[mitk-users] IGT Navigation Tool Calibration

Hello, I am working in Image Guided Therapy and I would like to use MITK to navigate a real model from which I have a stl 3D model to load in MITK. I am trying to perform the navigation tutorial but from step "Configuration" you jump to

[mitk-users] Customize Project

Hello, I am new to MITK development. I would like to create a customize Application, only with some plugins. I wonder if I can change the User Interface so that I customize the welcome layout so that having fewer things? I am sure I can do that but I don't know from where... I have downloaded and

Re: [mitk-users] Customize Project

t; just the standard set of plugins you want to change? – In that case all you > need to do is switch them on/off in CMake. Do you want to add your own > plugins? – See the awesome plugin/module examples in the > MITK-ProjectTemplate. > > > > Best, > Stefan > > > >

Re: [mitk-users] Customize Project

ngement of > plugins), own welcome screen and customized window title. There's an > example at [1]. > > > Best, > > Stefan > > > [1] https://github.com/MITK/MITK/tree/master/Plugins/org.mitk.gui.qt. > diffusionimagingapp​ > -- > *Von:* L

[mitk-users] IGT Navigation Tool Calibration

Hello, I am new in Navigation with the MITK software and I would be very grateful if you could help me with some questions. I am using a Vicra Polaris tracker and I am trying to perform the registration using the Polaris pointer so that navigate a physical model. My main question is how to

[mitk-users] Customizing a MITK App

Hello, I am trying to customize the ProjectTemplate by means of enabling only certain Plugins. The aim is to get a packed file to install MITK only with those Plugins. Following the example of Diffusion Application, I have named the plugins I want to use in */MyApp_src/Apps/MyApp/CMakeLists.txt*:

[mitk-users] (no subject)

Hello, I am coding an application based in mitk. It is thought to load a *.mitk* data file (which contains three surfaces and one MRI image DataNodes). I would like to put each object in a different data storage when I load the *.mitk* file, but when I use: std::vector< mitk::Basedata::Pointer >

[mitk-users] Acces DataBase "name" property

Sorry, I re-send the same message with title, I forgot in the last one Hello, I am coding an application based in mitk. It is thought to load a *.mitk* data file (which contains three surfaces and one MRI image DataNodes). I would like to put each object in a different data storage when I load

Re: [mitk-users] tracking and navigation using ndi polaris and MITK

Hello, Are you calibrating the pointer tip tool before aquiring the tracker fiducials? By using the Navigation Tool Calibration plugin. The fiducials you take on the stl object are not related to the model, they are an

Re: [mitk-users] Acces DataBase "name" property

persist this property. The > NRRD image reader and writer of MITK is able read and write these > properties into/from the NRRD file header, as long as it is a > StringProperty. > > > > Best, > > Stefan > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@u

Re: [mitk-users] tracking and navigation using ndi polaris and MITK

Hello, - To perform registration, 4 or 5 points should be OK. The more points the worse... All points should not be in the same plane, and distributed all over the model. - The model always should be fixed during registration. If you are taking points with the calibrated pointer it should be OK.

Re: [mitk-users] SandaloneDataStorage vs DataStorage

Solved by static casting... 2018-06-05 15:38 GMT+02:00 LOPEZ VELAZCO, ROCIO : > Hello again :) > > There is a question that comes to me frequently when developing in MITK: > > In my MITK-based application I only have a StandaloneDataStorage pointer > but I sometimes fi

Re: [mitk-users] Integrate Segmentation Module in MITK-based application

? Any hint would be appreciated! Thank you very much in advance. Best regards, Rocío 2018-06-01 17:46 GMT+02:00 LOPEZ VELAZCO, ROCIO : > Hello, > > I am trying to integrate the segmentation module in a MITK-based > application. > > I have two different questions: > >

Re: [mitk-users] Integrate Segmentation Module in MITK-based application

the global rendering manager and it works. 2018-06-11 15:10 GMT+02:00 LOPEZ VELAZCO, ROCIO : > Hello again, > > I managed to make the segmentation module work. > > However the real-time painting on the 2D renders is not working ... > Example: by using the Add Tool, I draw something

[mitk-users] Mouse wheel event does not correctly match the sliceNavigatorController

Hello, In a MITK based application, I have a simple QmitkStdMultiWidget and a Load File button (which loads an image using QmitkIOUtil::Load). By loading (for example) a MRI and having the axial, saggital and coronal views initialized, the mouse wheel event does not work as in the workbench to

