While on Helpdesk debugging a problem probably caused by incorrectly calling this code, I noticed https://github.com/cancerit/vafCorrect/blob/5.7.2/perl/lib/Sanger/CGP/Vaf/Data/ReadVcf.pm#L102 ``` open my $fai_fh , '<', $self->{'_g'}.'.fai'; while (<$fai_fh>) { ``` If the `.fai` file is not found, then this error will not be reported in a meaningful way.