Think OpenMPI. Let’s say you have a 12-node cluster at your disposal. Every node has 16GB of RAM and two 4-core processors which in normal situations enables you to run 8 processes per node. What happens if you want to precompute a huge constant lookup table (e.g. 3GB in size) to speed up your sophisticated
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Yay! It’s finally getting hard again! The thrill of many hours of computing and being uncertain whether the result will be correct to the last digit… I love it ;D Now I have to figure out the _correct_ (i.e. non semi-brute-force with smart-ass pruning and nifty little optimizations) method of solving this before I start
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In a very simplified form, we can consider proteins as strings consisting of hydrophobic (H) and polar (P) elements, e.g. HHPPHHHPHHPH. For this problem, the orientation of a protein is important; e.g. HPP is considered distinct from PPH. Thus, there are 2n distinct proteins consisting of n elements. When one encounters these strings in nature,
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I could start by lecturing you on the basics of usage and principles of operation of MPI and Open MPI in particular, but I think it might not be a good idea, because you (or even more probably me ) could get bored really quickly. To cut long story short – MPI (Message Passing Interface)
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