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  • Software at OSC
    Sciences and Visualization Blue Collar Computing Computational Science Engineering Research Applications Networking Research Systems Research Research Report Ralph Regula School Computational Chemistry Grid Summer Institute Young Women s Summer Institute HPC and Software Training Current Training and Events Educators Online OCS Lecture Series Press Releases Headlines Calendar of Events About OSC Media Kit OSC Media Contacts Staff Directory Visit OSC Supercomputing Support Networking Support Software at OSC Software by Field Biosciences Chemistry Structural Mechanics Fluid Dynamics Programming Visualization Software by System BALE Glenn Related Links Supercomputing Support Get a New OSC Account Available Hardware Training Accounts Statewide Software Manuals Consult Notices Visualization Software available at OSC Gnuplot a portable command line driven interactive data and function plotting utility Jmol a simple molecular visualization program ParaView an open source multi platform application designed to visualize data sets of size varying from small to very large distributed by Kitware Inc VolSuite a cross platform open source application framework for the construction of volume based tools and their integration into a common environment VTK an open source freely available software system for 3D computer graphics image processing and visualization distributed by Kitware Inc Indicates software available through OSC s Statewide Software License Distribution

    Original URL path: http://archive.osc.edu/supercomputing/software/vis/index.shtml (2013-06-13)
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  • Software available on the BALE Cluster
    OSC Software by Field Biosciences Chemistry Structural Mechanics Fluid Dynamics Programming Visualization Software by System BALE Glenn Related Links Supercomputing Support Get a New OSC Account Available Hardware Training Accounts Statewide Software Manuals Consult Notices Software available on the BALE Cluster ABAQUS a finite element analysis program ACML The AMD Core Math Library ACML is a set of numerical routines tuned specifically for AMD64 platform processors Altair HyperWorks high performance comprehensive toolbox of CAE software for engineering design and simulation AMBER a molecular simulation program ANSYS an engineering package and support routines for general purpose finite element analysis statics mode frequency stability analysis heat transfer magnetostatics coupled field analysis and modeling COMSOL Multiphysics formerly FEMLAB is a finite element analysis and solver software package for various physics and engineering applications Fluent a general purpose program for modeling a wide range of fluid flow and related transport problems Gambit a software package designed to help analysts and designers build and mesh models for computational fluid dynamics CFD and other scientific applications Gaussian 03 a connected system of programs for performing semiempirical ab initio and density functional molecular orbital MO calculations Gnuplot a portable command line driven interactive data and function plotting utility Intel Compilers an array of software development products from Intel including C FORTRAN compilers and Math Kernel Library MKL MacroModel molecular modeling software package that allows the graphical construction of complex chemical structures and the application of molecular mechanics and dynamics techniques in vacuo or in solution MATLAB a technical computing environment for high performance numeric computation and visualization that integrates numerical analysis matrix computation signal processing and graphics in an easy to use envionment NetCDF Network Common Data Form an interface for array oriented data access ParaView an open source multi platform application designed to visualize data sets

