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Gustafsson, Magnus

Open this publication in new window or tab >>Data structures and algorithms for high-dimensional structured adaptive mesh refinement### Grandin, Magnus

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##### National Category

Computer Sciences Computational Mathematics
##### Identifiers

urn:nbn:se:uu:diva-242912 (URN)10.1016/j.advengsoft.2014.12.001 (DOI)000350095400007 ()
#####

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##### Projects

eSSENCE
Available from: 2015-01-28 Created: 2015-02-02 Last updated: 2018-01-11Bibliographically approved

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.

Open this publication in new window or tab >>Stable difference methods for block-oriented adaptive grids### Nissen, Anna

### Kormann, Katharina

### Grandin, Magnus

### Virta, Kristoffer

PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_1_j_idt188_some",{id:"formSmash:j_idt184:1:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_1_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_1_j_idt188_otherAuthors",{id:"formSmash:j_idt184:1:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_1_j_idt188_otherAuthors",multiple:true}); 2015 (English)In: Journal of Scientific Computing, ISSN 0885-7474, E-ISSN 1573-7691, Vol. 65, p. 486-511Article in journal (Refereed) Published
##### National Category

Computational Mathematics
##### Identifiers

urn:nbn:se:uu:diva-234977 (URN)10.1007/s10915-014-9969-z (DOI)000362911900003 ()
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eSSENCE
Available from: 2014-12-18 Created: 2014-10-27 Last updated: 2017-12-05Bibliographically approved

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Numerical Analysis.

Open this publication in new window or tab >>Adaptive Solvers for High-Dimensional PDE Problems on Clusters of Multicore Processors### Grandin, Magnus

PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_2_j_idt188_some",{id:"formSmash:j_idt184:2:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_2_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_2_j_idt188_otherAuthors",{id:"formSmash:j_idt184:2:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_2_j_idt188_otherAuthors",multiple:true}); 2014 (English)Doctoral thesis, comprehensive summary (Other academic)
##### Abstract [en]

##### Place, publisher, year, edition, pages

Uppsala: Acta Universitatis Upsaliensis, 2014. p. 34
##### Series

Digital Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science and Technology, ISSN 1651-6214 ; 1199
##### Keywords

adaptive mesh refinement, anisotropic refinement, exponential integrators, Lanczos' algorithm, hybrid parallelization, time-dependent Schrödinger equation
##### National Category

Computational Mathematics
##### Research subject

Scientific Computing
##### Identifiers

urn:nbn:se:uu:diva-234984 (URN)978-91-554-9095-9 (ISBN)
##### Public defence

2014-12-12, Room 2446, Polacksbacken, Lägerhyddsvägen 2, Uppsala, 10:15 (English)
##### Opponent

### Bader, Michael

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##### Supervisors

### Holmgren, Sverker

### Thuné, Michael

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##### Projects

eSSENCEUPMARC
Available from: 2014-11-21 Created: 2014-10-27 Last updated: 2019-02-25Bibliographically approved

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.

Accurate numerical solution of time-dependent, high-dimensional partial differential equations (PDEs) usually requires efficient numerical techniques and massive-scale parallel computing. In this thesis, we implement and evaluate discretization schemes suited for PDEs of higher dimensionality, focusing on high order of accuracy and low computational cost.

Spatial discretization is particularly challenging in higher dimensions. The memory requirements for uniform grids quickly grow out of reach even on large-scale parallel computers. We utilize high-order discretization schemes and implement adaptive mesh refinement on structured hyperrectangular domains in order to reduce the required number of grid points and computational work. We allow for anisotropic (non-uniform) refinement by recursive bisection and show how to construct, manage and load balance such grids efficiently. In our numerical examples, we use finite difference schemes to discretize the PDEs. In the adaptive case we show how a stable discretization can be constructed using SBP-SAT operators. However, our adaptive mesh framework is general and other methods of discretization are viable.

For integration in time, we implement exponential integrators based on the Lanczos/Arnoldi iterative schemes for eigenvalue approximations. Using adaptive time stepping and a truncated Magnus expansion, we attain high levels of accuracy in the solution at low computational cost. We further investigate alternative implementations of the Lanczos algorithm with reduced communication costs.

As an example application problem, we have considered the time-dependent Schrödinger equation (TDSE). We present solvers and results for the solution of the TDSE on equidistant as well as adaptively refined Cartesian grids.

