CISL OpenSky Publications
Select a year and/or affiliation to see the peer-reviewed publications involving authors from CISL. The publications span data assimilation, machine learning, visualization, data analysis, model development, research computing operations, and data management services. You can view the full publications and search for specific publications in OpenSky, the open access repository of scholarly works developed and managed by the NSF NCAR Library.
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On a structural similarity index approach for floating-point data Baker, A. H., Pinard, A., Hammerling, D. M.. (2024). On a structural similarity index approach for floating-point data. IEEE Transactions on Visualization and Computer Graphics, doi:10.1109/TVCG.2023.3332843 Data visualization is typically a critical component of post-processing analysis workflows for floating-point output data from large simulation codes, such as global climate models. For example, images are often created from the raw data as... CISL Affiliations: TDD, ASAP View on OpenSky |
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Global variability in atmospheric new particle formation mechanisms Zhao, B., Donahue, N. M., Zhang, K., Mao, L., Shrivastava, M., et al. (2024). Global variability in atmospheric new particle formation mechanisms. Nature, doi:10.1038/s41586-024-07547-1 A key challenge in aerosol pollution studies and climate change assessment is to understand how atmospheric aerosol particles are initially formed 1,2 . Although new particle formation (NPF) mechanisms have been described at specific sites ... CISL Affiliations: TDD, ASAP View on OpenSky |
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North Atlantic subtropical mode water formation controlled by Gulf Stream fronts Gan, B., Yu, J., Wu, L., Danabasoglu, G., Small, R. J., et al. (2023). North Atlantic subtropical mode water formation controlled by Gulf Stream fronts. National Science Review, doi:10.1093/nsr/nwad133 The North Atlantic Ocean hosts the largest volume of global subtropical mode waters (STMWs) in the world, which serve as heat, carbon and oxygen silos in the ocean interior. STMWs are formed in the Gulf Stream region where thermal fronts ar... CISL Affiliations: TDD, ASAP View on OpenSky |
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Rejoinder on ‘saving storage in climate ensembles: A model-based stochastic approach’ Huang, H., Castruccio, S., Baker, A. H., Genton, M. G.. (2023). Rejoinder on ‘saving storage in climate ensembles: A model-based stochastic approach’. Journal of Agricultural, Biological and Environmental Statistics, doi:10.1007/s13253-023-00542-5 We thank all the discussants for their valuable comments. Throughout this rejoinder, we denote the discussants by D = Datta, P = Poppick, BA = Banerjee, BU = Burr, BUD = Bessac, Underwood and Di. We will also use the same acronyms as in the... CISL Affiliations: TDD, ASAP View on OpenSky |
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Saving storage in climate ensembles: A model-based stochastic approach Huang, H., Castruccio, S., Baker, A. H., Genton, M. G.. (2023). Saving storage in climate ensembles: A model-based stochastic approach. Journal of Agricultural, Biological and Environmental Statistics, doi:10.1007/s13253-022-00518-x While climate models are an invaluable tool for increasing our understanding and therefore, the predictability of the Earth's system for decades, their increase in complexity and resolution has put a considerable, growing strain on the comp... CISL Affiliations: TDD, ASAP View on OpenSky |
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Sun, J., Dennis, J. M., Mickelson, S. A., Vanderwende, B., Gettelman, A., et al. (2023). Acceleration of the Parameterization of Unified Microphysics Across Scales (PUMAS) on the Graphics Processing Unit (GPU) With Directive‐based methods. Journal of Advances in Modeling Earth Systems, doi:10.1029/2022MS003515 Cloud microphysics is one of the most time-consuming components in a climate model. In this study, we port the cloud microphysics parameterization in the Community Atmosphere Model (CAM), known as Parameterization of Unified Microphysics Ac... CISL Affiliations: TDD, ASAP, HPCD, CSG View on OpenSky |
