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Volumn 181, Issue 6, 2010, Pages 1013-1020

Parallel performance of a lattice-Boltzmann/finite element cellular blood flow solver on the IBM Blue Gene/P architecture

Author keywords

Blue Gene P; High performance computing; Lattice Boltzmann; Suspension flows

Indexed keywords

ARGONNE NATIONAL LABORATORY; BLOOD FLOW; CODE STRUCTURE; HIGH PERFORMANCE COMPUTING; HYBRID LATTICE; LATTICE BOLTZMANN; PARALLEL IMPLEMENTATIONS; PARALLEL PERFORMANCE; PERFORMANCE CHARACTERISTICS; PROCESSOR CORES; SUSPENSION FLOWS;

EID: 77950518158     PISSN: 00104655     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cpc.2010.02.005     Document Type: Article
Times cited : (70)

References (42)
  • 1
    • 34249759076 scopus 로고
    • Lattice Boltzmann simulation of solid particles suspended in fluid
    • Aidun C.K., and Lu Y. Lattice Boltzmann simulation of solid particles suspended in fluid. J. Stat. Phys. 81 1 (1995) 49-61
    • (1995) J. Stat. Phys. , vol.81 , Issue.1 , pp. 49-61
    • Aidun, C.K.1    Lu, Y.2
  • 2
    • 0032180429 scopus 로고    scopus 로고
    • Direct analysis of particulate suspensions with inertia using the discrete Boltzmann equation
    • Aidun C.K., Lu Y., and Ding E.-J. Direct analysis of particulate suspensions with inertia using the discrete Boltzmann equation. J. Fluid Mech. 373 (1998) 287-311
    • (1998) J. Fluid Mech. , vol.373 , pp. 287-311
    • Aidun, C.K.1    Lu, Y.2    Ding, E.-J.3
  • 3
    • 0031623372 scopus 로고    scopus 로고
    • A new method for analysis of the fluid interaction with a deformable membrane
    • 0022-4715
    • Aidun C.K., and Qi D.W. A new method for analysis of the fluid interaction with a deformable membrane. J. Stat. Phys., 0022-4715 90 1-2 (1998) 145-158
    • (1998) J. Stat. Phys. , vol.90 , Issue.1-2 , pp. 145-158
    • Aidun, C.K.1    Qi, D.W.2
  • 4
    • 0037986309 scopus 로고    scopus 로고
    • Extension of the lattice-Boltzmann method for direct simulation of suspended particles near contact
    • Ding E.-J., and Aidun C.K. Extension of the lattice-Boltzmann method for direct simulation of suspended particles near contact. J. Stat. Phys. 112 3/4 (2003) 685-708
    • (2003) J. Stat. Phys. , vol.112 , Issue.3-4 , pp. 685-708
    • Ding, E.-J.1    Aidun, C.K.2
  • 5
    • 75449087829 scopus 로고    scopus 로고
    • A method for direct simulation of flexible fiber suspensions using lattice-Boltzmann equation with external boundary force
    • Wu J., and Aidun C.K. A method for direct simulation of flexible fiber suspensions using lattice-Boltzmann equation with external boundary force. Int. J. Multiphas. Flow 36 (2010) 202-309
    • (2010) Int. J. Multiphas. Flow , vol.36 , pp. 202-309
    • Wu, J.1    Aidun, C.K.2
  • 6
    • 57849117144 scopus 로고    scopus 로고
    • Simulating deformable particle suspensions using a coupled lattice-Boltzmann and finite-element method
    • MacMeccan R.M., Clausen J.R., Neitzel G.P., and Aidun C.K. Simulating deformable particle suspensions using a coupled lattice-Boltzmann and finite-element method. J. Fluid Mech. 618 (2009) 13-39
    • (2009) J. Fluid Mech. , vol.618 , pp. 13-39
    • MacMeccan, R.M.1    Clausen, J.R.2    Neitzel, G.P.3    Aidun, C.K.4
  • 7
    • 77950521219 scopus 로고    scopus 로고
