Please try a rerun now.
Small bit of extra advice unless you were doing this on purpose for some reason (exploratory?): The genome build (database) that you map against shouldn’t have the resulting
BAM be modified to be some other build (some tools do interpret the “database” without you choosing). And tool form parameters should not be directly set as being anything other than the exact reference genome the
BAM results (content) are actually based on when tools do not automatically interpret the “database” of the input(s).
NVC requires that you set the “database” yourself (and it can be a custom genome build’s “database” specific to your account, if you want to use some genome not natively indexed on the server) or you can just choose the original custom genome fasta dataset instead for that tool (but not all tools, some do require a “database” is assigned).
Coordinates change between genome releases, even if the chromosome names are the same (or mostly the same). Variant analysis would be particularly, and negatively, impacted by that kind of mismatch – meaning, the result would be scientifically invalid, even if the tool did not fail.
We are working to correct this right now. The problem is not just impacting this genome or just this tool. More feedback very soon. Thank you for posting back the full error message! Very helpful