Graph problems Partition: min cut Clustering bioinformatics Image segmentation VLSI placement Routing Linear arrangement: bandwidth, cutwidth Graph drawing.

Slides:



Advertisements
Similar presentations
My First Fluid Project Ryan Schmidt. Outline MAC Method How far did I get? What went wrong? Future Work.
Advertisements

School of something FACULTY OF OTHER School of Computing An Adaptive Numerical Method for Multi- Scale Problems Arising in Phase-field Modelling Peter.
1 Discrete models for defects and their motion in crystals A. Carpio, UCM, Spain A. Carpio, UCM, Spain joint work with: L.L. Bonilla,UC3M, Spain L.L. Bonilla,UC3M,
Multiscale Dynamics of Bio-Systems: Molecules to Continuum February 2005.
Top-Down & Bottom-Up Segmentation
Lecture 13: Conformational Sampling: MC and MD Dr. Ronald M. Levy Contributions from Mike Andrec and Daniel Weinstock Statistical Thermodynamics.
Youjin Deng Univ. of Sci. & Tech. of China (USTC) Adjunct: Umass, Amherst Diagrammatic Monte Carlo Method for the Fermi Hubbard Model Boris Svistunov UMass.
Upscaling and effective properties in saturated zone transport Wolfgang Kinzelbach IHW, ETH Zürich.
Introduction to Molecular Orbitals
MULTISCALE COMPUTATIONAL METHODS Achi Brandt The Weizmann Institute of Science UCLA
Geometric (Classical) MultiGrid. Hierarchy of graphs Apply grids in all scales: 2x2, 4x4, …, n 1/2 xn 1/2 Coarsening Interpolate and relax Solve the large.
Computational Solid State Physics 計算物性学特論 第2回 2.Interaction between atoms and the lattice properties of crystals.
An Introduction to Multiscale Modeling Scientific Computing and Numerical Analysis Seminar CAAM 699.
 Product design optimization Process optimization Reduced experimentation Physical system Process model Product model Product Market need Multiscale Modeling.
Algebraic MultiGrid. Algebraic MultiGrid – AMG (Brandt 1982)  General structure  Choose a subset of variables: the C-points such that every variable.
Peyman Mostaghimi, Martin Blunt, Branko Bijeljic 11 th January 2010, Pore-scale project meeting Direct Numerical Simulation of Transport Phenomena on Pore-space.
Graph Based Semi- Supervised Learning Fei Wang Department of Statistical Science Cornell University.
Fast, Multiscale Image Segmentation: From Pixels to Semantics Ronen Basri The Weizmann Institute of Science Joint work with Achi Brandt, Meirav Galun,
Two Approaches to Multiphysics Modeling Sun, Yongqi FAU Erlangen-Nürnberg.
Network and Grid Computing –Modeling, Algorithms, and Software Mo Mu Joint work with Xiao Hong Zhu, Falcon Siu.
Universality in ultra-cold fermionic atom gases. with S. Diehl, H.Gies, J.Pawlowski S. Diehl, H.Gies, J.Pawlowski.
Hard Optimization Problems: Practical Approach DORIT RON Tel Ziskind room #303
Easy Optimization Problems, Relaxation, Local Processing for a single variable.
Multiscale Methods of Data Assimilation Achi Brandt The Weizmann Institute of Science UCLA INRODUCTION EXAMPLE FOR INVERSE PROBLEMS.
Continuous Time Monte Carlo and Driven Vortices in a Periodic Potential V. Gotcheva, Yanting Wang, Albert Wang and S. Teitel University of Rochester Lattice.
Stochastic Roadmap Simulation: An Efficient Representation and Algorithm for Analyzing Molecular Motion Mehmet Serkan Apaydin, Douglas L. Brutlag, Carlos.
MULTISCALE COMPUTATION: From Fast Solvers To Systematic Upscaling A. Brandt The Weizmann Institute of Science UCLA
MULTISCALE COMPUTATIONAL METHODS Achi Brandt The Weizmann Institute of Science UCLA
Module on Computational Astrophysics Jim Stone Department of Astrophysical Sciences 125 Peyton Hall : ph :
Kinetic Lattice Monte Carlo Simulations of Dopant Diffusion/Clustering in Silicon Zudian Qin and Scott T. Dunham Department of Electrical Engineering University.
Monte Carlo Methods in Partial Differential Equations.
Numerical methods for PDEs PDEs are mathematical models for –Physical Phenomena Heat transfer Wave motion.
Introduction to Monte Carlo Methods D.J.C. Mackay.
Vibrational Spectroscopy
1 CE 530 Molecular Simulation Lecture 7 David A. Kofke Department of Chemical Engineering SUNY Buffalo
1 Statistical Mechanics and Multi- Scale Simulation Methods ChBE Prof. C. Heath Turner Lecture 11 Some materials adapted from Prof. Keith E. Gubbins:
