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?
