Literature DB >> 29507550

DiSCaMB: a software library for aspherical atom model X-ray scattering factor calculations with CPUs and GPUs.

Michał L Chodkiewicz1, Szymon Migacz2, Witold Rudnicki2,3, Anna Makal1, Jarosław A Kalinowski4, Nigel W Moriarty4, Ralf W Grosse-Kunstleve5, Pavel V Afonine4, Paul D Adams4,6, Paulina Maria Dominiak1.   

Abstract

It has been recently established that the accuracy of structural parameters from X-ray refinement of crystal structures can be improved by using a bank of aspherical pseudoatoms instead of the classical spherical model of atomic form factors. This comes, however, at the cost of increased complexity of the underlying calculations. In order to facilitate the adoption of this more advanced electron density model by the broader community of crystallographers, a new software implementation called DiSCaMB, 'densities in structural chemistry and molecular biology', has been developed. It addresses the challenge of providing for high performance on modern computing architectures. With parallelization options for both multi-core processors and graphics processing units (using CUDA), the library features calculation of X-ray scattering factors and their derivatives with respect to structural parameters, gives access to intermediate steps of the scattering factor calculations (thus allowing for experimentation with modifications of the underlying electron density model), and provides tools for basic structural crystallographic operations. Permissively (MIT) licensed, DiSCaMB is an open-source C++ library that can be embedded in both academic and commercial tools for X-ray structure refinement.

Entities:  

Keywords:  GPU; multipole model; refinement; structure factors

Year:  2018        PMID: 29507550      PMCID: PMC5822993          DOI: 10.1107/S1600576717015825

Source DB:  PubMed          Journal:  J Appl Crystallogr        ISSN: 0021-8898            Impact factor:   3.304


  34 in total

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8.  Verification of structural and electrostatic properties obtained by the use of different pseudoatom databases.

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