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StandardizeFiles.cs

/*=========================================================================

  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.

=========================================================================*/

/*
 * Simple C# example to show how one would 'Standardize' a DICOM File-Set
 *
 * Usage: 
 * $ export LD_LIBRARY_PATH=$HOME/Projects/gdcm/debug-gcc/bin
 * $ mono bin/StandardizeFiles.exe input_path output_path
 */
using System;
using gdcm;

00026 public class StandardizeFiles
{
  public static bool ProcessOneFile( string filename, string outfilename )
    {
    PixmapReader reader = new PixmapReader();
    reader.SetFileName( filename );
    if( !reader.Read() )
      {
      System.Console.WriteLine( "Could not read: " + filename );
      return false;
      }

    ImageChangeTransferSyntax change = new ImageChangeTransferSyntax();
    change.SetForce( false ); // do we really want to recompress when input is alread compressed in same alg ?
    change.SetCompressIconImage( false ); // Keep it simple
    change.SetTransferSyntax( new TransferSyntax( TransferSyntax.TSType.JPEG2000Lossless ) );
    change.SetInput( reader.GetPixmap() );
    if( !change.Change() )
      {
      System.Console.WriteLine( "Could not change: " + filename );
      return false;
      }

    gdcm.FileMetaInformation fmi = reader.GetFile().GetHeader();
    // The following three lines make sure to regenerate any value:
    fmi.Remove( new gdcm.Tag(0x0002,0x0012) );
    fmi.Remove( new gdcm.Tag(0x0002,0x0013) );
    fmi.Remove( new gdcm.Tag(0x0002,0x0016) );

    PixmapWriter writer = new PixmapWriter();
    writer.SetFileName( outfilename );
    writer.SetFile( reader.GetFile() );
    gdcm.Pixmap pixout = ((PixmapToPixmapFilter)change).GetOutput();
    //System.Console.WriteLine( "Debug: " + pixout.toString() );
    
    writer.SetPixmap( pixout );
    if( !writer.Write() )
      {
      System.Console.WriteLine( "Could not write: " + outfilename );
      return false;
      }

    return true;
    }

  public static int Main(string[] args)
    {
    gdcm.FileMetaInformation.SetSourceApplicationEntityTitle( "My Standardize App" );

    // http://www.oid-info.com/get/1.3.6.1.4.17434
    string THERALYS_ORG_ROOT = "1.3.6.1.4.17434";
    gdcm.UIDGenerator.SetRoot( THERALYS_ORG_ROOT );
    System.Console.WriteLine( "Root dir is now: " + gdcm.UIDGenerator.GetRoot() );

    string dir1 = args[0];
    string dir2 = args[1];

    // Check input is valid:
    if( !gdcm.PosixEmulation.FileIsDirectory(dir1) )
      {
      System.Console.WriteLine( "Input directory: " + dir1 + " does not exist. Sorry" );
      return 1;
      }
    if( !gdcm.PosixEmulation.FileIsDirectory(dir2) )
      {
      System.Console.WriteLine( "Output directory: " + dir2 + " does not exist. Sorry" );
      return 1;
      }

    Directory d = new Directory();
    uint nfiles = d.Load( dir1, true );
    if(nfiles == 0) return 1;

    // Process all filenames:
    FilenamesType filenames = d.GetFilenames();
    for( uint i = 0; i < nfiles; ++i )
      {
      string filename = filenames[ (int)i ];
      string outfilename = filename.Replace( dir1, dir2 );
      System.Console.WriteLine( "Filename: " + filename );
      System.Console.WriteLine( "Out Filename: " + outfilename );
      if( !ProcessOneFile( filename, outfilename ) )
        {
        System.Console.WriteLine( "Could not process filename: " + filename );
        //return 1;
        }
      }


    return 0;
    }
}

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