Subject: NA Digest, V. 14, # 08 NA Digest Sunday, March 30, 2014 Volume 14 : Issue 08 Today's Editor: Daniel M. Dunlavy Sandia National Labs [log in to unmask] Today's Topics: New Spotlights series will illuminate timely topics Coursera Class, High Performance Scientific Computing Algorithmic artwork and the London electronic music scene Challenges in Medical Imaging, UK, May 2014 Computational Geomechanics, USA, May 2014 Call for Posters, VECPAR 2014, USA, Jun-Jul 2014 European Trilinos User Group, Switzerland, Jun 2014 FEniCS'14 Registration Now Open, France, Jun 2014 Optimization 2014, Portugal, Jul 2014 SIAM CSC14, France, Jul 2014 ICMS, Korea, Aug 2014 ANAPDE 14 (honoring E. Tadmor), Switzerland, Sep 2014 IMA Numerical Linear Algebra and Optimisation, UK, Sep 2014 Energy Min Methods in Computer Vision, Hong Kong, Jan 2015 SIAM Applied Linear Algebra, USA, Oct 2015 Postdoc Position, George Mason Univ Postdoc Position, KU Leuven, Belgium Postdoc Position, Linear solver for hypersonic simulations, Inria Postdoc and PhD Positions, High perf computing, Inria PhD Position, Fluid-Structure Interaction, NTNU, Norway PhD Positions, McMaster Univ Contents, ACM Transactions on Mathematical Software, 40 (2) Subscribe, unsubscribe, change address, or for na-digest archives: http://www.netlib.org/na-digest-html/faq.html Submissions for NA Digest: http://icl.cs.utk.edu/na-digest/ ------------------------------------------------------- From: Bruce Bailey [log in to unmask] Date: March 26, 2014 Subject: New Spotlights series will illuminate timely topics SIAM will publish a new book series, SIAM Spotlights (http://www.siam.org/books/series/sp.php), comprising brief and enlightening books on timely topics in applied and computational mathematics and scientific computing. The books, spanning 125 pages or less, will be produced on an accelerated schedule and priced attractively. Potential authors should contact Elizabeth Greenspan ([log in to unmask]) or Sara Murphy ([log in to unmask]). ------------------------------------------------------- From: Randy LeVeque [log in to unmask] Date: March 27, 2014 Subject: Coursera Class, High Performance Scientific Computing I've been teaching a class for the past several years that has been video taped for our online Masters degree program, and last year the videos were cleaned up a bit for a Coursera version. This class will run again this year starting on Monday, March 31, 2014: https://www.coursera.org/course/scicomp Like most of us probably, I find it painful to watch myself lecture so I recommend this with some trepidation, but last year several colleagues at other universities told me they found it useful for their students. The course is very much an *introduction* to high performance computing, with the goal of taking students who have some experience programming (e.g. in Matlab) and teaching them about compiled languages (Fortran 90 in particular), Makefiles, OpenMP, MPI, IPython notebooks, and version control using Git. A bit about my philosophy on MOOCs: My primary reason for agreeing to do this was similar to why I've written a couple of textbooks. After putting so much effort into developing material for a class it's nice if it can be useful beyond the handful of students I teach at UW. But like a textbook, a MOOC doesn't eliminate the need for courses with live instructors, it only gives a another tool to help educate. All of the lecture notes and slides to accompany the videos are also openly available on my webpage from last year, http://faculty.washington.edu/rjl/classes/am583s2013/ and the notes will be updated this Spring Quarter, http://faculty.washington.edu/rjl/classes/am583s2014/ (I'm flipping the class and using last year's lectures.) Many things I borrowed from generous colleagues, so I hope some of these materials are also useful to others. ------------------------------------------------------- From: Tim Davis [log in to unmask] Date: March 28, 2014 Subject: Algorithmic artwork and the London electronic music scene In a new artistic sideline, I've been creating algorithmic artwork via sparse matrices, graph algorithms, FFTs, MATLAB, and force-directed graph visualization. I did the theme artwork for the London Electronic Music Festival last November. Cleve Moler wrote a blog on it a few weeks ago: http://blogs.mathworks.com/cleve/2014/03/03/music-sparse-matrices-and-london- billboards/ And SIAM asked me to write a blog as well: http://blogs.siam.org/sparse-matrices-and-the-london-electronic-music-scene You can see my full gallery at http://NotesArtStudio.com . Tim