[mitk-users] SandaloneDataStorage vs DataStorage

Hello again :) There is a question that comes to me frequently when developing in MITK: In my MITK-based application I only have a StandaloneDataStorage pointer but I sometimes find that I must use DataStorage (not STANDALONE) pointer as parameter, and the compiler gives me error... I saw that

[mitk-users] Integrate Segmentation Module in MITK-based application

Hello, I am trying to integrate the segmentation module in a MITK-based application. I have two different questions: On one hand, I read here that I could use QmitkToolReferenceDataSelectionBox

[mitk-users] Integrating Segmentation Module

Hello all, I am trying to use the mitk Segmentation Module in a MITK-based application. The application has two different QmitkStdMultiwidgets in two different tabs. One uses the "global" rendering manager. The other uses a particular rendering manager. I integrated the segmentation module in

Re: [mitk-users] Update different QmitkStdMultiWidget in same app

mewhere > else so keep in mind, that the global rendering manager will still be used > at different places. > > E.g. if you click ‘Reinit’ on the context menu of a data node the global > rendering manager will still be used so all your render windows won’t be > updated since

Re: [mitk-users] Update different QmitkStdMultiWidget in same app

Ok, I fixed it. There was somewhere in the code a call to a global initialize vews... But the second part of the email remains unanswered: I also had a deep look at the RenderWindowManager Plugin (and module) and I was not able to achieve what I want. Workbench Example: I load a MRI, a US and a

Re: [mitk-users] vtkRenderWindowInteractor and LeftButtonPressEvent

code as well. > > > Best, > > Stefan > > > [1] http://docs.mitk.org/2016.11/DataInteractionPage.html > -- > *Von:* LOPEZ VELAZCO, ROCIO <rocio.lo...@upf.edu> > *Gesendet:* Montag, 19. Februar 2018 13:00 > *An:* mitk-users@lists.sourceforge.net > *Betreff

[mitk-users] vtkRenderWindowInteractor and LeftButtonPressEvent

Hello, I am trying to simulate a virtual camera in a QmitkRenderWindow, the camera is fixed to the tip of a pointer object. I would like to modify the vtkRenderWindowInteractor so that modify the position of my object (and thus the camera as well) only by using the 2D coordinates the mouse

Re: [mitk-users] MITK based app problems with new release2018

, totally forgot about these lines at the very beginning of > program execution. Good catch! > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:* Dienstag, 17. Juli 2018 14:22 > > *To:* Dinkelacker, Stefan > *Cc:* mitk-users@lists.sourceforge.net > *Su

Re: [mitk-users] MITK based app problems with new release2018

t; Ah, yeah, sorry, totally forgot about these lines at the very beginning >> of program execution. Good catch! >> >> >> >> *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] >> *Sent:* Dienstag, 17. Juli 2018 14:22 >> >> *To:* Dinkelacker, Stefan &g

Re: [mitk-users] MITK based app problems with new release2018

Hello again, I solved it!! :) By reading the QVTKOpenGLWidget Class Reference <https://www.vtk.org/doc/nightly/html/classQVTKOpenGLWidget.html#details>, it says: So, I added that line and now it runs perfectly. Thank you! Best regards, Rocio 2018-07-17 13:57 GMT+02:00 LOPEZ VELAZCO,

Re: [mitk-users] MITK based app problems with new release2018

the error message. Just in case if you're running a VM: you also get the > same error message when running the Workbench in VirtualBox, as the vbox > graphics driver can't handle the higher requirements. > > > Best, > > Stefan > ------ > *Von:* LOPEZ V

Re: [mitk-users] MITK based app problems with new release2018

S related to your graphics driver. My advise is to follow the hint of > the error message. Just in case if you're running a VM: you also get the > same error message when running the Workbench in VirtualBox, as the vbox > graphics driver can't handle the higher requirements. > > > Best, &g

Re: [mitk-users] MITK based app problems with new release2018

Solved, it was my bad. I was doing tests with mitk scenes saved from MITK-2016, they are not compatible with MITK-2018. 2018-07-18 14:16 GMT+02:00 LOPEZ VELAZCO, ROCIO : > Thank you very much! > > Whith respect the QmitkRenderWindow I found that the problem comes when > having

