When performing local refinement using the T20S tutorial data, I observed that despite:
The final reconstructed output still corresponds to the full particle volume rather than the expected focused volume. What could be the potential reasons for this issue?
Thank you!
The mask you provide for subtraction should cover the area you want to delete, whereas the mask for local refinement should obviously cover what you want to retain and align. Did you do this correctly? The job logs have very useful and obvious plots, you can intuitively monitor if it seems to work well. Subtraction will often leave ~10% strength of the signal. Are there symmetry operators applied? If this is the tutorial, can you double check the inputs both match the tutorial and match common sense, i.e. did you drag subtracted particles output to the local refine job?
Yes, I followed the correct procedure—the subtraction mask covers the region to remove, while the local refinement mask focuses on the area to retain and align. I’ve checked the job logs and the plots confirm everything is working as expected, with the subtraction leaving only a small residual signal (~10%). I also verified that the symmetry operators are applied correctly. For the tutorial, I double-checked the inputs to ensure they match both the instructions and common sense (e.g., using the subtracted particles for local refinement). Everything looks good!
Welcome to the forum @EMer.
Please can you confirm
and post a screenshot of the job tree segment that includes