    • IBM, Blue Gene
    • IBM, Blue Gene (2009). http://www-03.ibm.com/systems/deepcomputing/bluegene/
    • (2009)
  • 8
    • 77950516899 scopus 로고    scopus 로고
    • Argonne National Laboratory, Computing and storage
    • Argonne National Laboratory, Computing and storage (2009). http://www.alcf.anl.gov/resources/storage.php
    • (2009)
  • 11
    • 77950519344 scopus 로고    scopus 로고
    • M. Djurfeldt, C. Johansson, O. Ekeberg, M. Rehn, M. Lundqvist, A. Lansner, Massively parallel simulation of brain-scale neoronal network models, Tech. Rep. TRITA-NA-P0513 KTH, School of Computer Science and Communication, University of Stockholm, 2005
    • M. Djurfeldt, C. Johansson, O. Ekeberg, M. Rehn, M. Lundqvist, A. Lansner, Massively parallel simulation of brain-scale neoronal network models, Tech. Rep. TRITA-NA-P0513 KTH, School of Computer Science and Communication, University of Stockholm, 2005
  • 12
    • 67650071096 scopus 로고    scopus 로고
    • Life sciences molecular dynamics applications on the IBM system Blue Gene solution: Performance overview
    • Tech. Rep, IBM, 2006
    • C.P. Sosa, T. Milledge, J. McAllister, G.Z. Milledge, Life sciences molecular dynamics applications on the IBM system Blue Gene solution: Performance overview, Tech. Rep., IBM, 2006
    • Sosa, C.P.1    Milledge, T.2    McAllister, J.3    Milledge, G.Z.4
  • 14
    • 79952512133 scopus 로고    scopus 로고
    • High throughput computing validation for drug discovery using the DOCK program on a massively parallel system
    • 4410, IBM, 2008
    • A. Peters, M.E. Lundberg, P.T. Lang, C.P. Sosa, High throughput computing validation for drug discovery using the DOCK program on a massively parallel system, Tech. Rep. Redpaper 4410, IBM, 2008
    • Tech. Rep. Redpaper
    • Peters, A.1    Lundberg, M.E.2    Lang, P.T.3    Sosa, C.P.4
  • 15
    • 77950516620 scopus 로고    scopus 로고
    • Fluent, Fluent 6.3 Benchmarks, webpage:
    • Fluent, Fluent 6.3 Benchmarks, webpage: (2008). http://www.fluent.com/software/fluent/fl5bench/flbench_6.3/fullres.htm
    • (2008)
  • 16
    • 0028461975 scopus 로고
    • Numerical simulations of particulate suspensions via a discretized Boltzmann equation. Part 1. Theoretical foundation
    • Ladd A.J.C. Numerical simulations of particulate suspensions via a discretized Boltzmann equation. Part 1. Theoretical foundation. J. Fluid Mech. 271 (1994) 285-309
    • (1994) J. Fluid Mech. , vol.271 , pp. 285-309
    • Ladd, A.J.C.1
  • 17
    • 0028460854 scopus 로고
    • Numerical simulations of particulate suspensions via a discretized Boltzmann equation. Part 2. Numerical results
    • Ladd A.J.C. Numerical simulations of particulate suspensions via a discretized Boltzmann equation. Part 2. Numerical results. J. Fluid Mech. 271 (1994) 311-339
    • (1994) J. Fluid Mech. , vol.271 , pp. 311-339
    • Ladd, A.J.C.1
  • 18
    • 0035538509 scopus 로고    scopus 로고
    • Lattice-Boltzmann simulations of particle-fluid suspensions
    • Ladd A.J.C., and Verberg R. Lattice-Boltzmann simulations of particle-fluid suspensions. J. Stat. Phys. 104 5 (2001) 1191-1251
    • (2001) J. Stat. Phys. , vol.104 , Issue.5 , pp. 1191-1251
    • Ladd, A.J.C.1    Verberg, R.2
  • 20
    • 44349177435 scopus 로고    scopus 로고