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Gettelman, A., Morrison, H., Eidhammer, T., Thayer-Calder, K., Sun, J., et al. (2023). Importance of ice nucleation and precipitation on climate with the Parameterization of Unified Microphysics Across Scales version 1 (PUMASv1). Geoscientific Model Development, doi:10.5194/gmd-16-1735-2023 Cloud microphysics is critical for weather and climate prediction. In this work, we document updates and corrections to the cloud microphysical scheme used in the Community Earth System Model (CESM) and other models. These updates include a... CISL Affiliations: TDD, ASAP View on OpenSky |
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Enabling efficient execution of a variational data assimilation application Dennis, J. M., Baker, A. H., Dobbins, B., Bell, M. M., Sun, J., et al. (2023). Enabling efficient execution of a variational data assimilation application. The International Journal of High Performance Computing Applications, doi:10.1177/10943420221119801 Remote sensing observational instruments are critical for better understanding and predicting severe weather. Observational data from such instruments, such as Doppler radar data, for example, are often processed for assimilation into numer... CISL Affiliations: TDD, ASAP View on OpenSky |
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Zhang, S., Zhang, K., Wan, H., Sun, J.. (2022). Further improvement and evaluation of nudging in the E3SM Atmosphere Model version 1 (EAMv1): simulations of the mean climate, weather events, and anthropogenic aerosol effects. Geoscientific Model Development, doi:10.5194/gmd-15-6787-2022 A previous study on the use of nudging in E3SM Atmosphere Model version 1 (EAMv1) had an unresolved issue; i.e., a simulation nudged to EAMv1's own meteorology showed non-negligible deviations from the free-running baseline simulation over ... CISL Affiliations: TDD, ASAP View on OpenSky |
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Zhang, K., Zhang, W., Wan, H., Rasch, P. J., Ghan, S. J., et al. (2022). Effective radiative forcing of anthropogenic aerosols in E3SM version 1: Historical changes, causality, decomposition, and parameterization sensitivities. Atmospheric Chemistry and Physics, doi:10.5194/acp-22-9129-2022 The effective radiative forcing of anthropogenic aerosols (ERFaer) is an important measure of the anthropogenic aerosol effects simulated by a global climate model. Here we analyze ERFaer simulated by the E3SM version 1 (E3SMv1) atmospheric... CISL Affiliations: TDD, ASAP View on OpenSky |
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Yang, C. A., Diao, M., Gettelman, A., Zhang, K., Sun, J., et al. (2021). Ice and supercooled liquid water distributions over the southern ocean based on in situ observations and climate model simulations. Journal of Geophysical Research: Atmospheres, doi:10.1029/2021JD036045 Three climate models are evaluated using in situ airborne observations from the Southern Ocean Clouds, Radiation, Aerosol Transport Experimental Study (SOCRATES) campaign. The evaluation targets cloud phases, microphysical properties, therm... CISL Affiliations: TDD, ASAP View on OpenSky |
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On preserving scientific integrity for climate model data in the HPC era Baker, A. H.. (2021). On preserving scientific integrity for climate model data in the HPC era. Computing in Science & Engineering, doi:10.1109/MCSE.2021.3119509 Over the last 30 years, the Computational Science Graduate Fellowship (CSGF) program has played an integral role in preparing a large and diverse community of computational scientists to push the limits of high-performance computing (HPC). ... CISL Affiliations: TDD, ASAP View on OpenSky |
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Chang, P., Zhang, S., Danabasoglu, G., Yeager, S. G., Fu, H., et al. (2020). An unprecedented set of high‐resolution earth system simulations for understanding multiscale interactions in climate variability and change. Journal of Advances in Modeling Earth Systems, doi:10.1029/2020MS002298 We present an unprecedented set of high-resolution climate simulations, consisting of a 500-year pre-industrial control simulation and a 250-year historical and future climate simulation from 1850 to 2100. A high-resolution configuration of... CISL Affiliations: TDD, IOWA, ASAP View on OpenSky |
