[Insight-users] Loading a CT Volume in C# - SimpleITK or ITK

[Dan Mueller]

Hi Jason,

Sorry for the delayed response — I've been away the last few days.

You should be able to use the following code to obtain the file names:

    var reader = new ImageSeriesReader();
    var names = ImageSeriesReader.GetGDCMSeriesFileNames("C:/Temp");
    reader.SetFileNames(names);
    var image = reader.Execute();

BTW: If you are not already using it, the new SimpleITK 0.7.0rc1 has
added C# operators which are really nice e.g.

    var threshold = image >= 128;

HTH

Cheers, Dan

On 7 September 2013 02:04, Jason Gibbs <jdgibbs at gmail.com> wrote:
> Brad,
>
> Thank you for the response!  I'm pretty sure that global functions aren't
> allowed in C# so it would have to be shoved into some class somewhere, with
> the natural one being ImageSeriesReader.
>
> I did search through the assembly for any "GDCM" substring in the object
> browser; no luck.  For now I've wrapped the function on my own and it works
> fine.  However I'd be interested if anyone has a more elegant solution
> moving forward.
>
> Thanks again!
> Jason
>
>
> On Fri, Sep 6, 2013 at 12:16 PM, Bradley Lowekamp <blowekamp at mail.nih.gov>
> wrote:
>>
>> Hello Jason,
>>
>> You are correct that you need a method like
>> ImageSeriesReader::GetGDCMSeriesFilenames()[1] which is a static member
>> function in C++.
>>
>> I am not certain, but I believe SWIG translate these static member methods
>> to global functions with names such as
>> ImageSeriesReader_GetGDCMSeriesFilenames. But hopefully you can search for
>> that function name and find it in the assembly.
>>
>> Please let up know if you figure it out,
>> Brad
>>
>> [1]
>> http://www.itk.org/SimpleITKDoxygen/html/classitk_1_1simple_1_1ImageSeriesReader.html#a26da9041bf5efd3db05524258de15dc2
>>
>> On Sep 5, 2013, at 6:11 PM, Jason Gibbs <jdgibbs at gmail.com> wrote:
>>
>> Hello,
>>
>> I am writing a pure C# based application and first started out using the
>> SimpleITKCSharpManaged assembly. I'm attempting to load a DICOM image from a
>> folder.  It is known the folder contains only one series.  However, I'm
>> having trouble ordering the files correctly.
>>
>> Doing this loads an image, but the slices are all out of order:
>>   var FilesInFolder = Directory.EnumerateFiles(m_folder).ToList();
>>
>>                     itk.simple.ImageSeriesReader reader = new
>> itk.simple.ImageSeriesReader();
>>                     itk.simple.VectorString vs = new
>> itk.simple.VectorString();
>>
>>                     foreach (var file in FilesInFolder)
>>                         vs.Add(file);
>>                     reader.SetFileNames(vs);
>>
>>                     m_ITKImg = reader.Execute();
>>
>> I realize that I need something along the lines of GetGDCMSeriesFileNames
>> to order the files correctly. It seems this is a public static member of
>> itk.simple.ImageSeriesReader. However this does not seem to appear in the
>> assembly metadata (below). Is there something I'm missing or a different
>> route to achieve the same end result of loading the image in C#? I'm
>> assuming that others have loaded CT volumes in the C# wrapper before so I'm
>> guessing it's something I'm doing incorrectly. Thank you for any help!
>>
>> Jason Gibbs
>>
>>
>> #region Assembly SimpleITKCSharpManaged.dll, v2.0.50727 //
>> C:\Users\jgibbs\Documents\Visual Studio
>> 2010\Projects\DisplayDICOM\DisplayDICOM\SimpleITKCSharpManaged.dll
>> #endregion using System; namespace itk.simple { public class
>> ImageSeriesReader : IDisposable { protected bool swigCMemOwn; public
>> ImageSeriesReader(); public virtual void Dispose(); public Image Execute();
>> public VectorString GetFileNames(); public ImageSeriesReader
>> SetFileNames(VectorString fns); } }
>>
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>
>
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>
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