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Apr 9 2021

floca moved T27149: [Segmentation] Interpolation nodes / position nodes are not correctly hidden from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 7:00 PM · MITK (v2024.06)
floca moved T25192: Enable DICOM SEG conversion for nrrd segmentations from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 7:00 PM · MITK (v2024.06), MICO (Demo MICCAI 2018)
floca moved T26953: DICOM SEG - Cannot rewrite segmentations as DICOM SEG from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 7:00 PM · MITK (v2024.06), Cleared
floca moved T27720: mitkPackageTest fails on Windows Nightlies from Backlog to Tests/Checklists on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · MITK (v2024.06)
floca moved T27810: [Multilabel Segmentation] Inconsistencies and unclear functionality in operations of Utilities view from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · MITK (v2022.10), Cleared, Restricted Project
floca moved T28131: [MultiLabel Segmentation] 3D Threshold tool does not work with multiple labels / layers from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · Request for Discussion, MITK (v2022.04)
floca moved T28134: [Multilabel Segmentation] No warning triggered when using different mask geometries / dimensions in Utilities View from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · MITK (v2022.10), Cleared
floca moved T28135: [MultiLabel Segmentation] Utilities view cannot handle non-binary multilabel segmentations from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · MITK (v2023.04)
floca moved T28139: [LabelSetImage] Ambigious meaning of "layer" in LabelSetImage from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · MITK (v2023.12), Request for Discussion
floca moved T28140: [MultiLabel Segmentation] Default parameter (unsigned int layer = 0) is unnecessary and causes problems from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · MITK (v2024.06)
floca moved T28256: [Segmentation] Auto-selection preference was hijacked for something else from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:59 PM · Breaking Change, Request for Discussion, MITK (v2022.04)
floca edited projects for T27720: mitkPackageTest fails on Windows Nightlies, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:58 PM · MITK (v2024.06)
floca edited projects for T27149: [Segmentation] Interpolation nodes / position nodes are not correctly hidden, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:56 PM · MITK (v2024.06)
floca edited projects for T25192: Enable DICOM SEG conversion for nrrd segmentations, added: MITK (v2021.10); removed MITK, Next Milestone.
Apr 9 2021, 6:55 PM · MITK (v2024.06), MICO (Demo MICCAI 2018)
floca edited projects for T26953: DICOM SEG - Cannot rewrite segmentations as DICOM SEG, added: MITK (v2021.10); removed MITK, Next Milestone.
Apr 9 2021, 6:54 PM · MITK (v2024.06), Cleared
floca edited projects for T28131: [MultiLabel Segmentation] 3D Threshold tool does not work with multiple labels / layers, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:54 PM · Request for Discussion, MITK (v2022.04)
floca edited projects for T27810: [Multilabel Segmentation] Inconsistencies and unclear functionality in operations of Utilities view, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:53 PM · MITK (v2022.10), Cleared, Restricted Project
floca edited projects for T28135: [MultiLabel Segmentation] Utilities view cannot handle non-binary multilabel segmentations, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:53 PM · MITK (v2023.04)
floca edited projects for T28134: [Multilabel Segmentation] No warning triggered when using different mask geometries / dimensions in Utilities View, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:53 PM · MITK (v2022.10), Cleared
floca edited projects for T28139: [LabelSetImage] Ambigious meaning of "layer" in LabelSetImage, added: MITK (v2021.10), Request for Discussion; removed Next Milestone, MITK.
Apr 9 2021, 6:52 PM · MITK (v2023.12), Request for Discussion
floca edited projects for T28140: [MultiLabel Segmentation] Default parameter (unsigned int layer = 0) is unnecessary and causes problems, added: MITK (v2021.10), Request for Discussion; removed Next Milestone, MITK.
Apr 9 2021, 6:49 PM · MITK (v2024.06)
floca edited projects for T28256: [Segmentation] Auto-selection preference was hijacked for something else, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:47 PM · Breaking Change, Request for Discussion, MITK (v2022.04)
floca edited projects for T28217: [MatchPoint] Registrations generated with manipulator have no proper PropertyReleations, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:46 PM · MITK (v2024.06)
floca moved T25097: ItkImageIOTest: Missing tests for reading nrrd data with time geometry from Backlog to Tests/Checklists on the MITK (v2021.10) board.
Apr 9 2021, 6:39 PM · MITK (v2024.06), Cleared, Restricted Project
floca moved T25445: MultiLabel segmentation mapper is very slow from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:39 PM · MITK (v2024.06), Request for Discussion
floca moved T26485: [Segmentation] PACS mode is active while segmentation is drawn from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:39 PM · MITK (v2021.10)
floca moved T26972: Dialog and plugin layout seems to be not shown correctly on laptops from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:39 PM · MITK (v2024.06), Missing Info
floca moved T27458: Activate Test also for arc diff builds to avoid missed unit test errors from Backlog to Tests/Checklists on the MITK (v2021.10) board.
Apr 9 2021, 6:38 PM · MITK (v2024.06), CI
floca moved T27571: Multilabel segmentation does not work with US DICOM images from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:38 PM · MITK (v2021.10), Missing Info, Restricted Project
floca moved T28142: [Segmentation] Remove plugin redundancy with MultiLabelSegmentation from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:38 PM · MITK (v2022.04), Breaking Change
floca moved T28176: [Segmentation] Inspection of module and plugin from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:38 PM · MITK (v2024.06)
floca moved T28206: [Image Statistics] Renaming segmentation or planar figure based ROI nodes breaks histogram from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:38 PM · MITK (v2024.06)
floca moved T28248: [Segmentation] Picking 3D Tool creates a 3D segmentation out of a 4D image from Backlog to Cycle on the MITK (v2021.10) board.
Apr 9 2021, 6:38 PM · MITK (v2021.10)
floca edited projects for T28248: [Segmentation] Picking 3D Tool creates a 3D segmentation out of a 4D image, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:37 PM · MITK (v2021.10)
floca edited projects for T28297: Add Stitching MiniApp to installer, added: MITK (v2021.10), Restricted Project; removed Next Milestone, MITK.
Apr 9 2021, 6:36 PM · MITK (v2022.10), Restricted Project, Cleared
floca edited projects for T28142: [Segmentation] Remove plugin redundancy with MultiLabelSegmentation, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:34 PM · MITK (v2022.04), Breaking Change
floca edited projects for T28206: [Image Statistics] Renaming segmentation or planar figure based ROI nodes breaks histogram, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:34 PM · MITK (v2024.06)
floca edited projects for T26485: [Segmentation] PACS mode is active while segmentation is drawn, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:33 PM · MITK (v2021.10)
floca edited projects for T27571: Multilabel segmentation does not work with US DICOM images, added: MITK (v2021.10); removed Next Milestone, MITK.