    Original URL path: http://archive.osc.edu/supercomputing/software/bale/index.shtml (2013-06-13)
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  • Software available on the Glenn Cluster
    databases for sequence similarity to identify homologs to a query sequence BLAT a sequence analysis tool which performs rapid mRNA DNA and cross species protein alignments bowtie an ultrafast memory efficient short read aligner geared toward quickly aligning large sets of short DNA sequences reads to large genomes ClustalW a general purpose multiple sequence alignment program for DNA or proteins COMSOL Multiphysics formerly FEMLAB is a finite element analysis and solver software package for various physics and engineering applications EMBOSS a sequence analysis package specially developed for the needs of the molecular biology user community ESPRESSO PWscf suite of computer codes for electronic structure calculations FFTW a C subroutine library for computing the discrete Fourier transform DFT fitmodel a program that estimates the parameters of various codon based models of substitution Fluent a general purpose program for modeling a wide range of fluid flow and related transport problems Gambit a software package designed to help analysts and designers build and mesh models for computational fluid dynamics CFD and other scientific applications GAMESS is a flexible ab initio electronic structure program Gaussian 03 a connected system of programs for performing semiempirical ab initio and density functional molecular orbital MO calculations Gnuplot a portable command line driven interactive data and function plotting utility GROMACS a versatile package to perform molecular dynamics HDF5 a general purpose library and file format for storing scientific data HMMER used to do sensitive database searching using statistical descriptions of a sequence family s consensus Intel Compilers an array of software development products from Intel including C FORTRAN compilers and Math Kernel Library MKL LAMMPS a classical molecular dynamics code designed for high performance simulation of large molecular systems LSDYNA an explicit three dimensional finite element code for analyzing the large deformation dynamic response of inelastic solids and structures LS PrePost an advanced pre and post processor that is delivered free with LS DYNA MacroModel molecular modeling software package that allows the graphical construction of complex chemical structures and the application of molecular mechanics and dynamics techniques in vacuo or in solution MATLAB a technical computing environment for high performance numeric computation and visualization that integrates numerical analysis matrix computation signal processing and graphics in an easy to use environment mpiexec a replacement program for the script mpirun which is part of the mpich package It is used to initialize a parallel job from within a pbs batch or interactive environment MrBayes a program for the Bayesian estimation of phylogeny NAMD a parallel molecular dynamics code designed for high performance simulation of large biomolecular systems NetCDF Network Common Data Form an interface for array oriented data access Octave a high level language primarily intended for numerical computations OpenFOAM a suite of computational fluid dynamics applications PAML a few programs for model fitting and phylogenetic tree reconstruction using nucleotide or amino acid sequence data parallel command processor a program for running a large number of serial processes on a number of allocated nodes processors ParaView an open source multi

    Original URL path: http://archive.osc.edu/supercomputing/software/glenn/index.shtml (2013-06-13)
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  • General Software Information
    on our charging policies Forms Charging Statewide Software Library Forms Request for Software Form This form is used to request that new software be acquired for use at the Ohio Supercomputer Center This document is available as an Adobe PDF file The following table contains the Academic Agreement forms for using some third party software These documents apply to more than one platform or to no particular platform Software ASCII Text Form TXT PostScript PS Adobe Acrobat PDF Abaqus text PostScript pdf Amber text PostScript pdf ANSYS text PostScript pdf CASINO pdf CNS text PostScript pdf CSD text PostScript pdf Fluent text PostScript pdf Gaussian non OSC non OSU binary text pdf Gaussian OSC or OSU binary Columbus pdf Hyperworks text PostScript pdf LSTC text PostScript pdf MATLAB text Partek Pro text PostScript pdf Turbomole text Postscript pdf These files are provided for your convenience in completing the process necessary to use any of this software You should move the form to your local computer print it and complete it We cannot accept an electronic form via email or file transfer because we must have a signed form on record Send your completed form to the address listed on the form The forms are also available in printed form from your site consultant or from the Ohio Supercomputer Center Charging The following text describes the charging algorithms for academic use on the Glenn Cluster the BALE Cluster and the IA64 Cluster Glenn Cluster Charging for Academic Use Supercomputer resources on The Cluster are charged in terms of Resource Units a common measure of the use of CPU and file storage across all platforms The charging formula for RUs consumed by a process is RU 0 1 Tt where RU is the charge in Resource Units for the process being considered

