runAlignment max dataset size?

[bawee]

runAlignment does not complete when run with 165 genomes. The job fails to complete, resulting in 300Gb of data being dumped into my home directory.

aln.pbs.run.1:
165 genomes
Starting Nucmer: Mon Dec 16 18:26:41 EST 2013
....................................................................................................................................................................
Finished Nucmer Thu Dec 19 09:26:20 EST 2013
Starting MUGSYWGA: Thu Dec 19 09:26:20 EST 2013
sh: line 1: 43145 Killed /home/uqmstan1/Beatson_shared/bin/mugsy/1.2.2/mugsyWGA --outfile /scratch/pbs.775825[1].paroo3/output/Prokka_121213 --seq /scratch/pbs.775825[1].paroo3/output/Prokka_121213.all.fsa --aln /scratc
h/pbs.775825[1].paroo3/output/Prokka_121213.xmfa --distance 1000 --minlength 30 --unique true > /scratch/pbs.775825[1].paroo3/output/Prokka_121213.mugsywga.out 2> /scratch/pbs.775825[1].paroo3/output/Prokka_121213.mugsywga.stderr
system /home/uqmstan1/Beatson_shared/bin/mugsy/1.2.2/mugsyWGA --outfile /scratch/pbs.775825[1].paroo3/output/Prokka_121213 --seq /scratch/pbs.775825[1].paroo3/output/Prokka_121213.all.fsa --aln /scratch/pbs.775825[1].paroo3/output/Prokk
a_121213.xmfa --distance 1000 --minlength 30 --unique true > /scratch/pbs.775825[1].paroo3/output/Prokka_121213.mugsywga.out 2> /scratch/pbs.775825[1].paroo3/output/Prokka_121213.mugsywga.stderr failed: 35072: at /home/uqmstan1/Beatso
n_shared/bin/mugsy/1.2.2/mugsy line 906.