# Latest

**URL:** https://discourse.itk.org/latest.md?page=80

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

**Page:** 81

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## [itk::image to itk::vector](https://discourse.itk.org/t/itk-image-to-itk-vector/2335)

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**Author:** [@kdavis63](https://discourse.itk.org/u/kdavis63)\
**Replies:** 1\
**Last updated:** [October 21, 2019, 3:55pm UTC](https://discourse.itk.org/t/itk-image-to-itk-vector/2335 "2019-10-21T15:55:56Z")

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Sorry if I am missing something in the documentation, but after two days I feel completely at a loss. I am trying to do a transform on an itk::image. Specifically a FixedCenterOfRotationAffineTransform, basically a rotat…

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## [Compose image from different modality with different number of slices](https://discourse.itk.org/t/compose-image-from-different-modality-with-different-number-of-slices/2286)

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**Author:** [@Jigabytes](https://discourse.itk.org/u/Jigabytes)\
**Replies:** 14\
**Last updated:** [October 19, 2019, 11:56pm UTC](https://discourse.itk.org/t/compose-image-from-different-modality-with-different-number-of-slices/2286 "2019-10-19T23:56:34Z")

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Hi, I want to combine images from different modality into one composed image and then perform segmentation on it. My q is does itk have provision to compose two n dimensional images where number of slices in both differ…

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## [ITK Python Wrapping error: void value not ignored as it ought to be](https://discourse.itk.org/t/itk-python-wrapping-error-void-value-not-ignored-as-it-ought-to-be/948)

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**Author:** [@phcerdan](https://discourse.itk.org/u/phcerdan)\
**Replies:** 13\
**Last updated:** [October 19, 2019, 7:55am UTC](https://discourse.itk.org/t/itk-python-wrapping-error-void-value-not-ignored-as-it-ought-to-be/948 "2019-10-19T07:55:06Z")

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Building in debug mode from master. First time encountered here: Wrapping/Generators/Python/PyBase/ITKPyBasePython.cpp: In function ‘void init\_ITKPyBasePython()’: Wrapping/Generators/Python/PyBase/ITKPyBasePython.cpp:3…

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## [Big tiff problem again.](https://discourse.itk.org/t/big-tiff-problem-again/2329)

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**Author:** [@Gib](https://discourse.itk.org/u/Gib)\
**Replies:** 12\
**Last updated:** [October 18, 2019, 11:32pm UTC](https://discourse.itk.org/t/big-tiff-problem-again/2329 "2019-10-18T23:32:00Z")

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I am again encountering problems working with a tiff \> 2GB. (I inquired about a similar problem previously, and three of my posts were removed for being ads or promotional - it doesn’t make any sense to me.) I have use…

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## [difference open image with pydicom or sitk](https://discourse.itk.org/t/difference-open-image-with-pydicom-or-sitk/2332)

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**Author:** [@stag-phys](https://discourse.itk.org/u/stag-phys)\
**Replies:** 3\
**Last updated:** [October 18, 2019, 4:19pm UTC](https://discourse.itk.org/t/difference-open-image-with-pydicom-or-sitk/2332 "2019-10-18T16:19:09Z")

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Hello everybody, I tried to open a DICOM image with sitk.ReadImage. I don’t have any error message, so I can see the image with plt.imshow, but all the pixels of the image are equal to 0. If I try to open the same imag…

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## [Precompiled headers (PCH) in ITK](https://discourse.itk.org/t/precompiled-headers-pch-in-itk/2318)

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**Author:** [@phcerdan](https://discourse.itk.org/u/phcerdan)\
**Replies:** 2\
**Last updated:** [October 16, 2019, 9:33pm UTC](https://discourse.itk.org/t/precompiled-headers-pch-in-itk/2318 "2019-10-16T21:33:14Z")

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CMake 3.16.0 adds support for creating targets with precompiled headers. I wasn’t familiar with this term, but we have had discussions about instantiating templates to reduce the compile time of the library. It seems p…

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## [SLIC Superpixel Segmentation Algorithm](https://discourse.itk.org/t/slic-superpixel-segmentation-algorithm/1015)

