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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herrlich10
May 04, 2019 10:52AM
Hi afni experts,

When I'm trying to convert a functional dataset with only one slice from DICOM files with something like:
to3d -prefix test.nii -time:zt 1 120 3000 alt+z2 *.IMA
The program complains about:
*+ WARNING: Bad DICOM header - assuming oblique scaling direction!
++ Command line TR=3000ms ; Images TR=3s
++ Making widgets.....
Then enters into interactive mode. I have to manually click "Save Dataset" for each run in order to proceed.

Is it possible to somehow suppress the interactive prompt?
And better, it is possible to tell afni to treat the single slice as an "3D" volume, rather than a 2D image?

Thank you very much!



Edited 1 time(s). Last edit at 05/04/2019 10:53AM by herrlich10.
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Subject Author Posted

to3d functional data with only one slice

herrlich10 May 04, 2019 10:52AM

Re: to3d functional data with only one slice

Daniel Glen May 06, 2019 09:41AM

Re: to3d functional data with only one slice

Meizhen August 11, 2019 10:45PM

Re: to3d functional data with only one slice

ptaylor August 12, 2019 08:29AM

Re: to3d functional data with only one slice

Daniel Glen August 12, 2019 05:19PM