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Subsections
Preferences
The Preference tab can be used by the user to edit several
options affecting how and when the data are displayed by Web-Ice.
Saving the Preferences
The values entered by the user in the Configuration table will
be valid the first time the user visits the different Web-Ice
tools. If the user then selects different options while running
Web-Ice, the values in the preferences will be updated. To preserve the
initial values, the user must click the Save button at the
bottom of the Configuration Options selection menu.
General Configuration
Figure 32:
General configuration options.
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- Global Image Directory: This will be the starting
directory to browse the user directories for the input image files.
- Image Filters: Used to specify what files are to be
displayed by the directory browser. This makes it easier to find types
of a certain type. Multiples entries separated by a blank space are
accepted; for example: ''*.img *.mccd *summary''.
- Show Welcome Page: Set to no to stop seeing the
Welcome page upon login to the Web-Ice interface.
- Default Tab: Select the tab to be displayed upon login
to the Web-Ice interface.
Image Viewer Configuration
Figure 33:
Image Viewer configuration options.
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- Use Global Image Directory: When this is set to Yes,
the Image Viewer will use the directory specified in the General
Configuration as starting point for image
file browsing. If it is set to No, a specific Image Directory
may then be given. The Image Directory will be updated every
time the user selects an image for display with the Image Viewer.
- Show Overlay Spots: If this option is set to Yes, the
Image Viewer will display the SPOTFINDER generated image
highlighting the spot positions, ice rings and resolution
limit. This option should only be set to Yes in conjunction with
the next option Automatically Analyze Image.
- Automatically Analyze Image: When set to Yes, the
Image Viewer will automatically run SPOTFINDER on the selected
image. If set to No the user must click the Analyze
Image button in the Image Viewer tab to analyze a specific image.
Autoindex Configuration
Figure 34:
Autoindex configuration options.
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- Use Global Image Directory: When this is set to yes,
the Autoindex Viewer will use the directory specified in the
General Configuration as starting point for image
file browsing. If it is set to no, a specific Image
Directory may then be given.
- Number of runs per page: This sets the maximum number of runs
which will be loaded and displayed on a single page in the All Runs
frame. It is recommended to keep this number below 20, as loading
a large number of runs simultaneously may cause performance
problems.
- Reverse Autoindex Log: When set to yes, the Autoindex
Log displays messages in inverse chronological order, i.e., the
latest message appears at the top of the log.
- Reverse DCSS Log: When set to yes, the Beamline Log
displays messages in inverse chronological order, i.e., the
latest message appears at the top of the log.
- Automatically Update Run Log: When set to yes, the
autoindex log in the Selected Run Log page will be automatically
updated as the autoindexing and strategy calculating programs
run. If not, an update button will appear on the log.
Screening Configuration
Figure 35:
Screening configuration options.
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- Automatically Update Screening Output: If set to yes, the screening results
will be refreshed automatically in the Cassette Summary, and a link
to the results will be generated in the Cassette details.
- Update Rate (sec): How frequently the screening results
are updated. This only applies if the Automatically Update Screening
Output option is set to ''yes''.
- Column Display Options: This can be used to select the
columns displayed in the Cassette Summary:
- Original: Displays only the columns present in the
user's spreadsheet.
- Minimum: Displays the cassette port number, crystal ID,
protein name and the comment column.
- Results: Displays the same columns as the Minimum display plus
the columns containing the screening results (generated by the
screening software).
- All: Displays the original spreadsheet and the results columns.
- Image Display Options: These options determine the
information shown in the Images column of the Cassette Summary.
- Hide images: Displays only the image name.
- Show Image links only: Displays the results of the
diffraction image analysis for the images collected at different
crystal orientations during screening and links to the diffraction
image and crystal snapshots. Clicking on the links opens a window
displaying a JPEG file.
- Selected Sample only: Displays the results of the image
analysis and diffraction image and crystal snapshot JPEGs for the
sample selected by the user.
- Crystal Sorting Column: By default, the samples will be
sorted by the column selected in this option.
- Crystal Sorting Direction: By default, the samples will be
sorted in the order (ascending or descending) selected in this
column. For example, if the Crystal Sorting Column is ''Score'', and
the Crystal Sorting Direction is ''Descending'', the highest scoring
samples will be displayed first.
Video Configuration
Figure 36:
Video configuration options.
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- Displayed Camera: This option controls what video feed is
displayed by default in the Video page. Selecting All will
display all video feeds. If the user's bandwidth is limited, it
may be more advantageous to display one video feed at one
time.
- Camera Update Rate: The user may choose how often (in
seconds) the video refreshes the image for each camera. Shorter times provide a
more smooth live video, at the expense of bandwidth usage.
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