fix for bash

lib/j2ssh/j2ssh.properties

@@ -11,15 +11,12 @@ host=localhost
 #
 # Sanger options
 # 
-#bsub=bsub -q normal -n 1 -R 'select[blast && mem > 500] rusage[mem=500]' 
-bsub=bsub -q normal -n 1 -R 'select[mem > 500] rusage[mem=500]' 
+bsub=source .profile; bsub -q normal -n 1 -R 'select[mem > 500] rusage[mem=500]' 
 blastp=-I /software/pathogen/psu_svn/trunk/genexec/perl/src/flexi_blast.pl -p 
 blastx=-I /software/pathogen/psu_svn/trunk/genexec/perl/src/flexi_blast.pl -x
 tblastx=-I /software/pathogen/psu_svn/trunk/genexec/perl/src/flexi_blast.pl -tx
 blastn=-I /software/pathogen/psu_svn/trunk/genexec/perl/src/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
 fasta=-I /software/pathogen/external/bin/fasta34_t -B -S -q -b 100 -H -l /software/pathogen/external/etc/pubseqgbs
 fastx=-I /software/pathogen/external/bin/fastx34_t -B -S -q -b 40 -H -l /software/pathogen/external/etc/pubseqgbs