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May 27 2023

s635r committed rOBSHYPPOPY90d137d36879: solver cleanup (authored by s635r).
solver cleanup
May 27 2023, 11:45 AM
s635r committed rOBSHYPPOPY4cc9a6cc0092: bugfix requirements (authored by s635r).
bugfix requirements
May 27 2023, 11:45 AM
s635r committed rOBSHYPPOPY3d3da165950f: dependency removed (authored by s635r).
dependency removed
May 27 2023, 11:45 AM
s635r committed rOBSHYPPOPY5beae2c122b5: release 0.4.0.1 (authored by s635r).
release 0.4.0.1
May 27 2023, 11:45 AM
s635r committed rOBSHYPPOPYb96f9aa01ad4: release 0.4.0.2 (authored by s635r).
release 0.4.0.2
May 27 2023, 11:45 AM
s635r committed rOBSHYPPOPY0d6cad67aea5: bugfix loss_function_call, tests improved (authored by s635r).
bugfix loss_function_call, tests improved
May 27 2023, 11:45 AM
GitHub <noreply@github.com> committed rOBSHYPPOPY69fcc22c5812: Update README.md (authored by s635r).
Update README.md
May 27 2023, 11:45 AM
s635r committed rOBSHYPPOPY0b71c6ac5fff: license update (authored by s635r).
license update
May 27 2023, 11:45 AM
GitHub <noreply@github.com> committed rOBSHYPPOPY285148c4ffd9: Update README.md (authored by s635r).
Update README.md
May 27 2023, 11:45 AM
GitHub <noreply@github.com> committed rOBSHYPPOPY58913f723e6a: Update README.md (authored by s635r).
Update README.md
May 27 2023, 11:45 AM
GitHub <noreply@github.com> committed rOBSHYPPOPYfe655c7bfc1c: Update README.md (authored by s635r).
Update README.md
May 27 2023, 11:45 AM
s635r committed rOBSHYPPOPY271f146fc4f9: README changed (authored by s635r).
README changed
May 27 2023, 11:45 AM
Unknown Object (User) created T29622: How to Download Instagram Videos Easily and Quickly Using instafinstaHD.
May 27 2023, 9:13 AM

May 25 2023

s434n closed T26555: [mxn multi widget] Provide different default layouts, a subtask of T28578: [mxn multi widget] Optimization of the mxn multi widget, as Resolved.
May 25 2023, 4:33 PM · Moved to git.dkfz.de, MITK
s434n closed T26555: [mxn multi widget] Provide different default layouts as Resolved.

During our testing event there were no suggestions for new layouts people would like, so this task will be closed and any layouts that are requested in the future can be added on demand.

May 25 2023, 4:33 PM · MITK

May 24 2023

floca added a project to T29620: Check if GenericFitMiniApp supports the needed model: Missing Info.

please ask tanja before I say something wrong.

May 24 2023, 7:31 PM · Missing Info, MITK, Restricted Project, Restricted Project
s434n added a comment to T29620: Check if GenericFitMiniApp supports the needed model.

What exactly was the model again? Just an exponential decay?

May 24 2023, 5:54 PM · Missing Info, MITK, Restricted Project, Restricted Project
floca triaged T29620: Check if GenericFitMiniApp supports the needed model as Normal priority.
May 24 2023, 5:47 PM · Missing Info, MITK, Restricted Project, Restricted Project
s434n created T29616: [DICOM] Add option to save images as DICOM.
May 24 2023, 4:45 PM · Moved to git.dkfz.de, MITK (v2024.12)
a178n triaged T29615: [Segmentation] Multi-threading support for compute heavy tools as Normal priority.
May 24 2023, 1:47 PM · Moved to git.dkfz.de, MITK
a178n closed T29614: [Segmentation] "Ignore Label Lock" wipes off any label present in it as Invalid.

Ya, you are right. I didn't think it through. A Group cannot have overlapping labels. Hence, when asked to Ignore Label lock, would mean it has to go when Otsu-generated labels are confirmed.

May 24 2023, 1:36 PM · MITK
s434n added a comment to T29608: [Segmentation Utils] Workbench crashes for Morphological operations.

