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A high-throughput system for high-quality tomographic reconstruction of large datasets at Diamond Light Source

DOI: 10.1098/rsta.2014.0398 DOI Help
PMID: 25939626 PMID Help

Authors: Robert Atwood (Diamond Light Source) , Andrew Bodey (Diamond Light Source) , Stephen Price (Diamond Light Source) , Mark Basham (Diamond Light Source) , Michael Drakopoulos (Diamond Light Source)
Co-authored by industrial partner: No

Type: Journal Paper
Journal: Philosophical Transactions Of The Royal Society A: Mathematical, Physical And Engineering Sciences , VOL 373 , PAGES 20140398 - 20140398

State: Published (Approved)
Published: May 2015

Open Access Open Access

Abstract: Tomographic datasets collected at synchrotrons are becoming very large and complex, and, therefore, need to be managed efficiently. Raw images may have high pixel counts, and each pixel can be multidimensional and associated with additional data such as those derived from spectroscopy. In time-resolved studies, hundreds of tomographic datasets can be collected in sequence, yielding terabytes of data. Users of tomographic beamlines are drawn from various scientific disciplines, and many are keen to use tomographic reconstruction software that does not require a deep understanding of reconstruction principles. We have developed Savu, a reconstruction pipeline that enables users to rapidly reconstruct data to consistently create high-quality results. Savu is designed to work in an 'orthogonal' fashion, meaning that data can be converted between projection and sinogram space throughout the processing workflow as required. The Savu pipeline is modular and allows processing strategies to be optimized for users' purposes. In addition to the reconstruction algorithms themselves, it can include modules for identification of experimental problems, artefact correction, general image processing and data quality assessment. Savu is open source, open licensed and 'facility-independent': it can run on standard cluster infrastructure at any institution.

Journal Keywords: Tomography; X-Ray

Subject Areas: Technique Development, Physics, Information and Communication Technology


Instruments: I12-JEEP: Joint Engineering, Environmental and Processing , I13-2-Diamond Manchester Imaging , I18-Microfocus Spectroscopy