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Mickelson, S., Bertini, A., Strand, G., Paul, K., Nienhouse, E., et al. (2020). A new end-to-end workflow for the Community Earth System Model (version 2.0) for the Coupled Model Intercomparison Project Phase 6 (CMIP6). Geoscientific Model Development, doi:10.5194/gmd-13-5567-2020 The complexity of each Coupled Model Intercomparison Project grows with every new generation. The Phase 5 effort saw a dramatic increase in the number of experiments that were performed and the number of variables that were requested compar... CISL Affiliations: TDD, IOWA, ISD, SAGE, ASAP View on OpenSky |
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The Community Earth System Model Version 2 (CESM2) Danabasoglu, G., Lamarque, J., Bacmeister, J., Bailey, D. A., DuVivier, A. K. , et al. (2020). The Community Earth System Model Version 2 (CESM2). Journal of Advances in Modeling Earth Systems, doi:10.1029/2019MS001916 An overview of the Community Earth System Model Version 2 (CESM2) is provided, including a discussion of the challenges encountered during its development and how they were addressed. In addition, an evaluation of a pair of CESM2 long prein... CISL Affiliations: TDD, ASAP, IOWA, ISD, SAGE View on OpenSky |
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Optimizing the HOMME dynamical core for multicore platforms Dennis, J. M., Dobbins, B., Kerr, C., Kim, Y.. (2019). Optimizing the HOMME dynamical core for multicore platforms. The International Journal of High Performance Computing Applications, doi:10.1177/1094342019849618 The approach of the next-generation computing platforms offers a tremendous opportunity to advance the state-of-the-art in global atmospheric dynamical models. We detail our incremental approach to utilize this emerging technology by enhanc... CISL Affiliations: TDD, ASAP, IOWA View on OpenSky |
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Lauritzen, P. H., Nair, R. D., Herrington, A. R., Callaghan, P., Goldhaber, S., et al. (2018). NCAR release of CAM-SE in CESM2.0: A reformulation of the spectral element dynamical core in dry-mass vertical coordinates with comprehensive treatment of condensates and energy. Journal of Advances in Modeling Earth Systems, doi:10.1029/2017MS001257 It is the purpose of this paper to provide a comprehensive documentation of the new NCAR (National Center for Atmospheric Research) version of the spectral element (SE) dynamical core as part of the Community Earth System Model (CESM2.0) re... CISL Affiliations: CMG, TDD, ASAP View on OpenSky |
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Milroy, D. J., Baker, A. H., Hammerling, D. M., Jessup, E. R.. (2018). Nine time steps: Ultra-fast statistical consistency testing of the Community Earth System Model (pyCECT v3.0). Geoscientific Model Development, doi:10.5194/gmd-11-697-2018 The Community Earth System Model Ensemble Consistency Test (CESM-ECT) suite was developed as an alternative to requiring bitwise identical output for quality assurance. This objective test provides a statistical measurement of consistency b... CISL Affiliations: TDD, ASAP, IOWAG, AIML View on OpenSky |
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An integrated tutorial on InfiniBand, verbs, and MPI MacArthur, P., Liu, Q., Russell, R. D., Mizero, F., Veeraraghavan, M., et al. (2017). An integrated tutorial on InfiniBand, verbs, and MPI. IEEE Communications Surveys & Tutorials, doi:10.1109/COMST.2017.2746083 This tutorial presents the details of the interconnection network utilized in many high performance computing (HPC) systems today. "InfiniBand" is the hardware interconnect utilized by over 35% of the top 500 supercomputers in the world as ... CISL Affiliations: TDD, ASAP View on OpenSky |
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Creevey, O. L., Metcalfe, T. S., Schultheis, M., Salabert, D., Bazot, M., et al. (2017). Characterizing solar-type stars from full-length Kepler data sets using the Asteroseismic Modeling Portal. Astronomy & Astrophysics, doi:10.1051/0004-6361/201629496 The Kepler space telescope yielded unprecedented data for the study of solar-like oscillations in other stars. The large samples of multi-year observations posed an enormous data analysis challenge that has only recently been surmounted. As... CISL Affiliations: TDD, ASAP, IOWAG View on OpenSky |
