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Aug 4 2022

neher created T29254: [Myeloma] Calculate dice scores for external cohorts.

Aug 4 2022, 2:44 PM

neher closed T29223: Vergleichsmodell: Stufen des diffusen Befalls (Radiologen-Messung) as Resolved.

Aug 4 2022, 2:37 PM

Aug 2 2022

neher edited projects for T28849: Remove fiber parts only removes parts if point inside mask, added: MITK Diffusion; removed MITK.

Aug 2 2022, 1:48 PM · MITK Diffusion

neher closed T29251: Update readme as Resolved.

Aug 2 2022, 1:47 PM · MITK Diffusion

neher committed rMITKDIFFff73e42bcd4d: Merge branch 'T29251-Readme' (authored by neher).

Merge branch 'T29251-Readme'

Aug 2 2022, 10:20 AM

neher committed rMITKDIFF5bc7a2c5ce8f: Update readme (authored by neher).

Update readme

Aug 2 2022, 10:13 AM

neher claimed T29251: Update readme.

Aug 2 2022, 10:10 AM · MITK Diffusion

neher triaged T29251: Update readme as Normal priority.

Aug 2 2022, 10:10 AM · MITK Diffusion

neher closed T29109: diffusion to itk 5 as Resolved.

Aug 2 2022, 10:10 AM · MITK Diffusion

Jul 4 2022

neher added a comment to T29223: Vergleichsmodell: Stufen des diffusen Befalls (Radiologen-Messung).

Spalte mit Klassen: DB T1&T2&Diff

Jul 4 2022, 11:33 AM

Jun 11 2022

neher reassigned T28772: 2D fiber mapper and VTK9 from neher to r948e.

Jun 11 2022, 8:58 AM · MITK Diffusion

neher updated subscribers of T28772: 2D fiber mapper and VTK9.

Hi Nil. No update yet. @r948e , do you think you could look into this?

Jun 11 2022, 8:58 AM · MITK Diffusion

May 17 2022

neher committed rMITKDIFF2849e4058199: Merge branch 'T29109-DynamicItkThreading' (authored by neher).

Merge branch 'T29109-DynamicItkThreading'

May 17 2022, 11:52 AM

neher committed rMITKDIFFf06091d9c699: using new dynmic threading (authored by neher).

using new dynmic threading

May 17 2022, 11:51 AM

neher committed rMD5d36bd874a80: tensor tracking test data (authored by neher).

tensor tracking test data

May 17 2022, 11:14 AM

Apr 28 2022

neher committed rMITKDIFFe662335bc1bf: Merge branch 'T29109-itk5' (authored by neher).

Merge branch 'T29109-itk5'

Apr 28 2022, 2:18 PM

neher committed rMITKDIFFb8770e886e48: Setting DynamicMultiThreadingOff in all multithreaded filters to enforce old… (authored by neher).

Setting DynamicMultiThreadingOff in all multithreaded filters to enforce old…

Apr 28 2022, 2:14 PM

neher committed rMITKDIFFe4f5779a2bd0: using hxx for vnl includes. building now. to-do: testing (authored by neher).

using hxx for vnl includes. building now. to-do: testing

Apr 28 2022, 12:57 PM

Apr 27 2022

neher committed rMITKDIFFbbacaadf898e: adapted to itk5 (authored by neher).

adapted to itk5

Apr 27 2022, 2:15 PM

Apr 1 2022

neher committed rMITKDIFFb7049d6d25d2: itk 5 compatibility wip (authored by neher).

itk 5 compatibility wip

Apr 1 2022, 12:12 PM

neher triaged T29109: diffusion to itk 5 as High priority.

Apr 1 2022, 12:07 PM · MITK Diffusion

Mar 31 2022

neher committed rMITKDIFF2a48ddbaa8ea: Merge branch 'T28947-TractRad' (authored by neher).

Merge branch 'T28947-TractRad'

Mar 31 2022, 12:40 PM

Mar 9 2022

neher committed rMITKDIFF91c712d9559f: removed tract parcellation (authored by neher).

removed tract parcellation

Mar 9 2022, 11:56 AM

neher committed rMITKDIFF50ce689e30a6: Account for trackvis corner-based coordinates (authored by neher).