Davis ------------------------------------------------------- From: Victorita Dolean [log in to unmask] Date: March 24, 2014 Subject: Challenges in Medical Imaging, UK, May 2014 Challenges in medical imaging: numerics, high performance computing, inverse problems ( http://www.icms.org.uk/workshop.php?id=308 ) May 21, 2014 - May 23, 2014, University of Strathclyde, Glasgow. The aim of this workshop is to gather specialists on Numerical Methods, High Performance Computing, Inverse Problems, Microwave Imaging. Microwave Tomography is a novel, early stage development way of imaging with a number of potentially attractive medical applications. The three challenges addressed by this applications are: (i) Methodological and numerical development robust inversion tools, associated with the numerical solution of the electromagnetic forward problem. (ii) Development of general parallel open source simulation codes, based on the high- level integrated development environments, using the state-of-art high order methods and solution techniques forward modelling the scattering of arbitrary electromagnetic waves in highly heterogeneous media, over a wide frequency range in the microwave domain. (iii) Design of antenna elements and arrays and simulations using anatomical phantoms. There is no registration fee. The invited speakers are Simon Arridge; Ian Craddock; Simon Chandler-Wilde; Ivan Graham; Martin J. Gander; Christophe Geuzaine; Markus Grote; Frederic Hecht; Marie Kray; Rolf Krause; Frederic Nataf; Christian Pichot; Francesca Rapetti; Richard Pasquetti; Serguei Semenov ------------------------------------------------------- From: Martina Bukac [log in to unmask] Date: March 25, 2014 Subject: Computational Geomechanics, USA, May 2014 Workshop on Computational Geomechanics May 22-23, 2014, Pittsburgh PA, USA. The workshop will focus on recent advances in modeling, design, analysis, and implementation of numerical methods for problems in geomechanics. Relevant applications include, but are not limited to, hydraulic fracturing, groundwater flow, reservoir engineering, and poroelastic filters. There will be a poster session for graduate students and recent PhDs. Keynote Speakers: Andrew Bunger, Armando Duarte, Luca Formaggia, Marcio Murad, Jan Nordbotten, Guglielmo Scovazzi, Hamdi Tchelepi, Mary Wheeler, Paolo Zunino For further information about the workshop please visit http://pitt.edu/~martinab/compgeo/compgeo.html The registration for the workshop via the webpage is open. DEADLINE FOR REGISTRATION: May 1st, 2014. For any questions please contact Martina Bukac at [log in to unmask] ------------------------------------------------------- From: Kengo Nakajima [log in to unmask] Date: March 25, 2014 Subject: Call for Posters, VECPAR 2014, USA, Jun-Jul 2014 You are invited to make submissions for POSTER presentation at: 11th International Meeting on High-Performance Computing or Computational Science (VECPAR 2014) U. Oregon & Hilton Conf. Ctr., Eugene, OR, USA June 30 - July 3, 2014, http://www.vecpar.org/posters-cfp.php Interested authors should log in https://www.easychair.org/conferences/?conf=vecpar2014 and go to the 'new submission' page. The deadline for submission is April 15, 2014. The submission should be limited to 2-pages, and formatted according to the Rules of the Springer LNCS, http://www.springer.com/computer/lncs?SGWID=0-164-6-793341-0. Accepted submissions will be included in the material to be distributed to the participants of the meeting If you have any questions, please consult the conference website: http://www.vecpar.org/posters-cfp.php, or contact the organizing committee ([log in to unmask]). ------------------------------------------------------- From: Gilles Fourestey [log in to unmask] Date: March 24, 2014 Subject: European Trilinos User Group, Switzerland, Jun 2014 On behalf of the organizers and the Swiss National Computing Center, I would like to invite you to the 3nd European Trilinos User Group meeting, which will be held in Lugano, on June 30th to July 1st. This year, the EuroTUG will be co-organized with the PMAA14 conference (http://pmaa14.ics.usi.ch/). Details and registration are available at the following link: http://www.cscs.ch/events/event_detail/index.html? tx_seminars_pi1%5BshowUid%5D=92 The EuroTUG is a satellite to the TUG meeting held annually at Sandia National Labs, which brings together communication between Trilinos users, clients and developers from all over Europe and provides an outlook in current trends in development of Trilinos as well as to current trends in HPC in