    Original URL path: http://archive.osc.edu/supercomputing/software/general.shtml (2013-06-13)
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  • Software at OSC
    for DNA or proteins CNS a flexible macromolecular structure determination software suite for X ray crystallography and solution NMR spectroscopy COLUMBUS an ab initio electronic structure program suite COMSOL Multiphysics formerly FEMLAB is a finite element analysis and solver software package for various physics and engineering applications CSD The Cambridge Structural Database CSD contains complete structure information on hundreds of thousands of small molecule crystals disktmake a replacement for make to define job workflow and execute commands on multiple nodes EMBOSS a sequence analysis package specially developed for the needs of the molecular biology user community ESPRESSO PWscf suite of computer codes for electronic structure calculations FFTW a C subroutine library for computing the discrete Fourier transform DFT Fluent a general purpose program for modeling a wide range of fluid flow and related transport problems GAMESS a flexible ab initio electronic structure program Gaussian 98 a connected system of programs for performing semiempirical ab initio and density functional molecular orbital MO calculations Gaussian 03 a connected system of programs for performing semiempirical ab initio and density functional molecular orbital MO calculations Gnuplot a portable command line driven interactive data and function plotting utility GROMACS a versatile package to perform molecular dynamics HDF5 a general purpose library and file format for storing scientific data HMMER used to do sensitive database searching using statistical descriptions of a sequence family s consensus Intel Compilers an array of software development products from Intel including C FORTRAN compilers and Math Kernel Library MKL Intel MKL Intel Math Kernel Library It contains LAPACK BLAS some FFT routines and a miscellany of other math capabilities Jmol a simple molecular visualization program LAMMPS a classical molecular dynamics code designed for high performance simulation of large molecular systems LSDYNA an explicit three dimensional finite element code for analyzing the large deformation dynamic response of inelastic solids and structures LS PREPOST a pre processor for LSDYNA MacroModel molecular modeling software package that allows the graphical construction of complex chemical structures and the application of molecular mechanics and dynamics techniques in vacuo or in solution MATLAB a technical computing environment for high performance numeric computation and visualization that integrates numerical analysis matrix computation signal processing and graphics in an easy to use envionment MEAD a Poisson Boltzmann solvation modeling package for biologcal systems MINPACK a library of Fortran routines for the solution of non linear multivariate minimization problems MPI a standard library for performing parallel processing using a distributed memory model mpiexec a replacement program for the script mpirun which is part of the mpich package It is used to initialize a parallel job from within a pbs batch or interactive environment MrBayes a program for the Bayesian estimation of phylogeny NAMD a parallel molecular dynamics code designed for high performance simulation of large biomolecular systems NetCDF Network Common Data Form an interface for array oriented data access NWChem a general purpose electronic structure program designed for maximum efficiency on massively parallel computers Octave a high level language primarily intended for

    Original URL path: http://archive.osc.edu/supercomputing/software/software.shtml (2013-06-13)
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  • Altair Hyperworks
    into common formats and applications such as Excel EPS files ADAMS spline xgraph and multi column data files MotionView MotionView is an advanced mechanical systems simulation pre and post processor that provides high performance visualization and modeling with unparalleled user control Accepting results from most major mechanical systems and multi body simulation solvers MotionView gives you quick understanding of engineering results Taking full advantage of modern computer graphics technology MotionView integrates XY plotting with real time animation to greatly help in the interpretation and understanding of complex engineering results Your engineers can visualize design performance as they simultaneously view dynamic XY data plots OptiStruct OptiStruct is a finite element based optimization tool that generates amazingly precise design concepts or layouts using topology topography and shape optimization Unlike the traditional approach to size and shape optimization topology optimization does not require an initial design as input It creates conceptual designs given only a finite element model of the package space load and boundary conditions and a target mass OptiStruct provides the novel technology of topography optimization a special application of shape optimization that allows the design of stamped beads in shell structures OptiStruct provides powerful methods to reduce structural mass and yields robust designs for simultaneous multiple compliance and frequency requirements OptiStruct Basic OptiStruct Basic is a high quality high performance finite element solver for linear static and eigenvalue analysis OptiStruct Basic is written to solve large problems very efficiently It is integrated within HyperMesh so it is easy to use The input file is based on a Nastran format Element types supported include mass beams rods rigids plates and shells triangular quadrilateral and solids pentagonal hexahedral and tetrahedral OptiStruct Basic runs from the same executable as our OptiStruct optimization tool without the optimization process engaged HyperOpt StudyWizard HyperOpt is a design optimization application that performs optimization parametric studies and system identification Structural optimization has become a critical part of the product design process providing results that are superior to the conventional trial and error approach Altair s HyperOpt performs optimization in conjunction with linear and non linear analysis codes such Abaqus Ansys LS Dyna Nastran PAM CRASH MADYMO ADAMS and others HyperOpt allows the choice of design variables so you can perform both size shell thickness beam section and material properties and shape optimization grid point locations The StudyWizard interface allows users to easily set up optimization or Design of Experiments DOE simulations and plot results Shape variables can be set up using AutoDV which is included with HyperMesh HyperForm Altair s HyperForm is the one step solver for predicting the blank shape for sheet metal stamping With HyperForm engineers part and die designers are able to quickly compare multiple solutions for a stamped component With this powerful tool designers can identify and correct potential stamping problems such as wrinkles rupture and undercut early in the design stage thus minimizing the time spent in soft and hard tool tryouts HyperForm results in higher quality parts while at the same time

