National Animal Genome Research - Bioinformatics Coordination Program
Linux CentOS 5, 8-Node Cluster Server
(Commissioned 21:02:49 PM, 28 Jul 28, 2007)

Capacity:

  • Atipa 8-node cluster, each with Dual AMD Opteron 250 (2.2GHz) processor
  • OS: CentOS (Linux) Cluster by Atipa Technologies
    1. One (1) head node (for distribution of parallel jobs and managing the cluster);
    2. Six (6) compute nodes, each with 8 GB RAM and 320 GB HD.
    3. One (1) large compute node with 16 GB RAM and 320 GB HD.
    4. Storage:
      4 x 320GB in raid-5 (1.1TB useable; 2007-2010, retired)
      23 x 2TB in raid-6 (36TB usable; 2010 upgrade).
  • Host: By the Iowa State Univeristy Durham Computation Service Center. A hosting stuff is on duty 24/7.

History:

  • Three (3) out of six (6) compute nodes went bad in the course of 3 years (2012-14).
  • The 36TB disk raid experienced a degradation damage in the fall 2015
  • Subsequently (Dec. 2015 - Feb. 2016) the unit was re-configured into a single unit 33TB storage server, moved from its own racket into the ISU shared standard blade rackes. As part of the re-configuration, 1 large compute node was contributed to ISU HPC system in exchange for some computing access; 3 smaller nodes were retired.

An ad hoc list of software package installed:

  • CAP3
  • Exonerate
  • GenScan
  • miranda
  • mpiBlast (parallel)
  • MySQL server
  • NCBI Blast suite
  • PHASE
  • Postgres server
  • WU-blast suite
  • ASReml3 (node007)
  • maqview
  • PaCE
  • REPCLASS
  • wgs
  • bowtie
  • bwa
  • cistematic
  • mm9splices
  • RNAFAR
  • samtools

Nodes Monitor
Disclaim: For each of these software listed on the left, users will have to obtain respect users permissions/ license where it applies.

Contact: NAGRP Bioinfo Team

Last modified: Apr 03 2018 09:55