TU München, Institut für Informatik.

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing.

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing.

Open this publication in new window or tab >>Data structures and algorithms for high-dimensional structured adaptive mesh refinement### Grandin, Magnus

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_3_j_idt188_some",{id:"formSmash:j_idt184:3:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_3_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_3_j_idt188_otherAuthors",{id:"formSmash:j_idt184:3:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_3_j_idt188_otherAuthors",multiple:true}); 2014 (English)Report (Other academic)
##### Series

Technical report / Department of Information Technology, Uppsala University, ISSN 1404-3203 ; 2014-019
##### National Category

Computer Sciences Computational Mathematics
##### Identifiers

urn:nbn:se:uu:diva-234980 (URN)
#####

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##### Projects

eSSENCE
Available from: 2014-10-30 Created: 2014-10-27 Last updated: 2018-01-11Bibliographically approved

Open this publication in new window or tab >>Parallel data structures and algorithms for high-dimensional structured adaptive mesh refinement### Grandin, Magnus

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.### Holmgren, Sverker

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_4_j_idt188_some",{id:"formSmash:j_idt184:4:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_4_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_4_j_idt188_otherAuthors",{id:"formSmash:j_idt184:4:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_4_j_idt188_otherAuthors",multiple:true}); 2014 (English)Report (Other academic)
##### Series

Technical report / Department of Information Technology, Uppsala University, ISSN 1404-3203 ; 2014-020
##### National Category

Computer Sciences Computational Mathematics
##### Identifiers

urn:nbn:se:uu:diva-234981 (URN)
#####

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##### Projects

eSSENCEUPMARC
Available from: 2014-10-31 Created: 2014-10-27 Last updated: 2018-01-11Bibliographically approved

Open this publication in new window or tab >>Communication-efficient algorithms for numerical quantum dynamics### Gustafsson, Magnus

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.### Kormann, Katharina

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.### Holmgren, Sverker

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_5_j_idt188_some",{id:"formSmash:j_idt184:5:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_5_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_5_j_idt188_otherAuthors",{id:"formSmash:j_idt184:5:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_5_j_idt188_otherAuthors",multiple:true}); 2012 (English)In: Applied Parallel and Scientific Computing: Part II, Berlin: Springer-Verlag , 2012, p. 368-378Conference paper, Published paper (Refereed)
##### Place, publisher, year, edition, pages

Berlin: Springer-Verlag, 2012
##### Series

Lecture Notes in Computer Science ; 7134
##### National Category

Computer Sciences Computational Mathematics
##### Identifiers

urn:nbn:se:uu:diva-135980 (URN)10.1007/978-3-642-28145-7_36 (DOI)000309716000036 ()978-3-642-28144-0 (ISBN)
##### Conference

PARA 2010: State of the Art in Scientific and Parallel Computing
#####

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##### Projects

eSSENCEUPMARC
Available from: 2012-02-16 Created: 2010-12-09 Last updated: 2018-01-12Bibliographically approved

Open this publication in new window or tab >>Numerical evaluation of the Communication-Avoiding Lanczos algorithm### Gustafsson, Magnus

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.### Demmel, James

### Holmgren, Sverker

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_6_j_idt188_some",{id:"formSmash:j_idt184:6:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_6_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_6_j_idt188_otherAuthors",{id:"formSmash:j_idt184:6:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_6_j_idt188_otherAuthors",multiple:true}); 2012 (English)Report (Other academic)
##### Series

Technical report / Department of Information Technology, Uppsala University, ISSN 1404-3203 ; 2012-001
##### National Category

Computational Mathematics Computer Sciences
##### Identifiers

urn:nbn:se:uu:diva-169257 (URN)
#####

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##### Projects

eSSENCE
Available from: 2012-01-22 Created: 2012-02-25 Last updated: 2018-01-12Bibliographically approved

Open this publication in new window or tab >>Towards an adaptive solver for high-dimensional PDE problems on clusters of multicore processors### Gustafsson, Magnus

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_7_j_idt188_some",{id:"formSmash:j_idt184:7:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_7_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_7_j_idt188_otherAuthors",{id:"formSmash:j_idt184:7:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_7_j_idt188_otherAuthors",multiple:true}); 2012 (English)Licentiate thesis, comprehensive summary (Other academic)
##### Abstract [en]

