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Viewing 2 posts - 1 through 2 (of 2 total)
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I am having difficulties with one of the DICOM files that I am trying to import into Lead DBS. When I ‘Run’ the import and rename functions it imports the T1 and T2 files but not the CT (“Ignoring derived image(s) of series 3”). Below is the output I get in Matlab with the error. I have run many files with Lead DBS and have never experienced this error:
Importing DICOM files…
Compression will be faster with ‘pigz’ installed http://macappstore.org/pigz/
Chris Rorden’s dcm2niiX version v1.0.20190410 (JP2:OpenJPEG) (JP-LS:CharLS) Clang10.0.1 (64-bit MacOS)
Found 380 DICOM file(s)
Warning: interpolated protocol ‘t2_tse_tra’ may be unsuitable for dwidenoise/mrdegibbs. /Users/diazcomputer/Desktop/Anonymous Pt/DICOM/IMG-0005-00001.dcm
Convert 180 DICOM as /Users/diazcomputer/Desktop/Anonymous Pt/DICOM_t1_fl3d_tra_iso_20170131130813_5 (208x256x180x1)
Cropping from slice 8 to 177 (of 180)
Ignoring derived image(s) of series 3 /Users/diazcomputer/Desktop/Anonymous Pt/DICOM/IMG-0001-00001.dcm
Convert 90 DICOM as /Users/diazcomputer/Desktop/Anonymous Pt/DICOM_t2_tse_tra_20170131130813_6 (512x512x90x1)
Conversion required 0.492053 seconds (0.476087 for core code).
** Process done.
I can send you the anonymized DICOM files if you’d like.
Thank you so much for your time and I hope to hear from you soon.
I fear we’re also no experts with dicom imports, best ask the question in the dcm2nii forums.
I assume you have tried importing with all three methods already (dcm2niix, dicm2nii and SPM)?
Most likely the DICOM file is corrupted.
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