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Morpho File Menu

Skandha Morpho needs to know the names of the set of .tiff images which you propose to digitize, and it is not inclined to peer at the current directory and try to guess. It expects that the list of files will look something vaguely like

-rw-r--r--   2 jsp      user       65682 Jun  6  1993 jpS3I1.tiff
-rw-r--r--   1 jsp      user       65682 Jun  6  1993 jpS3I2.tiff
-rw-r--r--   1 jsp      user       65682 Jun  6  1993 jpS3I3.tiff
...
-rw-r--r--   1 jsp      user       65682 Jun  6  1993 jpS3I124.tiff

at least to the extent of each file name consisting of some fixed prefix string ("jpS3I" in this case) followed a frame number (possibly with leading zeros) follwed by some fixed suffix string (".tiff" in this case).

The Morpho File Menu exists to let you tell Skandha Morpho how to construct the set of filenames for your tiff files.

The "First frame" and "Last frame" entries specify the range of frame numbers expected; Skandha Morpho assumes you have one tiff file for each frame number in this range, inclusive. Set these to appropriate values by clicking on them and typing the appropriate number in.

The "Filename prefix" specifies the string which precedes the frame number in the filenames of your set of tiff files. If the default value is incorrect (likely!), click on this entry and type in the correct prefix string. An empty string is fine.

The "Filename suffix" specifies the string which follows the frame number in the filenames of your set of tiff files. If the default value is incorrect, click on this entry and type in the correct suffix string.

The "Filename zero-pad" entry specifies whether you use leading zeros to pad numbers out to a fixed length. If you don't pad numbers in this way in your filenames, leave this value set to 1. If you use up to one leading zero to pad all filename frame numbers out to length two, set it to 2. If you use up to two leading zeros to pad all filename frame numbers out to length three, set it to 3.

When you have the above values set correctly for your fileset, select "Main Menu". There should be a pause as Skandha Morpho reads in the first tiff file in your image set, a longer pause with a "Resizing" message posted while it scales your image to fill the screen, then the "MORPHO" menu should come up on the right while your first image fills the graphic port. (Skandha Morpho currently doesn't handle non-square images nicely. Contact Jeff if this is a problem. So far, we've only been interested in MRI and CAT scans, which come to us square.)


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