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**Author:** [@blowekamp](https://discourse.itk.org/u/blowekamp)\
**Replies:** 19\
**Last updated:** [October 16, 2019, 12:09am UTC](https://discourse.itk.org/t/slic-superpixel-segmentation-algorithm/1015 "2019-10-16T00:09:59Z")

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We have written an Insight Journal (IJ) article describing our implementation of the simple linear iterative clustering (SLIC) super pixel algorithm. Although the upload process to IJ does not appear to be working right …

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## [Memory Leak in Image Registration using SimpleITK](https://discourse.itk.org/t/memory-leak-in-image-registration-using-simpleitk/2324)

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**Author:** [@Felippe\_Trigueiro\_An](https://discourse.itk.org/u/Felippe_Trigueiro_An)\
**Replies:** 5\
**Last updated:** [October 15, 2019, 4:49pm UTC](https://discourse.itk.org/t/memory-leak-in-image-registration-using-simpleitk/2324 "2019-10-15T16:49:44Z")

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Hi, I’m getting an Error when I try to increase the number of control points in the Image Registration using B-Splines. The error I got is: terminate called after throwing an instance of ‘itk::ExceptionObject’ what():…

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## [grayscale segmentation from binary mask](https://discourse.itk.org/t/grayscale-segmentation-from-binary-mask/1756)

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**Author:** [@Marco\_Festugato](https://discourse.itk.org/u/Marco_Festugato)\
**Replies:** 13\
**Last updated:** [October 14, 2019, 4:40am UTC](https://discourse.itk.org/t/grayscale-segmentation-from-binary-mask/1756 "2019-10-14T04:40:35Z")

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Hi guys, I’ve roughly segmented the liver using confidence connected. I have obtained a binary mask but what I need is to create an image containing ONLY the segmented liver using that mask. What I have to do is like ‘mu…

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## [Denoising filter on 64 bit Float pixel type image](https://discourse.itk.org/t/denoising-filter-on-64-bit-float-pixel-type-image/2306)

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**Author:** [@Jigabytes](https://discourse.itk.org/u/Jigabytes)\
**Replies:** 4\
**Last updated:** [October 13, 2019, 10:36pm UTC](https://discourse.itk.org/t/denoising-filter-on-64-bit-float-pixel-type-image/2306 "2019-10-13T22:36:26Z")

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Hi Team, I am getting below error when I try to get intensity statistics for labelled image. The pixel type for segmented image is 32-bit unsigned integer. I am using SLIC algo on base image with following type: pixel …

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## [Hardware configuration guidelines for image analysis problems using segmentation and machine learning](https://discourse.itk.org/t/hardware-configuration-guidelines-for-image-analysis-problems-using-segmentation-and-machine-learning/2322)

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**Author:** [@Jigabytes](https://discourse.itk.org/u/Jigabytes)\
**Replies:** 2\
**Last updated:** [October 13, 2019, 7:26pm UTC](https://discourse.itk.org/t/hardware-configuration-guidelines-for-image-analysis-problems-using-segmentation-and-machine-learning/2322 "2019-10-13T19:26:48Z")

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Hi, Are there guidelines on choice of hardware configuration to be made based on image segmentation problem using simple ITK and machine learning algos? Does all ITK filters execute the algorithm routines on GPU by defa…

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## [Does ITK already multiplies Rescale slope for each PET scan slice?](https://discourse.itk.org/t/does-itk-already-multiplies-rescale-slope-for-each-pet-scan-slice/2317)

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**Author:** [@Jigabytes](https://discourse.itk.org/u/Jigabytes)\
**Replies:** 2\
**Last updated:** [October 12, 2019, 10:36pm UTC](https://discourse.itk.org/t/does-itk-already-multiplies-rescale-slope-for-each-pet-scan-slice/2317 "2019-10-12T22:36:59Z")

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Hi, Does ITK reader already considers multiplying rescale slope to the stored value of pixel intensity? I want to confirm before I do this conversion of each pixel value in each slice of a 3D PET scan Thanks, Jiten

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## [DICOM color support](https://discourse.itk.org/t/dicom-color-support/2320)

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**Author:** [@dzenanz](https://discourse.itk.org/u/dzenanz)\
**Replies:** 0\
**Last updated:** [October 11, 2019, 2:33pm UTC](https://discourse.itk.org/t/dicom-color-support/2320 "2019-10-11T14:33:38Z")

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There is currently an external discussion going on on the wiki. Pitch in if you have a wiki account, otherwise you could reply to this thread.

