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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August 07, 2018 05:17PM
Hi Tamara-

That's a curious error message. Can you post your entire afni_proc.py command?

Also, it's worth updating your binaries for a variety of reasons. But one of the main ones is that we're currently recommending doing the nonlinear warp (and skull strip) outside of afni_proc.py using @SSwarper. An example usage is:

@SSwarper -input  9409.anat+orig -base MNI152_2009_template_SSW.nii.gz -subid 9409

You would then provide the outputs of that script to afni_proc.py:

-tlrc_NL_warp -tlrc_NL_warped_dsets anatQQ.${subj}.nii anatQQ.${subj}.aff12.1D anatQQ.${subj}_WARP.nii

-Peter
Subject Author Posted

Error in affine step

tamtam August 07, 2018 05:01PM

Re: Error in affine step

Peter Molfese August 07, 2018 05:17PM

Re: Error in affine step Attachments

tamtam August 08, 2018 08:31AM

Re: Error in affine step

rick reynolds August 09, 2018 09:20AM

Re: Error in affine step

tamtam August 29, 2018 02:06PM

Re: Error in affine step

ptaylor August 29, 2018 02:21PM

Re: Error in affine step

tamtam August 29, 2018 02:44PM

Re: Error in affine step

ptaylor August 29, 2018 03:02PM

Re: Error in affine step

tamtam August 29, 2018 03:56PM

Re: Error in affine step

ptaylor August 29, 2018 04:42PM

Re: Error in affine step

tamtam August 30, 2018 10:01AM

Re: Error in affine step

ptaylor August 30, 2018 10:50AM

Re: Error in affine step

tamtam August 31, 2018 08:26AM