publication . Article . Other literature type . 2018

DA+ data acquisition and analysis software at the Swiss Light Source macromolecular crystallography beamlines

Wojdyla, Justyna Aleksandra; Kaminski, Jakub W.; Panepucci, Ezequiel; Ebner, Simon; Wang, Xiaoqiang; Gabadinho, Jose; Wang, Meitian;
Open Access English
  • Published: 01 Jan 2018 Journal: Journal of Synchrotron Radiation, volume 25, issue Pt 1, pages 293-303 (issn: 0909-0495, eissn: 1600-5775, Copyright policy)
  • Publisher: International Union of Crystallography
Abstract
The implementation of DA+ data acquisition and analysis software at Swiss Light Source macromolecular crystallography beamlines is presented. Detailed descriptions of the user interface, acquisition engine, online processing and database, which are the major components of DA+, are given.
Subjects
free text keywords: Computer Programs, protein crystallography, data acquisition software, online data analysis, beamline automation, graphical user interface, Nuclear and High Energy Physics, Instrumentation, Radiation, Software architecture, Data quality, Swiss Light Source, Optics, business.industry, business, Data acquisition, Operating system, computer.software_genre, computer, Physics, Python (programming language), computer.programming_language, User interface, Java
Related Organizations
43 references, page 1 of 3

Barty, A., Kirian, R. A., Maia, F. R. N. C., Hantke, M., Yoon, C. H., White, T. A. & Chapman, H. (2014). J. Appl. Cryst. 47, 1118–1131.

Battye, T. G. G., Kontogiannis, L., Johnson, O., Powell, H. R. & Leslie, A. G. W. (2011). Acta Cryst. D 67, 271–281.

Bingel-Erlenmeyer, R., Olieric, V., Grimshaw, J. P. A., Gabadinho, J., Wang, X., Ebner, S. G., Isenegger, A., Schneider, R., Schneider, J., Glettig, W., Pradervand, C., Panepucci, E. H., Tomizaki, T., Wang, M. & Schulze-Briese, C. (2011). Cryst. Growth Des. 11, 916–923.

Bourenkov, G. P. & Popov, A. N. (2010). Acta Cryst. D 66, 409–419.

Dauter, Z. (1997). Methods Enzymol. 276, 326–344.

Delagenière, S., Brenchereau, P., Launer, L., Ashton, A. W., Leal, R., Veyrier, S., Gabadinho, J., Gordon, E. J., Jones, S. D., Levik, K. E., McSweeney, S. M., Monaco, S., Nanao, M., Spruce, D., Svensson, O., Walsh, M. A. & Leonard, G. A. (2011). Bioinformatics, 27, 3186–3192.

Evans, G. & Pettifer, R. F. (2001). J. Appl. Cryst. 34, 82–86.

Evans, P. (2006). Acta Cryst. D 62, 72–82.

Feld, G. K., Heymann, M., Benner, W. H., Pardini, T., Tsai, C.-J., Boutet, S., Coleman, M., a, Hunter, M. S., Li, X., Messerschmidt, M., Opthalage, A., Pedrini, B., Williams, G. J., Krantz, B., a, Fraden, S., Hau-Riege, S., Evans, J. E., Segelke, B. W. & Frank, M. (2015). J. Appl. Cryst. 48, 1–8.

Finke, A. D., Panepucci, E., Vonrhein, C., Wang, M., Bricogne, G. & OliéRic, V. (2016). Methods Mol. Biol. 1320, 175–191.

Gabadinho, J., Beteva, A., Guijarro, M., Rey-Bakaikoa, V., Spruce, D., Bowler, M. W., Brockhauser, S., Flot, D., Gordon, E. J., Hall, D. R., Lavault, B., McCarthy, A. A., McCarthy, J., Mitchell, E., Monaco, S., Mueller-Dieckmann, C., Nurizzo, D., Ravelli, R. B. G., Thibault, X., Walsh, M. A., Leonard, G. A. & McSweeney, S. M. (2010). J. Synchrotron Rad. 17, 700–707.

González, A., Moorhead, P., McPhillips, S. E., Song, J., Sharp, K., Taylor, J. R., Adams, P. D., Sauter, N. K. & Soltis, S. M. (2008). J. Appl. Cryst. 41, 176–184.

Grabowski, M., Langner, K. M., Cymborowski, M., Porebski, P. J., Sroka, P., Zheng, H., Cooper, D. R., Zimmerman, M. D., Elsliger, M.-A., Burley, S. K. & Minor, W. (2016). Acta Cryst. D 72, 1181–1193.

HDF Group (2014). HDF5, http://www.hdfgroup.org/HDF5/.

