I'm attempting to call variants using a reference graph I've generated first with minigraph
./minigraph -xggs -t16 f1.fa f2.fa f3.fa f4.fa f5.fa > PG_1.gfa and then vg
./vg convert -g -a PG_1.gfa > PG_2.vg.
When I try to index, I'm prompted to modify the length of the nodes to 256
./vg mod -X 256 PG_2.vg > PG_3.vg but it stalls out when I use this to index
./vg index -x -p PG_3.xg -g PG_3.gcsa PG_3.vg
Building XG index Saving XG index to Ldec_vg.xg
Generating kmer files...
Building the GCSA2 index...
InputGraph::InputGraph(): 2193921420 kmers in 1 file(s)
The PG_3.vg input is 1.3G in size, how much memory and CPUs should I be using to generate an index and call variants using fastq reads approximately 1.5-2GB in size?