Account for trackvis corner-based coordinates

Mar 9 2022, 11:37 AM

neher committed rMITKDIFFc781f453a044: refactoring (authored by neher).

refactoring

Mar 9 2022, 11:34 AM

Feb 28 2022

neher committed rMITKDIFF52efa144000e: enabling more outputs (authored by neher).

enabling more outputs

Feb 28 2022, 3:12 PM

Feb 10 2022

neher committed rMITKDIFFa32d41634e6c: fixed stuck parcellation (authored by neher).

fixed stuck parcellation

Feb 10 2022, 3:48 PM

Feb 7 2022

neher committed rMITKDIFFf433cb5ca332: restructured cdmapps (authored by neher).

restructured cdmapps

Feb 7 2022, 3:57 PM

Feb 4 2022

neher committed rMITKDIFF3596f107e46d: num parcels parameter (authored by neher).

num parcels parameter

Feb 4 2022, 1:34 PM

neher committed rMITKDIFF67e23c7bac14: code for comparing tractometry approaches (authored by neher).

code for comparing tractometry approaches

Feb 4 2022, 12:41 PM

neher committed rMITKDIFF7c8673c42913: move tractometry out of view (authored by neher).

move tractometry out of view

Feb 4 2022, 12:41 PM

Feb 3 2022

neher committed rMITKDIFFb5b19e94e1bf: Interpolating image values (authored by neher).

Interpolating image values

Feb 3 2022, 2:42 PM

neher committed rMITKDIFFfff7dd9d37ca: Visualizing parcdellation statistics (authored by neher).

Visualizing parcdellation statistics

Feb 3 2022, 2:42 PM

Feb 2 2022

neher committed rMITKDIFF32917714164b: refactor color lookuptables. auto select number of segments. (authored by neher).

refactor color lookuptables. auto select number of segments.

Feb 2 2022, 11:32 AM

Jan 31 2022

neher committed rMITKDIFF7c2304981c16: added tract parcellation cmdapp (authored by neher).

added tract parcellation cmdapp

Jan 31 2022, 12:08 PM

neher committed rMITKDIFFeedf6efa5a6a: Created dedicated tract parcellation filter (authored by neher).

Created dedicated tract parcellation filter

Jan 31 2022, 12:08 PM

Jan 27 2022

neher committed rMITKDIFF7b0842815a80: tract parcellation (authored by neher).

tract parcellation

Jan 27 2022, 4:35 PM

Jan 26 2022

neher committed rMITKDIFFbaa78614307d: added basic segment creation (authored by neher).

added basic segment creation

Jan 26 2022, 1:17 PM

neher added a comment to T28947: tract rad.

Pushed new branch T28947-TractRad.

Jan 26 2022, 1:17 PM · MITK Diffusion

neher triaged T28947: tract rad as Wishlist priority.

Jan 26 2022, 12:28 PM · MITK Diffusion

Jan 7 2022

neher closed T28901: Finalize distance to surface cmdapp as Resolved.

Jan 7 2022, 8:53 AM · MITK Diffusion

neher added a comment to T28772: 2D fiber mapper and VTK9.

A new PhD student who is starting in February will work on MITK Diffusion again. He will also look into this.

Jan 7 2022, 8:52 AM · MITK Diffusion

Jan 4 2022

neher added a comment to T28772: 2D fiber mapper and VTK9.

Hi Nil. Thank you for testing! Did you directly compare the dataset performance with the old shader version? Just to make sure it's actually an issue with the clipping planes.

Jan 4 2022, 8:57 AM · MITK Diffusion

Dec 15 2021

neher closed T28867: Fiberfox test randomly fails as Wontfix.

Dec 15 2021, 11:03 AM · MITK Diffusion

neher committed rMITKDIFFb1bf62d1c76f: Merge branch 'T28901-DistanceToSurface' (authored by neher).

Merge branch 'T28901-DistanceToSurface'

Dec 15 2021, 10:17 AM

neher committed rMITKDIFF71ac9a636bbc: Added distance image output (authored by neher).

Added distance image output

Dec 15 2021, 10:16 AM

Dec 3 2021

neher committed rMITKDIFF329fc713a91a: Merge branch 'T28901-DistanceToSurface' (authored by neher).

Merge branch 'T28901-DistanceToSurface'

Dec 3 2021, 11:37 AM

neher committed rMITKDIFF45102e009f00: Printing volume statistics (authored by neher).

Printing volume statistics

Dec 3 2021, 11:36 AM

neher added a comment to T28901: Finalize distance to surface cmdapp.

Pushed new branch T28901-DistanceToSurface.

Dec 3 2021, 11:36 AM · MITK Diffusion

neher triaged T28901: Finalize distance to surface cmdapp as Normal priority.

