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GSOC 2020 PROJECT

Serialize Universes for parallel

MDAnalysis is a flexible and relatively fast framework for complex analysis tasks in molecular dynamics (MD) simulations. To achieve a flawless...

Contributor
Yuxuan Zhuang
Mentors
IAlibay, orbeckst, fiona-naughton, Richard Gowers
Organization
MDAnalysisScience and medicine
Program
GSoC 2020Completed · Advanced difficulty

About this project

Description from the program archive

<p>MDAnalysis is a flexible and relatively fast framework for complex analysis tasks in molecular dynamics (MD) simulations. To achieve a flawless implementation of parallelism, I will implement serialization support for Universe, the core of MDAnalysis. Furthermore, I will adapt this new serialization functionality into Dask, multiprocessing, or MPI. Additionally, I will run tests, write documentation, and run benchmarks.</p>

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  1. From RDKit to the Universe and back

    Cédric BouyssetMentored by IAlibay, fiona-naughton, Richard Gowers

  2. Trajectory New Generation: the trajectory format for the future of simulation

    Hugo MacDermott-OpeskinMentored by Paul Bauer, Richard Gowers, orbeckst

Data: Google Summer of Code public archive. This project in the official archive