[Insight-developers] Incorrect origin and spacing when converting DICOM to metaimage
Mengda Wu
wumengda at gmail.com
Mon Nov 11 10:22:24 EST 2013
BTW, here is what I got by running gdcminfo (gdcm version 2.4.0) on one of
the dicoms:
======================================================================
MediaStorage is 1.2.840.10008.5.1.4.1.1.7 [Secondary Capture Image Storage]
TransferSyntax is 1.2.840.10008.1.2.1 [Explicit VR Little Endian]
NumberOfDimensions: 2
Dimensions: (512,512,1)
SamplesPerPixel :1
BitsAllocated :16
BitsStored :16
HighBit :15
PixelRepresentation:1
ScalarType found :INT16
PhotometricInterpretation: MONOCHROME2
PlanarConfiguration: 0
TransferSyntax: 1.2.840.10008.1.2.1
Origin: (0,0,0)
Spacing: (1,1,1)
DirectionCosines: (1,0,0,0,1,0)
Rescale Intercept/Slope: (-1024,1)
Orientation Label: AXIAL
=======================================================================
Clearly, from (0018,0088)=0.449999988
(0028,0030)=0.400391012\0.400391012
The spacing should not be (1,1,1).
Thanks,
Mengda
On Mon, Nov 11, 2013 at 10:14 AM, Mengda Wu <wumengda at gmail.com> wrote:
> Hi all,
>
> I have some dicom images in my new project. But when I tried to convert
> them to the ITK metaimages, the origin and spacing are incorrect even
> though the intensities are right. The origin becomes (0,0,0) and spacing is
> (1,1,1). I am the example DicomSeriesReadImageWrite2.cxx<http://itk.org/gitweb?p=ITK.git;a=blob_plain;f=Examples/IO/DicomSeriesReadImageWrite2.cxx;hb=HEAD>
>
>
>
> from ITK 4.4.2. The code does not have any issue with other Dicoms for my
> previous projects. so my guess is the current dicoms miss some fields in
> the header that ITK needs.
>
> Can you help? I am attaching the fields from one dicom as follows:
>
> (0002,0000) Group Length Value:
> 206
> (0002,0001) File Meta Information Version Value:
> 0
> (0002,0002) Media Storage SOP Class UID Value:
> 1.2.840.10008.5.1.4.1.1.7
> (0002,0003) Media Storage SOP Instance UID Value:
> 1.2.276.0.28.3.2418833.1095761920.42.5040.2012041216272628700
> (0002,0010) Transfer Syntax UID Value:
> 1.2.840.10008.1.2.1
> (0002,0012) Implementation Class UID Value:
> 1.2.276.0.7230010.3.0.3.6.0
> (0002,0013) Implementation Version Name Value:
> OFFIS_DCMTK_360
> (0008,0008) Image Type Value:
> DERIVED\SECONDARY\REFORMATTED
> (0008,0016) SOP Class UID Value:
> 1.2.840.10008.5.1.4.1.1.7
> (0008,0018) SOP Instance UID Value:
> 1.2.276.0.28.3.2418833.1095761920.42.5040.2012041216272628700
> (0008,0020) Study Date
> (0008,0022) Acquisition Date Value:
> 20120116
> (0008,0023) Image Date Value:
> 20120116
> (0008,0030) Study Time
> (0008,0033) Image Time Value:
> 120859.658000
> (0008,0050) Accession Number
> (0008,0060) Modality Value:
> CT
> (0008,0070) Manufacturer Value:
> Philips
> (0008,0080) Institution Name Value:
> Hide
> (0008,0090) Referring Physician's Name
> (0008,103E) Series Description Value:
> Hide
> (0008,1090) Manufacturer's Model Name Value:
> Brillance 64
> (0010,0010) Patient's Name Value:
> Patient00
> (0010,0020) Patient ID
> (0010,0030) Patient's Birth Date Value:
> NewDOB16
> (0010,0040) Patient's Sex Value:
> F
> (0010,1010) Patient's Age Value:
> 054Y
> (0018,0088) Spacing Between Slices Value:
> 0.449999988
> (0018,1151) X-ray Tube Current Value:
> 429
> (0020,000D) Study Instance UID Value:
> 1.2.276.0.28.3.2418833.1095761920.42.3628.2012011611085965900
> (0020,000E) Series Instance UID Value:
> 1.2.276.0.28.3.2418833.1095761920.42.3628.2012011611085965901
> (0020,0010) Study ID
> (0020,0011) Series Number
> (0020,0013) Image Number Value:
> 1
> (0020,0020) Patient Orientation
> (0020,0032) Image Position (Patient) Value:
> 0.200195506\0.200195506\0.224999994
> (0020,0037) Image Orientation (Patient) Value:
> 1\0\0\0\1\0
> (0020,4000) Image Comments
> (0021,0010) Value:
> Timepoint Information
> (0021,1010) Value:
> 20120116 120608.154000
> (0021,1011) Value:
> UNKNOWN
> (0028,0002) Samples per Pixel Value:
> 1
> (0028,0004) Photometric Interpretation Value:
> MONOCHROME2
> (0028,0008) Number of Frames Value:
> 1
> (0028,0010) Rows Value:
> 512
> (0028,0011) Columns Value:
> 512
> (0028,0030) Pixel Spacing Value:
> 0.400391012\0.400391012
> (0028,0100) Bits Allocated Value:
> 16
> (0028,0101) Bits Stored Value:
> 16
> (0028,0102) High Bit Value:
> 15
> (0028,0103) Pixel Representation Value:
> 1
> (0028,0106) Smallest Image Pixel Value Value:
> 0
> (0028,0107) Largest Image Pixel Value Value:
> 2610
> (0028,1050) Window Center Value:
> 150
> (0028,1051) Window Width Value:
> 500
> (0028,1052) Rescale Intercept Value:
> -1024
> (0028,1053) Rescale Slope Value:
> 1
>
>
> Thanks,
> Mengda
>
>
>
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