ITK Developers, The following patch provides 100% backwards compatibility and an end-user modifiable interface for setting the intents of the qform & sform. http://review.source.kitware.com/#/c/21795/
The previous configuration for NIFTI files is OK if we only live in an ITK echo-system. In the ITK echo-system we ignore both the sform & qform the intent codes because we only use the values in the qform. These two lines have intent codes that are EXACTLY BACKWARDS from the recommendations https://github.com/InsightSoftwareConsortium/ITK/blob/master/Modules/IO/NIFTI/src/itkNiftiImageIO.cxx#L1717 https://nifti.nimh.nih.gov/nifti-1/documentation/nifti1fields/nifti1fields_pages/qsform_brief_usage The qform_code should be set to either NIFTI_XFORM_UNKNOWN or NIFTI_XFORM_SCANNER_ANAT. The sform code should be set to either NIFTI_XFORM_UNKNOWN, NIFTI_XFORM_ALIGNED_ANAT, NIFTI_XFORM_TALAIRACH or NIFTI_XFORM_MNI_152. ================= This is a long-standing bug that should be fixed with a new patch set: The sform & qform defaults were EXACTLY BACKWARDS from the recommended uses. ================= QUESTION ========== Please help me determine the balance between backwards compatibility conformance and improved interpretation of these nifi files. Thanks, Hans ======================================================================== | Hans J. Johnson, Ph.D., Associate Professor | | Appointments: | | - Electrical and Computer Engineering (Primary) | | - Biomedical Engineering | | - Psychiatry ,NMMM~ | | - Health Informatics MMMMMMMMMMMMMMN | | - Iowa Institute for Biomedical Imaging MMMMMMMMMMMMMMMMMMM | | - Iowa Informatics Institute MMMMMMMMMMM MMMM MMM | | MMMMMMMMMM I ?MMM MM M | | hans-john...@uiowa.edu MMMMMMM ,$M, MMMM | | (319) 621 7185 (cell) MMMM~ MMMM MMMMMM | | (319) 384 3538 ECE Phone (Primary) MM 8MMMMMM MM | | M MMMMMMM, ,M~ M | | 4316 Seamans Center MMMMMM MM | | Iowa City, IA 52242 ,? | ======================================================================== http://emailcharter.org
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