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 19, 2018 10:15AM
Hi Tracy,

When using -mask_import, the input dataset must match
the final grid of the processed data. Since you used
3dresample to make it 2.5 mm^3, I must guess that the
bounding box is not correct, meaning you used -dxyz
instead of -master.

The safest way to apply 3dresample (both here and in
general) is to use -master, which will match the grid
of an existing dataset, rather than just altering the
voxel size of the input dataset.

Try running something like:

3dresample -master full_mask+tlrc ...

to match the grid of the standard space data from
some subject. That mask should be appropriate to
import as you are trying.

Please let us know how it goes.

Thanks,

- rick
Subject Author Posted

Create ventricle mask from MNI template

TracyW March 16, 2018 04:28AM

Re: Create ventricle mask from MNI template

Daniel Glen March 16, 2018 06:05PM

Re: Create ventricle mask from MNI template

TracyW March 17, 2018 07:29AM

Re: Create ventricle mask from MNI template

rick reynolds March 19, 2018 10:15AM

Re: Create ventricle mask from MNI template

TracyW March 20, 2018 08:41AM

Re: Create ventricle mask from MNI template

rick reynolds March 20, 2018 09:49AM

Re: Create ventricle mask from MNI template

TracyW March 21, 2018 07:17AM

Re: Create ventricle mask from MNI template

rick reynolds March 23, 2018 03:17PM