    • HemeLB: A high performance parallel lattice-Boltzmann code for large scale fluid flow in complex geometries
    • Mazzeo M.D., and Coveney P.V. HemeLB: A high performance parallel lattice-Boltzmann code for large scale fluid flow in complex geometries. Comput. Phys. Commun. 178 (2008) 894-914
    • (2008) Comput. Phys. Commun. , vol.178 , pp. 894-914
    • Mazzeo, M.D.1    Coveney, P.V.2
  • 21
    • 68949149858 scopus 로고    scopus 로고
    • MUPHY: A parallel MUlti PHYsics/scale code for high performance bio-fluidic simulations
    • Bernaschi M., Melchionna S., Succi S., Fyta M., Kaxiras E., and Sircar J.K. MUPHY: A parallel MUlti PHYsics/scale code for high performance bio-fluidic simulations. Comput. Phys. Commun. 180 9 (2009) 1495-1502
    • (2009) Comput. Phys. Commun. , vol.180 , Issue.9 , pp. 1495-1502
    • Bernaschi, M.1    Melchionna, S.2    Succi, S.3    Fyta, M.4    Kaxiras, E.5    Sircar, J.K.6
  • 23
    • 0034225734 scopus 로고    scopus 로고
    • A particle-based algorithm for the hydrodynamics of binary fluid mixtures
    • Malevanets A., and Yeomans J.M. A particle-based algorithm for the hydrodynamics of binary fluid mixtures. Comput. Phys. Commun. 129 (2000) 282-288
    • (2000) Comput. Phys. Commun. , vol.129 , pp. 282-288
    • Malevanets, A.1    Yeomans, J.M.2
  • 24
    • 21244459159 scopus 로고    scopus 로고
    • A method to resolve hydrodynamic interactions in colloidal dispersions
    • Yamamoto R., Nakayama Y., and Kim K. A method to resolve hydrodynamic interactions in colloidal dispersions. Comput. Phys. Commun. 169 (2005) 301-304
    • (2005) Comput. Phys. Commun. , vol.169 , pp. 301-304
    • Yamamoto, R.1    Nakayama, Y.2    Kim, K.3
  • 25
    • 33646760235 scopus 로고    scopus 로고
    • Cluster size distribution and scaling for spherical particles and red blood cells in pressure-driven flows at small Reynolds number
    • Ding E.-J., and Aidun C.K. Cluster size distribution and scaling for spherical particles and red blood cells in pressure-driven flows at small Reynolds number. Phys. Rev. Lett. 96 20 (2006) 204502
    • (2006) Phys. Rev. Lett. , vol.96 , Issue.20 , pp. 204502
    • Ding, E.-J.1    Aidun, C.K.2
  • 26
    • 1542471855 scopus 로고    scopus 로고
    • Lattice Boltzmann method for fluid flows
    • Chen S., and Doolen G.D. Lattice Boltzmann method for fluid flows. Annu. Rev. Fluid Mech. 30 (1998) 329-364
    • (1998) Annu. Rev. Fluid Mech. , vol.30 , pp. 329-364
    • Chen, S.1    Doolen, G.D.2
  • 27
    • 77950520224 scopus 로고    scopus 로고
    • Lattice-Boltzmann method for complex flows
    • Aidun C.K., and Clausen J.R. Lattice-Boltzmann method for complex flows. Annu. Rev. Fluid Mech. 42 (2010) 439-472
    • (2010) Annu. Rev. Fluid Mech. , vol.42 , pp. 439-472
    • Aidun, C.K.1    Clausen, J.R.2
  • 28
    • 73849125142 scopus 로고    scopus 로고
    • Vector computers in a world of commodity clusters, massively parallel systems and many-core many-threaded CPUs: Recent experience based on an advanced lattice Boltzmann flow solver
    • Wolfgang D.B.K., Nagel E., and Resch M.M. (Eds), Springer-Verlag, Berlin, Heidelberg
