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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March 01, 2018 05:10PM
Hi all,

I found a very odd problem. I tried two different ways to generate the suma folder for surface based analysis.
One is:
@SUMA_Make_Spec_FS -sid $subj -fspath $SUBJECTS_DIR/$subj/

The other one is:
@SUMA_Make_Spec_FS -fspath $SUBJECTS_DIR/$subj/ -sid $subj -NIFTI

So the only difference here is the -NIFTI option.

Then I compared the files with the same name (they are supposed to be the same file but in different format) like Sub01_TPL_SurfVol+orig.BRIK/HEAD and Sub01_TPL_SurfVol.nii. But a very fantastic thing happened! They are misaligned with each other...
I'm totally confused now. Please could someone help with this question?

Many thanks,
Sarah
Attachments:
open | download - Screen Shot 2018-03-01 at 5.08.16 PM.png (195 KB)
Subject Author Posted

Misalignment between nii format file and AFNI format one Attachments

SarahChang March 01, 2018 05:10PM

Re: Misalignment between nii format file and AFNI format one

Daniel Glen March 01, 2018 05:13PM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 02, 2018 12:43PM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 02, 2018 12:49PM

Re: Misalignment between nii format file and AFNI format one

Daniel Glen March 05, 2018 11:19AM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 05, 2018 04:00PM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 05, 2018 04:03PM

Re: Misalignment between nii format file and AFNI format one

Daniel Glen March 05, 2018 04:52PM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 05, 2018 05:20PM

Re: Misalignment between nii format file and AFNI format one

Daniel Glen March 05, 2018 06:30PM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 06, 2018 11:29AM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 06, 2018 01:00PM

Re: Misalignment between nii format file and AFNI format one

Daniel Glen March 07, 2018 05:05PM

Re: Misalignment between nii format file and AFNI format one

SarahChang March 08, 2018 04:59PM