Why can’t you? The drop-down menu to choose the labels image from is not disabled in your screenshot. Did you click on it? 1) Do click on it: it will be populated by a list of all images currently opened by ImageJ, 2) Choose the Sholl analysis of all paths for Fusedsuraj.tif, 3) the labels of the chosen image will be immediately applyed to volume being displayed in the 3D viewer (note that the GUI may be unresponsive while this operation takes place).
You seem to be convinced the program is not working, but your screenshots seem to say otherwise so there seems to be some misconception here.
The documentation links above were not useful? The Sholl image is a labelled mask of the analysis. The fact that the program is displaying it means it already analyzed the traces. Even if this particular feature would not be working for you (it seems to work as expected in an up-to-date ‘vanilla’ Fiji installation), the analysis would complete neverthess.
Please go ahead and press the “Analyze Profile”, “Preview Plot” and “Save Profile…” buttons next to the “Sholl Image” button that you have been pressing so far and get acquainted to the plugin. If something is not clear after reading the documentation, please do let us know, and we’ll try to make the software more intuitive.
If you want to access the latest improvements of the plugin, yes. The next release of SNT introduces several improvements that may not be compatible with existing workflows. So the most appropriate way to allow users to experiment the new features is through an opt-in mechanism). Note that the effort on your part is minimal:
- Run Help>Update…
- Press Manage Update Sites and check the “Neuroanatomy checkbox”
- Restart and run Plugins>Tracing>Simple Neurite Tracer…