We had a talk that might be of interest to the Kepler community about how Matt Gerring and others are using Ptolemy II as an engine at the Diamond Light Souce Synchrotron in the UK.
Basically, they use Ptolemy II inside Passerelle, inside Eclipse as an RCP app. The slides from the talk are at http://embedded.eecs.berkeley.edu/seminar/#0b88c9 ===== The use of Ptolemy 2 and clusters for data analysis at the Diamond Synchrotron Mar 18, 2014, 4.10-5pm, Matt Gerring <http://www.diamond.ac.uk/>, Diamond Light Source, United Kingdom. Slides <http://chess.eecs.berkeley.edu/pubs/x.html> Abstract Diamond Light Source is a synchrotron radiation facility conducting experiments in diverse areas such as crystallography, tomography, microscopy, spectroscopy and radiography. The synchrotron machine produces high energy light and requires automated systems to execute experiments because of the extreme environment required. We will look at some of the robots operating in this environment and how data is collected at Diamond. We will also look at how data, once collected, is treated using Ptolemy 2 - based actors. The seminar will include demonstrations of the Data Analysis Workbench or DAWN which is open source software used to visualize and treat data for users. DAWN is a collaboration between Diamond Light Source, the ESRF and EMBL Grenoble. Bio: Matthew Gerring is a software developer and is enthusiastic about Ptolemy 2, Eclipse RCP and design patterns. He works on the DAWN product and manages the DAWN collaboration at Diamond Synchrotron near Oxford in the United Kingdom. He has been a keen Java developer for around 15 years and is a committer to several open source projects, including Eclipse Nebula and DAWN. When not glued to a screen and weather allowing, he can be found outdoors walking with the family and dogs or doing a little fly fishing. === There is also a paper: *The use of workflows in the design and implementation of complex experiments in macromolecular crystallography.* *Sandor Brockhauser, Olof Svensson, Matthew W. Bowler, Max Nanao, Elspeth Gordon, Ricardo M.F. Leal, Alexander Popov, Matthew Gerring, Andrew McCarthy, Andy Gotz* *Citation* Sandor Brockhauser, Olof Svensson, Matthew W. Bowler, Max Nanao, Elspeth Gordon, Ricardo M.F. Leal, Alexander Popov, Matthew Gerring, Andrew McCarthy, Andy Gotz. "The use of workflows in the design and implementation of complex experiments in macromolecular crystallography.". *Acta Crystallographica Section D*, 68(8):975-984, August 2012; (The workflows use Ptolemy II as an engine.). *Abstract* The automation of beam delivery, sample handling and data analysis, together with increasing photon flux, diminishing focal spot size and the appearance of fast-readout detectors on synchrotron beamlines, have changed the way that many macromolecular crystallography experiments are planned and executed. Screening for the best diffracting crystal, or even the best diffracting part of a selected crystal, has been enabled by the development of microfocus beams, precise goniometers and fast-readout detectors that all require rapid feedback from the initial processing of images in order to be effective. All of these advances require the coupling of data feedback to the experimental control system and depend on immediate online data-analysis results during the experiment. To facilitate this, a Data Analysis WorkBench (DAWB) for the flexible creation of complex automated protocols has been developed. Here, example workflows designed and implemented using DAWB are presented for enhanced multi-step crystal characterizations, experiments involving crystal re-orientation with kappa goniometers, crystal-burning experiments for empirically determining the radiation sensitivity of a crystal system and the application of mesh scans to find the best location of a crystal to obtain the highest diffraction quality. Beamline users interact with the prepared workflows through a specific brick within the beamline-control GUI *MXCuBE*. *Electronic downloads* - http://dx.doi.org/10.1107%2FS090744491201863X _Christopher
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