In GDCM based dicom input, the orientation information in DICOM are used to generate orientation matrix. But in recently revised DICOM IO, the orientation info is missed. For example, MITK 3M3 can read the dicom images and display the image correctly in figure 1. SVN head MITK extapp can not display it correctly in figure 2.
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MITK loads the image correctly, if using GDCM 2.0, and having MITK_USE_GDCMIO variable enabled in CMake.