no idea how to help with the vol2vol problem without a command line and
more description of the problem
On 7/24/18 6:52 AM, Yagmur Ozdemir 19 wrote:
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By copying the matrix that comes up in the terminal, then readjusting
it, if needed, in a different .dat file, I can fix the issue. But I
would still appreciate any suggestions on how to use mri_vol2vol with
a binarized mask, or what might be causing the system to fill the
whole volume.
Best
Idil
------------------------------------------------------------------------
*From:* freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Yagmur Ozdemir
19 [yozdemi...@amherst.edu]
*Sent:* Tuesday, July 24, 2018 1:23 PM
*To:* Freesurfer support list [freesurfer@nmr.mgh.harvard.edu]
*Subject:* [Freesurfer] tkregister2 scripting- help with saving reg.dat
External Email - Use Caution
Hello freesurfer experts,
I am editing the registration matrix between two volumes (fsaverage's
T1 to fit MNI152 from fsl) using tkregister2, and I cannot save the
registration because I do not have permission to change the .dat file
I originally opened with tkregister2. I cannot change the permissions.
I do not want to lose all the editing I have done so far, so would
really appreciate if someone could give me advice on how to save the
registration as a seperate file either in GUI or from terminal.
FYI, I know ideally I shouldn't need to edit the registration but for
some reason I had weird flipping issues when using mri_vol2vol and
mni152.register.dat with --inv option. Also the system for some reason
does not recognize a binary volume with the --interp nearest option,
so fills in the whole volume. I would appreciate any suggestions.
Best
Idil
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