Data processing pipeline for serial femtosecond crystallography at SACLA

A data processing pipeline for serial femtosecond crystallography at SACLA was developed, based on Cheetah [Barty et al. (2014). J. Appl. Cryst.47, 1118–1131] and CrystFEL [White et al. (2016). J. Appl. Cryst.49, 680–689]. The original programs were adapted for data acquisition through the SACLA API...

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Bibliographic Details
Published in:Journal of applied crystallography Vol. 49; no. 3; pp. 1035 - 1041
Main Authors: Nakane, Takanori, Joti, Yasumasa, Tono, Kensuke, Yabashi, Makina, Nango, Eriko, Iwata, So, Ishitani, Ryuichiro, Nureki, Osamu
Format: Journal Article
Language:English
Published: 5 Abbey Square, Chester, Cheshire CH1 2HU, England International Union of Crystallography 01.06.2016
Subjects:
Computer Programs
parallelization
real-time processing
SACLA
serial femtosecond crystallography
spot finding
SACLA
spot finding
parallelization
real-time processing
serial femtosecond crystallography
ISSN:1600-5767, 0021-8898, 1600-5767
Online Access:Get full text
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Summary:A data processing pipeline for serial femtosecond crystallography at SACLA was developed, based on Cheetah [Barty et al. (2014). J. Appl. Cryst.47, 1118–1131] and CrystFEL [White et al. (2016). J. Appl. Cryst.49, 680–689]. The original programs were adapted for data acquisition through the SACLA API, thread and inter‐node parallelization, and efficient image handling. The pipeline consists of two stages: The first, online stage can analyse all images in real time, with a latency of less than a few seconds, to provide feedback on hit rate and detector saturation. The second, offline stage converts hit images into HDF5 files and runs CrystFEL for indexing and integration. The size of the filtered compressed output is comparable to that of a synchrotron data set. The pipeline enables real‐time feedback and rapid structure solution during beamtime. A data processing pipeline for SACLA was developed, based on Cheetah and CrystFEL. Real‐time analysis and rapid structure solution were enabled.
Bibliography:ArticleID:JCR2ZW5001
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ISSN:1600-5767
0021-8898
1600-5767
DOI:10.1107/S1600576716005720