Dec 3 2021, 11:26 AM · MITK Diffusion

Dec 1 2021

neher closed T28890: Fix probability normalization in prob tracking as Resolved.

Dec 1 2021, 11:49 AM · MITK Diffusion

neher committed rMITKDIFF2830a040a0b2: Merge branch 'T28890-StreamlineProbs' (authored by neher).

Merge branch 'T28890-StreamlineProbs'

Dec 1 2021, 11:22 AM

neher committed rMITKDIFFf6cc01a12291: Normalizing proabilities after directional weightin (authored by neher).

Normalizing proabilities after directional weightin

Dec 1 2021, 11:22 AM

neher added a comment to T28890: Fix probability normalization in prob tracking.

Pushed new branch T28890-StreamlineProbs.

Dec 1 2021, 11:22 AM · MITK Diffusion

neher triaged T28890: Fix probability normalization in prob tracking as Normal priority.

Dec 1 2021, 11:15 AM · MITK Diffusion

neher committed rMD7ed1d6623170: Update prob tracking reference (authored by neher).

Update prob tracking reference

Dec 1 2021, 11:15 AM

Nov 30 2021

neher created T28881: 3D interpolation mesh has inverted normals.

Nov 30 2021, 9:33 AM · Auto-closed, MITK

Nov 26 2021

neher closed T27601: Fiber2DSliceThickness in fiber processing as Resolved.

Nov 26 2021, 9:34 AM · MITK Diffusion

neher closed T27699: mitkCommandLineParser should allow arbitrary types with input/output flag as Resolved.

Nov 26 2021, 9:34 AM · MITK

neher closed T28872: Diffusion registration crashes when two non-diffusion-weighted images are registered as Resolved.

Nov 26 2021, 9:33 AM · MITK Diffusion

neher closed T27419: Fix dartclient documentation build as Resolved.

Nov 26 2021, 9:33 AM · MITK Diffusion

Nov 25 2021

neher closed T28875: Refactor ODF normalization for streamline tracking as Resolved.

Nov 25 2021, 12:01 PM · MITK Diffusion

neher committed rMITKDIFF12917e7439e4: Merge branch 'T28875-OdfNormalization' (authored by neher).

Merge branch 'T28875-OdfNormalization'

Nov 25 2021, 11:10 AM

neher added a comment to T28875: Refactor ODF normalization for streamline tracking.

Pushed new branch T28875-OdfNormalization.

Nov 25 2021, 11:09 AM · MITK Diffusion

neher committed rMITKDIFFe1364c9083b6: Using sharpening for tensor tracking. No min-max sharpening (authored by neher).

Using sharpening for tensor tracking. No min-max sharpening

Nov 25 2021, 11:09 AM

neher committed rMDf47f5098b8b0: Update streamline tracking reference (authored by neher).

Update streamline tracking reference

Nov 25 2021, 11:09 AM

neher triaged T28875: Refactor ODF normalization for streamline tracking as High priority.

Nov 25 2021, 9:33 AM · MITK Diffusion

Nov 22 2021

neher committed rMITKDIFF1bc1f9c63130: Merge branch 'T28872-Registration' (authored by neher).

Merge branch 'T28872-Registration'

Nov 22 2021, 12:45 PM

neher committed rMITKDIFF93ad4096f56e: Ctaching non diff images (authored by neher).

Ctaching non diff images

Nov 22 2021, 12:39 PM

neher added a comment to T28872: Diffusion registration crashes when two non-diffusion-weighted images are registered.

Pushed new branch T28872-Registration.

Nov 22 2021, 12:39 PM · MITK Diffusion

neher triaged T28872: Diffusion registration crashes when two non-diffusion-weighted images are registered as Normal priority.

Nov 22 2021, 11:14 AM · MITK Diffusion

Nov 19 2021

neher committed rMITKDIFF0ea02355d8f3: Merge branch 'T28867-FiberfoxTest' (authored by neher).

Merge branch 'T28867-FiberfoxTest'

Nov 19 2021, 11:11 AM

neher committed rMITKDIFF0b82b32bd2e8: Outputting gradient index (authored by neher).

Outputting gradient index

Nov 19 2021, 11:11 AM

neher added a comment to T28867: Fiberfox test randomly fails.

Pushed new branch T28867-FiberfoxTest.

Nov 19 2021, 11:11 AM · MITK Diffusion

neher triaged T28867: Fiberfox test randomly fails as High priority.

