Nothing Special   »   [go: up one dir, main page]

Skip to main content

Structure-Aware Calculation of Many-Electron Wave Function Overlaps on Multicore Processors

  • Conference paper
  • First Online:
Parallel Processing and Applied Mathematics (PPAM 2019)

Abstract

We introduce a new algorithm that exploits the relationship between the determinants of a sequence of matrices that appear in the calculation of many-electron wave function overlaps, yielding a considerable reduction of the theoretical cost. The resulting enhanced algorithm is embarrassingly parallel and our comparison against the (embarrassingly parallel version of) original algorithm, on a computer node with 40 physical cores, shows acceleration factors which are close to 7 for the largest problems, consistent with the theoretical difference.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Subscribe and save

Springer+ Basic
$34.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or eBook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 69.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 89.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Similar content being viewed by others

References

  1. Anzt, H., Dongarra, J., Flegar, G., Quintana-Ortí, E.S.: Variable-size batched LU for small matrices and its integration into block-Jacobi preconditioning. In: 2017 46th International Conference on Parallel Processing (ICPP), pp. 91–100 (2017). https://doi.org/10.1109/ICPP.2017.18

  2. Dirac, P.A.M.: A new notation for quantum mechanics. Math. Proc. Cambridge Philos. Soc. 35(3), 416–418 (1939). https://doi.org/10.1017/S0305004100021162

    Article  MathSciNet  MATH  Google Scholar 

  3. Dong, T., Haidar, A., Luszczek, P., Harris, J.A., Tomov, S., Dongarra, J.: Lu factorization of small matrices: accelerating batched DGETRF on the GPU. In: 2014 IEEE International Conference on High Performance Computing and Communications, 2014 IEEE 6th Internatinal Symposium on Cyberspace Safety and Security, 2014 IEEE 11th International Conference on Embedded Software and Systems (HPCC, CSS, ICESS), pp. 157–160, August 2014. https://doi.org/10.1109/HPCC.2014.30

  4. Golub, G.H., Loan, C.F.V.: Matrix Computations, 3rd edn. The Johns Hopkins University Press, Baltimore (1996)

    MATH  Google Scholar 

  5. Hammes-Schiffer, S., Tully, J.C.: Proton transfer in solution: molecular dynamics with quantum transitions. J. Chem. Phys. 101(6), 4657–4667 (1994). https://doi.org/10.1063/1.467455

    Article  Google Scholar 

  6. Li, S.L., Truhlar, D.G., Schmidt, M.W., Gordon, M.S.: Model space diabatization for quantum photochemistry. J. Chem. Phys. 142(6), 064106 (2015)

    Article  Google Scholar 

  7. Plasser, F., Ruckenbauer, M., Mai, S., Oppel, M., Marquetand, P., González, L.: Efficient and flexible computation of many-electron wave function overlaps. J. Chem. Theory Comput. 12(3), 1207–1219 (2016)

    Article  Google Scholar 

  8. Quintana-Ortí, E.S., Van De Geijn, R.A.: Updating an LU factorization with pivoting. ACM Trans. Math. Softw. 35(2), 11:1–11:16 (2008)

    Article  MathSciNet  Google Scholar 

  9. Sapunar, M.: Natural transition orbitals for CIS type wave functions. https://github.com/marin-sapunar/cis_nto. Accessed 24 Oct 2019

  10. Sapunar, M., Piteša, T., Davidović, D., Došlić, N.: Highly efficient algorithms for CIS type excited state wave function overlaps. J. Chem. Theory Comput. 15, 3461–3469 (2019)

    Article  Google Scholar 

  11. Tully, J.C.: Molecular dynamics with electronic transitions. J. Chem. Phys. 93(2), 1061–1071 (1990). https://doi.org/10.1063/1.459170

    Article  Google Scholar 

Download references

Acknowledgement

This research was performed under project HPC-EUROPA3 (INFRAIA-2016-1-730897) and supported by Croatian Science Fundation under grant HRZZ IP-2016-06-1142, the Foundation of the Croatian Academy of Science and Arts, and the European Regional Development Fund under grant KK.01.1.1.01.0009 (DATACROSS). Enrique S. Quintana-Ortí was supported by project TIN2017-82972-R of the MINECO and FEDER. The authors gratefully acknowledge the computer resources provided by the Juelich Supercomputing center, and to BSC where the initial testings and the code development were performed.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Davor Davidović .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2020 Springer Nature Switzerland AG

About this paper

Check for updates. Verify currency and authenticity via CrossMark

Cite this paper

Davidović, D., Quintana-Ortí, E.S. (2020). Structure-Aware Calculation of Many-Electron Wave Function Overlaps on Multicore Processors. In: Wyrzykowski, R., Deelman, E., Dongarra, J., Karczewski, K. (eds) Parallel Processing and Applied Mathematics. PPAM 2019. Lecture Notes in Computer Science(), vol 12043. Springer, Cham. https://doi.org/10.1007/978-3-030-43229-4_2

Download citation

  • DOI: https://doi.org/10.1007/978-3-030-43229-4_2

  • Published:

  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-43228-7

  • Online ISBN: 978-3-030-43229-4

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics