The Big Red Cluster

Available Software

The following table contains all of the macros and keywords available for use with the SoftEnv system on Big Red. If you need a software package that is not listed in this table, please submit a Research Systems Software Request. For more information on the SoftEnv system, please see the Softenv section of the Big Red Primer.

In addition to the packages available via SoftEnv, there are several utilities and applications included in the SuSE Linux Enterprise Server distribution. Your default path should be configured to allow use of the distribution software. Please contact the High Performance Systems group, hps-admin@iu.edu, if you feel there's a problem with your environment, or software that should be available in the distribution.

(A single table of all keywords is also available)

HPC

KeyDescription
+Chaco-64v.2.2; Multilevel graph partitioning package
+ItclItkITcl 8.4.14, ITk 3.3, IWidgets 4.0.1
+SVDPACK-64SVDPACK 64-bit for Fortran
+atlas-32Automatically Tuned Linear Algebra Software
+atlas-64Automatially Tuned Linear Algebra Software
+blacs-32Netlib distribution, 32-bit, MPICH-MX version
+blacs-64Netlib distribution, 64-bit, MPICH-MX version
+blas-32Netlib distribution, 32-bit
+blas-64Netlib distribution, 64-bit
+drseedRandon seed generator
+fftw2.1.5-64-singleFFTW 2 1.5 64-bit, single precision, XLC/F build
+fftw3Fastest Fourier Transform in the West, system default version
+fftw3-32-doubleFFTW 3 - 32 bit, double precision, XLC/F build
+fftw3-32-singleFFTW 3 - 32 bit, single precision, XLC/F build
+fftw3-64-doubleFFTW 3 - 64 bit, double precision, XLC/F build
+fftw3-64-singleFFTW 3 - 64 bit, single precision, XLC/F build
+gmpGNU Multiple Precision Library, system default version
+gmp-4.2.1GNU Multiple Precision Library 4.2.1
+gslGNU Scientific Library - xlc compiled
+gsl-1.8-gccGNU Scientific Library - gcc compiled
+gsl-1.8-gcc-32GNU Scientific Library - gcc compiled, 32-bit
+gsl-1.8-xlcGNU Scientific Library - xlc compiled
+hdf5-1.6.5HDF5 1.6.5 64-bit addressing
+hdf5-1.6.5-64HDF5 1.6.5 64-bit addressing
+hdf5-1.6.5-r1HDF5 1.6.5 64-bit addressing
+medgenMedgen - Custom Packages
+nektar-g2-ibm-64Experimental, distributed NEKTAR
+netcdf-3.6.1-gcc-32NetCDF 3.6.1, 32-bit, GCC, with -fPIC switch
+netcdf-3.6.1-gcc-64NetCDF 3.6.1, 64-bit, GCC, with -fPIC switch
+netcdf-3.6.1-ibm-32NetCDF 3.6.1, 32-bit, IBM XL, with -qpic=large switch
+netcdf-3.6.1-ibm-64NetCDF 3.6.1, 64-bit, IBM XL, with -qpic=large switch
+octave-2.1.73Octave-2.1.73, gcc, 32-bit
+parpackPARPACK eigenvectors of large matricies
+shelxShelx - Modified for huge data
+sprng2-32-serialSPRNG, 32-bit lib for serial apps, No Prime Modulus Linear Congruential Generator
+sprng2-64-serialSPRNG, 64-bit lib for serial apps
+svdlibc-32SVDLIBC 32-bit
+svdlibc-64SVDLIBC 64-bit
+svdpackc-32SVDPACKC 32-bit
+svdpackc-64SVDPACKC 64-bit
@GA-mpich-ibm-3232 bit Global Array MPICH compiled
@GA-mpich-ibm-6464 bit Global Array MPICH compiled
@auto-07-32-MPIAuto ver. 07p; 32-bit addressing; MPI-enabled
@auto-07-64-MPIAuto ver. 07p; 64-bit addressing; MPI-enabled
@charm++CHARM++5.9 IBM 64bit FFTW3-64-single MPICH-MX-IBM-64
@lapack-32Lapack - Netlib distribution, 32-bit
@lapack-64Lapack - Netlib distribution, 64-bit
@scalapack-32Scalapack - Netlib distribution, 32-bit, MPICH-MX version
@scalapack-64Scalapack - Netlib distribution, 64-bit, MPICH-MX version

