HPC Software

A variety of commercial and open-source software is available to facilitate computational research at the University of Louisville. Software for bioinformatics, computational chemistry, fluid dynamics, molecular dynamcs, quantum physics and chemistry, and solid mechancics is available. In addition compilers are available for local code development including GNU, IBM, Intel, and the Portland Group suites of compilers. Oracle and MySQL database managment systems are available as well. The list below provides a high-level overview of general-purpose software that is available on the CRC.

Compilers, Debuggers, and Profilers

• Intel C, C++, and FORTRAN 
• Portland Group C, C++ and FORTRAN Compilers
  
• GNU C, C++, and FORTRAN 
• IBM XL C, C++ and FORTRAN (for AIX 6.1 on the IBM p570)
  
• TotalView Debugger (Version 8.6.2-2)
  

Parallel Environments

• OpenMPI (Versions 1.2.8 and 1.3.1)
  
• MPICH (Version 1.2.7), MPICH2 (Version 1.0.8)
  
• MVAPICH, MVAPICH2 ()
  
• Intel MPI (Version 3.2.0)
• IBM's Parallel Operating Environment for AIX/Power Systems (for AIX 6.1 on the IBM p570)
  

Computational Chemistry Software

• Gaussian 03
• Gaussian 09
• GAMESS (Version Jan. 12, 2009 R3)
  
• PC GAMESS/Firefly (Version Dec. 4, 2009)
• Amber 10
  
• NWCHEM (Version 5.1.1)
  

Mathematical and Statistical Software

• MATLAB and MATLAB Distributed Computing Server with the Parallel Computing Toolbox
• R (Version 2.8.1), Rmpi (Version 0.5-7), Rpy2
  

Visualization and Plotting

• GNUPlot (Version 4.0)
  
• Grace/Xmgr
• Jmol (Version 11.6.19)
• Molden (Version 4.6)
  
• XCrySDen (Version 1.5.17)
• VESTA
• GaussView 4
  

Libraries, Python, Java and Perl packages

• fftw (Fast Fourier Transform library, Version 3.2.1)
• ATLAS, LAPACK, BLAS, and ScaLAPACK - linear algebra libraries
  
• Intel MKL libraries (optimized versions of the above for Intel compilers)
• IBM ESSL and Parallel ESSL (for AIX 6.1 on the IBM p570)
  
• GSL, the GNU Scientific Library
• HDF5
  
• NumPy, SciPy, BioPy, and various other Python scientific libraries
• BioPerl (Version 1.6.0)
• boost C++ Libraries (Version 1.40.0)
• Java (Version Sun  1.6.0_13)
  

Bioinformatics and biostatistics Software

• ClustalW (Version 2.0.11)
• Blast (Version 2.2.19), WU-Blast (Blast2 Version 2.6)
• Blat
  
• RepeatMasker (Version 3.2.8)
• MUMmer (Version 3.2.1)
• Exalin
  

Engineering Analysis Software

• Abaqus (Version 6.9-2)

Data-, Text-, and Web-Mining Software

• Weka (Version 3.6.1)
• Lucene
  

Contact us at it-hpc@louisville.edu with any questions or for additional information.

Research Computing.  It’s happening here.