[ITK] Dicom read error

[Sean Sethi]

Hi everyone,

I am encountering a dicom read issue with data that was processed using a
collapsing filter by our software. The original data
<https://www.dropbox.com/s/wsf6rb3edoritj9/02-MPRAGE%20T1.zip?dl=0> is
0.5x0.5x1 mm^3 which is collapsed to a dataset of  1x1x2 mm^3.
<https://www.dropbox.com/s/7f34ahrmho938gb/KCROP1X1X2.zip?dl=0>

The first error that is noticed is the data appear squished axially, and
the slice thickness is incorrectly read, even though the header file has
the correct information. (slice thickness=2, spacing between slices=2).

The second error that I see is due to it incorrectly reading the numbering
of the dicoms. It shows every 11th or so image as out of order, which is
coming from reading the numbers in order of 1, 10, 11, 12 etc instead of 1,
2,3. When the files are number 01, 02, 03, the issue is corrected, but
image still appears squashed.

Both the issues are also corrected when the collapsed data is converted to
NIFTI. So my question is how should we write our DICOM files so they are
read correctly? Are the thicknesses and spacings computed from other
tag(s)?

Thank you for consideration,

Sean


-- 
Sean Sethi, M.S.
Research, The MRI Institute for Biomedical Research
Data processing, Magnetic Resonance Innovations, Inc.
440 East Ferry Street, Unit #1
Detroit, MI 48202
(313) 758-0065  - Tel
(313) 758-0068 - Fax
sethisea at gmail.com
http://www.mrimaging.com/
http://www.mrinnovations.com
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