# Latest

**URL:** https://discourse.itk.org/latest.md?page=61

[Latest](https://discourse.itk.org/latest.md) · [Categories](https://discourse.itk.org/categories.md) · [Tags](https://discourse.itk.org/tags.md)

**Page:** 62

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## [read dicom series image by http](https://discourse.itk.org/t/read-dicom-series-image-by-http/3453)

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**Author:** [@laoniu2020](https://discourse.itk.org/u/laoniu2020)\
**Replies:** 0\
**Last updated:** [September 9, 2020, 8:41am UTC](https://discourse.itk.org/t/read-dicom-series-image-by-http/3453 "2020-09-09T08:41:54Z")

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env: vtk.js itk.js I have dicom images on the server. And I need to request images by http for vtk pipline. I cannot find the vtk method to archieve this goal. So I want to do this by itk and then convert to vtk image. …

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## [region of interest](https://discourse.itk.org/t/region-of-interest/3451)

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**Author:** [@mumu](https://discourse.itk.org/u/mumu)\
**Replies:** 1\
**Last updated:** [September 9, 2020, 2:57pm UTC](https://discourse.itk.org/t/region-of-interest/3451 "2020-09-09T14:57:05Z")

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In the ImageReadRegionOfInterestWrite.cxx example, where start\[0\]=atoi(argv\[3\]);start\[1\]=atoi(argv\[4\]);size\[0\]=atoi(\[argv\[5\]\]);size \[1\]=atoi(\[argv\[6\]\]) What should I fill in?

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## [Simplex Mesh Deformable Model 3D wtih texture images](https://discourse.itk.org/t/simplex-mesh-deformable-model-3d-wtih-texture-images/3447)

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**Author:** [@Leonardo\_Henrique](https://discourse.itk.org/u/Leonardo_Henrique)\
**Replies:** 1\
**Last updated:** [September 8, 2020, 7:12pm UTC](https://discourse.itk.org/t/simplex-mesh-deformable-model-3d-wtih-texture-images/3447 "2020-09-08T19:12:09Z")

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Hi itk-developers, I’m using the itkDeformableSimplexMesh3DFilter to make a local adjustment of a simplex mesh. I was inserting a gradient image in the deform filter, however I want to insert a texture image instead of …

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## [itkLevelSetDomainMapImageFilter](https://discourse.itk.org/t/itklevelsetdomainmapimagefilter/3436)

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**Author:** [@rfrank](https://discourse.itk.org/u/rfrank)\
**Replies:** 1\
**Last updated:** [September 8, 2020, 1:12am UTC](https://discourse.itk.org/t/itklevelsetdomainmapimagefilter/3436 "2020-09-08T01:12:01Z")

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I am using this filter in a 3D image. I am wondering if others have noticed the O(n^3) (or thereabouts) nature of this filter and if they have found a different way. It seems to apply labels by a search across the entir…

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## [GPU filter (anisotropic diffusion) pipeline - memory allocation issue (itk-4.7.0)](https://discourse.itk.org/t/gpu-filter-anisotropic-diffusion-pipeline-memory-allocation-issue-itk-4-7-0/3439)

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**Author:** [@phil](https://discourse.itk.org/u/phil)\
**Replies:** 1\
**Last updated:** [September 7, 2020, 1:53pm UTC](https://discourse.itk.org/t/gpu-filter-anisotropic-diffusion-pipeline-memory-allocation-issue-itk-4-7-0/3439 "2020-09-07T13:53:08Z")

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Dear all, I’m using not the newest version of ITK (4.7.0) because I’ve some older code framework where an upgrade to a more recent ITK version is only planned beginning of next year. Still, I hope you can help me with …

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## [Xray visualization problem (monochrome2)](https://discourse.itk.org/t/xray-visualization-problem-monochrome2/3440)

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**Author:** [@Gokce\_Guven](https://discourse.itk.org/u/Gokce_Guven)\
**Replies:** 1\
**Last updated:** [September 6, 2020, 9:56pm UTC](https://discourse.itk.org/t/xray-visualization-problem-monochrome2/3440 "2020-09-06T21:56:16Z")