general. We encourage participants to indicate their specific interests during the registration process to allow the organizers to define focus points. Also, participants are encouraged to present their individual research/work that involves utilisation or development of packages from Trilinos. Organizers: Peter Arbenz, ETHZ Simone Deparis, EPFL Gilles Fourestey, CSCS Michael Gee, TUM Mike Heroux, Sandia National Labs ------------------------------------------------------- From: Ridgway Scott [log in to unmask] Date: March 29, 2014 Subject: FEniCS'14 Registration Now Open, France, Jun 2014 The FEniCS14 Workshop will be held in Paris 16-17 June 2014 at the University of Chicago Center in Paris. Registration and abstract submission is now open. See http://fenicsproject.org/featured/2014/fenics14_paris.html for details. ------------------------------------------------------- From: A. Ismael F. Vaz [log in to unmask] Date: March 24, 2014 Subject: Optimization 2014, Portugal, Jul 2014 Optimization 2014 uimarães, Portugal July 28-30, 2014 Optimization 2014 is the eighth edition of a series of Optimization international conferences held every three or four years, in Portugal. This meeting aims to bring together researchers and practitioners from different areas and with distinct backgrounds, but with common interests in optimization. Confirmed plenary speakers: Masao Fukushima | Nanzan Univ. Serge Gratton | ENSEEIHT and CERFACS, Toulouse C. Tim Kelley | NC State Univ. Nenad Mladenovic | Brunel Univ. Maarten H. Van der Vlerk | Univ. Groningen François Vanderbeck | Univ. Bordeaux Deadline for abstract submission - March 31, 2014 Notification of acceptance - May 1, 2014 Early Registration - Before May 15, 2014 Additional information regarding registration, contributed talks, deadlines, and accommodation will be available from the conference web site: http://optimization2014.dps.uminho.pt For any questions regarding Optimization 2014, please contact: [log in to unmask] ------------------------------------------------------- From: Bora Ucar [log in to unmask] Date: March 24, 2014 Subject: SIAM CSC14, France, Jul 2014 The Sixth SIAM Workshop on Combinatorial Scientific Computing will take place July 21-23, 2014 at Ecole Normale Superieure de Lyon, Lyons, France. http://www.siam.org/meetings/csc14/ We are now accepting submissions for posters. The CSC14 Workshop's focus is on combinatorial mathematics and algorithms in high performance computing, broadly interpreted. Posters in this broadly defined area as well as those on traditional CSC topics, including but not limited to parallel computing, sparse matrix computations, combinatorial problems in optimization, automatic differentiation, mesh generation, computational biology, and combinatorial matrix theory are welcome. May 2, 2014: Deadline for poster submissions May 19, 2014: Notification of acceptance (of posters) July 21-23, 2014: Workshop We invite 1-page abstracts for poster presentations. Submissions are through EasyChair: https://www.easychair.org/conferences/?conf=csc2014 Invited Speakers: Petros Drineas, Rensselaer Polytechnic Institute Tamara G. Kolda, Sandia National Laboratories Sivan Toledo, Tel-Aviv University Registration: No registration fee. ------------------------------------------------------- From: Chee Yap [log in to unmask] Date: March 25, 2014 Subject: ICMS, Korea, Aug 2014 Please consider submitting an abstract to: The 4th International Congress on Mathematical Software (ICMS) August 5 - 9 2014, Seoul Korea http://voronoi.hanyang.ac.kr/icms2014 Invited Plenary Speakers: Jonathan Borwein (Australia) Bruno Buchberger (Austria) Wolfram Decker (Germany) Andrew Sommese (USA) Lloyd N. Trefethen (UK) Official satellite conference of International Congress of Mathematicians (ICM): http://www.icm2014.org This is a forum for researchers to share challenges, achievements and progress in mathematical software research, their design, development and use. Deadlines: - Short abstract March 31 2014 - Extended abstract April 30 2014 Feel free to contact [log in to unmask] for more information. ------------------------------------------------------- From: Siddhartha Mishra [log in to unmask] Date: March 28, 2014 Subject: ANAPDE 14 (honoring E. Tadmor), Switzerland, Sep 2014 We are pleased to announce the conference "ANAPDE 14" -- Analysis and Numerical approximation of PDES, organized at ETH Zurich from the 8th to 10th September, 2014. This conference will cover latest developments in the analysis and numerical approximation of nonlinear PDEs. The conference will honor