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Toggling the colorbar on and off in the GUI updates the values and appearance. Changing the threshold also seems to work once I press the “apply” button on the configuration window.

Ryan Michael Nillo Staff Research Associate I University of California San Francisco Department of Radiology and Biomedical Imaging

On May 1, 2019, at 12:52 PM, Ruopeng Wang rpwang@nmr.mgh.harvard.edu wrote:

Can you try turning off/on the scale bar or change the threshold a little bit and see if it updates?

Ruopeng

On May 1, 2019, at 2:48 PM, Nillo, Ryan Michael R <RyanMichael.Nillo@ucsf.edumailto:RyanMichael.Nillo@ucsf.edu> wrote:

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Hello FreeSurfer Developers.

I am using FSv6 and I am having problems loading a colorbar. I am trying to run this code: freeview -f /data/sugrue2/ABCD/fsaverage/surf/rh.pial:overlay=/data/sugrue2/ABCD/temp/testing.mgh:overlay_threshold=0,1:overlay_method=linear -viewport 3d -hide-3d-slices -nocursor —colorscale. The resulting color scale makes no sense in that it does not properly display the min and max values specified. As you can see in the screenshot, the color scale runs from 1e-10 to -1e-10. Configuring the colors from the GUI seems to fix the issue, but Ideally I would like to automate the screenshot process.

Any help is greatly appreciated.

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Ryan Michael Nillo Staff Research Associate I University of California San Francisco Department of Radiology and Biomedical Imaging

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