    • Zeiser T., Hager G., and Wellein G. Vector computers in a world of commodity clusters, massively parallel systems and many-core many-threaded CPUs: Recent experience based on an advanced lattice Boltzmann flow solver. In: Wolfgang D.B.K., Nagel E., and Resch M.M. (Eds). High Performance Computing in Science and Engineering '08 (2009), Springer-Verlag, Berlin, Heidelberg 333-347
    • (2009) High Performance Computing in Science and Engineering '08 , pp. 333-347
    • Zeiser, T.1    Hager, G.2    Wellein, G.3
  • 30
    • 23844537591 scopus 로고    scopus 로고
    • Asymptotic analysis of the lattice Boltzmann equation
    • Junk M., Klar A., and Luo L.-S. Asymptotic analysis of the lattice Boltzmann equation. J. Comput. Phys. 210 2 (2005) 676-704
    • (2005) J. Comput. Phys. , vol.210 , Issue.2 , pp. 676-704
    • Junk, M.1    Klar, A.2    Luo, L.-S.3
  • 31
    • 0141620293 scopus 로고    scopus 로고
    • Rigorous Navier-Stokes limit of the lattice Boltzmann equation
    • Junk M., and Yong W. Rigorous Navier-Stokes limit of the lattice Boltzmann equation. Asymptotic Anal. 35 2 (2003) 165-185
    • (2003) Asymptotic Anal. , vol.35 , Issue.2 , pp. 165-185
    • Junk, M.1    Yong, W.2
  • 32
    • 26344468007 scopus 로고
    • A model for collision processes in gases. I. Small amplitude processes in charged and neutral one-component systems
    • Bhatnagar P.L., Gross E.P., and Krook M. A model for collision processes in gases. I. Small amplitude processes in charged and neutral one-component systems. Phys. Rev. 94 3 (1954) 511-525
    • (1954) Phys. Rev. , vol.94 , Issue.3 , pp. 511-525
    • Bhatnagar, P.L.1    Gross, E.P.2    Krook, M.3
  • 33
    • 0001773799 scopus 로고    scopus 로고
    • Fast, minimum storage ray-triangle intersection
    • Möller T., and Trumbore B. Fast, minimum storage ray-triangle intersection. Journal of Graphics Tools 2 1 (1997) 21-28
    • (1997) Journal of Graphics Tools , vol.2 , Issue.1 , pp. 21-28
    • Möller, T.1    Trumbore, B.2
  • 35
    • 0033302206 scopus 로고    scopus 로고
    • Fluid mechanics of vascular systems, diseases, and thrombosis
    • Wootton D.M., and Ku D.N. Fluid mechanics of vascular systems, diseases, and thrombosis. Annu. Rev. Fluid Mech. 1 1 (1999) 299-329
    • (1999) Annu. Rev. Fluid Mech. , vol.1 , Issue.1 , pp. 299-329
    • Wootton, D.M.1    Ku, D.N.2
  • 36
    • 0003912676 scopus 로고    scopus 로고
    • ANSYS Inc., Canonsburg, PA
    • ANSYS User's Manual (2000), ANSYS Inc., Canonsburg, PA
    • (2000) ANSYS User's Manual
  • 41
    • 0003267942 scopus 로고
    • Non-Newtonian rheology of human blood-effect of fibrinogen deduced by "subtraction"
    • Merrill E., Cokelet G., Britten A., and Wells R. Non-Newtonian rheology of human blood-effect of fibrinogen deduced by "subtraction". Circ. Res. 13 1 (1963) 48-55
    • (1963) Circ. Res. , vol.13 , Issue.1 , pp. 48-55
    • Merrill, E.1    Cokelet, G.2    Britten, A.3    Wells, R.4
  • 42
    • 62249164302 scopus 로고    scopus 로고
    • Galilean invariance in the lattice-Boltzmann method and its effect on the calculation of rheological properties in suspensions
    • Clausen J.R., and Aidun C.K. Galilean invariance in the lattice-Boltzmann method and its effect on the calculation of rheological properties in suspensions. Int. J. Multiphas. Flow 35 (2009) 307-311
    • (2009) Int. J. Multiphas. Flow , vol.35 , pp. 307-311
    • Clausen, J.R.1    Aidun, C.K.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.