Dear Peter,
Your suggestions were very helpful and I managed with this stage by fstream
...
But, in order to use mitkFiberBundleX:
- all the components of mitkDiffusionImaging must be built by CMake in the
configuration process?
|____org.mitk.diffusionimaging
|____org.mitk.gui.qt.diffusionimaging
|____org.mitk.gui.qt.diffusionimagingapp
- I've tried to build those, but the MITK_use_Boost is needed- a stage that
I haven't succeeded to manage with due to some build errors ...
There is other way to use this filter without the need of its building
process?
On Thu, Feb 2, 2012 at 2:55 PM, Peter Neher <[email protected]>wrote:
> **
> Hi Miri,
>
> .mat file import in MITK is not supported. You would either need to export
> your matlab datastructure as vtk file format (maybe this site can help you
> with that: http://www.exolete.com/recipes/matlab_vtk) or you'd have to
> find some other way to import your data into mitk. If its just a list of
> points it should not be too difficult to read the file using fstream.
>
> Peter
>
>
> On 02.02.2012 13:43, Miri Trope wrote:
>
> Dear Peter,
>
>
> Thank you very much for your kind and detailed explanation.
> Please forgive me about the following q:
> my fiber's data (fibers.mat) is represented as a structural object in
> Matlab.
> Does Mitk enable to import such a Matlab's data?
> Anyway, how my program can read the data from that fiber.mat file?
>
>
> Thanks in advance.
>
>
> On Thu, Feb 2, 2012 at 1:00 PM, Peter Neher <[email protected]>wrote:
>
>> Hi Miri,
>>
>> to represent fiber tracts we use mitkFiberBundleX. This datastructure is
>> simply initialized using a vtkPolyData containing all your fiber data.
>> Simple example:
>>
>> vtkSmartPointer<vtkPolyData> fiberPolyData =
>> vtkSmartPointer<vtkPolyData>::New(); // the input datastructure for
>> mitkFiberBundleX
>> vtkSmartPointer<vtkCellArray> fiberContainer =
>> vtkSmartPointer<vtkCellArray>::New();
>> vtkSmartPointer<vtkPoints> pointContainer =
>> vtkSmartPointer<vtkPoints>::New();
>>
>> for (int l=0; l<numlines; l++) // iterate over fibers
>> {
>> vtkSmartPointer<vtkPolyLine> fiber =
>> vtkSmartPointer<vtkPolyLine>::New();
>> for (int p=0; p<pointsInLine; p++) // iterate over points in fiber
>> {
>> vtkIdType id = pointContainer->InsertNextPoint(yourPoint); //
>> add next point
>> fiber->GetPointIds()->InsertNextId(id); // add point id to
>> fiber
>> }
>> fiberContainer->InsertNextCell(fiber); // add fiber to fiber
>> container
>> }
>>
>> fiberPolyData->SetPoints(pointContainer);
>> fiberPolyData->SetLines(fiberContainer);
>>
>> mitk::FiberBundleX::Pointer fiberBundle =
>> mitk::FiberBundleX::New(fiberPolyData);
>>
>> Peter
>>
>>
>> On 02.02.2012 07:47, Miri Trope wrote:
>>
>> Hi All,
>>
>> How I should convert my fibers which is represented in .mat file in order
>> to be represented on mitk view?
>> i.e., I'd like to view my data as :
>> http://www.dkfz.de/de/mbi/images/neuro3.jpg
>> Note that my .mat file consists of [n] number of fibers which each fiber
>> [i] consists of number of points [j] like this:
>>
>> fibers[n]
>> |
>> |__fiber-i__
>> |
>> |___point-j(x,y,z)
>>
>>
>>
>> Please don't hesitate to ask if a further explanation is required ...
>> Anyway, any information/ method would be very appreciated!
>> Miri
>>
>>
>> --
>> Dipl.-Inform. Peter Neher
>> German Cancer Research Centre
>> (DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft,
>> Stiftung des öffentlichen Rechts)
>> Division of Medical and Biological Informatics
>> Im Neuenheimer Feld 280, D-69120 Heidelberg
>>
>> Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345
>> E-Mail: [email protected], Web: www.dkfz.de
>>
>> The information contained in this message may be confidential and legally
>> protected under applicable law. The message is intended solely for the
>> addressee(s). If you are not the intended recipient, you are hereby notified
>> that any use, forwarding, dissemination, or reproduction of this message is
>> strictly prohibited and may be unlawful. If you are not the intended
>> recipient, please contact the sender by return e-mail and destroy all copies
>> of the original message.
>>
>>
>>
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>
> --
> Dipl.-Inform. Peter Neher
> German Cancer Research Centre
> (DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft,
> Stiftung des öffentlichen Rechts)
> Division of Medical and Biological Informatics
> Im Neuenheimer Feld 280, D-69120 Heidelberg
>
> Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345
> E-Mail: [email protected], Web: www.dkfz.de
>
> The information contained in this message may be confidential and legally
> protected under applicable law. The message is intended solely for the
> addressee(s). If you are not the intended recipient, you are hereby notified
> that any use, forwarding, dissemination, or reproduction of this message is
> strictly prohibited and may be unlawful. If you are not the intended
> recipient, please contact the sender by return e-mail and destroy all copies
> of the original message.
>
>
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