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Hi, I tried to resample an xray image which has a monochrome2 type photometric interpretation (data type: uint16). I couldn’t create an image. By using pydicom, I managed to visualize with pixel array functionality. xr…

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## [Mismatch of image view and its actual dimensions](https://discourse.itk.org/t/mismatch-of-image-view-and-its-actual-dimensions/3433)

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**Author:** [@a10227](https://discourse.itk.org/u/a10227)\
**Replies:** 2\
**Last updated:** [September 4, 2020, 1:13pm UTC](https://discourse.itk.org/t/mismatch-of-image-view-and-its-actual-dimensions/3433 "2020-09-04T13:13:25Z")

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I noticed a mismatch between the image dimensions and its view in ITKSnap (in other viewers the view is the same as in ITKSnap). The dimension of the image is 512 \* 233. On the left side is the image view in ITKSnap, on …

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## [Is there any good tutorial or example for coronary artery segmentation using itk&vtk](https://discourse.itk.org/t/is-there-any-good-tutorial-or-example-for-coronary-artery-segmentation-using-itk-vtk/3420)

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**Author:** [@kaiyan\_liu](https://discourse.itk.org/u/kaiyan_liu)\
**Replies:** 5\
**Last updated:** [September 3, 2020, 6:57pm UTC](https://discourse.itk.org/t/is-there-any-good-tutorial-or-example-for-coronary-artery-segmentation-using-itk-vtk/3420 "2020-09-03T18:57:16Z")

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I have a series of CT pictures(dicom format) of patients’ heart. I would like to get coronary artery segmentation(with 3d display) from these files. I have try to use 3d slicer and VMTK to do these . these two software …

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## [Was itk::simple::AdaptiveHistogramEqualizationImageFilter ever multi-threaded?](https://discourse.itk.org/t/was-itk-adaptivehistogramequalizationimagefilter-ever-multi-threaded/3424)

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**Author:** [@gfleishman](https://discourse.itk.org/u/gfleishman)\
**Replies:** 1\
**Last updated:** [September 2, 2020, 1:39pm UTC](https://discourse.itk.org/t/was-itk-adaptivehistogramequalizationimagefilter-ever-multi-threaded/3424 "2020-09-02T13:39:10Z")

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Would like to run this filter on some real big images: ~ 8K x 10K x 2K voxels. Have a cluster and can multi-thread as much as necessary. Per: https://itk.org/pipermail/community/2015-October/010010.html, was this filte…

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## [Integrating ITK and VTK - a Survey](https://discourse.itk.org/t/integrating-itk-and-vtk-a-survey/3425)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [September 2, 2020, 2:42am UTC](https://discourse.itk.org/t/integrating-itk-and-vtk-a-survey/3425 "2020-09-02T02:42:53Z")

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Dear ITK, VTK, 3D Slicer, and ParaView communities, We need your input! We would like community feedback on our plans to create an enhanced version of the Visualization Toolkit (VTK) that includes the image segmentation…

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## [ITK 5.1.1 has been released!](https://discourse.itk.org/t/itk-5-1-1-has-been-released/3422)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [August 31, 2020, 10:50pm UTC](https://discourse.itk.org/t/itk-5-1-1-has-been-released/3422 "2020-08-31T22:50:44Z")

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We are happy to announce the Insight Toolkit (ITK) 5.1.1! :tada: ITK is an open-source, cross-platform toolkit for N-dimensional scientific image processing, segmentation, and registration. Python Packages Install ITK …

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## [SimpleITK 2.0 Release Candidate 3](https://discourse.itk.org/t/simpleitk-2-0-release-candidate-3/3417)

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**Author:** [@blowekamp](https://discourse.itk.org/u/blowekamp)\
**Replies:** 0\
**Last updated:** [August 28, 2020, 7:38pm UTC](https://discourse.itk.org/t/simpleitk-2-0-release-candidate-3/3417 "2020-08-28T19:38:57Z")

