title: Evaluation of a multicore-optimized implementation for tomographic reconstruction.
abstract: Tomography allows elucidation of the three-dimensional structure of an object from a set of projection images. In life sciences, electron microscope tomography is providing invaluable information about the cell structure at a resolution of a few nanometres. Here, large images are required to combine wide fields of view with high resolution requirements. The computational complexity of the algorithms along with the large image size then turns tomographic reconstruction into a computationally demanding problem. Traditionally, high-performance computing techniques have been applied to cope with such demands on supercomputers, distributed systems and computer clusters. In the last few years, the trend has turned towards graphics processing units (GPUs). Here we present a detailed description and a thorough evaluation of an alternative approach that relies on exploitation of the power available in modern multicore computers. The combination of single-core code optimization, vector processing, multithreading and efficient disk I/O operations succeeds in providing fast tomographic reconstructions on standard computers. The approach turns out to be competitive with the fastest GPU-based solutions thus far.
authors.affiliation: Supercomputing and Algorithms group, University of Almería, Almería, Spain.
authors.forename: Jose-Ignacio
authors.initials: JI
authors.lastname: Agulleiro
authors.forename: José Jesús
authors.initials: JJ
authors.lastname: Fernández
mesh_terms: D000465:Algorithms; D003196:Computer Graphics; D003205:Computing Methodologies; D055032:Electron Microscope Tomography; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D013997:Time Factors; D014054:Tomography / Q000379:methods*; D014616:Vaccinia virus