[vtk-developers] vtkDICOMImageReader

[Bartosz Wiklak]

oh, it is patanted - is there any chance to get rit of it?

On Tue, Jul 22, 2008 at 12:45 AM, Bartosz Wiklak <bwiklak at gmail.com> wrote:
> Does gdcm rely on libvtkMPEGencoder?
> I don't have it (dont't know why) but when I'm running my simple app
> that uses vtkGDCMImageReader I'm getting error that tis shared lib is
> not found.
>
> On Tue, Jul 22, 2008 at 12:18 AM, Bartosz Wiklak <bwiklak at gmail.com> wrote:
>> Ok, :), I looked into examples dir and google and found nothing,
>> funny, all day had it on my computer.
>>
>> Thanks a lot
>>
>> On Tue, Jul 22, 2008 at 12:09 AM, Mathieu Malaterre
>> <mathieu.malaterre at gmail.com> wrote:
>>> svn co https://gdcm.svn.sourceforge.net/svnroot/gdcm/trunk
>>>
>>> $ grep -lr vtkGDCMImageReader *  | grep Testing | grep -v .svn
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMImageReader4.cxx
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMImageReader3.cxx
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMImageWriter.cxx
>>> Utilities/VTK/Testing/Cxx/CMakeLists.txt
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMImageActor.cxx
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMImageWriter2.cxx
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMImageReader.cxx
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMThreadedImageReader2.cxx
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMImageReader2.cxx
>>> Utilities/VTK/Testing/Cxx/TestvtkGDCMThreadedImageReader.cxx
>>> Utilities/VTK/Testing/Python/CMakeLists.txt
>>> Utilities/VTK/Testing/Python/TestvtkGDCMImageWriter.py
>>> Utilities/VTK/Testing/Python/TestvtkGDCMImageReader.py
>>>
>>> Hopefully this will be enough now :)
>>>
>>>
>>> -Mathieu
>>> Ps: please post to gdcm mailing list instead:
>>> https://lists.sourceforge.net/lists/listinfo/gdcm-developers
>>>
>>> On Mon, Jul 21, 2008 at 11:51 PM, Bartosz Wiklak <bwiklak at gmail.com> wrote:
>>>> Thank you for whole help and info.
>>>> Could you please give me some examples how to user gdcm
>>>> vtkGDCMImageReader and connect data to renderer/mapper?
>>>> I cant find any.
>>>>
>>>> Bartek
>>>>
>>>> On Mon, Jul 21, 2008 at 4:17 PM, Mathieu Malaterre
>>>> <mathieu.malaterre at gmail.com> wrote:
>>>>> GDCM has recently integrated Part 3 and it does support J2K from Part
>>>>> 5. This is IMHO the biggest advantage in using GDCM over dcmtk. The
>>>>> main drawback would be a missing network implementation.
>>>>>
>>>>> -Mathieu
>>>>>
>>>>> On Mon, Jul 21, 2008 at 2:55 PM, Bartosz Wiklak <bwiklak at gmail.com> wrote:
>>>>>> Thanks a lot,
>>>>>> I have big experience in DCMTK. Of course it does implement much more
>>>>>> than Dicom Part5 standard but it would be nice not to include to many
>>>>>> different implementations of the same standard in one application.
>>>>>> I have heard that some people include dcmdata pixels (f.e. decoded
>>>>>> using dcmtk) into VTK object.
>>>>>> Does anyone have experience in this field?
>>>>>>
>>>>>> Bartek
>>>>>>
>>>>>> On Mon, Jul 21, 2008 at 1:47 PM, Mathieu Malaterre
>>>>>> <mathieu.malaterre at gmail.com> wrote:
>>>>>>> If you have a chance give a try to GDCM:
>>>>>>>
>>>>>>> http://gdcm.sourceforge.net/wiki/index.php/GDCM_Release_2.0