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## [VectorResampleImageFilter on ITK5.0.1.](https://discourse.itk.org/t/vectorresampleimagefilter-on-itk5-0-1/2308)

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**Author:** [@hothao](https://discourse.itk.org/u/hothao)\
**Replies:** 8\
**Last updated:** [October 10, 2019, 2:36pm UTC](https://discourse.itk.org/t/vectorresampleimagefilter-on-itk5-0-1/2308 "2019-10-10T14:36:21Z")

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Hi everyone! I used VectorResampleImageFilter to resample vector images by ITK 4.12. And It isn’t working by ITK5.0.1. I’m trying with ResampleImageFilter to resample vector images. And I got error like that: Deformab…

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## [Unable to write dicom file with double values](https://discourse.itk.org/t/unable-to-write-dicom-file-with-double-values/2299)

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**Author:** [@Hasna\_R](https://discourse.itk.org/u/Hasna_R)\
**Replies:** 9\
**Last updated:** [October 9, 2019, 10:23am UTC](https://discourse.itk.org/t/unable-to-write-dicom-file-with-double-values/2299 "2019-10-09T10:23:33Z")

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Hi, I set pixel value of image with double value and tried to save image as dicom file. I am getting error like this “Description: itk::ERROR: GDCMImageIO(0573B7B0): A Floating point buffer was passed but the stored pi…

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## [Unable to update header tags and save dicom file](https://discourse.itk.org/t/unable-to-update-header-tags-and-save-dicom-file/2313)

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**Author:** [@Hasna\_R](https://discourse.itk.org/u/Hasna_R)\
**Replies:** 0\
**Last updated:** [October 9, 2019, 7:26am UTC](https://discourse.itk.org/t/unable-to-update-header-tags-and-save-dicom-file/2313 "2019-10-09T07:26:58Z")

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Hi, I am trying to create an image ,update some tags and save image as dicom file. If i set Meta Data Dictionary to image , writer is throwing an exception. Below is the code typedef itk::Image\<signed short , 2 \> Im…

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## [WBIR2020 - 9th International Workshop on Biomedical Image Registration](https://discourse.itk.org/t/wbir2020-9th-international-workshop-on-biomedical-image-registration/2310)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [October 8, 2019, 9:14pm UTC](https://discourse.itk.org/t/wbir2020-9th-international-workshop-on-biomedical-image-registration/2310 "2019-10-08T21:14:55Z")

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Portorož, Slovenia June 16 and 17, 2020 Website: wbir2020.org Twitter: @wbir2020 Manuscript submission deadline: Jan 10, 2020 Dear colleagues, We are pleased to announce the 9th International Workshop on Biomedi…

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## [What is an Axial brain CT scan ?](https://discourse.itk.org/t/what-is-an-axial-brain-ct-scan/2303)

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**Author:** [@EE18D504\_SINDHURA\_C](https://discourse.itk.org/u/EE18D504_SINDHURA_C)\
**Replies:** 1\
**Last updated:** [October 7, 2019, 6:19pm UTC](https://discourse.itk.org/t/what-is-an-axial-brain-ct-scan/2303 "2019-10-07T18:19:08Z")

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What is an Axial brain CT scan? Isn’t that the 3D CT image? I’m working with on the MevisLab to extract the midsagittal plane of the brain. The module says the input image must be transversal. What does it exactly mean? …

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## [Problem calculating volume ITK mesh](https://discourse.itk.org/t/problem-calculating-volume-itk-mesh/2297)

