AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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July 15, 2014 12:16AM
Hello AFNI experts

I am trying to ACPC align the aseg file from Freesurfer. To do this I did manual ACPC transformation in afni to the anatomical file (brainmask), then converted this acpc-aligned volume to nii, and attempted to use the following command to apply the acpc alignment to the aseg file (without resampling/warping the data): 3dWarpDrive -shift_rotate -base brainmask_acpc.nii -prefix aseg_acpc.nii aseg.nii

However, I received the following error:
++ 3dWarpDrive: AFNI version=AFNI_2009_12_31_1431 (Jun 22 2010) [64-bit]
++ Authored by: RW Cox
** ERROR: base and input grid dimensions don't match!
** ERROR: base is 191 X 236 X 171 voxels
** FATAL ERROR: input is 256 X 256 X 256 voxels
** Program compile date = Jun 22 2010

Am I going about this the wrong way? Suggestions for how to accomplish this would be much apprecaited.

(Also, does the ACPC alignment need to be done by hand or can I use @auto_tlrc using the -rigid_equiv option for this purpose?)

Thanks in advance,
Tracy
Subject Author Posted

How to apply ACPC alignment to aseg file from Freesurfer

Tracy July 15, 2014 12:16AM

Re: How to apply ACPC alignment to aseg file from Freesurfer

rick reynolds July 15, 2014 08:07AM

Re: How to apply ACPC alignment to aseg file from Freesurfer

Tracy July 15, 2014 05:50PM

Re: How to apply ACPC alignment to aseg file from Freesurfer

Peter Molfese July 15, 2014 06:04PM

Re: How to apply ACPC alignment to aseg file from Freesurfer

Tracy July 15, 2014 11:08PM

Re: How to apply ACPC alignment to aseg file from Freesurfer

Daniel Glen July 15, 2014 04:36PM

Re: How to apply ACPC alignment to aseg file from Freesurfer

Tracy July 15, 2014 11:13PM

Re: How to apply ACPC alignment to aseg file from Freesurfer

Daniel Glen July 16, 2014 09:47AM