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
March 19, 2019 10:24AM
Hi, Lz-

The description of vox_to_ras in the TRK header definition is:
"4x4 matrix for voxel to RAS (crs to xyz) transformation. If vox_to_ras[3][3] is 0, it means the matrix is not recorded. This field is added from version 2."

In 3dTrackID, the vox_to_ras 4x4 matrix is initialized to all zeros, which is a valid value, and then it is changed nowhere in the code.

While this aspect of the code is extremely old and predates the SUMA viewing, it might be possible to pull the matrix information from an input DWI set and stored there.

Do you have an example of a DWI file and an associated vox_to_ras matrix? Different softwares use different signs/systems for orientation directions.

--pt
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Subject Author Posted

the trk output from 3dTrackID have an empty "vox_to_ras" field

lzhyoung March 19, 2019 01:45AM

Re: the trk output from 3dTrackID have an empty "vox_to_ras" field

ptaylor March 19, 2019 10:24AM

Re: the trk output from 3dTrackID have an empty "vox_to_ras" field

lzhyoung March 19, 2019 09:06PM

Re: the trk output from 3dTrackID have an empty "vox_to_ras" field

lzhyoung May 31, 2019 02:15AM

Re: the trk output from 3dTrackID have an empty "vox_to_ras" field

ptaylor May 31, 2019 07:14AM

Re: the trk output from 3dTrackID have an empty "vox_to_ras" field

lzhyoung June 02, 2019 09:26PM

Re: the trk output from 3dTrackID have an empty "vox_to_ras" field

ptaylor June 06, 2019 01:57AM