Re: [mitk-users] MITK based app problems with new release2018

ou can also try to follow the CMake warning you posted > earlier and set the variable that allows for using GLVND instead of legacy > OpenGL. > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:* Dienstag, 17. Juli 2018 11:56 > > *To:* Dinkelacker, Stefa

Re: [mitk-users] MITK based app problems with new release2018

9 > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:* Dienstag, 17. Juli 2018 16:06 > > *To:* Dinkelacker, Stefan > *Cc:* mitk-users@lists.sourceforge.net > *Subject:* Re: [mitk-users] MITK based app problems with new release2018 > > > &

Re: [mitk-users] MITK based app problems with new release2018

on the last release, whereas your application is based on > our source code that depends on VTK 8.x, that’s most probably the > explanation for the difference. > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:* Dienstag, 17. Juli 2018 10:

[mitk-users] MITK based app problems with new release2018

Hello all, I work with Fedora 27. I compiled a new branch of mitk2018 T24059-IGTRelease-2018.03 and it works perfectly. I have a MITK-based application that worked with MITK last release (2016). However I now link it to

[mitk-users] Update different QmitkStdMultiWidget in same app

Hello all, I am developing a MITK based application which has two tabs with two different QmitkStdMultiWidget . The first one is to show a MRI Image and the second one is to show a US image. The button "load files" is in the first tab. When images are loaded only the first QmitkStdMultiWidget

Re: [mitk-users] Update different QmitkStdMultiWidget in same app

ctionC > ontroller.cpp;48733f55943c98170b2339eb85503edc4d5052d8$83-110 you can see > how the view of a renderer is initialized only with the bounding geometries > of the images that are currently visible inside the renderer. > > > > Best, > > Amir > > > > *F

Re: [mitk-users] vtkRenderWindowInteractor and LeftButtonPressEvent

not say anything about possible quirks in completely custom applications. > > > > [1] https://github.com/MITK/MITK/blob/v2016.03.0/Modules/Simulation/ > mitkSimulationInteractor.cpp#L197-L233 > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:*

Re: [mitk-users] Update different QmitkStdMultiWidget in same app

er was, that you could show image 1 in render window 1 and image 2 in > render window 2, even if one would hide the other. You could then just hide > the foreground image in one of the render windows. But this seems not to be > the case in your scenario, since the problem is that

Re: [mitk-users] Update different QmitkStdMultiWidget in same app

ze all your (4?) render windows in the second multi widget with the > US image. > > > > I could image that you wouldn’t need render window specific property lists > in this case. > > The idea of the render window specific property lists in the rendering > manager was, that

Re: [mitk-users] How to show two different axial images simultaneously in same MultiWidget

Hello, I solved this by creating two different dataStorage for each render window. I don't know if this is the best solution... Best, Rocio 2018-03-20 17:20 GMT+01:00 LOPEZ VELAZCO, ROCIO <rocio.lo...@upf.edu>: > Hello again ^^', > > In the MITK based application I am developin

Re: [mitk-users] How to show two different axial images simultaneously in same MultiWidget

ge (two “US”-images). > > > > You should check and debug the calls to ‘void > RenderingManager::InternalViewInitialization’ > to see if the function is called from somewhere, where the whole data > storage is used or all render windows or something similar. > > > >

[mitk-users] How to show two different axial images simultaneously in same MultiWidget

Hello again ^^', In the MITK based application I am developing, I would like to show two US axial images (stored in same datastorage). I changed the appeareace of the QmitkStdMultiWidget so that having 2x2D Render Window and a 3D render window (like in the following figure): I want to show the

Re: [mitk-users] Update different QmitkStdMultiWidget in same app

e selected render window > (selected in the combo box at the top of the render window manager view) > with the geometry bounds of the loaded image in this render window. > > > > Best, > > > > Amir > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@up

[mitk-users] PointSet Node problem when adding to two Data Storages mitk2018

Hello, I have a (rendering) problem when adding a DataNode which contains a PointSet into a different Data Storage. It is a very simple scenario: The UI are two 3D render windows, each one with one Data Storage. 1) I create a pointset and add points into it. [image: image.png] 2) I create its

Re: [mitk-users] PointSet Node problem when adding to two Data Storages mitk2018

ch version / commit are > you currently using? > > Is there any error message / console output when the render crashes? > > > > Best, > > Amir > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:* Tuesday, 23 October, 2018 12:52 > *To:* mi

