Error when running prepare_golden_genes_for_predictors.pl

[kaylahardwick]

Hello,
I'm using the JAMg pipeline and getting stuck at the point where you run the prepare_golden_genes_for_predictors.pl script on the complete_reference_training_set.fasta file. Specifically, I'm getting the error "Cannot find sequence in genome". I'm wondering if this has something to do with his sequences are named in the complete_training_set file versus the original genome file...in the function fix_aat1 it seemed like it was having trouble locating $ref_id in the genome index. But if I changed the $ref_id variable so that it captured the entire name (formatted id_start-stop) I stopped getting the error. Any help is much appreciated!