This is more of the stack trace:

MitkCore.dll!mitk::ImageDataItem::GetData() Zeile 131
MitkCore.dll!mitk::Image::Image(const mitk::Image & other) Zeile 83
MitkMultilabel.dll!mitk::LabelSetImage::LabelSetImage(const mitk::LabelSetImage & other) Zeile 75
MitkMultilabel.dll!mitk::LabelSetImage::InternalClone() Zeile 494
MitkMultilabel.dll!mitk::LabelSetImage::Clone() Zeile 33
MitkSegmentationUI.dll!ModifyLabelProcessing<3>(mitk::LabelSetImage * labelSetImage, itk::SmartPointer<mitk::SurfaceInterpolationController> surfaceInterpolator, unsigned int timePoint) Zeile 203
MitkSegmentationUI.dll!QmitkSlicesInterpolator::OnModifyLabelChanged(const itk::Object * caller, const itk::EventObject & __formal) Zeile 1915
May 24 2023, 10:35 AM · MITK (v2023.12)
floca added a comment to T29608: [Segmentation Utils] Workbench crashes for Morphological operations.

No that should not happen. What is the rest of the stack trace? Does it fail to clone a layer image or the LabelSetImage itself?

May 24 2023, 5:30 AM · MITK (v2023.12)

May 23 2023

floca added a comment to T29614: [Segmentation] "Ignore Label Lock" wipes off any label present in it.

I don't understand the propblem. It behaves like it should. If you ignore locks and transfer all otsu labels, all other labels of a group will be wiped (but still the label exist, as tools do not delete label instances but only pixels), because otsu covers all pixels.

May 23 2023, 5:50 PM · MITK
a178n closed T29567: TotalSeg: inferencing issue on MacOS as Resolved.

Fixed with D837

May 23 2023, 4:42 PM · MITK (v2023.12)
a178n closed T29567: TotalSeg: inferencing issue on MacOS, a subtask of T29437: [SEG] Add TotalSegmentator, as Resolved.
May 23 2023, 4:42 PM · MITK
a178n updated the task description for T29614: [Segmentation] "Ignore Label Lock" wipes off any label present in it.
May 23 2023, 2:21 PM · MITK
a178n created T29614: [Segmentation] "Ignore Label Lock" wipes off any label present in it.
May 23 2023, 2:20 PM · MITK
floca triaged T29611: [REG] Add MatchPoint slabbedHead and HeadNeck algorithms as Normal priority.
May 23 2023, 11:02 AM · Noteworthy, MITK
floca committed rMPdadbcbf3398f: Fixed T29610 - HeadNeck auto detect (authored by floca).
Fixed T29610 - HeadNeck auto detect
May 23 2023, 11:00 AM
kislinsk closed T29609: Migrate eMITK to MITK v2023.04 as Resolved.
May 23 2023, 9:27 AM · Restricted Project
kislinsk triaged T29609: Migrate eMITK to MITK v2023.04 as Normal priority.
May 23 2023, 8:58 AM · Restricted Project

May 22 2023

s434n added a comment to T29608: [Segmentation Utils] Workbench crashes for Morphological operations.

Can reproduce. When debugging, the error is caused while trying to clone a LabelSetImage. While creating a new mitk::Image from a reference, it tries to get:

ImageDataItemPointer volume = other.GetVolumeData(0);
this->SetVolume(volume->GetData(), 0);

but volume is nullptr.
I'm not sure if this just needs a nullptr safeguard (and eventually an additional default initialization?) or if this should not be able to happen in the first place.

May 22 2023, 10:26 AM · MITK (v2023.12)
a178n updated the task description for T29608: [Segmentation Utils] Workbench crashes for Morphological operations.
May 22 2023, 10:26 AM · MITK (v2023.12)
a178n triaged T29608: [Segmentation Utils] Workbench crashes for Morphological operations as Unbreak Now! priority.
May 22 2023, 10:20 AM · MITK (v2023.12)
a178n created T29608: [Segmentation Utils] Workbench crashes for Morphological operations.
May 22 2023, 10:18 AM · MITK (v2023.12)

May 21 2023

floca added a comment to T29606: [REG] Add MiniApp for MatchPoint base mapping.

Pushed new branch to rMITK MITK: feature/T29606-Add_MatchPoint_MiniApps.

May 21 2023, 11:35 AM · Noteworthy, MITK
floca added a revision to T29607: [REG] Add MiniApp for MatchPoint base matching/registration: Unknown Object (Differential Revision).
May 21 2023, 11:35 AM · MatchPoint, Noteworthy, MITK
floca added a revision to T29606: [REG] Add MiniApp for MatchPoint base mapping: Unknown Object (Differential Revision).
May 21 2023, 11:35 AM · Noteworthy, MITK
floca triaged T29607: [REG] Add MiniApp for MatchPoint base matching/registration as Normal priority.
May 21 2023, 11:28 AM · MatchPoint, Noteworthy, MITK
floca triaged T29606: [REG] Add MiniApp for MatchPoint base mapping as Normal priority.
May 21 2023, 11:27 AM · Noteworthy, MITK

May 19 2023

floca added a comment to T29000: [Otsu/Watershed Bug] Time points skipped while browsing segmentation Preview.

