Genome size could not be calculated from GFF file

[ebustos128]

Hi,
When I try to identify the pi and FST parameters with the gff file. The tool print the following error:

Reading GFF file

Reading Input_POGENOM/RAW_DATA/Genomes/PATOS/1T0.BINS_5.001.gff
Error: Genome size could not be calculated from GFF file

I have obtained the gff file with the following script:

for i in $(ls *fa); do echo $i; prodigal -i $i -d $i.fnn -a $i.faa -f gff -o $i.gff; done

Thanks,
Esteban

[lfdelzam]

you need to add --genome_size or --fasta_file <FASTA_FILE> when using POGENOM if your gff file doesn't include the contigs in fasta format.