Multigrid for Nonlinear Problems Ferien-Akademie 2005, Sarntal, Christoph Scheit FAS, Newton-MG, Multilevel Nonlinear Method.
Algorithms and Software for Large-Scale Simulation of Reactive Systems _______________________________ Ananth Grama Coordinated Systems Lab Purdue University.
Improving Coarsening and Interpolation for Algebraic Multigrid Jeff Butler Hans De Sterck Department of Applied Mathematics (In Collaboration with Ulrike.
University of Veszprém Department of Image Processing and Neurocomputing Emulated Digital CNN-UM Implementation of a 3-dimensional Ocean Model on FPGAs.
Free energies and phase transitions. Condition for phase coexistence in a one-component system:
Bayesian parameter estimation in cosmology with Population Monte Carlo By Darell Moodley (UKZN) Supervisor: Prof. K Moodley (UKZN) SKA Postgraduate conference,
How and why things crackle We expect that there ought to be a simple, underlying reason that earthquakes occur on all different sizes. The very small earthquake.
ParCFD Parallel computation of pollutant dispersion in industrial sites Julien Montagnier Marc Buffat David Guibert.
Mixture Models, Monte Carlo, Bayesian Updating and Dynamic Models Mike West Computing Science and Statistics, Vol. 24, pp , 1993.
Detail-Preserving Fluid Control N. Th ű rey R. Keiser M. Pauly U. R ű de SCA 2006.
Phase transitions in Hubbard Model. Anti-ferromagnetic and superconducting order in the Hubbard model A functional renormalization group study T.Baier,
Design, Optimization, and Control for Multiscale Systems
MULTISCALE COMPUTATION: From Fast Solvers To Systematic Upscaling A. Brandt The Weizmann Institute of Science UCLA
Advanced methods of molecular dynamics 1.Monte Carlo methods 2.Free energy calculations 3.Ab initio molecular dynamics 4.Quantum molecular dynamics III.
Molecular Modelling - Lecture 2 Techniques for Conformational Sampling Uses CHARMM force field Written in C++
An Extended Bridging Domain Method for Modeling Dynamic Fracture Hossein Talebi.
Implementing Hypre- AMG in NIMROD via PETSc S. Vadlamani- Tech X S. Kruger- Tech X T. Manteuffel- CU APPM S. McCormick- CU APPM Funding: DE-FG02-07ER84730.
The Old Well 3/15/2003 AMS 2003 Spring Southeastern Sectional Meeting 1 An adaptive method for coupled continuum-molecular simulation of crack propagation.
MULTISCALE COMPUTATIONAL METHODS Achi Brandt The Weizmann Institute of Science UCLA
Role of Theory Model and understand catalytic processes at the electronic/atomistic level. This involves proposing atomic structures, suggesting reaction.
Materials Process Design and Control Laboratory ON THE DEVELOPMENT OF WEIGHTED MANY- BODY EXPANSIONS USING AB-INITIO CALCULATIONS FOR PREDICTING STABLE.
1 Statistical Mechanics and Multi- Scale Simulation Methods ChBE Prof. C. Heath Turner Lecture 19 Some materials adapted from Prof. Keith E. Gubbins:
1 Multi Scale Markov Random Field Image Segmentation Taha hamedani.
Computational Physics (Lecture 11) PHY4061. Variation quantum Monte Carlo the approximate solution of the Hamiltonian Time Independent many-body Schrodinger’s.
Computational Physics (Lecture 10) PHY4370. Simulation Details To simulate Ising models First step is to choose a lattice. For example, we can us SC,
1 Xin Zhou Asia Pacific Center for Theoretical Physics, Dep. of Phys., POSTECH, Pohang, Korea Structuring and Sampling in Complex Conformational.
Model Anything. Quantity Conserved c  advect  diffuse S ConservationConstitutiveGoverning Mass, M  q -- M Momentum fluid, Mv -- F Momentum fluid.
Simulated Annealing Chapter
© Fluent Inc. 1/10/2018L1 Fluids Review TRN Solution Methods.
Convergence in Computational Science
DIAGRAMMATIC MONTE CARLO:
Comparison of CFEM and DG methods
What are Multiscale Methods?
Yalchin Efendiev Texas A&M University
Presentation transcript:

Graph problems Partition: min cut Clustering bioinformatics Image segmentation VLSI placement Routing Linear arrangement: bandwidth, cutwidth Graph drawing low dimension embedding Coarsening: weighted aggregation Recursion: inherited couplings (like AMG) Modified by properties of coarse aggregates General principle: Multilevel process Not optimization !

