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Doctoral thesis

High performance selected inversion methods for sparse matrices : direct and stochastic approaches to selected inversion

    25.02.2019

118 p

Thèse de doctorat: Università della Svizzera italiana, 2019

Selected inversion
Parallel Schur complement
High-performance computing
Diagonal of the inverse
Stochastic estimation
Nanoelectronic devices
Stencil operations
Genomic prediction
English The explicit evaluation of selected entries of the inverse of a given sparse matrix is an important process in various application fields and is gaining visibility in recent years. While a standard inversion process would require the computation of the whole inverse who is, in general, a dense matrix, state-of-the-art solvers perform a selected inversion process instead. Such approach allows to extract specific entries of the inverse, e.g., the diagonal, avoiding the standard inversion steps, reducing therefore time and memory requirements. Despite the complexity reduction already achieved, the natural direction for the development of the selected inversion software is the parallelization and distribution of the computation, exploiting multinode implementations of the algorithms. In this work we introduce parallel, high performance selected inversion algorithms suitable for both the computation and estimation of the diagonal of the inverse of large, sparse matrices. The first approach is built on top of a sparse factorization method and a distributed computation of the Schur-complement, and is specifically designed for the parallel treatment of large, dense matrices including a sparse block. The second is based on the stochastic estimation of the matrix diagonal using a stencil-based, matrix-free Krylov subspace iteration. We implement the two solvers and prove their excellent performance on Cray supercomputers, focusing on both the multinode scalability and the numerical accuracy. Finally, we include the solvers into two distinct frameworks designed for the solution of selected inversion problems in real-life applications. First, we present a parallel, scalable framework for the log-likelihood maximization in genomic prediction problems including marker by environment effects. Then, we apply the matrix-free estimator to the treatment of large-scale three-dimensional nanoelectronic device simulations with open boundary conditions.
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  • English
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Computer science and technology
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https://n2t.net/ark:/12658/srd1318877
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