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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katiRG
May 31, 2015 05:36AM
Thanks Daniel!

I tried with the GUI on the compressed DICOM file but it still thinks there are 300 slices and 40 time points, regardless of what options I change. So I got NIFTI format from the scanner and used 3dcopy:

3dcopy DBIEX_4_1.nii fmri1

This works great! Correct slices and timepts. The data is oblique so it is misaligned with the anat. But for some reason, 3dwarp got killed before completion:

3dWarp -deoblique -verb -prefix fmri1_warp+orig fmri1+orig
++ 3dWarp: AFNI version=AFNI_2011_12_21_1014 (Nov 21 2014) [32-bit]
++ Authored by: RW Cox
# mat44 Obliquity Transformation ::
0.999999 -0.000071 -0.001052 -0.072387
-0.000071 0.991014 -0.133760 -9.197994
0.001052 0.133760 0.991013 16.744200
++ Using minimum spacing of 2.604167 mm for new grid spacing
Killed

Any ideas why?
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Subject Author Posted

to3d with compressed Philips DICOM file

katiRG May 29, 2015 04:39PM

Re: to3d with compressed Philips DICOM file

Daniel Glen May 30, 2015 10:59AM

Re: to3d with compressed Philips DICOM file

katiRG May 31, 2015 05:36AM

Re: to3d with compressed Philips DICOM file

Daniel Glen May 31, 2015 11:27PM