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

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ptaylor
July 27, 2018 10:05AM
Hmmm, a couple things:

In the first command, your input and base are the same:
pb01.MOV008_20180330.r01.e1.tcat.2NEW.nii.gz
pb01.MOV008_20180330.r01.e1.tcat.2NEW.nii.gz
Are you just resampling the data? How did you align it to itself? You could use "3dresample -dxyz .." to resample it (and you can specify the mode.

In the second command, I don't think that just using "-base .." will force the output data to have its grid size; the output will have something close to teh original resolution. Using "-master .." there would, though, make the output be on the grid of the "master" data set.

Also, what is your original 3dAllineate command?

Finally, what is the output of this: 
3dinfo -o3 -ad3 -orient -prefix pb01.MOV008_20180330.r01.e1.tcat.2NEW.REF-EPI1_forallineate.nii.gz  pb01.MOV008_20180330.r01.e1.tcat.2NEW.nii.gz

--pt
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Subject Author Posted

3dAllineate issue

bes2037 July 27, 2018 09:42AM

Re: 3dAllineate issue

ptaylor July 27, 2018 09:47AM

Re: 3dAllineate issue

bes2037 July 27, 2018 09:54AM

Re: 3dAllineate issue

ptaylor July 27, 2018 10:05AM

Re: 3dAllineate issue

bes2037 July 27, 2018 10:20AM

Re: 3dAllineate issue

ptaylor July 27, 2018 12:19PM

Re: 3dAllineate issue

ptaylor August 10, 2018 04:03PM

Re: 3dAllineate issue

Daniel Glen August 10, 2018 06:53PM