MPI

KeyDescription
+lam-ip-ibm-32LAM P4 IBM 32bit
+lam-ip-ibm-64LAM P4 IBM 64bit
+mpich-mx-1.2.7..1-gcc-32MPICH MX 1.2.7..1 gcc 3.3.3 32-bit
+mpich-mx-1.2.7..1-gcc-4.1.1-64MPICH MX 1.2.7..1 gcc 4.1.1 64-bit
+mpich-mx-1.2.7..1-gcc-64MPICH MX 1.2.7..1 gcc 3.3.3 STATIC 64-bit
+mpich-mx-ibm-32MPICH MX xlc/xlf 32bit
+mpich-mx-ibm-64MPICH MX xlc/xlf 64bit
+openmpi-1.1-mx-gcc-3.3.3Open MPI 1.1, gcc 3.3.3 Test static version
+openmpi-1.1.1-xlc-8.0-32Open MPI 1.1.1 STATIC, XL-8.0 32-bit (MX,TCP,Shared Memory)
+openmpi-1.1.1-xlc-8.0-64Open MPI 1.1.1 STATIC, XL-8.0 64-bit (MX,TCP,Shared Memory)
+openmpi-1.2-mx-ibm-64Open MPI 1.2 MX STATIC IBM C/F 8/10.1 64-bit
+openmpi-1.2.4-ibm-32OpenMPI, 32 bit built with IBM compiler (mx,sm,self,tcp)
+openmpi-1.2.4-ibm-64OpenMPI, 64 bit built with IBM compiler (mx,sm,self,tcp)
+openmpi-ibm-64OpenMPI, 64 bit built with IBM compiler (mx,sm,self,tcp)

Biology

KeyDescription
+GarliHeuristic phylogenetic package using GTR model
+IMIsolation with Migration - population divergence modelling
+Raster3DGenerating raster images of proteins (default)
+Raster3D_2.7dGenerating raster images of proteins or other molecules
+bioperlBioperl application 1.4.0
+blastzblastz-2004-12-27
+blastz-2004-12-27Blastz alignment application
+boxshadeboxshade
+clustalw-mpiClustalw Multiple Alignment Application (Parallel)
+crimapCrimap - Optimized
+fastaFasta Sequence Comparison
+imIsolation with Migration - population divergence modelling
+mcmccoalMarkov Chain Monte Carlo Simulation of Genetic Evolution
+memeMEME Motif Discovery Program (Default)
+meme-3.5.4MEME Motif Discovery Program 3.5.4
+molscript-2.1.2Displaying molecular 3D structures
+mpi-hmmerParallel HMMer, uses mpich-mx-ibm-32
+mrbayesBayesian estimation of Phylogeny
+mrbayes-3.1.2MrBayes 3.1.2
+multiclustalautomate alignment parameter for Clustal W
+mummerMUMMER genome-level alignment tool
+ncbiNCBI-2.2.16 (BLAST Default)
+ncbi-2.2.12NCBI-2.2.12 (BLAST)
+ncbi-2.2.15NCBI-2.2.15 (BLAST)
+ncbi-2.2.16NCBI-2.2.16 (BLAST)
+pamlpaml-3.15, xlc 8.0
+phylipPrograms for inferring phylogenies
+phylip-3.65Phylip, programs for inferring phylogenies, 3.65
+sibsSibs, originally DOS; Help file in $TG_APPS_PREFIX/mm2-sibs/sibs.help
+simwalk2Simwalk2 version 2.91
+tree-puzzleTree-Puzzle 5.2
@RosettaProtein prediction and design software
@bioBioinformatics Applications
@phylogibbs-1.0-gcc-32Transcription factor binding sites finder, 32 bit, gcc
@phylogibbs-1.0-gcc-64Transcription factor binding sites finder, 64 bit, gcc
@phylogibbs-1.0-ibm-64Transcription factor binding sites finder, 64 bit, IBM compiler

