error runing population in stacks

Question

[mariana.ferrera]

Hi

Im runing a population script but the process get aborted with the following message

Batch 1 populations: src/utils.h:121: double GtLiks::at(std::size_t) const: Assertion has_lik(gt)' failed. Assertionhas_lik(gt)' failed

What seems strange is that when i run de denovo wrap it runs complete including the population module is only when i try to run separatley that i havve this problem.

My scritp

populations -P $PWD/stacks/m5M3n4_denovo_mrf --popmap ./popmap_mrf.txt -O ./stacks/pop_534 -p 1 -r 0.8 --min-maf 0.05 --fasta-samples --fasta-loci --vcf --genepop ---write-single-snp --threads 3

[betsy.s.collins]

Did you ever solve this error? I am getting the exact same error when using a vcf file (from another program) as input to populations, but only when I also request --vcf output. It works just fine when I ask for other file types as output (--genepop and --phylip both worked).