FeatureJ: Options

General Description

This plugin enables one to set the global parameters used by the plugins in the FeatureJ package.

Dialog Description

Isotropic Gaussian image smoothing. By default the plugins assume that image elements (pixels/voxels) are of size 1.0 in all dimensions. If this option is selected, the plugins use the pixel width/height/depth as specified in ImageJ > Image > Properties. Effectively this means that each dimension is assigned its own Gaussian (derivative) smoothing scale, computed by dividing the scale as specified in any of the plugin dialogs, by the specified pixel/voxel size for that dimension.

Close input images after processing. If selected, ImageJ always closes the input image processed by a plugin, after the plugin has finished. This is useful if the original input images are no longer needed after a plugin has produced the requested result images. Since the Statistics plugin does not produce result images, this option does not apply to that plugin.

Save result images before closing. If selected, ImageJ always asks whether or not the user wants to save the result images before the images are closed. This is useful if one wants to exclude the possibility of accidentally closing an image.

Progress indication. If selected, the plugins will indicate their progress, using the progress bar of the ImageJ window.

Log messaging. If selected, the plugins will generate log messages, which appear in the log window of ImageJ. Most of these messages originate from the ImageScience library. In this library, all dimensions are indexed starting at 0, as opposed to ImageJ and Image5D, where the z-, t-, and c-dimension are indexed starting at 1. Thus in the log window the latter indices are reported shifted by 1.

Upon pressing "OK" the options are stored by ImageJ and saved to its preferences file when quitting. Every time a plugin is used, these preferences are used. This facilitates adapting the default behavior of the package to the user's wishes.