Chemistry

KeyDescription
+amber8-serialAMBER 8, 64-bit, XL, serial
+dock-5.4DOCK 5.4.0 with Serial and dock5mpi-mpich2-ip-ibm-32
+gamess-ibm-32Gamess, 32-bit, XL
+gamess-ibm-64Gamess, 64-bit, XL
+gromacs-3.3.1-mpi-64Gromacs 3.3.1 MPICH-MX-64, FFTW3-64-single
+gromacs-3.3.1-serial-64Gromacs 3.3.1, Serial, FFTW3-64-single
+gromacs-3.3.2-serial-double-64Gromacs 3.3.2, Serial, double precision, FFTW3-64-double
+namd-netnamd research version, do not use for production
+procheckProcheck Package
+stride-1.0Protein secondary structure assignment from atomic coordinates
+vmdDefault for vmd
+vmd-1.8.6NAMD viz package with the graphics removed.
@amber9AMBER 9, 64-bit, XL, Serial & Mpich-mx-ibm-64
@cpmd-3.11-IBM-64Car-Parrinello Molecular Dynamics w/ MPI & SMP
@namd-2.6-ibm-64NAMD 64-bit, IBM XL, MPICH-MX-IBM-64
@namd-2.6b2-ibm-64NAMD 64-bit, IBM XL, MPICH-MX-IBM-64
@namd-ibm-64NAMD 64-bit, IBM XL, MPICH-MX-IBM-64

Climate

KeyDescription
+cdo-32CDO-32-1.0.7: use w/ netcdf-3.6.1-ibm-32
+cdo-64CDO-64-1.0.7: use w/ netcdf-3.6.1-ibm-64

Compilers

KeyDescription
+gcc-4.1.1Gnu gcc-4.1.1
+gcc-4.2.2Gnu gcc-4.2.2

Development

KeyDescription
+PyACTS-1.0-python2.3-32Python2.3 wrappers for the linear algebra libraries, 32-bit
+PyACTS-1.0-python2.4.3-32Python2.4 wrappers for the linear algebra libraries, 32-bit
+PyACTS-1.0-python2.4.3-64Python2.4 wrappers for the linear algebra libraries, 64-bit
+antApache Ant, system default version
+apache-antApache Ant, system default version
+apache-ant-1.6.5Apache Ant 1.6.5, Java-based build tool
+apache-ant-1.6.5-r1Apache Ant, system default version
+berkeley_upc-2.4.0Berkeley UPC Compiler
+berkeley_upc-2.4.0-mpiBerkeley UPC Hybrid Compiler
+berkeley_upc-2.4.0-openmpi-ibm-64Berkeley UPC Compiler with OpenMPI and IBM XLC 64-bit
+berkeley_upc-2.4.0-openmpi-ibm-64-hybridBerkeley UPC Hybrid Compiler with OpenMPI and IBM XLC 64-bit
+fdprPost-link optimizer for Linux on POWER
+ibm-java-1.5.0IBM Java2 1.5.0 5.0 SDK & JRE
+javaJava SDK & JRE, system default version
+java-1.5.0_ibmJava SDK & JRE, system default version
+python-2.4.3_32Python: OO interpreted scripting language, 32 bit
+python-2.4.3_64Python: OO interpreted scripting language, 64 bit
+qt4Qt4 default version
+qt4-4.3.0Qt4
+rubyRuby, system default version
+ruby-1.8.4Ruby: Object-oriented scripting language, v1.8.4
+swigSimplified Wrapper and Interface Generator, system default version
+swig-1.3.29Simplified Wrapper and Interface Generator, 1.3.29
+totalviewTotalView Parallel Debugger. system default version
+totalview-7.3.0-2TotalView 7.3.0-2 Parallel Debugger
+totalview-8.3.0-1TotalView 8.3.0-1 Parallel Debugger
+xerces-c-2.7.0-gcc-32Xerces-C++ XML Parser, gcc 32-bit
+xerces-c-2.7.0-gcc-64Xerces-C++ XML Parser, gcc 64-bit
+xerces-c-2.7.0-xlc-32Xerces-C++ XML Parser, xlc 32-bit
+xerces-c-2.7.0-xlc-64Xerces-C++ XML Parser, xlc 64-bit

Geology

KeyDescription
+phast-1.2.1phast: Simulate Ground-Water Flow. XL, 64-bit

Informatics

KeyDescription
+graceGRACE software for creating eps files from data
+graphviz-2.12Graphviz software for representing structural information as graphs