Re: [mitk-users] PointSet Node problem when adding to two Data Storages mitk2018

grateful! Thank you very much in advance. Best, Rocio El mié., 24 oct. 2018 a las 11:21, LOPEZ VELAZCO, ROCIO (< rocio.lo...@upf.edu>) escribió: > Hi Amir, > > Thank you very much for your fast reply! > > - So, this does not happens with other nodes, I can add same Surfac

[mitk-users] Transform Data Nodes with mitk::AffineTransform3D

Hello, I saw in MITK code that in order to transform a Surface Data Node, you do it like this: 1) To get the IndexToWorldTransform of the node I want to transform: mitk::AffineTransform3D::Pointer originalTransform = surfaceToTransform-> GetData()->GetGeometry()->GetIndexToWorldTransform(); 2)

Re: [mitk-users] PointSet Node problem when adding to two Data Storages mitk2018

Hello Amir, Thank you for your reply. I prepared a very simple app example so that you can reproduce the error :) it would take you 2 minutes if you have built MITK-2016. I send you the link with the folder that contains the example, the steps for reproduce it would be:

Re: [mitk-users] PointSet Node problem when adding to two Data Storages mitk2018

beta > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:* Mittwoch, 7. November 2018 11:23 > *To:* Kalali, Amir; mitk-users@lists.sourceforge.net > *Subject:* Re: [mitk-users] PointSet Node problem when adding to two Data > Storages mitk2018 > > > &

Re: [mitk-users] PointSet Node problem when adding to two Data Storages mitk2018

VELAZCO, ROCIO () escribió: > Hello Amir, > > Thank you for your reply. > I prepared a very simple app example so that you can reproduce the error > :) it would take you 2 minutes if you have built MITK-2016. I send you the > link with the folder that contains the example, the s

[mitk-users] Rendering conflict when a pointset is rendered in two 3D QmitkRenderWindow

do you mean two “multi widget editors” (e.g. two StdMultiWidgets)? > > > > Is it useful to create a screenshot for visualization? > > > > Best, > > > > Amir > > > > *From:* LOPEZ VELAZCO, ROCIO [mailto:rocio.lo...@upf.edu] > *Sent:* Wednesday, 31 October, 2

[mitk-users] PointSet rendering problem when adding in two different 3D renders

Hello, I am developing a MITK-based app, using last release MITK2018-03. (Where can I find the repository to clone the latest MITK2018-04?). I have two different 3D Render Window each one with its own dataStorage. The problem is, if I create a PointSet in a PointSetNode and I add it to the

[mitk-users] 2D Image Segmentation and 2D label export

Hello, Is it possible to segment a JPEG image (2D) and save its (binary) mask as 2D jpeg/png? When I try (I find the option to save segmentation in those file formats) I see all segmentations are 3D and thus the saved file is incorrect, at least for png, jpeg gives me this 2D-3D error... Is there

Re: [mitk-users] [SOLVED] Rendering conflict when a pointset is rendered in two 3D QmitkRenderWindow

this is useful for someone! Best, Rocío El mié., 7 nov. 2018 a las 16:53, LOPEZ VELAZCO, ROCIO () escribió: > I changed the subjet of the mail to a more specific one. > > I went deeper in the problem. It comes when rendering the PointSet Node > into a second independent 3D Qmitk

[mitk-users] Set new Image data into DataNode already filled with an Image

Hello, I think this is a very simple question but I don't manage to solve it: 1) I have a DataNode already filled with a mitkImage (myDataNode). 2) I do some operation in the mitkImage resulting in a new_mitkImage (because of an itk filter). 3) To update it in the render window, I wanted to

[mitk-users] MITK Save Navigation Tools (calibrated)

Hello, I think I have very basic question. I am using mitk 2018 to navigate, using Aurora NDI Tracking System. I have two tools (two different sensors), which are auto detected through MITK. I calibrate first one by Pivoting Calibration, then I calibrate the second one by Single Reference Tool

Re: [mitk-users] MITK Save Navigation Tools (calibrated)

try saving the whole ToolStorage using the NavigationToolManager > plugin after doing your tool calibrations? You should then be able to load > the whole tool storage in the TrackingToolBox using “Load Tool Storage”. > > > > Best regards > > Alex > > > > *Von:* LOPE