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Announcement Announcing the SimpleITK 2.0 Release Candidate 3! This is anticipated to be the last release candidate before the 2.0 final. Users and developers are encouraged to test the RC before the final release and r…

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## [Using DCMTK](https://discourse.itk.org/t/using-dcmtk/3416)

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**Author:** [@grsabourin](https://discourse.itk.org/u/grsabourin)\
**Replies:** 2\
**Last updated:** [August 28, 2020, 6:11pm UTC](https://discourse.itk.org/t/using-dcmtk/3416 "2020-08-28T18:11:19Z")

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Hi, I’m trying to compile a simple application to be able to read images from DCMTK. For now this application contains no code instead of a main #include “itkImage.h” #include “itkDCMTKImageIO.h” int main ( ) { ret…

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## [convert rgb to rgba](https://discourse.itk.org/t/convert-rgb-to-rgba/3414)

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**Author:** [@Henco](https://discourse.itk.org/u/Henco)\
**Replies:** 4\
**Last updated:** [August 28, 2020, 5:29pm UTC](https://discourse.itk.org/t/convert-rgb-to-rgba/3414 "2020-08-28T17:29:03Z")

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Hi all, I’m attempting to convert an RGB pixel type image to a RGBA pixel type image, as I would like to be able to overlay it on another image and therefore need it to be slightly transparent. I tried to cast using itk…

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## [add alpha channel to an image in simpleitk](https://discourse.itk.org/t/add-alpha-channel-to-an-image-in-simpleitk/2665)

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**Author:** [@kayarre](https://discourse.itk.org/u/kayarre)\
**Replies:** 1\
**Last updated:** [January 31, 2020, 2:09pm UTC](https://discourse.itk.org/t/add-alpha-channel-to-an-image-in-simpleitk/2665 "2020-01-31T14:09:13Z")

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I have a group of rgb images and want to add an alpha channel, but am not sure how to do that or where to look? is the easiest option to create an empty rgba file with similar attributes as the rgb file and copy the rgb…

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## [ITK in the Arctic Vault as part of the GitHub Archive Program](https://discourse.itk.org/t/itk-in-the-arctic-vault-as-part-of-the-github-archive-program/3412)

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**Author:** [@agirault](https://discourse.itk.org/u/agirault)\
**Replies:** 1\
**Last updated:** [August 26, 2020, 11:16pm UTC](https://discourse.itk.org/t/itk-in-the-arctic-vault-as-part-of-the-github-archive-program/3412 "2020-08-26T23:16:58Z")

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Note: I’m basically posting a duplicate of this post for VTK/vtk.js I got a notification today on my GitHub profile that I was an :snowflake:Artic Code Vault Contributor : This links to the GitHub Archive Prog…

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## [Build error: undefined reference](https://discourse.itk.org/t/build-error-undefined-reference/3406)

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**Author:** [@yuhuimoon](https://discourse.itk.org/u/yuhuimoon)\
**Replies:** 2\
**Last updated:** [August 26, 2020, 3:07pm UTC](https://discourse.itk.org/t/build-error-undefined-reference/3406 "2020-08-26T15:07:13Z")

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I have configured the ITK5.1.0 with cmake-gui and generated the makefile successfully. I use Qt5.12.4. CMAKE\_BUILD\_TYPE I select is Debug. The VTK library I link is 9.0.1 with Debug. I check the option Module\_ITKVtkGlue,…

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## [The Similarity Measure](https://discourse.itk.org/t/the-similarity-measure/3399)

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**Author:** [@TJH123456](https://discourse.itk.org/u/TJH123456)\
**Replies:** 10\
**Last updated:** [August 24, 2020, 4:18pm UTC](https://discourse.itk.org/t/the-similarity-measure/3399 "2020-08-24T16:18:30Z")

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Hello I have a question. In the similarity measure, there is a “jointhistogrammutualinformation”. I want to know whether this is to calculate the mutual information value, rather than calculate the derived value of mutu…

