hi, afni'ers,
I want to get a 3d dataset. There are 222 TRs in each run, 40 slices in each volume. I have used MRIconvert to get 222 pairs nifti format files(.hdr/.img).
But, the collected raw data(from GE 3T) are weird. I believed the problem is caused by the scanner itself.
Here is the problem:
From the volume of 94 TR to 222 TR, I used 3dinfo and get such information as below, There are only 39 slices in each volume.
root@qingfeng:/media/data/LiLindata/test/# 3dinfo sub01_094_094.hdr
++ 3dinfo: AFNI version=AFNI_2011_12_21_1014 (Jul 12 2013) [32-bit]
Dataset File: sub01_094_094.hdr
Identifier Code: NII_vE3jul1ahve2NWytMMhKEQ Creation Date: Sat Jul 19 05:20:48 2014
Template Space: ORIG
Dataset Type: Anat Bucket (-abuc)
Byte Order: LSB_FIRST {assumed} [this CPU native = LSB_FIRST]
Storage Mode: NIFTI
Storage Space: 319,488 (319 thousand [kilo]) bytes
Geometry String: "MATRIX(3.125,0,0,-98.4375,0,-2.746237,-1.431511,72.709,0,-1.491243,2.636236,25.7327):64,64,39"
Data Axes Tilt: Oblique (28.503 deg. from plumb)
Data Axes Approximate Orientation:
first (x) = Right-to-Left
second (y) = Posterior-to-Anterior
third (z) = Inferior-to-Superior [-orient RPI]
R-to-L extent: -98.438 [R] -to- 98.438 [L] -step- 3.125 mm [ 64 voxels]
A-to-P extent: -124.166 [A] -to- 72.709 [P] -step- 3.125 mm [ 64 voxels]
I-to-S extent: 25.733 [S] -to- 139.726 [S] -step- 3.000 mm [ 39 voxels]
Number of values stored at each pixel = 1
-- At sub-brick #0 '?' datum type is short
But, there are 40 slices in the first 93 volumes. The 3dinfo of the 93 volume is here:
root@qingfeng:/media/data/LiLindata/test/# 3dinfo sub01_093_093.hdr
++ 3dinfo: AFNI version=AFNI_2011_12_21_1014 (Jul 12 2013) [32-bit]
Dataset File: sub01_093_093.hdr
Identifier Code: NII_kvQFPhx8zqnL8CInjUT2HA Creation Date: Sat Jul 19 05:20:39 2014
Template Space: ORIG
Dataset Type: Anat Bucket (-abuc)
Byte Order: LSB_FIRST {assumed} [this CPU native = LSB_FIRST]
Storage Mode: NIFTI
Storage Space: 327,680 (328 thousand [kilo]) bytes
Geometry String: "MATRIX(3.125,0,0,-98.4375,0,-2.746237,-1.431511,72.709,0,-1.491243,2.636236,25.7327):64,64,40"
Data Axes Tilt: Oblique (28.503 deg. from plumb)
Data Axes Approximate Orientation:
first (x) = Right-to-Left
second (y) = Posterior-to-Anterior
third (z) = Inferior-to-Superior [-orient RPI]
R-to-L extent: -98.438 [R] -to- 98.438 [L] -step- 3.125 mm [ 64 voxels]
A-to-P extent: -124.166 [A] -to- 72.709 [P] -step- 3.125 mm [ 64 voxels]
I-to-S extent: 25.733 [S] -to- 142.726 [S] -step- 3.000 mm [ 40 voxels]
Number of values stored at each pixel = 1
-- At sub-brick #0 '?' datum type is short
Now, my question is: Can i get a 3d dataset for this weird run, and how to?
thx.
