The Brutus and Euler clusters are running a version of the free Community Enterprise Operating System (CentOS, binary compatible with Redhat Enterprise Linux), optimized for HPC applications and high-performance parallel file systems.

SIS offers and supports a rich set of commercial and open source applications covering many research fields, for example:

  • Bioinformatics and life sciences:
    Bioconductor, BLAST, Bowtie, Cellprofiler, CLC Genomics Server, CuffLinks, FSL, TopHat
  • Computational fluid dynamics:
    Ansys CFX, Ansys FLUENT, OpenFOAM, STAR-CD, STAR-CCM+
  • Finite element methods:
    Ansys, Abaqus, MSC Marc, MSC Nastran
  • Multi-physics phenomena:
    Ansoft Maxwell, COMSOL Multiphysics, Trilinos
  • Quantum chemistry and molecular dynamics:
    Abinit, ADF, CP2K, GAMESS, Gaussian, GROMACS, LAMMPS, Materials Studio, Molpro, NAMD, NWChem, Orca, Q-Chem, Quantum ESPRESSO, Turbomole, VASP
  • Symbolic, numerical and statistical mathematics:
    Maple, Mathematica, MATLAB, Octave, R, Stata
  • MATLAB Distributed Computing Server (MDCS) for offloading computationally-intensive calculations from your workstation to a computer cluster as transparently as possible
  • Visualization:
    FFmpeg, GDL, IDL, Splash, VisIt

For most of these applications, we keep several versions side-by-side to ensure the continuity of long-term research projects spanning many years. In addition to these centrally installed applications, experienced users have the possibility to develop and run their own software on the cluster. If necessary, SIS will be happy to assist with software installation and optimization. We provide a variety of development tools for the most common programming languages (C/C++, Fortran, Java, Python):

  • Compiler:
    GCC, Intel, LLVM, Open64, PGI
  • Scientific libraries:
    ACML, Boost, CUDA, FFTW, GSL, MKL, NetCDF, OpenBLAS
  • MPI libraries:
    MVAPICH2, Open MPI
  • Build systems:
    Apache Ant, CMake, GNU autotools, make, qmake
  • Version control:
    CVS, Git, Mercurial, SVN

(Internal link to a list of third-party applications.)