j2ssh.properties

port=2222
host=localhost
bsub=bsub -q  longblastq -n 1 -R 'select[blast && mem > 500] rusage[mem=500]' 
blastp=-I /nfs/pathsoft/prod/perl/flexi_blast.pl -p 
blastx=-I /nfs/pathsoft/prod/perl/flexi_blast.pl -x
tblastx=-I /nfs/pathsoft/prod/perl/flexi_blast.pl -tx
blastn=-I /nfs/pathsoft/prod/perl/flexi_blast.pl
fasta=-I /nfs/disk222/yeastpub/bio-soft/fasta/fasta33_t -B -S -q -b 100 -H -l /nfs/disk222/yeastpub/bio-soft/fasta/pubseqgbs
fastx=-I /nfs/disk222/yeastpub/bio-soft/fasta/fastx33_t -B -S -q -b 40 -H -l /nfs/disk222/yeastpub/bio-soft/fasta/pubseqgbs
wdir=/nfs/pathscratch1/scratch
%uniprot=%U
%uniprot_archaea=%A
%uniprot_bacteria=%B
%uniprot_eukaryota=%E
%uniprot_viruses=%V
%uniprot_rest=%R
%malaria=%M
%kineto_aa=%K
default_db=%uniprot_bacteria
remotedir.PD=/nfs/pathdata
remotedir.YP=/nfs/disk222/yeastpub
localdir.PD=/nfs/pathdata
localdir.YP=/nfs/disk222/yeastpub