I’ve installed the latest version of Sun Microsystems Gridengine product (N1GE 6.0u8) on our 64-bit Ubuntu LINUX dedicated processing host for 454 assemblies. In the absence of assembly benchmark or production data, I’ve installed the latest version of the NCBI toolkit (blast, et alia), an rsync process from our target repository and submitted a couple of BLAST test sets to the system as a test.
% qstat -f
queuename qtype used/tot. load_avg arch states
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all.q@merge.kunaufamily.org BIP 4/4 3.68 lx24-amd64
1 0.55500 BLAST kunau r 11/02/2006 21:30:35 1 60
1 0.55500 BLAST kunau r 11/02/2006 21:31:05 1 63
1 0.55500 BLAST kunau r 11/02/2006 21:31:20 1 64
1 0.55500 BLAST kunau r 11/02/2006 21:31:35 1 65
############################################################################
- PENDING JOBS - PENDING JOBS - PENDING JOBS - PENDING JOBS - PENDING JOBS
############################################################################
1 0.55500 BLAST kunau qw 11/02/2006 21:04:44 1 66-100:1
2 0.55500 BLAST kunau qw 11/02/2006 21:32:03 1 1-3455:1
They appear to be running as expected.
The data and binary paths are the same as those on our ROCKS clusters. This should make it possible for our users to run any of their working scripts on this new system. Nothing new here.