Python parser to add external gene calls and functional annotation from Prokka to Anvi'o. Uses Python3 and gffutils package (https://github.com/daler/gffutils)
Annotate your genome/metagenome with Prokka. Use the script to get two files needed for exteranl gene calls and annotations for Anvi'o
gff_parser.py GFF3_file --gene_calls gene_calls.txt --annotation gene_annot.txt
This might or might not work for your files. But I hope it works for you too.