@kleesiek Sorry. Just saw that it dropped of the radar. In the meantime the new release installer is out. Could you test it with the current workbench release? Thanks.

Apr 9 2021, 6:32 PM · MITK (v2021.10), Missing Info, Restricted Project
floca edited projects for T27455: Go through pull requests, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:30 PM · MITK (v2024.06), Cleared
floca edited projects for T27458: Activate Test also for arc diff builds to avoid missed unit test errors, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:29 PM · MITK (v2024.06), CI
floca edited projects for T27320: No LocalStorage for PlaneGeometryDataVtkMapper3D, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:28 PM · MITK, Pull Request
floca edited projects for T27377: Suppress or fix all build warnings , added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:27 PM · MITK (v2024.06), Restricted Project
floca edited projects for T27414: Adapt CMake version macro to generate version description with "no official release", added: MITK (v2021.10), Restricted Project; removed Next Milestone, MITK.
Apr 9 2021, 6:26 PM · MITK (v2024.06), Restricted Project, CI
floca edited projects for T26972: Dialog and plugin layout seems to be not shown correctly on laptops, added: Missing Info, MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:25 PM · MITK (v2024.06), Missing Info
floca edited projects for T25098: Mapper (partially?) do not handle images correctly if they are out of time bound, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:24 PM · MITK (v2024.06)
floca edited projects for T25445: MultiLabel segmentation mapper is very slow, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:23 PM · MITK (v2024.06), Request for Discussion
floca edited projects for T27196: Rewrite packaging of MITK, added: MITK (v2021.10); removed MITK, Next Milestone.
Apr 9 2021, 6:22 PM · MITK (v2024.06), Cleared
floca edited projects for T25097: ItkImageIOTest: Missing tests for reading nrrd data with time geometry, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:21 PM · MITK (v2024.06), Cleared, Restricted Project
floca edited projects for T28176: [Segmentation] Inspection of module and plugin, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:21 PM · MITK (v2024.06)
floca edited projects for T27655: [statistics] Logic of DataGeneratorBase blocks the UI thread , added: MITK (v2021.10); removed MITK.
Apr 9 2021, 6:20 PM · MITK (v2024.06)
floca moved T28264: [Segmentation Utilities] Various issues from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:19 PM · MITK (v2024.06), Cleared
floca moved T8140: Reimplement volume annotations for segmentations from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:18 PM · MITK (v2024.06), Request for Discussion, Bugzilla
floca edited projects for T8140: Reimplement volume annotations for segmentations, added: Request for Discussion, MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:18 PM · MITK (v2024.06), Request for Discussion, Bugzilla
floca edited projects for T28237: Refactor QmitkChart, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:18 PM · MITK (v2024.06)
floca moved T28244: [Segmentation] Fast Marching Tool not really responsive for large images from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 9 2021, 6:17 PM · MITK, Next Milestone
floca edited projects for T28244: [Segmentation] Fast Marching Tool not really responsive for large images, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:17 PM · MITK, Next Milestone
floca moved T27506: Extend checklists for segmentation view from Backlog to Tests/Checklists on the MITK (v2021.10) board.
Apr 9 2021, 6:17 PM · MITK (v2022.04), Cleared
floca edited projects for T27506: Extend checklists for segmentation view, added: MITK (v2021.10); removed Next Milestone, MITK.

