Dear Stefan, loading DCMs in MITK is still an issue, since we rely on ITK for actually doing the task. However, we made some changes in order to load some images, which we were not able to load previously. Anyway, if you could make some of these problematic DCMs available for me, I could take a look into it.
I don't know what might be the cause of your problems with IMA images. I don't know if something was changed there. Maybe someone else can answer this part. Best regards, Thiago -- Thiago R. dos Santos, MSc.CompSc. German Cancer Research Center Div. Medical & Biological Informatics Tel: (+49) 6221 42 3551 Im Neuenheimer Feld 280 Fax: (+49) 6221 42 2345 69120 Heidelberg - Germany eMail: [email protected] -------- Original Message -------- > Subject: > [mitk-users] Unable to load images > Date: > Tue, 27 Apr 2010 16:09:36 +0200 > From: > Stefan Galowicz > <[email protected]> > To: > [email protected] > <[email protected]> > > > Hey list, > > I've been unable to load DCM and IMA image files in the last week since > I updated MITK from SVN again. > ExtApp acts as if it loaded the data successfully, but there's simply > nothing visible. The images I load are an animation, but the next frame > is always one transversal step deeper. So in 3D view it looks like a > cuboid. > All the nodes in the data manager are loaded with correct names. > The details for one such image look like this for an image that is 2D > with more images along the depth axis, when I scroll through transversal > in the image navigator (I don't know whether these are default values or > correct): > > Image (0xe714f70) > PixelType: s > BitsPerElement: 16 > NumberOfComponents: 1 > BitsPerComponent: 16 > Dimension: 3 > Dimensions: 800 600 5 > TimeSlicedGeometry: TimeSlicedGeometry (0xe77d0e0) > EvenlyTimed: 1 > TimeSteps: 1 > GetGeometry3D(0): SlicedGeometry3D (0xe713f00) > IndexToWorldTransform: > Matrix: > 1 0 0 > 0 1 0 > 0 0 1 > Offset: [4.52003e-41, 1.3022e-40, 1.29144e-40] > Center: [0, 0, 0] > Translation: [4.52003e-41, 1.3022e-40, 1.29144e-40] > Inverse: > 1 0 0 > 0 1 0 > 0 0 1 > Scale : 1 1 1 > BoundingBox: ( 0,800 0,600 0,5 ) > Origin: [4.52003e-41, 1.3022e-40, 1.29144e-40] > ImageGeometry: 1 > Spacing: [1, 1, 1] > TimeBounds: [-3.40282e+38, 3.40282e+38] > EvenlySpaced: 1 > DirectionVector: [0, 0, 1] > Slices: 5 > GetGeometry2D(0): PlaneGeometry (0xe77c920) > IndexToWorldTransform: > Matrix: > 1 0 0 > 0 1 0 > 0 0 1 > Offset: [4.52003e-41, 1.3022e-40, 1.29144e-40] > Center: [0, 0, 0] > Translation: [4.52003e-41, 1.3022e-40, 1.29144e-40] > Inverse: > 1 0 0 > 0 1 0 > 0 0 1 > Scale : 1 1 1 > BoundingBox: ( 0,800 0,600 0,1 ) > Origin: [4.52003e-41, 1.3022e-40, 1.29144e-40] > ImageGeometry: 1 > Spacing: [1, 1, 1] > TimeBounds: [-3.40282e+38, 3.40282e+38] > ScaleFactorMMPerUnitX: 1 > ScaleFactorMMPerUnitY: 1 > Normal: [0, 0, 1] > > The messages on the console from launch of ExtApp, loading an image and > quitting look like this, for an IMA file: > > ./bin/ExtApp > [Tue Apr 27 16:06:39 2010 > 0.160] Registering CoreExtObjectFactory... > [0.160] CoreObjectFactory c'tor > [0.160] CoreExtObjectFactory c'tor > [0.160] CoreObjectFactory: registering extra factory of type > CoreExtObjectFactory > [0.400] Registering DiffusionImagingObjectFactory... > [0.400] DiffusionImagingObjectFactory c'tor > [0.410] CoreObjectFactory: registering extra factory of type > DiffusionImagingObjectFactory > [0.410] CoreObjectFactory: registering extra factory of type > DiffusionImagingObjectFactory > [0.460] QmitkRegisterClasses() > [0.470] QmitkExtRegisterClasses() > [1.030] [BlueBerry] BlueBerry Workbench ready > [1.980] loading image series with prefix and pattern as DICOM... > [2.410] The directory /home/eska/Desktop/testdata/Testdaten_Grouls_01 > contains the following DICOM Series: > [2.410] 1.3.12.2.1107.5.5.2.200809.30000009121516172789000000002.1600800 > [2.410] > 1.3.12.2.1107.5.5.2.200809.30000009121516172789000000002.17681024 > [2.410] 1.3.12.2.1107.5.5.2.200809.30000010011208084151500000016.1600800 > [2.410] 1.3.12.2.1107.5.5.2.200809.30000010011208084151500000022.1600800 > [2.410] > 1.3.12.2.1107.5.5.2.200809.30000010011208084151500000022.17681024 > [2.410] Reading series #0: > 1.3.12.2.1107.5.5.2.200809.30000009121516172789000000002.1600800 > [2.410] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/UNBEKANNT.US._.1.2.2010.01.14.14.14.08.703125.30947561.IMA > [2.410] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/UNBEKANNT.US._.1.3.2010.01.14.14.14.08.703125.30947908.IMA > [2.410] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/UNBEKANNT.US._.1.4.2010.01.14.14.14.08.703125.30955865.IMA > [2.410] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/UNBEKANNT.US._.1.5.2010.01.14.14.14.08.703125.30961511.IMA > [2.410] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/UNBEKANNT.US._.1.6.2010.01.14.14.14.08.703125.30966395.IMA > [4.600] Reading series #1: > 1.3.12.2.1107.5.5.2.200809.30000009121516172789000000002.17681024 > [4.600] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/UNBEKANNT.US._.1.1.2010.01.14.14.14.08.703125.30947406.IMA > [4.730] Reading series #2: > 1.3.12.2.1107.5.5.2.200809.30000010011208084151500000016.1600800 > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.51.2010.01.14.14.17.40.0.34033444.