Hi, no, that is not a solution as MITK has its own heuristic to determine if an image is a binary image or not. You have to follow my solution and uncheck the "binary" property of your image in the Proberties View in the MitkWorkbench. Meanwhile I discussed in our group the restriction to non-binary images and we concluded that it makes no sense. Hence, in our next release (coming the very next days), this issue will be fixed and you will be able to directly select binary images.
Cheers, Stefan Von: Agata Krasoń [mailto:[email protected]] Gesendet: Mittwoch, 2. April 2014 17:39 An: Kislinskiy, Stefan; [email protected] Betreff: Re: [mitk-users] conversion mesh to image Hi Stefan, Thanks for quick replay. I have already tried follow Your solution. I removed "binary part" in mhd image : ObjectType = Image NDims = 3 CompressedData = False TransformMatrix = 1 0 0 0 1 0 0 0 1 Offset = -150 -39 -27 CenterOfRotation = 0 0 0 AnatomicalOrientation = RAI ElementSpacing = 0.585938 0.585938 1 DimSize = 512 512 167 ElementType = MET_SHORT ElementDataFile = outputVolume.raw But I have still problem with surface to image option. It can not recognize image. Best, Agata 2014-04-01 21:41 GMT+02:00 Kislinskiy, Stefan <[email protected]<mailto:[email protected]>>: Hi Agata, I have a solution for you. :) Your mhd file is recognized as segmentation / binary image by MITK. This is indicated in the data manager through a red icon instead of the standard gray icon. The "Surface to Image" utility doesn't let you select segmentations. You have to open the properties view (sheet of paper and magnifier icon) and uncheck the "binary" property of your image. Now you can select the image as you would expect it. Cheers, Stefan PS: I'll discuss in our group why segnentation images are not accepted directly as this is a purely artificial restriction. If there is no good reason I'll change the utility in order that segmentation / binary images can be set as input as well. ________________________________________ Von: Agata Krasoń [[email protected]<mailto:[email protected]>] Gesendet: Dienstag, 1. April 2014 20:11 An: Fetzer, Andreas; [email protected]<mailto:[email protected]> Betreff: Re: [mitk-users] conversion mesh to image Hi Andreas, Ok, I usually send message on mailing list and You. STEPS : 1. Load vtk mesh file (I used icon "Open" in menu bar) 2. Load mhd file (image file) 3. I go to Segmentation utilities 4. I click option "Surface to image" 5. I choose vtk surface (it is fine) 5. I can not choose image data, finally "convert" button is no active (disabled) I attached pdf file with description and screenshots. I don't know exactly maybe I am doing something wrong ? Kind regards, Agata 2014-04-01 10:20 GMT+02:00 Fetzer, Andreas <[email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>>>: Hi Agata, please keep the conversation to the list so that other MITK users can also take benefit from your question. I tried the surface to image functionality also with this version of MITK and for me it works. Could you please describe us the detailed steps you are performing? In my case the button for converting is never disabled if I have both image volume and surface mesh loaded. Best regards Andreas From: Agata Krasoń [mailto:[email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>>] Sent: Donnerstag, 27. März 2014 14:39 To: Fetzer, Andreas Subject: Re: [mitk-users] conversion mesh to image Hi Andreas, I am using mitk version 2013.12 . I attached a screen with version description. Agata 2014-03-27 10:57 GMT+01:00 Fetzer, Andreas <[email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>>>: Hi Agata, It is not possible to load any volume. You need at least an image that encloses the surface you want to convert. I just tested it with the last MITK version and it worked fine. What version are you using? Andreas From: Agata Krasoń [mailto:[email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>>] Sent: Mittwoch, 26. März 2014 10:18 To: Fetzer, Andreas; [email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>> Subject: Re: [mitk-users] conversion mesh to image Hi Andreas, Thanks for very quick reply. I checked this option in MITK. I loaded model (triangle mesh vtk) and go to Segmentation Utilities -> Convert Surface to Volume. But It is required to add volume as regular data. I loaded any volume (mhd or vtk 3D image) . But I can not make conversion. It is not active this option "convert". I don't know, maybe I am doing something wrong ? Kind regards, Agata 2014-03-25 18:35 GMT+01:00 Fetzer, Andreas <[email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>>>: Hi Agata, you can have a look at the segmentation plugin. This plugin has a view called "Segmentation Utilities"which allows you to write a surface into a binary image. Best regards Andreas From: Agata Krasoń [mailto:[email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>>] Sent: Dienstag, 25. März 2014 17:35 To: [email protected]<mailto:[email protected]><mailto:[email protected]<mailto:[email protected]>> Subject: [mitk-users] conversion mesh to image Hi mitk users, I have a question concerning functionality in mitk. Is there any possibility to convert mesh to binary image ? I would appreciate for any info. Best, Agata
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