can you answer the question that it asks? On 07/05/2016 10:52 AM, Koubiyr, Ismail wrote: > 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 > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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