@kalali That is a good idea and proposal for how to proceed.

Apr 9 2021, 6:16 PM · MITK (v2022.04), Cleared
floca edited projects for T28207: MITK DicomBrowser q/r Retrieve part crash, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 9 2021, 6:14 PM · MITK, Checklist
kleina triaged T28441: Volume Visualization fails for images with segmentations as Normal priority.
Apr 9 2021, 2:03 PM · Auto-closed, MITK

Apr 8 2021

kislinsk added a revision to T28439: [Segmentation] Support custom background/outside values in image masking: Unknown Object (Differential Revision).
Apr 8 2021, 7:19 PM · MITK (v2021.10)
kislinsk triaged T28439: [Segmentation] Support custom background/outside values in image masking as Normal priority.
Apr 8 2021, 7:10 PM · MITK (v2021.10)
kislinsk raised the priority of T28264: [Segmentation Utilities] Various issues from Normal to High.
Apr 8 2021, 7:08 PM · MITK (v2024.06), Cleared
k656s moved T28049: DataUpload fails with Firefox from In Progress to Resolved on the Kaapana (internal) board.
Apr 8 2021, 12:43 PM · Kaapana (internal)
k656s closed T28049: DataUpload fails with Firefox as Resolved by committing Restricted Diffusion Commit.
Apr 8 2021, 12:43 PM · Kaapana (internal)
gaoh added a member for Kaapana (internal): r738v.
Apr 8 2021, 12:24 PM
gaoh added a member for MIC: r738v.
Apr 8 2021, 12:23 PM
schererj closed T28402: gvisor pods are crashing (CrashLoopBackOff) as Resolved.
Apr 8 2021, 9:56 AM · Request for Discussion, Kaapana (internal)
schererj closed T28426: gvisor pods unable to access internet ? Proxy issues ?? as Resolved.
Apr 8 2021, 9:56 AM · Request for Discussion, Kaapana (internal)
schererj closed T28169: TFDA MVP v1 powered by Kaapana as Resolved.
Apr 8 2021, 9:56 AM · Kaapana (internal)
schererj closed T28357: Running Isolated container in Kaapana ( Instead of Default Docker) as Resolved.
Apr 8 2021, 9:56 AM · Restricted Project, Kaapana (internal)
k656s moved T28049: DataUpload fails with Firefox from Discussion to In Progress on the Kaapana (internal) board.
Apr 8 2021, 9:45 AM · Kaapana (internal)
kislinsk triaged T28437: 3D region growing may have issues when the seed point is on a pixel with value 0 as High priority.
Apr 8 2021, 9:44 AM · MITK (v2021.10)
s669m added a comment to T28387: Testing Gvisor with Kube8s.

Reply from Gvisor Team

Apr 8 2021, 8:25 AM · Restricted Project
kislinsk added a comment to T28422: Multilabel color map does not produce unique colors.

Will be fixed with D480.

Apr 8 2021, 8:03 AM · MITK (v2021.10)
kislinsk added a revision to T28422: Multilabel color map does not produce unique colors: Unknown Object (Differential Revision).
Apr 8 2021, 8:03 AM · MITK (v2021.10)
kislinsk added a comment to T28421: Use whole image grey value must always be executed when switching colormap to 'Multilabel'.

Hm, while D480 resolves the issue, I think that the original approach for handling the Multilabel colormap in T23589 is already a workaround. Changing the level window to the maximum possible range is just an emulation of "do not use the level window". We actually have that mode in MITK already. The Image Rendering.Mode property is usually set to LOOKUPTABLE_LEVELWINDOW_COLOR but there is also LOOKUPTABLE_COLOR which is exactly what we need here. The thing is, that LOOKUPTABLE_COLOR is not implemented correctly in the 2-d image mapper, as the level window filter is not reset and instead is using the previously set range. So I will extent D480 to actually use the correct mode and fix the 2-d image mapper.