🙏

May 19 2023, 9:08 AM · Missing Info, MITK
a178n closed T29000: [Otsu/Watershed Bug] Time points skipped while browsing segmentation Preview as Resolved.

Tested on the latest MITK 2023.04 release installer for Windows 10.
Problem doesn't exist anymore. Fixed.

May 19 2023, 8:59 AM · Missing Info, MITK

May 17 2023

kislinsk removed a project from T24540: DICOMReader module does not support Philips US 3D files on its "own": Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, Restricted Project, MITK
kislinsk removed a project from T23774: Implement helper to correctly (DICOM conformal) parameterize images (or other BaseData derived classes): Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, MITK
kislinsk removed a project from T25307: Clean up remove deprecated dicom properties: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, MITK
kislinsk removed a project from T26248: [Image statistics] Implement different view modes: Auto-closed.
May 17 2023, 6:00 PM · MITK
kislinsk removed a project from T25496: Visualize RTDOSE correctly: Auto-closed.
May 17 2023, 6:00 PM · MITK
kislinsk removed a project from T22322: Changing a renderer-specific property list of a data node does not modify the data node: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, MITK
kislinsk removed a project from T19711: Correct handling of RT-Properties in nodes and data: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, Bugzilla, MITK
kislinsk removed a project from T23811: PatientViewPlugin ++: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, Request for Discussion, MITK
kislinsk removed a project from T24729: GetPropertyKeys() in DataNode should also return propertyKeys of BaseData: Auto-closed.
May 17 2023, 6:00 PM · MITK (v2024.12)
kislinsk removed a project from T27568: US 2D image cannot be read: invalid tilt information: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, Restricted Project, MITK
kislinsk removed a project from T26473: Optimize QmitkChartWidget interface: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, MITK
kislinsk removed a project from T27570: US DICOM images are read as 3D volume: Auto-closed.
May 17 2023, 6:00 PM · Auto-closed, Missing Info, Restricted Project, MITK
kislinsk removed a project from T28150: [RT] Refactor RT Dose reader: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, MITK
kislinsk removed a project from T28192: [Registration] Auto selection (and listening) in MatchPoint views: Auto-closed.
May 17 2023, 6:00 PM · Moved to git.dkfz.de, MITK
kislinsk removed a project from T29000: [Otsu/Watershed Bug] Time points skipped while browsing segmentation Preview: Auto-closed.
May 17 2023, 6:00 PM · Missing Info, MITK
kislinsk removed a project from T26853: IGT tutorial step 1 and step 2 do not start: Auto-closed.
May 17 2023, 6:00 PM · IGT, MITK
floca reopened T28150: [RT] Refactor RT Dose reader as "Open".
May 17 2023, 5:20 PM · Moved to git.dkfz.de, MITK
floca edited projects for T28156: [Segmentation] Fix timestep / timepoint types, added: Next Milestone; removed Auto-closed.
May 17 2023, 5:19 PM · Moved to git.dkfz.de, MITK (v2024.12)
floca reopened T28156: [Segmentation] Fix timestep / timepoint types as "Open".
May 17 2023, 5:19 PM · Moved to git.dkfz.de, MITK (v2024.12)
floca reopened T28192: [Registration] Auto selection (and listening) in MatchPoint views as "Open".
May 17 2023, 5:18 PM · Moved to git.dkfz.de, MITK
floca reopened T24729: GetPropertyKeys() in DataNode should also return propertyKeys of BaseData as "Open".
May 17 2023, 5:13 PM · MITK (v2024.12)
floca reopened T26473: Optimize QmitkChartWidget interface, a subtask of T27285: [Image Statistics] QmitkChart widget should support ID or allow control over labels, as Open.
May 17 2023, 5:08 PM · Moved to git.dkfz.de, MITK (v2024.12)
floca reopened T26473: Optimize QmitkChartWidget interface as "Open".
May 17 2023, 5:08 PM · Moved to git.dkfz.de, MITK
floca reopened T27568: US 2D image cannot be read: invalid tilt information as "Open".
May 17 2023, 5:07 PM · Moved to git.dkfz.de, Restricted Project, MITK
floca reopened T27568: US 2D image cannot be read: invalid tilt information, a subtask of T27554: Handling of 2D and 2D+t sonographic (US) images, as Open.
May 17 2023, 5:07 PM · Restricted Project, MITK
floca reopened T27570: US DICOM images are read as 3D volume, a subtask of T27554: Handling of 2D and 2D+t sonographic (US) images, as Open.
May 17 2023, 5:03 PM · Restricted Project, MITK
floca reopened T27570: US DICOM images are read as 3D volume as "Open".
May 17 2023, 5:03 PM · Auto-closed, Missing Info, Restricted Project, MITK
floca reopened T24540: DICOMReader module does not support Philips US 3D files on its "own" as "Open".
May 17 2023, 5:03 PM · Moved to git.dkfz.de, Restricted Project, MITK
floca reopened T25496: Visualize RTDOSE correctly as "Open".