Prof. Eitan Tadmor on his 60th birthday. All talks will be given by invited plenary speakers. There will be a poster session for interested participants. Invited Speakers: R. Caflisch (UCLA); W. Dahmen (RWTH, Aachen); C. De Lellis (Zurich); U. S. Fjordholm (Trondheim); H. Holden (Trondheim); A. Kiselev (Rice); D. Kroener (Freiburg); A. Kurganov (Tulane); P. LeFloch (Paris VI); Y. Maday (Paris VI); S. Mallat (Ecole Polytechnique); P. Marcati (L' Aquila); P. Markowich (KAUST); B. Popov (Texas A&M); G. Russo (Catania); J. Tanner (Oxford); M. Vogelius (Rutgers) More details on the conference can be found at http://www.sam.math.ethz.ch/woanapde/ ------------------------------------------------------- From: Pamela Bye [log in to unmask] Date: March 25, 2014 Subject: IMA Numerical Linear Algebra and Optimisation, UK, Sep 2014 University of Birmingham, UK 3 – 5 September 2014 http://www.ima.org.uk/conferences/conferences_calendar/4th_ima_conference_on_num erical_linear_algebra_and_optimisation.cfm The IMA and the University of Birmingham are pleased to announce the Fourth Biennial IMA Conference on Numerical Linear Algebra and Optimisation. The meeting is co-sponsored by SIAM, whose members will receive the IMA members’ registration rate. Conference topics include any subject that could be of interest to both communities, such as: Direct and iterative methods for large sparse linear systems; Eigenvalue computation and optimisation; Large-scale nonlinear and semidefinite programming; Effect of round-off errors, stopping criteria, embedded iterative procedures; Optimisation issues for matrix polynomials; Fast matrix computations; Compressed/sparse sensing; PDE-constrained optimisation; Applications and real time optimisation Invited speakers: Michele Benzi (Emory Univ); Iain Duff (Rutherford Appleton Laboratory and CERFACS Toulouse) - SIAM UKIE Speaker; Michael Friedlander (Univ of British Columbia); Andreas Grothey (Univ of Edinburgh); Joerg Liesen (TU Berlin); Yuri Nesterov (Univ Catholique de Louvain); Nancy Nichols (Univ of Reading) Mini-symposia proposals: 31 March 2014 Notification of acceptance of mini-symposia: 10 April 2014 Abstract submission: 30 April 2014 Notification of acceptance of abstracts: 30 May 2014 ------------------------------------------------------- From: Marius Lysaker [log in to unmask] Date: March 24, 2014 Subject: Energy Min Methods in Computer Vision, Hong Kong, Jan 2015 Energy Minimization Methods have become an established computational paradigm in Computer Vision and Pattern Recognition. EMMCVPR is a regular bi-annual international conference dedicated to advancing the state-of-the-art regarding development and applications of energy minimization methods. The upcoming conference will take place in January 13-16, 2015 in Institute of Advanced Studies at Hong Kong University of Science and Technology. As with the previous editions, the proceedings will be published by Springer in the Lecture Notes on Computer Science (LNCS) series. The size of each paper will be limited to 14 pages. The scientific program of EMMCVPR 2015 will include the presentation of invited plenary talks and contributed research papers. Important Dates: Conference Dates: Jan 13, 2015 - Jan 16, 2015 Conference location: Hong Kong Submission Deadline Jul 15, 2014 Notification Due Sep 14, 2014 Final Version Due Sep 24, 2014 Refer to the conference webpage for more details: http://blog.ust.hk/emmcvpr/ ------------------------------------------------------- From: Chen Greif [log in to unmask] Date: March 29, 2014 Subject: SIAM Applied Linear Algebra, USA, Oct 2015 The next SIAM Conference on Applied Linear Algebra will take place on October 26–30, 2015, at the Hyatt Regency in Atlanta, Georgia, USA. Please save the dates! The conference webpage is http://www.siam.org/meetings/la15/ Chen Greif and Jim Nagy Conference Co-Chairs ------------------------------------------------------- From: Alexis Michael Rizon [log in to unmask] Date: March 28, 2014 Subject: Postdoc Position, George Mason Univ George Mason University Postdoctoral Research Fellow, Molecular Neuroscience/Computational Neuroscience The George Mason University, Krasnow Institute seeks a Postdoctoral Research Fellow to develop and use multiscale spatiotemporal models of cardiac mitochondria to understand how mitochondrial structure and function are related. Qualifications: The ideal candidate is expected to have expertise in biological modeling, computer programming, and related numerical methods. Programming on parallel architectures is also desirable, as is knowledge