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  1. Book ; Online: Distributed Neural Representation for Reactive in situ Visualization

    Wu, Qi / Insley, Joseph A. / Mateevitsi, Victor A. / Rizzi, Silvio / Papka, Michael E. / Ma, Kwan-Liu

    2023  

    Abstract: In situ visualization and steering of computational modeling can be effectively achieved using reactive programming, which leverages temporal abstraction and data caching mechanisms to create dynamic workflows. However, implementing a temporal cache for ... ...

    Abstract In situ visualization and steering of computational modeling can be effectively achieved using reactive programming, which leverages temporal abstraction and data caching mechanisms to create dynamic workflows. However, implementing a temporal cache for large-scale simulations can be challenging. Implicit neural networks have proven effective in compressing large volume data. However, their application to distributed data has yet to be fully explored. In this work, we develop an implicit neural representation for distributed volume data and incorporate it into the DIVA reactive programming system. This implementation enables us to build an in situ temporal caching system with a capacity 100 times larger than previously achieved. We integrate our implementation into the Ascent infrastructure and evaluate its performance using real-world simulations.
    Keywords Computer Science - Distributed ; Parallel ; and Cluster Computing ; Computer Science - Artificial Intelligence
    Publishing date 2023-03-27
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Book ; Online: Scaling Computational Fluid Dynamics

    Mateevitsi, Victor A. / Bode, Mathis / Ferrier, Nicola / Fischer, Paul / Göbbert, Jens Henrik / Insley, Joseph A. / Lan, Yu-Hsiang / Min, Misun / Papka, Michael E. / Patel, Saumil / Rizzi, Silvio / Windgassen, Jonathan

    In Situ Visualization of NekRS using SENSEI

    2023  

    Abstract: In the realm of Computational Fluid Dynamics (CFD), the demand for memory and computation resources is extreme, necessitating the use of leadership-scale computing platforms for practical domain sizes. This intensive requirement renders traditional ... ...

    Abstract In the realm of Computational Fluid Dynamics (CFD), the demand for memory and computation resources is extreme, necessitating the use of leadership-scale computing platforms for practical domain sizes. This intensive requirement renders traditional checkpointing methods ineffective due to the significant slowdown in simulations while saving state data to disk. As we progress towards exascale and GPU-driven High-Performance Computing (HPC) and confront larger problem sizes, the choice becomes increasingly stark: to compromise data fidelity or to reduce resolution. To navigate this challenge, this study advocates for the use of in situ analysis and visualization techniques. These allow more frequent data "snapshots" to be taken directly from memory, thus avoiding the need for disruptive checkpointing. We detail our approach of instrumenting NekRS, a GPU-focused thermal-fluid simulation code employing the spectral element method (SEM), and describe varied in situ and in transit strategies for data rendering. Additionally, we provide concrete scientific use-cases and report on runs performed on Polaris, Argonne Leadership Computing Facility's (ALCF) 44 Petaflop supercomputer and J\"ulich Wizard for European Leadership Science (JUWELS) Booster, J\"ulich Supercomputing Centre's (JSC) 71 Petaflop High Performance Computing (HPC) system, offering practical insight into the implications of our methodology.
    Keywords Computer Science - Distributed ; Parallel ; and Cluster Computing ; Computer Science - Performance
    Subject code 000
    Publishing date 2023-12-15
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  3. Article: Visualizing multiphysics, fluid-structure interaction phenomena in intracranial aneurysms.

    Perdikaris, Paris / Insley, Joseph A / Grinberg, Leopold / Yu, Yue / Papka, Michael E / Karniadakis, George Em

    Parallel computing

    2015  Volume 55, Page(s) 9–16

    Abstract: This work presents recent advances in visualizing multi-physics, fluid-structure interaction (FSI) phenomena in cerebral aneurysms. Realistic FSI simulations produce very large and complex data sets, yielding the need for parallel data processing and ... ...

    Abstract This work presents recent advances in visualizing multi-physics, fluid-structure interaction (FSI) phenomena in cerebral aneurysms. Realistic FSI simulations produce very large and complex data sets, yielding the need for parallel data processing and visualization. Here we present our efforts to develop an interactive visualization tool which enables the visualization of such FSI simulation data. Specifically, we present a ParaView-NekTar interface that couples the ParaView visualization engine with NekTar's parallel libraries, which are employed for the calculation of derived fields in both the fluid and solid domains with spectral accuracy. This interface allows the flexibility of independently choosing the resolution for visualizing both the volume data and the surface data from each of the solid and fluid domains, which significantly facilitates the visualization of complex structures under large deformations. The animation of the fluid and structure data is synchronized in time, while the ParaView-NekTar interface enables the visualization of different fields to be superimposed, e.g. fluid jet and structural stress, to better understand the interactions in this multi-physics environment. Such visualizations are key towards elucidating important biophysical interactions in health and disease, as well as disseminating the insight gained from our simulations and further engaging the medical community in this effort of bringing computational science to the bedside.
    Language English
    Publishing date 2015-12-15
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 1466340-5
    ISSN 1872-7336 ; 0167-8191
    ISSN (online) 1872-7336
    ISSN 0167-8191
    DOI 10.1016/j.parco.2015.10.016
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Runtime visualization of the human arterial tree.

    Insley, Joseph A / Papka, Michael E / Dong, Suchuan / Karniadakis, George / Karonis, Nicholas T

    IEEE transactions on visualization and computer graphics

    2007  Volume 13, Issue 4, Page(s) 810–821

    Abstract: Large-scale simulation codes typically execute for extended periods of time and often on distributed computational resources. Because these simulations can run for hours, or even days, scientists like to get feedback about the state of the computation ... ...

    Abstract Large-scale simulation codes typically execute for extended periods of time and often on distributed computational resources. Because these simulations can run for hours, or even days, scientists like to get feedback about the state of the computation and the validity of its results as it runs. It is also important that these capabilities be made available with little impact on the performance and stability of the simulation. Visualizing and exploring data in the early stages of the simulation can help scientists identify problems early, potentially avoiding a situation where a simulation runs for several days, only to discover that an error with an input parameter caused both time and resources to be wasted. We describe an application that aids in the monitoring and analysis of a simulation of the human arterial tree. The application provides researchers with high-level feedback about the state of the ongoing simulation and enables them to investigate particular areas of interest in greater detail. The application also offers monitoring information about the amount of data produced and data transfer performance among the various components of the application.
    MeSH term(s) Algorithms ; Arteries/anatomy & histology ; Arteries/physiology ; Blood Flow Velocity/physiology ; Blood Pressure/physiology ; Computer Graphics ; Computer Simulation ; Computer Systems ; Humans ; Imaging, Three-Dimensional/methods ; Information Storage and Retrieval/methods ; Models, Cardiovascular
    Language English
    Publishing date 2007-07
    Publishing country United States
    Document type Evaluation Studies ; Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
    ISSN 1077-2626
    ISSN 1077-2626
    DOI 10.1109/TVCG.2007.1017
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

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