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**Author:** [@Elli](https://discourse.itk.org/u/Elli)\
**Replies:** 3\
**Last updated:** [October 7, 2019, 5:56pm UTC](https://discourse.itk.org/t/problem-calculating-volume-itk-mesh/2297 "2019-10-07T17:56:27Z")

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Dear all, I am facing a problem calculating the volume of an ITK mesh. Originally I have an image mask and converted this mask to a triangle mesh. In order to calculate the surface, I wanted to convert this mesh to a s…

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## [fatal: 'ITK/Modules/ThirdParty/GDCM/work/extract' is a missing but already registered worktree;](https://discourse.itk.org/t/fatal-itk-modules-thirdparty-gdcm-work-extract-is-a-missing-but-already-registered-worktree/2305)

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**Author:** [@mathieu.malaterre](https://discourse.itk.org/u/mathieu.malaterre)\
**Replies:** 3\
**Last updated:** [October 7, 2019, 2:30pm UTC](https://discourse.itk.org/t/fatal-itk-modules-thirdparty-gdcm-work-extract-is-a-missing-but-already-registered-worktree/2305 "2019-10-07T14:30:54Z")

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Hi there, I am trying to update GDCM module, and I have tried a naive: $ cd ~/ITK.git/Modules/ThirdParty/GDCM $ ./UpdateFromUpstream.sh But this fails with: Cloning into '/home/mmalaterre/workspace/ITK-upstream/Modul…

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## [missing nifti support for writing aux\_file meta data](https://discourse.itk.org/t/missing-nifti-support-for-writing-aux-file-meta-data/2261)

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**Author:** [@zivy](https://discourse.itk.org/u/zivy)\
**Replies:** 1\
**Last updated:** [October 7, 2019, 1:28pm UTC](https://discourse.itk.org/t/missing-nifti-support-for-writing-aux-file-meta-data/2261 "2019-10-07T13:28:51Z")

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Hi all, For some reason the ability to set the aux\_file meta-data for nifti files is not available. I expected the ITK writer to get the value from the meta-data dictionary but that is commented out. I assume there is a…

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## [ITK Python Quick Start Guide updated for ITK 5.0](https://discourse.itk.org/t/itk-python-quick-start-guide-updated-for-itk-5-0/2301)

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**Author:** [@matt.mccormick](https://discourse.itk.org/u/matt.mccormick)\
**Replies:** 0\
**Last updated:** [October 4, 2019, 6:33pm UTC](https://discourse.itk.org/t/itk-python-quick-start-guide-updated-for-itk-5-0/2301 "2019-10-04T18:33:49Z")

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The ITK Python Quick Start Guide has been updated for ITK 5.0! :tada: From basic examples, e.g.: import itk import sys input\_filename = sys.argv\[1\] output\_filename = sys.argv\[2\] image = itk.imread(input\_filename) me…

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## [How to pass a specific label to LabelOverlapMeasuresImageFilter](https://discourse.itk.org/t/how-to-pass-a-specific-label-to-labeloverlapmeasuresimagefilter/2300)

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**Author:** [@TanjaIvanovska](https://discourse.itk.org/u/TanjaIvanovska)\
**Replies:** 1\
**Last updated:** [October 4, 2019, 6:16pm UTC](https://discourse.itk.org/t/how-to-pass-a-specific-label-to-labeloverlapmeasuresimagefilter/2300 "2019-10-04T18:16:01Z")

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Hi, i would like to get values of the overlap measures for specific labels in my masks, and not just the averaged values for all mask labels. In the original code of Nick Tustison that was possible, but i do not find h…

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## [Undefined Reference error in using simpleitk in C++](https://discourse.itk.org/t/undefined-reference-error-in-using-simpleitk-in-c/2293)

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**Author:** [@Felippe\_Trigueiro\_An](https://discourse.itk.org/u/Felippe_Trigueiro_An)\
**Replies:** 8\
**Last updated:** [October 4, 2019, 4:37pm UTC](https://discourse.itk.org/t/undefined-reference-error-in-using-simpleitk-in-c/2293 "2019-10-04T16:37:39Z")