Hendrickson, W. A., Smith, J. L. & Sheriff, S. (1985). Methods Enzymol. 115, 41–55.

43 references, page 1 of 3
Abstract
The implementation of DA+ data acquisition and analysis software at Swiss Light Source macromolecular crystallography beamlines is presented. Detailed descriptions of the user interface, acquisition engine, online processing and database, which are the major components of DA+, are given.
Subjects
free text keywords: Computer Programs, protein crystallography, data acquisition software, online data analysis, beamline automation, graphical user interface, Nuclear and High Energy Physics, Instrumentation, Radiation, Software architecture, Data quality, Swiss Light Source, Optics, business.industry, business, Data acquisition, Operating system, computer.software_genre, computer, Physics, Python (programming language), computer.programming_language, User interface, Java
Related Organizations
43 references, page 1 of 3

Barty, A., Kirian, R. A., Maia, F. R. N. C., Hantke, M., Yoon, C. H., White, T. A. & Chapman, H. (2014). J. Appl. Cryst. 47, 1118–1131.

Battye, T. G. G., Kontogiannis, L., Johnson, O., Powell, H. R. & Leslie, A. G. W. (2011). Acta Cryst. D 67, 271–281.

Bingel-Erlenmeyer, R., Olieric, V., Grimshaw, J. P. A., Gabadinho, J., Wang, X., Ebner, S. G., Isenegger, A., Schneider, R., Schneider, J., Glettig, W., Pradervand, C., Panepucci, E. H., Tomizaki, T., Wang, M. & Schulze-Briese, C. (2011). Cryst. Growth Des. 11, 916–923.

Bourenkov, G. P. & Popov, A. N. (2010). Acta Cryst. D 66, 409–419.

Dauter, Z. (1997). Methods Enzymol. 276, 326–344.

Delagenière, S., Brenchereau, P., Launer, L., Ashton, A. W., Leal, R., Veyrier, S., Gabadinho, J., Gordon, E. J., Jones, S. D., Levik, K. E., McSweeney, S. M., Monaco, S., Nanao, M., Spruce, D., Svensson, O., Walsh, M. A. & Leonard, G. A. (2011). Bioinformatics, 27, 3186–3192.

Evans, G. & Pettifer, R. F. (2001). J. Appl. Cryst. 34, 82–86.

Evans, P. (2006). Acta Cryst. D 62, 72–82.

Feld, G. K., Heymann, M., Benner, W. H., Pardini, T., Tsai, C.-J., Boutet, S., Coleman, M., a, Hunter, M. S., Li, X., Messerschmidt, M., Opthalage, A., Pedrini, B., Williams, G. J., Krantz, B., a, Fraden, S., Hau-Riege, S., Evans, J. E., Segelke, B. W. & Frank, M. (2015). J. Appl. Cryst. 48, 1–8.

Finke, A. D., Panepucci, E., Vonrhein, C., Wang, M., Bricogne, G. & OliéRic, V. (2016). Methods Mol. Biol. 1320, 175–191.

Gabadinho, J., Beteva, A., Guijarro, M., Rey-Bakaikoa, V., Spruce, D., Bowler, M. W., Brockhauser, S., Flot, D., Gordon, E. J., Hall, D. R., Lavault, B., McCarthy, A. A., McCarthy, J., Mitchell, E., Monaco, S., Mueller-Dieckmann, C., Nurizzo, D., Ravelli, R. B. G., Thibault, X., Walsh, M. A., Leonard, G. A. & McSweeney, S. M. (2010). J. Synchrotron Rad. 17, 700–707.

González, A., Moorhead, P., McPhillips, S. E., Song, J., Sharp, K., Taylor, J. R., Adams, P. D., Sauter, N. K. & Soltis, S. M. (2008). J. Appl. Cryst. 41, 176–184.

Grabowski, M., Langner, K. M., Cymborowski, M., Porebski, P. J., Sroka, P., Zheng, H., Cooper, D. R., Zimmerman, M. D., Elsliger, M.-A., Burley, S. K. & Minor, W. (2016). Acta Cryst. D 72, 1181–1193.

HDF Group (2014). HDF5, http://www.hdfgroup.org/HDF5/.

Hendrickson, W. A., Smith, J. L. & Sheriff, S. (1985). Methods Enzymol. 115, 41–55.

43 references, page 1 of 3
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publication . Article . Other literature type . 2018

DA+ data acquisition and analysis software at the Swiss Light Source macromolecular crystallography beamlines

Wojdyla, Justyna Aleksandra; Kaminski, Jakub W.; Panepucci, Ezequiel; Ebner, Simon; Wang, Xiaoqiang; Gabadinho, Jose; Wang, Meitian;