As we now have preferences at the module level that can be done even in a better way. Now the mapper can set the default node settings for rendering if not already done. No need to have it handled by the reading code anymore.

May 17 2023, 5:02 PM · MITK
floca reopened T25307: Clean up remove deprecated dicom properties as "Open".
May 17 2023, 4:58 PM · Moved to git.dkfz.de, MITK
floca reopened T19711: Correct handling of RT-Properties in nodes and data as "Open".
May 17 2023, 4:57 PM · Moved to git.dkfz.de, Bugzilla, MITK
floca reopened T19711: Correct handling of RT-Properties in nodes and data, a subtask of T23746: MITK and DICOM (realization), as Open.
May 17 2023, 4:57 PM · MITK
floca reopened T22322: Changing a renderer-specific property list of a data node does not modify the data node as "Open".
May 17 2023, 4:56 PM · Moved to git.dkfz.de, MITK
floca reopened T23811: PatientViewPlugin ++, a subtask of T23754: DataStorage/Relationship clean up/refactoring, as Open.
May 17 2023, 4:55 PM · MITK
floca reopened T23811: PatientViewPlugin ++ as "Open".

I reeopened because I would like to llok into the feature branch at least and see what might be of interest:

May 17 2023, 4:55 PM · Moved to git.dkfz.de, Request for Discussion, MITK
floca reopened T29000: [Otsu/Watershed Bug] Time points skipped while browsing segmentation Preview as "Open".
May 17 2023, 4:40 PM · Missing Info, MITK
floca added a comment to T29000: [Otsu/Watershed Bug] Time points skipped while browsing segmentation Preview.

@a178n Could you verify if the problem still exist or if it is fixed?

May 17 2023, 4:38 PM · Missing Info, MITK
kislinsk edited the content of MITK v2023.04.
May 17 2023, 3:41 PM
kislinsk moved T29310: [ITK] Check if ITK 5.3 adds the GrowCut remote module by default from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:15 PM · MITK (v2023.12)
kislinsk moved T29313: Add a Test to check if the GrowCut algorithm produces a different output from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · MITK (v2024.12)
kislinsk moved T29322: [SEG] Refactor code to avoid FillSliceInSlice and FillContourInSlice from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29333: [mxn multi widget] Measurements / planar figure not working from Backlog to mxn MultiWidget on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29352: Segmentation Options Checklist - "Create Smoothed Polygon" Seems Not to Work from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · MITK (v2024.06), Cleared, Checklist
kislinsk moved T29364: [mxn multi widget] Image navigator cannot be used from Backlog to mxn MultiWidget on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29365: [mxn multi widget] Pointset interaction not working from Backlog to mxn MultiWidget on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29369: [Segmentation Utilities] Handle / select different labels independently from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · MITK (v2024.06)
kislinsk moved T29374: [SEG] Instant visual response to inverted state of tools (add, substract, paint, wipe) from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29386: [mxn multi widget] StdDisplay unnecessarily uses the crosshair manager from Backlog to mxn MultiWidget on the MITK (v2023.12) board.
May 17 2023, 3:09 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29390: How to ease the handling of external generated segmentations from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · MITK (v2024.06)
kislinsk moved T29392: [SEG] Add dedicated writer to store multi-label images in nifti from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29396: [Segmentation] Newly created labelset image has wrong image type from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · MITK (v2024.12)
kislinsk moved T29415: [mxn multi widget] Allow mxn windows to show 3D view from Backlog to mxn MultiWidget on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29416: Segmentation utilities can only handle unsigned char and unsigned short, no other types from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · MITK (v2024.06), Missing Info
kislinsk moved T29420: [Segmentation] SegWithPreviewTool does not work with vector / multi channel images from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T29437: [SEG] Add TotalSegmentator from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · MITK
kislinsk moved T29444: Ability to add "tags" to annotated regions from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · MITK (v2024.12)
kislinsk moved T29460: [SEG] Higlight unlabeld pixels from Backlog to Segmentation on the MITK (v2023.12) board.
May 17 2023, 3:08 PM · Moved to git.dkfz.de, MITK (v2024.12)