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## [Doubts about evaluating metric](https://discourse.itk.org/t/doubts-about-evaluating-metric/3400)

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**Author:** [@TJH123456](https://discourse.itk.org/u/TJH123456)\
**Replies:** 4\
**Last updated:** [August 19, 2020, 2:24pm UTC](https://discourse.itk.org/t/doubts-about-evaluating-metric/3400 "2020-08-19T14:24:29Z")

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Hello I have a very confused question. When calculating the similarity of two identical images, the value obtained should be 1 or greater than 1 (because I don’t know whether the value is normalized or not), but a very …

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## [Managing memory in VTKImageToImageFilter](https://discourse.itk.org/t/managing-memory-in-vtkimagetoimagefilter/3401)

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**Author:** [@phcerdan](https://discourse.itk.org/u/phcerdan)\
**Replies:** 0\
**Last updated:** [August 19, 2020, 10:44am UTC](https://discourse.itk.org/t/managing-memory-in-vtkimagetoimagefilter/3401 "2020-08-19T10:44:07Z")

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I am sharing my recent experience with VTKImageToImageFilter. I have a function poly\_data\_to\_binary\_image that creates an image from an input vtkPolyData, and using an input ITK image as a reference for dimensions and m…

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## [How to enable nifti2 library](https://discourse.itk.org/t/how-to-enable-nifti2-library/3397)

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**Author:** [@lassoan](https://discourse.itk.org/u/lassoan)\
**Replies:** 3\
**Last updated:** [August 18, 2020, 2:26pm UTC](https://discourse.itk.org/t/how-to-enable-nifti2-library/3397 "2020-08-18T14:26:24Z")

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I would like to try using nifti2 library, but if I set USE\_NIFTI2\_CODE then it gets reverted to USE\_NIFTI2\_CODE=OFF in this line: Is this intentional?

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## [Create and save mesh inside of another mesh in .ply format](https://discourse.itk.org/t/create-and-save-mesh-inside-of-another-mesh-in-ply-format/3381)

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**Author:** [@isuruwi](https://discourse.itk.org/u/isuruwi)\
**Replies:** 1\
**Last updated:** [August 17, 2020, 11:07pm UTC](https://discourse.itk.org/t/create-and-save-mesh-inside-of-another-mesh-in-ply-format/3381 "2020-08-17T23:07:10Z")

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I want to create and save a mesh inside of another mesh. I just create and render it as below using VTK, but how I can save this as to a single .ply file? If so how can I do that? On the other hand, I can give opacity …

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## [SimpleITK, A Simplified Path to Insight: Asynchronous Online Tutorial](https://discourse.itk.org/t/simpleitk-a-simplified-path-to-insight-asynchronous-online-tutorial/3396)

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**Author:** [@zivy](https://discourse.itk.org/u/zivy)\
**Replies:** 0\
**Last updated:** [August 17, 2020, 4:38pm UTC](https://discourse.itk.org/t/simpleitk-a-simplified-path-to-insight-asynchronous-online-tutorial/3396 "2020-08-17T16:38:14Z")

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With the COVID19 pandemic, no in person SimpleITK tutorials will be given this year. Instead, we have created an online tutorial using Python Jupyter notebooks with accompanying YouTube videos. This asynchronous learning…

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## [Files reading issues. Can you please help?](https://discourse.itk.org/t/files-reading-issues-can-you-please-help/3375)

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**Author:** [@blizzardboi\_2020](https://discourse.itk.org/u/blizzardboi_2020)\
**Replies:** 10\
**Last updated:** [August 17, 2020, 1:00pm UTC](https://discourse.itk.org/t/files-reading-issues-can-you-please-help/3375 "2020-08-17T13:00:05Z")

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C:/Users/ Desktop/train/’ PX1\_0000- T2W.nii.gz + seg.nii.gz PX1\_0001- T2W.nii.gz+ seg.nii.gz . . … PX1\_0200- T2W.nii.gz+ seg.nii path1='C:/Users/Desktop/train/' def load\_data(path): my\_dir = sorted(os.listdir(pa…

