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

Applications and Tools

	Version	General Access head node	SCS head node	COAPS head node	MET head node
Migrate	2.4.3
Matlab Distributed Computing Engine	r2008a
MOAB	5.1
Matlab	7.5.0.338 (R2007b)
VMD	1.8.6
NAMD	2.6
LS-DYNA	7600-2-1224
GROMACS	3.3.1
Gaussian	rev D01

Libraries

	Version	General Access head node	SCS head node	COAPS head node	MET head node
SciPy/NumPy	1.0.4
OpenMPI GNU	1.2.4
MPICH v1 GNU	0.9.9
MPICH v2 GNU	1.0.1
MPICH v2 PGI	1.0.1
OpenMPI PGI	1.2.4
MPICH v1 PGI	0.9.9
NetCDF	3.2.6
HDF 5	5-1.6.4
MPICH v2 Intel	1.0.1
MPICH v1 Intel	0.9.9
OpenMPI Intel	1.2.4
BioPerl	1.5+
Biopython	1.4+

Programming Languages

	Version	General Access head node	SCS head node	COAPS head node	MET head node
Portland Group Compilers	7.1-1
Intel Fortran	10.0.026
Intel C/C++	10.0.026
GNU Fortran	3.4.6
GNU C/C++	3.4.6

Bioinformatics Suite

Important information about this software category

	Version	General Access head node	SCS head node	COAPS head node	MET head node
GCG	11.1.3
EMBOSS	4.0.0
ReadSeq	1993
BLAST	2.2.+
MPI-BLAST	1.4.0
FastA	3.4
mpiFastA	3.4
ClustalW	2.0
ClustalX	2.0
T-Coffee	5.29
MAFFT	6.24
SeaView	2.2
HMMER	2.3.2
MEME	3.5.7
Glimmer	3.02
Mauve	2.0.0
MUMmer	3.20
PAUP*	4.0b10
RepMaker	1.1
RAxML	7.0.4
mpiRAxML	7.0.4
MrBayes	3.1.2
mpiMrBayes	3.1.2
GARLI	0.951
mpiGARLI	0.942
PHYLIP	3.67
PAML	4