I built a snpEff database for my nuclear genome. It worked. I am now trying to build own for the chloroplast and mitochondria genomes. I've edited the config file and I have fasta files in the genome folder and their corresponding .gff files in their respective folders. I'm getting this error after I run the build command:
Reading GFF3 data file : '/home/kmmahan/snpEff/./data/scenedesmus_obliquus_doe0152z_mitochondria/genes.gff' java.lang.StackOverflowError
I checked the fasta file and the gff file and the genome names match. It's not a memory error because I was able to build the nuclear genome database. I get the error for both the chloroplast and mitochondria database. I've searched for answers on biostars but I am stuck. Something seems to be wrong when it tries to read the gff file. What changes can I make?