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## [Adapt 2D/3D two image registration for one image](https://discourse.itk.org/t/adapt-2d-3d-two-image-registration-for-one-image/3394)

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**Author:** [@Henco](https://discourse.itk.org/u/Henco)\
**Replies:** 0\
**Last updated:** [August 14, 2020, 2:09pm UTC](https://discourse.itk.org/t/adapt-2d-3d-two-image-registration-for-one-image/3394 "2020-08-14T14:09:23Z")

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Hi all, I’m attempting to adapt the TwoProjectionRegistration module to work with only one X-ray. I’ve changed “itkTwoProjectionImageRegistrationMethod.h” with “itkImageRegistrationMethod.h” and “itkNormalizedCorrelatio…

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## [itkToVtkImageFilter: Why is the resulting image upside down?](https://discourse.itk.org/t/itktovtkimagefilter-why-is-the-resulting-image-upside-down/3373)

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**Author:** [@msrepo](https://discourse.itk.org/u/msrepo)\
**Replies:** 5\
**Last updated:** [August 14, 2020, 11:22am UTC](https://discourse.itk.org/t/itktovtkimagefilter-why-is-the-resulting-image-upside-down/3373 "2020-08-14T11:22:31Z")

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Hi all, I ran this code which uses itktovtkglue to render an image. I do not understand why the resulting image in the window is upside down(flipped)? Using a QuickView viewer gives the option to revert back but what cou…

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## [sitkBSpline vs sitkBSplineResampler](https://discourse.itk.org/t/sitkbspline-vs-sitkbsplineresampler/3390)

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**Author:** [@reox](https://discourse.itk.org/u/reox)\
**Replies:** 5\
**Last updated:** [August 14, 2020, 5:23am UTC](https://discourse.itk.org/t/sitkbspline-vs-sitkbsplineresampler/3390 "2020-08-14T05:23:03Z")

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I noticed that when resampling an image using sitkBSpline, the background would not always be zero. Here is an example: import SimpleITK as sitk import numpy as np x = np.zeros((20,20)) x\[5:15,5:15\] = 1 img = sitk.GetI…

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## [Median Filter for 3d data](https://discourse.itk.org/t/median-filter-for-3d-data/3376)

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**Author:** [@Hasna](https://discourse.itk.org/u/Hasna)\
**Replies:** 8\
**Last updated:** [August 12, 2020, 11:45am UTC](https://discourse.itk.org/t/median-filter-for-3d-data/3376 "2020-08-12T11:45:13Z")

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Hi all, Is there median filter which works with 3D data in itk?

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## [How to determine the order of the translation, rotation, and scaling in affine transform.](https://discourse.itk.org/t/how-to-determine-the-order-of-the-translation-rotation-and-scaling-in-affine-transform/3380)

<div class="topic-metadata">

**Author:** [@yongjun\_wang](https://discourse.itk.org/u/yongjun_wang)\
**Replies:** 2\
**Last updated:** [August 12, 2020, 5:20am UTC](https://discourse.itk.org/t/how-to-determine-the-order-of-the-translation-rotation-and-scaling-in-affine-transform/3380 "2020-08-12T05:20:46Z")

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If it includes translation, rotation, and scaling at the same time, how to determine the order of the three transformations? Thinks!

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## [mutual information entropy](https://discourse.itk.org/t/mutual-information-entropy/3341)

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**Author:** [@TJH123456](https://discourse.itk.org/u/TJH123456)\
**Replies:** 9\
**Last updated:** [August 11, 2020, 2:04pm UTC](https://discourse.itk.org/t/mutual-information-entropy/3341 "2020-08-11T14:04:12Z")

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Hello I want to ask that in the metrics class of sklearn package, \[mutual\_ info\_ score\] is used to calculate Shannon’s mutual information entropy? If not, is there any way to calculate it? If so, is it accurate? Because…

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