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A new parallel python tool for the standardization of earth system model data Paul, K., Mickelson, S., Dennis, J. M.. (2017). A new parallel python tool for the standardization of earth system model data. IEEE International Conference on Big Data 2016, doi:10.1109/BigData.2016.7840946 We have developed a new parallel Python tool for the standardization of Earth System Model (ESM) data for publication as part of Model Intercomparison Projects (MIPs). It was specifically designed to aid Community Earth System Model (CESM) ... CISL Affiliations: TDD, ASAP, IOWAG View on OpenSky |
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Evaluating lossy data compression on climate simulation data within a large ensemble Baker, A. H., Hammerling, D. M., Mickelson, S. A., Xu, H., Stolpe, M. B., et al. (2016). Evaluating lossy data compression on climate simulation data within a large ensemble. Geoscientific Model Development, doi:10.5194/gmd-9-4381-2016 High-resolution Earth system model simulations generate enormous data volumes, and retaining the data from these simulations often strains institutional storage resources. Further, these exceedingly large storage requirements negatively imp... CISL Affiliations: TDD, ASAP, IOWAG, SDSS View on OpenSky |
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Book review of "Python Programming and Visualization for Scientists," by Alex DeCaria Mickelson, S.. (2016). Book review of "Python Programming and Visualization for Scientists," by Alex DeCaria. Bulletin of the American Meteorological Society A book review of Alex DeCaria's Python Programming and Visualization for Scientists. CISL Affiliations: TDD, ASAP, IOWAG View on OpenSky |
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Huang, X., Tang, Q., Tseng, Y., Hu, Y., Baker, A. H., et al. (2016). P-CSI v1.0, an accelerated barotropic solver for the high-resolution ocean model component in the Community Earth System Model v2.0. Geoscientific Model Development, doi:10.5194/gmd-9-4209-2016 In the Community Earth System Model (CESM), the ocean model is computationally expensive for high-resolution grids and is often the least scalable component for high-resolution production experiments. The major bottleneck is that the barotr... CISL Affiliations: TDD, ASAP, IOWAG View on OpenSky |
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A dynamic congestion management system for InfiniBand networks Mizero, F., Veeraraghavan, M., Liu, Q., Russell, R. D., Dennis, J. M.. (2016). A dynamic congestion management system for InfiniBand networks. Supercomputing Frontiers and Innovations, doi:10.14529/jsfi160201 While the InfiniBand link-by-link flow control helps avoid packet loss, it unfortunately causes the effects of congestion to spread through a network. Flows whose paths do not even pass through congested ports could suffer from reduced thro... CISL Affiliations: TDD, ASAP View on OpenSky |
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Jamroz, B. F., Klöfkorn, R.. (2016). Asynchronous communication in spectral-element and discontinuous Galerkin methods for atmospheric dynamics – a case study using the High-Order Methods Modeling Environment (HOMME-homme_dg_branch). Geoscientific Model Development, doi:10.5194/gmd-9-2881-2016 The scalability of computational applications on current and next-generation supercomputers is increasingly limited by the cost of inter-process communication. We implement non-blocking asynchronous communication in the High-Order Methods M... CISL Affiliations: TDD, ASAP, CMG View on OpenSky |
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Baker, A., Hu, Y., Hammerling, D., Tseng, Y., Xu, H., et al. (2016). Evaluating statistical consistency in the ocean model component of the Community Earth System Model (pyCECT v2.0). Geoscientific Model Development, doi:10.5194/gmd-9-2391-2016 The Parallel Ocean Program (POP), the ocean model component of the Community Earth System Model (CESM), is widely used in climate research. Most current work in CESM-POP focuses on improving the model's efficiency or accuracy, such as impro... CISL Affiliations: TDD, ASAP, GSP View on OpenSky |
