fScan version 1 has limited support for color mapping.

Image files are all assumed to be grayscale (unsigned int16), unless they are used as overlays with the -T command line option.

All overlays except PHASEMAPS are by default assumed to be signed values. Positive values are displayed in warm colors (red->yellow) and negative values are displayed in cold colors (blue->green). The default color scale only has 17 color values. Normally, overlay values are thresholded before being displayed.

For PHASEMAPS, values are unsigned and unthresholded (thresholding is based on accompanying correlation or power maps).

To change the colormap, use the runtime 'o' option:
0,0o - return to default colormap (17 colors)
1,0o - use external colormap (100 colors), without scaling values
2,0o - use external colormap, with scaling of intensity values
There are currently only 2 choices for external color maps. By default
1 tmap100rgb - has cold colors (1-50) and warm colors (51-99)
2 temp100rgb - a continuous temperature map (blue->yellow) with 100 values.

The "temp100rgb" color map is used by default when an external map is requested.

To switch between these 2 external color maps, enter the map number (1 or 2) as the second argument to the runtime 'o' option. For example,
1,2o - will load the tmap100rgb map (and select no scaling)
2,1o - will load the temp100rgb map (and allow intensity scaling)
Maps can also be used via the '-e map' command line option.

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