of mitochondrial modeling. This project involves close collaboration with experimental collaborators. The duration of the position is subject to available research funding. For full consideration, applicants must apply for position number F9804z at http://jobs.gmu.edu/; complete and submit the online application; and upload a CV, a list of three references with contact information, and a description of research accomplishments. These three required documents will need to be uploaded to the Other Doc category as a single (multipaged) document. Questions may be addressed to [log in to unmask] AA/EOE Apply Here: http://www.Click2Apply.net/fb672qs ------------------------------------------------------- From: Karl Meerbergen [log in to unmask] Date: March 28, 2014 Subject: Postdoc Position, KU Leuven, Belgium KU Leuven (Karl Meerbergen, Dirk Roose) has a postdoctoral research position for a research project on high performance computing for Life Sciences. The researcher will work on one of the two following topics: 1) parametric model order reduction of nonlinear dynamical systems for parameter estimation in biostatistics or 2) non-negative and binary matrix factorizations for machine learning in chemogenomics. The successful candidate should be interested in high performance computing, parameter estimation, high dimensional numerical integration and parametric model order reduction or non-negative and binary matrix factorizations and is expected to have expertise in at least one of these themes. In addition, the interested candidate should be willing to develop HPC codes in C++. The researcher will work in close collaboration with the University of Antwerp (Wim Vanroose) and scientists from Jansen Pharma and Intel. Part of the time will be spent in the ExaScience lab in Leuven, an interdisciplinary lab on bio-statistics, chemogenomics, bio-informatics, and programming models for HPC. The starting data of the position is any time between May 1st and September 1st, 2014. The position ends on June 30th, 2015. Candidates should send their CV with full list of publications to [log in to unmask] ------------------------------------------------------- From: Luc Giraud [log in to unmask] Date: March 26, 2014 Subject: Postdoc Position, Linear solver for hypersonic simulations, Inria A 18 month postdoc position is available in the HiePACS project at Inria Bordeaux-Sud Ouest in collaboration with CEA_CESTA for the design of high performance solvers for simulations of 3D hypersonic flows on petascale supercomputers. PhD degree in computer science, computational science, applied mathematics or a related scientific application domain area such as fluid mechanics is required. Excellent written and oral communication skills and a good experience with code development are required too. Interested candidates should submit a vita, as well as the name of three persons who could provide us with a letter of recommendation. The position can be starting any time from now, once the selection and hiring process is completed. For further information go to https://team.inria.fr/hiepacs/job-offers/ ------------------------------------------------------- From: Stéphane Lanteri [log in to unmask] Date: March 25, 2014 Subject: Postdoc and PhD Positions, High perf computing, Inria C2S@Exa is a multi-disciplinary, multi-team, Inria initiative gathering numerical mathematicians and computer scientists sharing their expertise in view of the the development of numerical modeling methodologies that fully exploit the processing capabilities of modern massively parallel architectures. Several postdoctoral and PhD positions are opened in the context of this initiative. Subjects and application details are available at the URL of the C2S@exa IPL, http://www-sop.inria.fr/c2s_at_exa ------------------------------------------------------- From: Bernhard Müller [log in to unmask] Date: March 28, 2014 Subject: PhD Position, Fluid-Structure Interaction, NTNU, Norway At the Norwegian University of Science and Technology (NTNU), a PhD scholarship on Mathematical Modeling of Fluid-Structure Interaction is available at the Division of Fluids Engineering, Department of Energy and Process Engineering, Faculty of Engineering Science and Technology. The PhD project is a part of an interdisciplinary research project entitled Modeling of Obstructive Sleep Apnea by Fluid-Structure Interaction in the Upper Airways, which is mainly funded by the Research Council of Norway. The objective of that research project is to develop a clinical tool to predict the response of surgeries