We present a novel software package for the problem “reconstruction from projections” in electron microscopy. The Ettention framework consists of a set of modular building-blocks for tomographic reconstruction algorithms. The well-known block iterative reconstruction method based on Kaczmarz algorithm is implemented using these blocks, including adaptations specific to electron tomography. Ettention simultaneously features (1) a modular, object-oriented software design, (2) optimized access to high-performance computing (HPC) platforms such as graphic processing units (GPU) or many-core architectures like Xeon Phi, and (3) accessibility to microscopy end-users via integration in the IMOD package and user interface. We also provide developers with a clean and well-structured application programming interface (API) that allows for extending the software easily and thus makes it an ideal platform for algorithmic research while hiding most of the technical details of high-performance computing. Several case studies are provided to demonstrate the feasibility of the concept.
@article{pub8166,
author = {
Dahmen, Tim
and
Marsalek, Lukas
and
Marniok, Nico
and
Turoňová, Beata
and
Bogachev, Sviatoslav
and
Trampert, Patrick
and
Nickels, Stefan
and
Slusallek, Philipp
},
title = {The Ettention software package},
year = {2015},
volume = {n.a.},
journal = {Ultramicroscopy},
publisher = {Elsevier}
}
Deutsches Forschungszentrum für Künstliche Intelligenz German Research Center for Artificial Intelligence