Multigrid solvers Cost: operations per unknown Linear scalar elliptic equation (~1971)* Nonlinear Grid adaptation General boundaries, BCs* Discontinuous coefficients Disordered: coefficients, grid (FE) Several coupled PDEs* Non-elliptic: high-Reynolds flow Highly indefinite: waves Many eigenfunctions (N) Near zero modes Gauge topology: Dirac eq. Inverse problems Optimal design Integral equations Statistical mechanics Monte-Carlo Massive parallel processing *Rigorous quantitative analysis (1986)

u given on the boundary h u = function of u's and f Probability distribution of u = function of u's and f Point-by-point RELAXATIONPoint-by-point MONTE CARLO

Discretization Lattice for accuracy “volume factor” Multiscale cost ~ Multigrid cycles Many sampling cycles at coarse levels “critical slowing down” Monte Carlo cost ~ 2z L   Statistical samples

Scale-born obstacles: Many variables Interacting with each other O(n 2 ) Slow Monte Carlo / Small time steps / … 1. Localness of processing 2. Attraction basins Removed by multiscale algorithms Multiple solutions Slowness Slowly converging iterations / n gridpoints / particles / pixels / … Inverse problems / Optimization Statistical sampling Many eigenfunctions

Repetitive systems e.g., same equations everywhere UPSCALING: Derivation of coarse equations in small windows Vs. COARSENING: For acceleration Or surrogate problems Etc.

A solution value is NOT generally determined just by few local equations N unknowns  O (N) solution operations UPSCALING: The coarse equation can be derived ONCE for all similar neighborhoods  # operations << N A coarse equation IS generally determined just by few local equations

Systematic Upscaling 1.Choosing coarse variables 2.Constructing coarse-level operational rules equations Hamiltonian

Macromolecule ~ second steps

ALGEBRAIC MULTIGRID (AMG) 1982 Coarse variables - a subset Criterion: Fast convergence of “compatible relaxation” Ax = b Relax Ax = 0 Keeping coarse variables = 0

Systematic Upscaling 1.Choosing coarse variables Criterion: Fast convergence of “compatible relaxation” 2. Constructing coarse-level operational rules (equations / Hamiltonian) Done locally Local dependence on coarse variables OR: Fast equilibration of In representative “windows” “compatible Monte Carlo”

Macromolecule ~ second steps

Macromolecule Two orders of magnitude faster simulation

Macromolecule      + Lennard-Jones ~10 4 Monte Carlo passes for one T G i transition G1G1 G2G2 T Dihedral potential + Electrostatic

Fluids £ Total mass £ Total momentum £ Total dipole moment £ average location

1 1 2

Windows Coarser level Larger density fluctuations Still coarser level

Fluids Total mass: Summing

Lower Temperature T Summing also Still lower T: More precise crystal direction and periods determined at coarser spatial levels Heisenberg uncertainty principle : Better orientational resolution at larger spatial scales

Optimization by Multiscale annealing Identifying increasingly larger-scale degrees of freedom at progressively lower temperatures Handling multiscale attraction basins E(r) r

Systematic Upscaling Rigorous computational methodology to derive from physical laws at microscopic (e.g., atomistic) level governing equations at increasingly larger scales. Scales are increased gradually (e.g., doubled at each level) with interscale feedbacks, yielding: Inexpensive computation : needed only in some small “windows” at each scale. No need to sum long-range interactions Applicable to fluids, solids, macromolecules, electronic structures, elementary particles, turbulence, … Efficient transitions between meta-stable configurations.

Upscaling Projects QCD (elementary particles): Renormalization multigrid Ron BAMG solver of Dirac eqs. Livne, Livshits Fast update of, det Rozantsev (3n +1) dimensional Schrödinger eq. Filinov Real-time Feynmann path integrals Zlochin multiscale electronic-density functional DFT electronic structures Livne, Livshits molecular dynamics Molecular dynamics: Fluids Ilyin, Suwain, Makedonska Polymers, proteins Bai, Klug Micromechanical structures ??? defects, dislocations, grains Navier Stokes Turbulence McWilliams Dinar, Diskin

THANK YOU