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Software

This page describes all software installed on each of the access nodes for the HPC cluster.

Applications and Tools

Name Version
Condor Documentation 1
Gaussian 03 (rev E01)
Matlab 7.10.0.499 (R2010a)
Matlab Distributed Computing Engine r2010a/r2012a
matlab-new r2012a
MOAB 5.3.5
NAMD 2.6
ncview 1.93g
Octave 3.0.2
R (statistical computing) 2.7.0
VMD 1.8.6
xmgrace 5.1.22

Libraries

Name Version
Arpack Library 96
Biopython 1.4+
FFTW 2.1.5
HDF 5 5-1.6.4
Intel Math Kernel Library
MPICH v2 GNU 1.0.3
MPICH v2 Intel 1.0.3
MPICH v2 PGI 1.0.3
NetCDF 4.0-5
OpenMPI GNU 1.3.3-1
OpenMPI Intel 1.3.3-1
OpenMPI PGI 1.2.4
SciPy/NumPy 1.2.1

Programming Languages

Name Version
GNU C/C++ 4.1.2
GNU Fortran 4.1.2
Intel C/C++ 11.1-059
Intel Fortran 11.1-059
Javac 1.5.0_10
Portland Group Compilers 9.0-4
Python 2.6 2.6

Bioinformatics Suite

Important information about this software category
Name Version
HMMER 2.3.2
MPI-BLAST 1.5.0PIO
ClustalW 2.0
FastA 3.5
Glimmer 3.02
MrBayes 3.1.2
MAFFT 6.24
mpiFastA 3.4
mpiMrBayes 3.1.2
ClustalX 2.0
MUMmer 3.20
Mauve 2.0.0
PAUP* 4.0b10
RepMaker 1.1