Nov 19 2021, 11:10 AM · MITK Diffusion

neher closed T28831: dMRI nonlocal means denoising crashes as Wontfix.

Nov 19 2021, 11:09 AM · MITK Diffusion

neher reopened T28831: dMRI nonlocal means denoising crashes as "Open".

Nov 19 2021, 11:08 AM · MITK Diffusion

neher closed T28831: dMRI nonlocal means denoising crashes as Wontfix.

Nov 19 2021, 11:07 AM · MITK Diffusion

Nov 18 2021

neher lowered the priority of T26413: Nifti2 support from Normal to Wishlist.

Nov 18 2021, 3:35 PM · Auto-closed, Missing Info, MITK

neher closed T26960: Fiber mapper test fails as Resolved.

Nov 18 2021, 3:34 PM · MITK Diffusion

neher added a comment to T28831: dMRI nonlocal means denoising crashes.

I think there is a bug in the itk filter. itkPatchBasedDenoisingImageFilter normalizes the patch weights to center weigh=1, i.e. the other weights might very well become > 1. In a next step it is asserted that the weights are <=1, leading to a crash (PatchBasedDenoisingBaseImageFilter<TInputImage, TOutputImage>
::SetPatchWeights).

Nov 18 2021, 3:09 PM · MITK Diffusion

neher closed T28863: Fix diffusion property serializer test as Resolved.

Nov 18 2021, 2:13 PM · MITK Diffusion

neher committed rMITKDIFF71a5dfd31e51: Merge branch 'T28863-DiffPropSerializerTest' (authored by neher).

Merge branch 'T28863-DiffPropSerializerTest'

Nov 18 2021, 2:13 PM

neher committed rMITKDIFF75730eed4594: Adapted to VectorPropertySerializerTest (authored by neher).

Adapted to VectorPropertySerializerTest

Nov 18 2021, 2:12 PM

neher added a comment to T28863: Fix diffusion property serializer test.

Pushed new branch T28863-DiffPropSerializerTest.

Nov 18 2021, 2:12 PM · MITK Diffusion

neher triaged T28863: Fix diffusion property serializer test as Normal priority.

Nov 18 2021, 2:11 PM · MITK Diffusion

neher closed T28832: Headmotion correction fails as Invalid.

Nov 18 2021, 12:44 PM · MITK Diffusion

neher added a comment to T28832: Headmotion correction fails.

can't reproduce

Nov 18 2021, 12:44 PM · MITK Diffusion

neher committed rMDccd7110f0dbd: Update fiber rendering test data (authored by neher).

Update fiber rendering test data

Nov 18 2021, 12:25 PM

Nov 17 2021

neher closed T28859: Fix connectomics test as Resolved.

Nov 17 2021, 2:49 PM · MITK Diffusion

neher committed rMITKDIFFcd0e2e751ca3: Merge branch 'T28859-ConnectomicsReader' (authored by neher).

Merge branch 'T28859-ConnectomicsReader'

Nov 17 2021, 2:48 PM

neher committed rMITKDIFFe5b1395a9542: Fix error handling (authored by neher).

Fix error handling

Nov 17 2021, 2:48 PM

neher added a comment to T28859: Fix connectomics test.

Pushed new branch T28859-ConnectomicsReader.

Nov 17 2021, 2:48 PM · MITK Diffusion

neher triaged T28859: Fix connectomics test as Normal priority.

Nov 17 2021, 2:46 PM · MITK Diffusion

neher closed T28858: Fix fiber fit test as Resolved.

Nov 17 2021, 1:36 PM · MITK Diffusion

neher committed rMITKDIFFa74b258e0e97: Merge branch 'T28858-FiberFitTest' (authored by neher).

Merge branch 'T28858-FiberFitTest'

Nov 17 2021, 1:35 PM

neher committed rMITKDIFFe0b0bfed50bf: Recognizing nrrd files as peak images (authored by neher).

Recognizing nrrd files as peak images

Nov 17 2021, 1:34 PM

neher added a comment to T28858: Fix fiber fit test.

Pushed new branch T28858-FiberFitTest.

Nov 17 2021, 1:34 PM · MITK Diffusion

neher triaged T28858: Fix fiber fit test as Normal priority.

Nov 17 2021, 1:33 PM · MITK Diffusion

neher committed rMD2e978b73f845: Update fiber generation test files (authored by neher).

Update fiber generation test files

Nov 17 2021, 1:32 PM