[maker-devel] High memory consumption

[Kyungyong Seong]

Hi!

MAKER has been running fine on my genome (~1Gb; 800 contigs) but is now
stuck with ~30 contigs that keep failing because of high memory
consumption. I am using mpi, running 20-30 contigs for annotation in
parallel, depending on the machine. I started with 64Gb memory machines but
have moved up to 1.5 Tb machines as the job kept failing. Unfortunately,
all memory of this machine is also saturated. It looks like tblastx is
taking lots of time and resources. The databases I have are about 200 Mb
for the proteins and 570 Mb for cDNAs. max_dna_len is set as 100000 in
maker_opt.ctl. Would there be a way to improve this? Decreasing the number
of jobs for MPI slowed down memory saturation but eventually the same
happened.

Thank you!
Kyungyong
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