Misc

KeyDescription
+batchlocal batch scripts
+nanopico substitute, system default version
+nano-1.2.5pico substitute
+postgres-gcc-64PostreSQL Relational Database Tools, 64-bit gcc
+sqlite-3.4.0-gcc-64SQLite is a small C library that implements a self-contained, embeddable, zero-configuration SQL database engine

Physics

KeyDescription
+clhep-1.9.3.1-xlc-64CLHEP 1.9.3-1, XL build
+espresso-2.1.4-mpich-ibm-64Quantum Espresso 2.1.4 64-bit XL MPICH-MX
+espresso-3.1.1-ibm-32Quantum Espresso 3.1.1 32-bit XL Serial
+espresso-3.1.1-ibm-64Quantum Espresso 3.1.1 64-bit XL Serial
+espresso-3.1.1-mpich-ibm-32Quantum Espresso 3.1.1 32-bit XL MPICH-MX
+espresso-3.1.1-mpich-ibm-64Quantum Espresso 3.1.1 64-bit XL MPICH-MX
+root_v5.14.00-gcc-64Object-Oriented Data Analysis Framework, gcc 64-bit

Purdue

KeyDescription
+povray-3.6.1POV-Ray ray tracing program

Statmath

KeyDescription
+RS clone, system default version
+R-2.4.1-gcc-32R: statistical computing and graphics, gcc 32-bit
+R-2.4.1-ibm-32R: statistical computing and graphics, IBM compiler 32-bit
+R-2.5.0-ibm-64IBM compiler 64 bit R
+R-2.6.0R: statistical computing and graphics, gcc 32-bit

System

KeyDescription
+hpssApplications to access HPSS.
+libtoolGNU libtool, system default version
+libtool-1.5.22GNU libtool, v1.5.22
+loadlIBM LoadLeveler, system default version
+loadl-3.3.2IBM LoadLeveler 3.3.2
+local-utilsLocal Big Red scripts
+moabMoab Workload Manager, system default version
+moab-4.5.0p8-200608211504Moab Workload Manager 4.5.0p8
+moab-5.1.0p9-snap.200712171308Moab Workload Manager 5.1.0p9-snap.200712171308
+ncursesGNU Ncurses, system default version
+ncurses-5.5GNU Ncurses 5.5
+openafsOpenAFS file system
+p7zipFile archiver/compressor for the 7z format
+pacmanPackage Management, system default version
+pacman-3.15Pacman 3.15
+pkg-configpkg-config, system default version
+pkg-config-0.20pkg-config
+softenvSoftware Environment Management System
+svnSubversion 1.3.2, version control system
+texinfoGNU Texinfo, system default version
+texinfo-4.8GNU Texinfo 4.8
@bigredDefault environment for Big Red users
@defaultStandard site-specific settings

Teragrid

KeyDescription
+cvs-environmentCVS Environment Variables
+globus-4.0.1-r3Globus Toolkit 4.0.1
+gx-map-0.4.5GX Map 0.4.5
+gx-map-0.5.3.2GX Map 0.5.3.2
+srb-client-3.4.1SRB Client 3.4.1
+srb-client-3.4.1-r2SRB Client 3.4.1
+tg-environment-1.0TeraGrid-specific environment settings
+tg-filesystems-1.0TeraGrid file system environment settings
+tg-policy-2.0tg-policy v2.0
+tgcp-1.0.0tgcp 1.0.0
+tgcp-1.0.0-r2tgcp 1.0.0
+tgproxy-0.9.1TeraGrid Proxy Tools 0.9.1
+tgusage-2.4tgusage 2.4-r1
+user-pathsStandard user-owned paths
@globus-4.0Globus Toolkit 4.0.1 and related tools
@teragrid-basicBasic Production Common TeraGrid Software Stack (CTSS)
@teragrid-devTeraGrid development software suite

Visualization

KeyDescription
+ImageMagickImageMagick, system default version
+ImageMagick-6.2.9-32ImageMagick 6.2.9-32
+ImageMagick-6.2.9-64ImageMagick 6.2.9-64
+VTK-4.4.2-32VTK 4.4.2, 32-bit
+VTK-4.4.2-64VTK 4.4.2, 64-bit
+VTK-5.0.2-64VTK 5.0.2, 64-bit
+cerncernlib binaries and libraries