for Obstructive Sleep Apnea Syndrome (OSAS) patients and to identify the decisive pathophysiological mechanisms for the development of OSAS. The main tasks of the PhD project are: - to extend a high order finite difference method based on the arbitrary Lagrangian– Eulerian (ALE) approach to fluid-structure interaction (FSI) of the soft palate in the pharynx, - to develop an immersed boundary method for FSI with large deformations of the soft palate in the pharynx, - to study basic biomechanical mechanisms of OSAS using a simplified model in collaboration with two other PhD candidates in the interdisciplinary research project, and - to provide very accurate results of FSI with a simplified OSAS model for the verification of commercial software employed by our research partners. The candidate should hold a master's degree in mechanical engineering, applied mathematics, physics or similar. Very good proficiency in fluid mechanics, structural mechanics, and numerical methods for partial differential equations as well as very good programming skills are required. Proficiency in the GNU/Linux environment is an advantage. Excellent communication skills in scientific writing and oral presentation are needed. The PhD position is limited to 3 years. Application deadline: May 15, 2014. Further information about the PhD position and the online application procedure can be found at http://www.jobbnorge.no/en/available-jobs/job/101414/phd-position- within-mathematical-modeling-of-fluid-structure-interaction . ------------------------------------------------------- From: Ned Nedialkov [log in to unmask] Date: March 27, 2014 Subject: PhD Positions, McMaster Univ PhD Positions Available in the Computing and Software Department at McMaster University For excellent candidates, two PhD positions are available in the Computing and Software Department at McMaster University, in Hamilton, Ontario, Canada. The positions will focus on developing certifiable scientific and engineering software using a Literate Process that eliminates duplication between software artifacts and explicitly incorporates traceability between these artifacts. The motivating case study for the research will be nuclear safety analysis software. Applicants should have a strong background in software engineering or computer science, mathematical maturity and experience with technology and software development. Knowledge of computational mathematics and physics will be considered an asset. Due to the funding model, preference will be given to domestic students or landed immigrants in Canada. Interested candidates should apply for graduate studies with the Computing and Software Department (http://www.cas.mcmaster.ca/cas/0template1.php?1002) and they should send an e-mail expressing interest to one of the project supervisors: Dr. Spencer Smith ([log in to unmask]), Dr. Jacques Carette ([log in to unmask]) or Dr. Ned Nedialkov ([log in to unmask]). Applicants will be accepted until the two positions are filled. The projected start date is September 2014, but this is negotiable. Please feel free to forward this advertisement to any potentially interested candidates. ------------------------------------------------------- From: Mike Heroux [log in to unmask] Date: March 24, 2014 Subject: Contents, ACM Transactions on Mathematical Software, 40 (2) Volume 40, Issue 2, February 2014 This issue is available at: http://dl.acm.org/citation.cfm?id=2594412 Unified form language: A domain-specific language for weak formulations of partial differential equations, Martin S. Alnæs, Anders Logg, Kristian B. Ølgaard, Marie E. Rognes, Garth N. Wells Computing the sparsity pattern of Hessians using automatic differentiation, Robert Mansel Gower, Margarida Pinheiro Mello How do you compute the midpoint of an interval? Frédéric Goualard Optimally packed chains of bulges in multishift QR algorithms, Lars Karlsson, Daniel Kressner, Bruno Lang A parallel implementation of Davidson methods for large-scale eigenvalue problems in SLEPc, Eloy Romero, Jose E. Roman Algorithm 935: IIPBF, a MATLAB toolbox for infinite integral of products of two Bessel functions, J. Tilak Ratnanather, Jung H. Kim, Sirong Zhang, Anthony M. J. Davis, Stephen K. Lucas Algorithm 936: A Fortran message processor, Fred T. Krogh Algorithm 937: MINRES-QLP for symmetric and Hermitian linear equations and least-squares problems, Sou-Cheng T. Choi, Michael A. Saunders Algorithm 938: Compressing circular buffers, John C. Gunther ------------------------------------------------------- End of Digest **************************