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.52.2010.01.14.14.17.40.0.34033881.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.53.2010.01.14.14.17.40.0.34034786.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.54.2010.01.14.14.17.40.0.34037726.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.55.2010.01.14.14.17.40.0.34037796.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.56.2010.01.14.14.17.40.0.34040736.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.57.2010.01.14.14.17.40.0.34041299.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.58.2010.01.14.14.17.40.0.34041552.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.59.2010.01.14.14.17.40.0.34043468.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.60.2010.01.14.14.17.40.0.34047432.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.61.2010.01.14.14.17.40.0.34049348.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.62.2010.01.14.14.17.40.0.34052288.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.63.2010.01.14.14.17.40.0.34054204.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.64.2010.01.14.14.17.40.0.34056120.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.65.2010.01.14.14.17.40.0.34058766.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.66.2010.01.14.14.17.40.0.34059158.IMA > [4.730] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUS1_BR1.US._.1.67.2010.01.14.14.17.40.0.34059387.IMA > [7.560] Reading series #3: > 1.3.12.2.1107.5.5.2.200809.30000010011208084151500000022.1600800 > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.2.2010.01.14.14.25.08.46875.34142087.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.3.2010.01.14.14.25.08.46875.34142340.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.4.2010.01.14.14.25.08.46875.34151430.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.5.2010.01.14.14.25.08.46875.34153283.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.6.2010.01.14.14.25.08.46875.34153539.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.7.2010.01.14.14.25.08.46875.34156479.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.8.2010.01.14.14.25.08.46875.34158395.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.9.2010.01.14.14.25.08.46875.34161335.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.10.2010.01.14.14.25.08.46875.34163251.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.11.2010.01.14.14.25.08.46875.34165167.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.12.2010.01.14.14.25.08.46875.34168107.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.13.2010.01.14.14.25.08.46875.34170023.IMA > [7.560] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.14.2010.01.14.14.25.08.46875.34170216.IMA > [9.930] Reading series #4: > 1.3.12.2.1107.5.5.2.200809.30000010011208084151500000022.17681024 > [9.930] > /home/eska/Desktop/testdata/Testdaten_Grouls_01/MAUSBR1_10UL.US._.1.1.2010.01.14.14.25.08.46875.34141954.IMA > [10.500] [mapper.vr] initializing hardware-accelerated renderer > [10.500] [mapper.vr] initializing hardware-accelerated renderer > [10.500] [mapper.vr] initializing hardware-accelerated renderer > [10.510] [mapper.vr] initializing hardware-accelerated renderer > [10.510] [mapper.vr] initializing hardware-accelerated renderer > [11.040] [BlueBerry] WorkbenchWindow::Close() > Closing workbench... > [11.060] [BlueBerry] Saving state > to: /home/eska/.ExtApp/.metadata/.plugins/org.blueberry.ui/workbench.xml > [11.060] [BlueBerry] WorkbenchWindow::Close() > [11.110] [BlueBerry] Window::Close() > Clearing tweaklets > [11.130] [BlueBerry] WorkbenchWindow::~WorkbenchWindow() > > I've seen some very short message about a change in the image loading > code in the SVN log, are you guys changing something major and this is > only temporary? Because I basically can't continue working on my plugin > like this. :-/ > > Thanks for your time, > Stefan > > > ------------------------------------------------------------------------------ > _______________________________________________ > mitk-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/mitk-users ------------------------------------------------------------------------------ _______________________________________________ mitk-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/mitk-users