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KGEN: A Python tool for automated Fortran kernel generation and verification Kim, Y., Dennis, J., Kerr, C., Kumar, R. R. P., Simha, A., et al. (2016). KGEN: A Python tool for automated Fortran kernel generation and verification. Procedia Computer Science, doi:10.1016/j.procs.2016.05.466 Computational kernels, which are small pieces of software that selectively capture the characteristics of larger applications, have been used successfully for decades. Kernels allow for the testing of a compiler's ability to optimize code, ... CISL Affiliations: TDD, ASAP, STP, IOWAG View on OpenSky |
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Milroy, D. J., Baker, A. H., Hammerling, D. M., Dennis, J. M., Mickelson, S. A., et al. (2016). Towards characterizing the variability of statistically consistent Community Earth System Model simulations. Procedia Computer Science, doi:10.1016/j.procs.2016.05.489 Large, complex codes such as earth system models are in a constant state of development, requiring frequent software quality assurance. The recently developed Community Earth System Model (CESM) Ensemble Consistency Test (CESM-ECT) provides... CISL Affiliations: TDD, ASAP, GSP, IOWAG View on OpenSky |
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Improving the scalability of the ocean barotropic solver in the Community Earth System Model Hu, Y., Huang, X., Baker, A. H., Tseng, Y., Bryan, F. O., et al. (2016). Improving the scalability of the ocean barotropic solver in the Community Earth System Model. SC15: Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis, doi:10.1145/2807591.2807596 High-resolution climate simulations are increasingly in demand and require tremendous computing resources. In the Community Earth SystemModel (CESM), the Parallel Ocean Model (POP) is computationally expensive for high-resolution grids (e.g... CISL Affiliations: TDD, ASAP View on OpenSky |
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Implementation of PFC and RCM for RoCEv2 simulation in OMNeT++ Lu, Q., Russell, R. D., Mizero, F., Veeraraghavan, M., Dennis, J. M., et al. (2015). Implementation of PFC and RCM for RoCEv2 simulation in OMNeT++. Proceedings of the 2nd OMNeT++ Community Summit As traffic patterns and network topologies become more and more complicated in current enterprise data centers and TOP500 supercomputers, the probability of network congestion increases. If no countermeasures are taken, network congestion c... CISL Affiliations: TDD, ASAP View on OpenSky |
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A new ensemble-based consistency test for the Community Earth System Model (pyCECT v1.0) Baker, A., Hammerling, D., Levy, M. N., Xu, H., Dennis, J. M., et al. (2015). A new ensemble-based consistency test for the Community Earth System Model (pyCECT v1.0). Geoscientific Model Development, doi:10.5194/gmd-8-2829-2015 Climate simulation codes, such as the Community Earth System Model (CESM), are especially complex and continually evolving. Their ongoing state of development requires frequent software verification in the form of quality assurance to both ... CISL Affiliations: TDD, ASAP View on OpenSky |
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Performance search engine driven by prior knowledge of optimization Kim, Y., Černý, P., Dennis, J. M.. (2015). Performance search engine driven by prior knowledge of optimization. ARRAY 2015: Proceedings of the 2nd ACM SIGPLAN International Workshop on Libraries, Languages, and Compilers for Array Programming, doi:10.1145/2774959.2774963 For scientific array-based programs, optimization for a particular target platform is a hard problem. There are many optimization techniques such as (semantics-preserving) source code transformations, compiler directives, environment variab... CISL Affiliations: TDD, ASAP View on OpenSky |
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Compact cell-centered discretization stencils at fine-coarse block structured grid interfaces Pletzer, A., Jamroz, B., Crockett, R., Sides, S.. (2014). Compact cell-centered discretization stencils at fine-coarse block structured grid interfaces. Journal of Computational Physics, doi:10.1016/j.jcp.2013.12.020 Different strategies for coupling fine-coarse grid patches are explored in the context of the adaptive mesh refinement (AMR) method. We show that applying linear interpolation to fill in the fine grid ghost values can produce a finite volum... CISL Affiliations: TDD, ASAP View on OpenSky |