BIOINFO1/SMPSERVE Services (Obsoleted)

The BIOINFO1/SMPSERVE services (formerly at http://bioinfo1.hku.hk/bio) are running on a Dell R900 server dedicated for the support of bioinformatics application services and general purpose computing application services. The system is equipped with 16 processor cores and running Redhat Enterprise Linux with built-in GNU C/C++ and Fortran compilers.

Staff/students with valid HKU Portal UID can apply for an account to run the following application services on the system.

  • Information Sheet of BIOINFO1/SMPSERVE account application: CF-151 at http://www.its.hku.hk/forms
  • BIOINFO1/SMPSERV Application Forms: CF-151(a-d) at http://www.its.hku.hk/forms
    (The smpserv system has been retired in early 2016. It is recommended to apply a HPC account instead.)

Bioinformatics application services

  • EMBOSS
  • NCBI BLAST
  • FASTA
  • MFOLD
  • ReadSeq
  • Glimmer
  • ClustalW
  • DIALIGN2
  • PHYLIP
  • FASTDNAML
  • Scan_for_matches
  • HMMER
  • CAP
  • SAPS
  • Phrap/Consed

General Purpose Computing application services

  • GIS data (data access only)
  • MATLAB R2013a (Signal Processing Tool, Simulink, Neural Network)
  • Mathematica 7.0

Compilers

  • GNU C/C++ Compiler v4.1.1
  • GNU Fortran 77 Compiler v3.4.6
  • PERL v5.8.8
  • Java JDK v1.6.0_14

Hardware Configuration

  • 4 x 2.93GHz Quad Core Xeon MP Processors (total 16 processor cores)
  • 16GB of memory
  • connection to Dell MD3000i iSCSI storage about 2TB capacity
  • Aggregated GLOPS = 93.76 (theoretical peak)
  • Aggregated SPECfp_rate2006 = 108
  • Aggregated SPECint_rate2006 = 177

Operating System

  • Redhat Enterprise Linux v5