>>>>>>>
>>>>>>> it has a vtkGDCMImageReader and a gdcm::IPPSorter. Pluging them
>>>>>>> together should do what you want:
>>>>>>>
>>>>>>> http://gdcm.sourceforge.net/html/classvtkGDCMImageReader.html
>>>>>>>
>>>>>>> http://gdcm.sourceforge.net/html/classgdcm_1_1IPPSorter.html
>>>>>>>
>>>>>>> HTH
>>>>>>> -Mathieu
>>>>>>>
>>>>>>> On Mon, Jul 21, 2008 at 1:18 PM, Bartosz Wiklak <bwiklak at gmail.com> wrote:
>>>>>>>> Hi,
>>>>>>>>
>>>>>>>> I'm new to VTK but I'm very impressed by it's capabilities.
>>>>>>>> I'm specially interested in medical 3D visualization (CT,MR,PET).
>>>>>>>> I have already learned haw to use many VTK methods and also how to
>>>>>>>> read DICOM data through vtkDICOMImageReader. Here my question begins.
>>>>>>>>
>>>>>>>> In many dicom data sets (scans) spacing between slices in not the same
>>>>>>>> in whole 3D object (f.e series).
>>>>>>>> To make things worse tags such as SliceLocation,  SpacingBetweenSlices
>>>>>>>> have comonly bad values.
>>>>>>>>
>>>>>>>> Good information about slice positions in 3D is always (in Dicom 3
>>>>>>>> compilant images) stored in:
>>>>>>>> Image Orientation (Patient) (0020,0037),
>>>>>>>> Image Position (Patient) (0020,0032).
>>>>>>>>
>>>>>>>> Standard says about this In PS 3.3:
>>>>>>>>
>>>>>>>> C.7.6.2.1.1 Image Position And Image Orientation
>>>>>>>> The Image Position (0020,0032) specifies the x, y, and z coordinates of the
>>>>>>>> upper left hand
>>>>>>>> corner of the image; it is the first pixel transmitted. Image Orientation
>>>>>>>> (0020,0037) specifies the
>>>>>>>> direction cosines of the first row and the first column with respect to the
>>>>>>>> patient. These Attributes
>>>>>>>> shall be provide as a pair. Row value for the x, y, and z axes respectively
>>>>>>>> followed by the Column
>>>>>>>> value for the x, y, and z axes respectively.
>>>>>>>>
>>>>>>>> The direction of the axes is defined fully by the patient's orientation.
>>>>>>>> The x-axis is increasing to the
>>>>>>>> left hand side of the patient. The y-axis is increasing to the posterior
>>>>>>>> side of the patient. The z-axis
>>>>>>>> is increasing toward the head of the patient.
>>>>>>>>
>>>>>>>> I'm sure that in some of my datasets that not have homogenious spacing
>>>>>>>> between slices the data shown in VTK is bad.
>>>>>>>>
>>>>>>>> I would like to contibute in VTK and help to imporve
>>>>>>>> vtkDICOMImageReader but I need some help to start.
>>>>>>>> I need to know how exacly vtkDICOMImageReader creates VTK 3D dataset,
>>>>>>>> and if there is possibility to construct anisotropic data tor
>>>>>>>> vizsualiztion without need to use interpolation to force isotropy.
>>>>>>>>
>>>>>>>> I have read vtkDICOMImageReader code but after quick look I cant find
>>>>>>>> place where data is build.
>>>>>>>>
>>>>>>>> Maybe someone can help me to make a few first steps?
>>>>>>>>
>>>>>>>> Bartek
>>>>>>>> _______________________________________________
>>>>>>>> vtk-developers mailing list
>>>>>>>> vtk-developers at vtk.org
>>>>>>>> http://www.vtk.org/mailman/listinfo/vtk-developers
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> Mathieu
>>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Mathieu
>>>>>
>>>>
>>>
>>>
>>>
>>> --
>>> Mathieu
>>>
>>
>