hi, i get the same error, i already use the same ref-gemone run with atct.bam file , it work good, but when i try the same code to the gex.bam then raise a error.

freebayes -f chr6.grch38.fasta -iXu -C 2 -q 20 -n 3 -E 1 -m 30 --min-coverage 6 chr6.gex.bam -v chr6.gex.vcf -d print on screen

processing position 1852794 in sequence chr6

terminate called after throwing an instance of 'std::out_of_range

what(): basic_string::substr

zsh: abort freebayes -f chr6.grch38.fasta -iXu -C 2 -q 20 -n 3 -E 1 -m 30 --min-coverage'