Beamline Phone Number:
+44 (0) 1235 778418
Principal Beamline Scientist:
Dave Allan
Tel: +44 (0) 1235 778644
E-mail: [email protected]
Email: [email protected]
Tel: +44 (0)1235 4494052
During beamtime, click on the current visit on the home page to get to the Data Collections page. This page can also be reached for any current or past visits by selecting Visits from the visit menu and choosing the appropriate visit.
At any time, the log window and the beamtime history are available to view. Full data collections consisting of multiple sweeps are grouped and only the data summary for the first run is shown on the home page, but all runs can be accessed by clicking on the link next to Group.
The table shows the basic information for each sweep of data, including the goniometer positions, image step size, time per image, transmission used, wavelength and experiment type.
If the Sample ID is set correctly in the GDA data collection table, then sample entry should match the sample as registered in the shipment. This means any data collections are linked to that sample.
If comments have been added to the comments column of the GDA data collection table, they will be reported here.
Notes
Just the first image is displayed in the summary, but by clicking on the image a new Diffraction Image Viewer window opens and it is possible to click through or select specific images.
If there are powder rings, checking the box for ice rings will show the expected locations for ice rings and is a quick and easy way to see if the powder rings are due to ice or the sample (or, occasionally, beam conditioning components – if you suspect this to be the case, request assistance from your local contact).
Notes:
Snapshots are taken of the crystal at 90 degree intervals (0°, 90°, 180° and 270°) between centring and data collection starting. As snapshots are only taken before the start of a data collection if the light is already in, pictures are normally only produced for the first screening run and they are only displayed for that collection.
Click on the picture to view it in full and use the arrows to move on to the next image. The scale included can be used to guesstimate the crystal size if necessary.
Remember, you can persuade the system to take more snapshots by clicking either the “Make hutch safe” or "Prepare Sample Mount" buttons in the GDA and then starting the next data collection. As the backlight is put back in position, the GDA expects that the sample has been changed and will take another set of snapshots before the subsequent data collection starts. If you just want before and after shots, the "after" data collection could just be a single diffraction image.
The plot on the right-hand side gives an indication of the diffraction quality.
The yellow spots indicate the number of reflection-like features found per image – left hand axis.
The difference between yellow spots and blue spots is not obvious.
The red spots show the resolution of the reflection features found per image – it does not show the maximum resolution but that of the highest resolution shell with more than some number of reflections. For clean diffraction patterns and small unit cells, the reported resolution is often -1 (null) as there are not enough reflections above the threshold (which was defined for proteins).
To see the lattice for any given run, click on the page with the turned over corner to open an “Attachments” window and then click on Reciprocal Space Viewer for the desired run. Note that the page turns into a snowflake once a certain level of processing has been reached.
Press H once in the reciprocal lattice viewer to get a list of commands
Once you have finished viewing the reciprocal lattice, click on the browser back arrow to return to the home page - do not be tempted to click on the close button as this will exit all of ISPyB.
It is not possible to view multiple sweeps in the same view here. This can be done via the NoMachine session - more details can be found in the Reprocessing pages.
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