Cluster computing is a form of distributed computing in which a group of computers are linked together so that they can act like a single entity.

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CPU Specification Within Each Node of a Cluster

In essence we can create a cluster based on a number of machines(e.g., Beouwulf style). Here the question is, do all the cluster nodes require the exact same cpu(s) specification (e.g., core, cache, ...
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Computer Build for Scientific Computing

I am currently a .NET software developer(SQL Server, ASP.NET, C#, MVC & Web Forms). In my spare time I'm researching different areas of environmental science. E.g.(Hydrology, Ecology, Atmospheric ...
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Should I rent computing resources, or buy my own computers

Since this question is related to computation, I decided to post here. Hopefully it will be seen as appropriate. I've just started running atmospheric and oceanic models, and I realize that I need ...
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communication penalty when using wide stencils in parallel computations

When reading about discontinuous Galerkin methods one finds the argument that these methods allow higher-order accuracy while maintaining a compact stencil (a cell only communicates with its direct ...
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FFT parallel processing in MPI

I am working now in Beowulf Cluster and parallel processing, I want code for Fast Fourier transfer functions written in any language, e.g., C/C++. Without using FFTW library based on message passing ...
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Apply for a cluster for scientific computing from a developing country?

I don't have access to a computer cluster in my university. Is there website that accepts applications for free access to a computer cluster for scientific computing? Further information: I am in ...
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Should I use bestman2 or dcache CLIs (srmping, srmls, etc..)

I am fairly new to using SRM, and I am wondering if I should be using srm CLI tools (srmping, srmls, srmcp, etc..) provided by dcache, or bestman2 counter parts (srm-ping, srm-ls). I used to think ...
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Dense distributed matrix

A dense matrix is distributed for parallel computation column-wise, then multiplied from left & right by sparse matrices. What would be appropriate c++ libraries for these tasks?
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Image processing problems that can be solved using parallel computing? [closed]

Many of the problems in Image processing are embaressingly parallel. But I want to know is it worth solving Image processing using parallel computing? Are there real practical problems in image ...
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Will Sumatra interfere with git?

As far as I understand, Sumatra does some sort of versioning of simulation scripts and output files. If I start to use Sumatra inside a git working directory, can Sumatra end up interfering with git ...
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Computational science contests. Why arent there any?

I was wondering why there are no online or offline computational science contests? At least I couldn't find much by googling. I mean, like a topcoder for computational sciences. I assume one reason is ...
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Where can I get access to GPU cluster for educational purpose?

I want to work on NVIDIA GPU cluster for my thesis. But the cost of clusters are too high for me to bear. Although I can buy a couple of latest GPU cards, but buying cluster is impossible for me at ...
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Can anyone recommend a pipeline dependency (“make”) tool for SGE jobs?

I am looking for a tool to specify pipelines of arbitrary multiple jobs with dependencies for the Sun Grid Engine. I can wire things together myself but I am hoping for something more declarative and ...
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Flush output in Torque scheduler?

I'm trying the Torque scheduler. I have previous experience with the LSF scheduler, and I quite like being able to use 'bsub -I make -j 12' to compile a program really quickly, i.e. running an ...
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Chinese Restaurant Process… Why?

I recently started to study non-parametric clustering methods and I come across to CRP. After reading all the material I found on the web there is one thing which is not completely clear to me: which ...
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Get job script directory with SGE

With the Sun Grid Engine, how can I get the directory where the job script is located, within the job script? I need this so I can start the script with ...
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Multi-node jobs with Sun Grid Engine without MPI

I am trying to figure out how to write a proper job file for the Sun Grid Engine so I can run a parallel computation using Mathematica on multiple nodes. Unfortunately almost all tutorials on the ...
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Determining Computing Requirements

I am looking at building/buying myself a workstation for scientific computing. I will be doing molecular dynamics simulations that are memory intensive (data on a large number of particles and a ...
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Best hardware solution for microsecond Molecular Dynamics

We would like to reach Molecular Dynamics simulation of proteins with around 20000 atoms in explicit water with trajectories of around 1 microsecond each. We are looking at different options for ...
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What is the best high performance computing platform for engineering simulations?

What is the best platform for high performance computing (HPC)? Windows is long gone, I think. So only Unix and Linux stand the chance. What platform will strongly back my interest on computational ...
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When is building a cluster in the cloud cheaper than building one in my lab for MD simulations?

An Amazon EC2 compute cluster costs about \$800-\$1000 (depending on duty cycle) per physical CPU core over the course of 3 years. In our last round of hardware acquisition, my lab picked up 48 cores ...