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I installed the simpleitk in my ubuntu 16.04 as described in this link (Building simpleITK) and I’m trying to use with QT creator. The problem is that I’m getting lots of undefined reference error, but I included ALL the…

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## [read and render transformed DICOM image from 3D slicer](https://discourse.itk.org/t/read-and-render-transformed-dicom-image-from-3d-slicer/2291)

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**Author:** [@TY\_Park](https://discourse.itk.org/u/TY_Park)\
**Replies:** 5\
**Last updated:** [October 4, 2019, 2:19am UTC](https://discourse.itk.org/t/read-and-render-transformed-dicom-image-from-3d-slicer/2291 "2019-10-04T02:19:24Z")

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I have the 2 DICOM images (MRI and CT) And I performed rigid registration between MRI and CT (the CT was transformed) in “3D Slicer” Then I would like to do volume rendering use transformed CT image However, the trans…

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## [CellPicker example glitch](https://discourse.itk.org/t/cellpicker-example-glitch/2295)

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**Author:** [@EmileSonneveld](https://discourse.itk.org/u/EmileSonneveld)\
**Replies:** 2\
**Last updated:** [October 2, 2019, 3:46pm UTC](https://discourse.itk.org/t/cellpicker-example-glitch/2295 "2019-10-02T15:46:09Z")

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Hi, In the following example there seem to have a glitch: https://kitware.github.io/vtk-js/examples/CellPicker.html Some points are considered to be on the Cell, while actually they appear in mid air. Is this intentio…

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## [CentOS: ITKConfig.cmake not found](https://discourse.itk.org/t/centos-itkconfig-cmake-not-found/2275)

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**Author:** [@OtagoHarbour](https://discourse.itk.org/u/OtagoHarbour)\
**Replies:** 4\
**Last updated:** [October 2, 2019, 1:11pm UTC](https://discourse.itk.org/t/centos-itkconfig-cmake-not-found/2275 "2019-10-02T13:11:25Z")

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I am using CentOS 7.6.1810 and have just installed itk and vtk using sudo yum localinstall InsightToolkit-4.9.1-1.sdl6.i686.rpm and sudo yum localinstall vtk-6.1.0-5.sdl7.x86\_64.rpm respectively. Both ran to complet…

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## [specifying bones by lines](https://discourse.itk.org/t/specifying-bones-by-lines/2289)

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**Author:** [@epilicer](https://discourse.itk.org/u/epilicer)\
**Replies:** 2\
**Last updated:** [October 2, 2019, 12:34am UTC](https://discourse.itk.org/t/specifying-bones-by-lines/2289 "2019-10-02T00:34:34Z")

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Hi, I am a physicist and have recently started to orient in data science. I came an idea to calculate the angle for the valgus deformation from an x-ray image (attachment). All I did for the moment is to read image and …

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## [Alpha-Mutual Information for multimodal images with different number of feature channels](https://discourse.itk.org/t/alpha-mutual-information-for-multimodal-images-with-different-number-of-feature-channels/2272)

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**Author:** [@take5v](https://discourse.itk.org/u/take5v)\
**Replies:** 3\
**Last updated:** [October 1, 2019, 3:34pm UTC](https://discourse.itk.org/t/alpha-mutual-information-for-multimodal-images-with-different-number-of-feature-channels/2272 "2019-10-01T15:34:40Z")

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Hi, There have been some studies done on high dimensional image registration using \\alpha-MI (Staring et al, 2009). The implementation of alpha-Mutual Information is available in elastix: http://elastix.isi.uu.nl/doxyge…

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## [Image Registration (3D volume)](https://discourse.itk.org/t/image-registration-3d-volume/2278)

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**Author:** [@maiada](https://discourse.itk.org/u/maiada)\
**Replies:** 1\
**Last updated:** [September 30, 2019, 2:25pm UTC](https://discourse.itk.org/t/image-registration-3d-volume/2278 "2019-09-30T14:25:00Z")

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i’m new in ITK and i’m asked to write image registration function in c++ similar to the one used in MATLAB (intensity-based) , by making intensity-based image registration between couple of 3D volumes Optimizer type is…

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