# ManipulateFile.py

    ############################################################################
    #
    #  Program: GDCM (Grassroots DICOM). A DICOM library
    #  Module:  $URL$
    #
    #  Copyright (c) 2006-2010 Mathieu Malaterre
    #  All rights reserved.
    #  See Copyright.txt or http://gdcm.sourceforge.net/Copyright.html for details.
    #
    #     This software is distributed WITHOUT ANY WARRANTY; without even
    #     the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
    #     PURPOSE.  See the above copyright notice for more information.
    #
    ############################################################################

    """
    Usage:

     python ManipulateFile.py input.dcm output.dcm

    Footnote:
      GDCM 1.2.x would create incorrect Multiframes MR Image Storage file. Try to recover from
      the issues to recreate a MultiframeGrayscaleByteSecondaryCaptureImageStorage file.
      e.g:

      python ManipulateFile.py Insight/Testing/Temporary/itkGDCMImageIOTest5-j2k.dcm manipulated.dcm
    """

    import sys
    import gdcm

    if __name__ == "__main__":

      file1 = sys.argv[1]
      file2 = sys.argv[2]

      r = gdcm.Reader()
      r.SetFileName( file1 )
      if not r.Read():
        sys.exit(1)

      ano = gdcm.Anonymizer()
      ano.SetFile( r.GetFile() )
      ano.RemovePrivateTags()
      ano.Remove( gdcm.Tag(0x0032,0x1030) )
      ano.Remove( gdcm.Tag(0x008,0x14) )
      ano.Remove( gdcm.Tag(0x008,0x1111) )
      ano.Remove( gdcm.Tag(0x008,0x1120) )
      ano.Remove( gdcm.Tag(0x008,0x1140) )
      ano.Remove( gdcm.Tag(0x10,0x21b0) )
      ano.Empty( gdcm.Tag(0x10,0x10) )
      ano.Empty( gdcm.Tag(0x10,0x20) )
      ano.Empty( gdcm.Tag(0x10,0x30) )
      ano.Empty( gdcm.Tag(0x20,0x10) )
      ano.Empty( gdcm.Tag(0x32,0x1032) )
      ano.Empty( gdcm.Tag(0x32,0x1033) )
      ano.Empty( gdcm.Tag(0x40,0x241) )
      ano.Empty( gdcm.Tag(0x40,0x254) )
      ano.Empty( gdcm.Tag(0x40,0x253) )
      ano.Empty( gdcm.Tag(0x40,0x1001) )
      ano.Empty( gdcm.Tag(0x8,0x80) )
      ano.Empty( gdcm.Tag(0x8,0x50) )
      ano.Empty( gdcm.Tag(0x8,0x1030) )
      ano.Empty( gdcm.Tag(0x8,0x103e) )
      ano.Empty( gdcm.Tag(0x18,0x1030) )
      ano.Empty( gdcm.Tag(0x38,0x300) )
      g = gdcm.UIDGenerator()
      ano.Replace( gdcm.Tag(0x0008,0x0018), g.Generate() )
      ano.Replace( gdcm.Tag(0x0020,0x00d), g.Generate() )
      ano.Replace( gdcm.Tag(0x0020,0x00e), g.Generate() )
      ano.Replace( gdcm.Tag(0x0020,0x052), g.Generate() )
      #ano.Replace( gdcm.Tag(0x0008,0x0016), "1.2.840.10008.5.1.4.1.1.7.2" )
      """
      ano.Remove( gdcm.Tag(0x0018,0x0020) ) # ScanningSequence
      ano.Remove( gdcm.Tag(0x0018,0x0021) ) # SequenceVariant
      ano.Remove( gdcm.Tag(0x0018,0x0022) ) # ScanOptions
      ano.Remove( gdcm.Tag(0x0018,0x0023) ) # MRAcquisitionType
      ano.Remove( gdcm.Tag(0x0018,0x0050) ) # SliceThickness
      ano.Remove( gdcm.Tag(0x0018,0x0080) ) # RepetitionTime
      ano.Remove( gdcm.Tag(0x0018,0x0081) ) # EchoTime
      ano.Remove( gdcm.Tag(0x0018,0x0088) ) # SpacingBetweenSlices
      ano.Remove( gdcm.Tag(0x0018,0x0091) ) # EchoTrainLength
      ano.Remove( gdcm.Tag(0x0018,0x1164) ) # ImagerPixelSpacing

      ano.Remove( gdcm.Tag(0x0020,0x0032) ) # Image Position (Patient)
      ano.Remove( gdcm.Tag(0x0020,0x0037) ) # Image Orientation (Patient)
      ano.Remove( gdcm.Tag(0x0020,0x0052) ) # Frame of Reference UID
      ano.Remove( gdcm.Tag(0x0020,0x1040) ) # Position Reference Indicator

      ano.Replace( gdcm.Tag(0x0028,0x0301), "NO" ) # Burned In Annotation

      ano.Empty( gdcm.Tag(0x0020,0x0020) )

      ano.Remove( gdcm.Tag(0x7fe0,0x0000) )

      #ano.Empty( gdcm.Tag(0x0028,0x0009) ) # Frame Increment Pointer

      #ano.Empty( gdcm.Tag(0x0028,0x1052) )  #<entry group="0028" element="1052" vr="DS" vm="1" name="Rescale Intercept"/>
      #ano.Empty( gdcm.Tag(0x0028,0x1053) )  #<entry group="0028" element="1053" vr="DS" vm="1" name="Rescale Slope"/>
      #ano.Replace( gdcm.Tag(0x0028,0x1054), "US" )  #<entry group="0028" element="1054" vr="LO" vm="1" name="Rescale Type"/>

      ano.Replace( gdcm.Tag(0x2050, 0x0020), "IDENTITY")
      """

      w = gdcm.Writer()
      w.SetFile( ano.GetFile() )
      w.SetFileName( file2 )
      if not w.Write():
        sys.exit(1)