission metadata file, the validation completed successfully and the "sample name mismatch" error no longer appeared.

Hello,

I'm trying to submit data to the European Variation Archive (EVA) using eva-sub-cli, and I encounter a validation failure related to the "Sample name concordance check". The exact error is:

Sample name concordance check: sample name mismatch

I've verified the following:

• Sample names in the VCF files match exactly (copy-pasted) the ones in the sample metadata Excel file.
• Analysis Alias also matches.
• All names are alphanumeric, with no special characters or whitespaces.

Despite these checks, the concordance check fails. The validator report shows only this issue.

Questions:

• What else can trigger the sample name mismatch error in EVA submissions?
• Could incorrect linkage between the analysis and sample Excel elements cause this?
• Is there any way to debug this more deeply?

Any insights from people who have successfully passed this validation stage would be greatly appreciated!

best regards, Askhat

[GenoMax]

In a case like this it may be best to directly work with EVA help desk since they can see your submission and should be able to guide you through the issue.

Answer 1

[Timothee]

Just for the sake of anyone else having the same issue. You need to annotate each of your files in the "Files" tab with an analysis alias. Here the report states:

• Your GWAS analysis has a sample described in the metadata but no sample in the VCF files
• Another section with "no analysis" specified has a sample described in the VCF Files but not in the metadata