    Original URL path: http://archive.osc.edu/supercomputing/statewide/altair.shtml (2013-06-13)
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  • TotalView Technologies Totalview Debugger
    OCS Lecture Series Press Releases Headlines Calendar of Events About OSC Media Kit OSC Media Contacts Staff Directory Visit OSC Supercomputing Support Networking Support Supercomputing HPC Support ARMSTRONG Client Portal Get a New OSC Account Request Additional Resources Request a Classroom Project FAQ Computing Environments Available Hardware Training Accounts Available Software Statewide Software Manuals Consult Notices Policies Related Links Statewide Users Group Blue Collar Computing Ralph Regula School of Computational Science BALE Interface Lab Statewide Software TotalView Technologies Totalview Debugger TotalView Technologies http www totalviewtech com is a leading provider of software development tools for developers of complex parallel and distributed applications in the High Performance Computing community OSC has installed the Totalview debugger on several HPC machines The same debugger is available to OSC users on their personal workstations OSC has acquired several network floating licenses which will require that users maintain an Internet connection while using the debugger OSC must enable the license server to point to the user s workstation Send e mail with your OSC user name and workstation address to oschelp osc edu to enable your workstation Totalview may be acquired directly from http www totalviewtech com Download Documentation may be acquired directly from http

    Original URL path: http://archive.osc.edu/supercomputing/statewide/totalview.shtml (2013-06-13)
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  • Intel Compilers, Tools, and Libraries
    for Windows 64 32 Bit version 12 update 3 exe file Download C Compiler for Mac version 12 update 3 dmg file Download Fortran Compiler for Mac version 12 update 3 dmg file Compiler Version 11 Download C Compiler for Linux 64 Bit version 11 1 056 tgz file Download C Compiler for Linux version 11 1 056 Release Notes Download Fortran Compiler for Linux 64 Bit version 11 1 073 tgz file Download Fortran Compiler for Linux version 11 1 073 Release Notes Download C Compiler for Windows 32 Bit version 11 1 048 exe file Download C Compiler for Windows version 11 1 048 Release Notes Download C Compiler for Windows 64 Bit version 11 1 048 exe file Download Fortran Compiler for Windows 32 Bit version 11 1 048 exe file Download Fortran Compiler for Windows version 11 1 048 Release Notes Download Fortran Compiler for Windows 64 Bit version 11 1 067 exe file Download C Compiler for Mac version 11 1 067 dmg file Download C Compiler for Mac version 11 1 067 Release Notes Download Fortran Compiler for Mac version 11 1 067 dmg file Compiler Version 10 Download C Compiler for Windows IA32 version 10 1 014 2 2 2008 exe file Download C Compiler for Windows 64 Bit version 10 1 014 2 2 2008 exe file Download C Compiler for Windows version 10 1 014 2 2 2008 Installation Guide Download C Compiler for Windows version 10 1 014 2 2 2008 Readme File Download C Compiler for Windows version 10 1 014 2 2 2008 Release Notes Download Visual Fortran Compiler for Windows IA32 version 10 1 014 2 13 2008 exe file Download Visual Fortran Compiler for Windows 64 Bit version 10 1 014 2 13 2008 exe file

    Original URL path: http://archive.osc.edu/supercomputing/statewide/intel.shtml (2013-06-13)
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