Hi everyone,
I’m having some issues converting my DICOMs (DWI) into NIFTI using mri_convert.
I looked for other topics with people having the same kind of problem but
couldn’t find an answer.
Each time I run mri_convert on my DICOMs I get the following error :
WARNING: file MR.1.3.12.2.1107.5.2.19.45306.2014091812330393354083931 does not
contain a Siemens ASCII header
has this file been anonymized?
ERROR: cannot unpack mosiacs without ASCII header
Here are the following DICOMs informations :
Identification
NumarisVer syngo MR D13
ScannerModel Skyra
PatientName xxxxx
Date and time
StudyDate 20140918
StudyTime 121037.203000
SeriesTime 123450.600000
AcqTime 123257.367500
Acquisition parameters
PulseSeq ep_b0
Protocol AX DTI no angle MS NEX 4 2
PhEncDir COL
EchoNo 1
FlipAngle 90
EchoTime 96
InversionTime -1
RepetitionTime 4700
PhEncFOV 0
ReadoutFOV 0
Image information
RunNo 4
SeriesNo 5
ImageNo 1
NImageRows 990
NImageCols 990
NFrames 64
SliceArraylSize 0
IsMosaic 1
ImgPos 1075.1575 1069.8385 -48.6769
VolRes 2.1818 2.1818 2.0000
VolDim 0 0 0
Vc -1.0000 -0.0000 0.0000
Vr -0.0000 -1.0000 0.0000
Vs 0.0000 0.0000 0.0000
VolCenter 0.0000 0.0000 0.0000
TransferSyntaxUID 1.2.840.10008.1.2.1
Then I try using mri_convert -it dicom, it converts the files but not as it is
expected, you could notice the difference when I run mri_info on my output :
Volume information for output.nii.gz
type: nii
dimensions: 990 x 990 x 1 x 64
voxel sizes: 2.1818, 2.1818, 2.0000
type: SHORT (4)
fov: 2160.000
dof: 0
xstart: -1080.0, xend: 1080.0
ystart: -1080.0, yend: 1080.0
zstart: -1.0, zend: 1.0
TR: 4700.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00
degrees
nframes: 64
PhEncDir: UNKNOWN
ras xform present
xform info: x_r = -1.0000, y_r = -0.0000, z_r = -0.0000, c_r = -4.8425
: x_a = -0.0000, y_a = -1.0000, z_a = -0.0000, c_a = -10.1615
: x_s = 0.0000, y_s = 0.0000, z_s = 1.0000, c_s = -47.6769
Orientation : LPS
Primary Slice Direction: axial
voxel to ras transform:
-2.1818 -0.0000 -0.0000 1075.1575
-0.0000 -2.1818 -0.0000 1069.8385
0.0000 0.0000 2.0000 -48.6769
0.0000 0.0000 0.0000 1.0000
voxel-to-ras determinant 9.52066
ras to voxel transform:
-0.4583 0.0000 0.0000 492.7805
0.0000 -0.4583 0.0000 490.3426
-0.0000 -0.0000 0.5000 24.3384
0.0000 0.0000 0.0000 1.0000
I would really appreciate your help, thank you.
Best,
Ismail
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