##### Place, publisher, year, edition, pages

Uppsala University, 2012
##### Series

Information technology licentiate theses: Licentiate theses from the Department of Information Technology, ISSN 1404-5117 ; 2012-003
##### National Category

Computer Sciences Computational Mathematics
##### Research subject

Scientific Computing
##### Identifiers

urn:nbn:se:uu:diva-169259 (URN)
#####

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##### Supervisors

### Holmgren, Sverker

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##### Projects

eSSENCEUPMARC
Available from: 2012-03-09 Created: 2012-02-25 Last updated: 2019-02-25Bibliographically approved

Accurate numerical simulation of time-dependent phenomena in many spatial dimensions is a challenging computational task apparent in a vast range of application areas, for instance quantum dynamics, financial mathematics, systems biology and plasma physics. Particularly problematic is that the number of unknowns in the governing equations (the number of grid points) grows exponentially with the number of spatial dimensions introduced, often referred to as the curse of dimensionality. This limits the range of problems that we can solve, since the computational effort and requirements on memory storage directly depend on the number of unknowns for which to solve the equations.

In order to push the limit of tractable problems, we are developing an implementation framework, HAParaNDA, for high-dimensional PDE-problems. By using high-order accurate schemes and adaptive mesh refinement (AMR) in space, we aim at reducing the number of grid points used in the discretization, thereby enabling the solution of larger and higher-dimensional problems. Within the framework, we use structured grids for spatial discretization and a block-decomposition of the spatial domain for parallelization and load balancing. For integration in time, we use exponential integration, although the framework allows the flexibility of other integrators to be implemented as well. Exponential integrators using the Lanzcos or the Arnoldi algorithm has proven a succesful and efficient approach for large problems. Using a truncation of the Magnus expansion, we can attain high levels of accuracy in the solution.

As an example application, we have implemented a solver for the time-dependent Schrödinger equation using this framework. We provide scaling results for small and medium sized clusters of multicore nodes, and show that the solver fulfills the expected rate of convergence.

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing.

Open this publication in new window or tab >>Stable difference methods for block-structured adaptive grids### Gustafsson, Magnus

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.### Nissen, Anna

### Kormann, Katharina

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_8_j_idt188_some",{id:"formSmash:j_idt184:8:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_8_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_8_j_idt188_otherAuthors",{id:"formSmash:j_idt184:8:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_8_j_idt188_otherAuthors",multiple:true}); 2011 (English)Report (Other academic)
##### Series

Technical report / Department of Information Technology, Uppsala University, ISSN 1404-3203 ; 2011-022
##### National Category

Computational Mathematics
##### Identifiers

urn:nbn:se:uu:diva-159854 (URN)
#####

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##### Projects

eSSENCE
Available from: 2011-10-11 Created: 2011-10-11 Last updated: 2013-11-29Bibliographically approved

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Numerical Analysis.

Open this publication in new window or tab >>An implementation framework for solving high-dimensional PDEs on massively parallel computers### Gustafsson, Magnus

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.### Holmgren, Sverker

Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_9_j_idt188_some",{id:"formSmash:j_idt184:9:j_idt188:some",widgetVar:"widget_formSmash_j_idt184_9_j_idt188_some",multiple:true}); PrimeFaces.cw("AccordionPanel","widget_formSmash_j_idt184_9_j_idt188_otherAuthors",{id:"formSmash:j_idt184:9:j_idt188:otherAuthors",widgetVar:"widget_formSmash_j_idt184_9_j_idt188_otherAuthors",multiple:true}); 2010 (English)In: Numerical Mathematics and Advanced Applications: 2009, Berlin: Springer-Verlag , 2010, p. 417-424Conference paper, Published paper (Refereed)
##### Place, publisher, year, edition, pages

Berlin: Springer-Verlag, 2010
##### National Category

Computer Sciences Computational Mathematics
##### Identifiers

urn:nbn:se:uu:diva-132927 (URN)10.1007/978-3-642-11795-4_44 (DOI)000395207900044 ()978-3-642-11794-7 (ISBN)
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##### Projects

eSSENCEUPMARC
Available from: 2010-10-29 Created: 2010-10-29 Last updated: 2018-06-16Bibliographically approved