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Hi,
I have a script that utilizes the -ss flag on the freeview command to take axial, sagittal, and coronal screenshots iteratively. I have multiple images loaded into freeview at a time for each screenshot, and most of the loaded images are the same across all the screenshots, except for one spherical ROI that is only the same within a given sagittal/axial/coronal set.
I have been encountering a problem where some of the screenshots are horizontally mirrored (left-hemisphere/right hemisphere flipped) in comparison to the rest of the images. This happens the most often for the coronal screenshot, but has also occurred for the axial screenshot. The spherical ROIs for which this mirroring occurs is not consistent - every time I run the script, it's a different set that's horizontally mirrored.
Has anyone encountered this issue and has a way to guarantee the orientation of the screenshot? Any tips are greatly appreciated!
Best,
*Ania Holubecki*