Distorted & malaligned volumes after loading DICOM sets

I had a look at the images. They were loaded incorrectly because they had incorrect SOP Class UID (1.2.840.10008.5.1.4.1.1.7) = Secondary Capture Image Storage. Secondary capture essentially means screenshot, and they are generally not meant to be reconstructed into 3D volumes.

Yes, this is often difficult. In fact Secondary Capture Image Storage doesn’t contain Image Position Patient, Image Orientation Patient attributes. But such images are not seldom, i have seen also similar Osirix exports. Many programs don’t read these attributes from SC files.

Here is also another problem
MediaStorageSOPClassUID (0x0002, 0x0002 in image header) is different from SOPClassUID (0x0008, 0x0016).
MediaStorageSOPClassUID is “DCMTK unknown”
SOPClassUID is “Secondary Capture Image”
It is clearly wrong.

dciodvfy 025/SMIR.Lower_limb.064Y.F.CT.564/SMIR.Lower_limb.064Y.F.CT.564.0.dcm

Error - MediaStorageSOPClassUID different from SOPClassUID
Warning - Value dubious for this VR - (0x0008,0x0090) PN Referring Physician's Name  PN [1] = <unknown referring physician's name> - Retired Person Name form
SCImage
Error - Missing attribute Type 2C Conditional Element=<Laterality> Module=<GeneralSeries>
Error - Missing attribute Type 2C Conditional Element=<PatientOrientation> Module=<GeneralImage>
Error - Missing attribute Type 1C Conditional Element=<RescaleType> Module=<ModalityLUTMacro>
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x0050) DS Slice Thickness 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x0060) DS KVP 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x0088) DS Spacing Between Slices 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x0090) DS Data Collection Diameter 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1100) DS Reconstruction Diameter 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1110) DS Distance Source to Detector 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1111) DS Distance Source to Patient 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1120) DS Gantry/Detector Tilt 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1130) DS Table Height 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1140) CS Rotation Direction 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1150) IS Exposure Time 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1151) IS X-Ray Tube Current 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1152) IS Exposure 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1160) SH Filter Type 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1170) IS Generator Power 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1190) DS Focal Spot(s) 
Warning - Attribute is not present in standard DICOM IOD - (0x0018,0x1210) SH Convolution Kernel 
Warning - Attribute is not present in standard DICOM IOD - (0x0020,0x0032) DS Image Position (Patient) 
Warning - Attribute is not present in standard DICOM IOD - (0x0020,0x0037) DS Image Orientation (Patient) 
Warning - Attribute is not present in standard DICOM IOD - (0x0020,0x0052) UI Frame of Reference UID 
Warning - Attribute is not present in standard DICOM IOD - (0x0020,0x1041) DS Slice Location 
Warning - Dicom dataset contains attributes not present in standard DICOM IOD - this is a Standard Extended SOP Class

The attributes are from CT Image Storage.

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