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The Image Viewer is used to view and analyze diffraction images located on the file server at SSRL. The image files are subject to the Unix security restrictions: The user must have a read permission to the image file in order to load and view the image.
The viewer comprises three frames. The left frames displays a JPEG of the selected diffraction image. The file path of the displayed image file is shown above the JPEG image. Next to the image there is a control panel for adjusting the image display parameters, such as zooming and panning.
The right frame displays either the selected image header or, when images analysis is requested, the analysis results.
The bottom frame is a file browser that allows the user to select an image file and explore directories. The starting search directory will be the one set in the Preferences tab.
Image files must be in the MC file system and be readable by the user. There are three ways to select an image to be displayed:
If the user has selected a beamline where an experiment is being carried out, the Last Image button will be active. By clicking this button the user can display the latest image written to the directory by the beamline control software.
The first line in the file browser displays the current directory. Clicking on [Refresh] will reload the directory contents (this is useful, for example, if new images are being continuously written to the directory).
Clicking on [Up] will change the directory to the parent of the current one. The following lines are links to subdirectories or image files. File permissions, file/directory name, size in bytes, last modification date and time are displayed for each file. Clicking on a subdirectory name will list the contents of that subdirectory. Clicking the link for an image file will display the image.
Note that the user can only browse files and directories that have a read permission for their Unix login id.
Moving the mouse over the diffraction image will display the resolution in the box below the image.
The user can zoom, pan, adjust brightness and set display size of the image by using the image control panel located to the right of the displayed image.
There are three ways to pan the image. One is by clicking on the image. The image will be moved so that the mouse click position will be come the center of the display.
The second way to pan the image is by using the thumbnail located at the top of the image control panel. When the zoom level is greater than 1 (the image is zoomed in), the thumbnail displays a red rectangle representing the area of the image being displayed. The more the image is zoomed in, the smaller the rectangle. The user can click anywhere in the thumbnail to move the rectangle.
The third way to pan the image is by clicking one of the pan buttons, which are located below the thumbnail and above the zoom buttons.
The user can zoom the image in and out by using the zoom buttons or by entering a zoom level in the zoom text box. When the image is zoomed out to the maximum, the zoom is level is 1.0; it can not go lower than this. The higher the zoom level the more zoomed in the image. The left arrow button is for zooming out and the right is for zooming in.
Brightness of the image is controlled by the Brightness buttons and text box below the zoom buttons. The left arrow button makes the image darker and the right button makes it lighter. The brightness range is usually between 100 - 2000. The lower the number the darker the image. Brightness of 200-500 is typically good for most images.
By default the image size is 400 by 400 pixels. The user can change the image display size by selecting a different size from the drop down menu located under the brightness buttons.
The image header is retrieved via the image server. The header displays useful information about the image.
When the user clicks on Analyze Image, Web-Ice will run LABELIT (SPOTFINDER module) to analyze the image. The results of the analysis will be displayed under Spot Statistics in the right hand side frame of the Image Viewer page. Alternatively, the user can choose to perform image analysis automatically for each image selected by setting this option in the Preferences Tab. When the image has been analyzed, the user can use the Show spot overlay check box to toggle between displaying the highlighted spots, ice rings and resolution limits or the original image.
The output image displays the following features:
The results displayed by Web-Ice include:
Both the log and the overlaid image file generate by SPOTFINDER are saved in
|Technical questions: Webmaster
questions: Ana Gonzalez
|Last modified:Tuesday, 13-Aug-2019 14:45:10 PDT.|