Apr 8 2021, 7:27 AM · MITK (v2021.10)
s669m moved T28357: Running Isolated container in Kaapana ( Instead of Default Docker) from In Progress to Resolved on the Kaapana (internal) board.
Apr 8 2021, 7:10 AM · Restricted Project, Kaapana (internal)
s669m moved T28169: TFDA MVP v1 powered by Kaapana from In Progress to Resolved on the Kaapana (internal) board.
Apr 8 2021, 7:10 AM · Kaapana (internal)
kislinsk added a comment to T28422: Multilabel color map does not produce unique colors.

If the image is converted to a segmentation (context menu -> Convert to segmentation), it is rendered correctly even though the very same lookup table is used. So I guess the issue is to be found within the 2d image mapper.

Apr 8 2021, 6:25 AM · MITK (v2021.10)
kislinsk added a comment to T28422: Multilabel color map does not produce unique colors.

The lookup table is set correctly but the rendered colors do not match.

Apr 8 2021, 6:16 AM · MITK (v2021.10)
kislinsk claimed T28422: Multilabel color map does not produce unique colors.

This really shouldn't happen. A first look at the code revealed that the intention is to have at least 25 different colors for values 1-26 and after that repeatedly cycle through 12 colors.

Apr 8 2021, 5:32 AM · MITK (v2021.10)
kislinsk added a revision to T28421: Use whole image grey value must always be executed when switching colormap to 'Multilabel': Restricted Differential Revision.
Apr 8 2021, 5:27 AM · MITK (v2021.10)
kislinsk added a comment to T28421: Use whole image grey value must always be executed when switching colormap to 'Multilabel'.

Found the issue. After setting the colormap to "Multilabel" in QmitkDataNodeColorMapAction::OnActionTriggered, the previous LUT is checked if it is a "Multilabel" LUT, instead of the new LUT. Hence the observation above that it works when applying it twice.

Apr 8 2021, 5:20 AM · MITK (v2021.10)
kislinsk claimed T28421: Use whole image grey value must always be executed when switching colormap to 'Multilabel'.

This issue was already resolved by @kalali in T23589: Multilabel Segmentations not loaded with multilabel colormap, resp. {D172} for MITK v2018.04.2 but I can confirm that the issue exists for the example image.

Apr 8 2021, 5:12 AM · MITK (v2021.10)

Apr 7 2021

floca moved T18014: write tool interaction tests for segmentation from Backlog to Tests/Checklists on the MITK (v2021.10) board.
Apr 7 2021, 9:45 PM · MITK (v2024.06), Bugzilla
floca moved T27507: Check the current behavior of the segmentation tools according static and dynamic 4D segmentation from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:45 PM · MITK (v2021.10), Missing Info, Restricted Project
floca moved T28358: Data Manager context menu items added multiple times for multi-selections from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:45 PM · MITK (v2021.10)
floca moved T28421: Use whole image grey value must always be executed when switching colormap to 'Multilabel' from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:44 PM · MITK (v2021.10)
floca moved T28422: Multilabel color map does not produce unique colors from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:43 PM · MITK (v2021.10)
floca moved T28275: [Segmentation] AdaptiveRegionGrowingTool must be refactored / 4D Segmentation returns error message when point is not on the correct timestep from Segmentation to Cycle on the MITK (v2021.10) board.
Apr 7 2021, 9:42 PM · MITK (v2024.06)
floca moved T28275: [Segmentation] AdaptiveRegionGrowingTool must be refactored / 4D Segmentation returns error message when point is not on the correct timestep from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:42 PM · MITK (v2024.06)
floca moved T26970: [Segmentation] Picking tool: When no region is picked, selected node just gets unselected from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:42 PM · MITK (v2021.10), Cleared
floca moved T27684: [Segmentation] Improve Region Growing 2D algorithm and interaction from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:42 PM · MITK (v2024.06)
floca moved T28320: [Segmentation] Region growing does not work if seed point is already inside a segmentation from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:41 PM · MITK (v2022.04), Missing Info, Request for Discussion
floca moved T28437: 3D region growing may have issues when the seed point is on a pixel with value 0 from Backlog to Segmentation on the MITK (v2021.10) board.
Apr 7 2021, 9:41 PM · MITK (v2021.10)
floca edited projects for T28320: [Segmentation] Region growing does not work if seed point is already inside a segmentation, added: Request for Discussion, MITK (v2021.10); removed MITK.
Apr 7 2021, 9:40 PM · MITK (v2022.04), Missing Info, Request for Discussion
floca removed projects from T28320: [Segmentation] Region growing does not work if seed point is already inside a segmentation: Request for Discussion, Next Milestone.
Apr 7 2021, 9:40 PM · MITK (v2022.04), Missing Info, Request for Discussion
floca edited projects for T27684: [Segmentation] Improve Region Growing 2D algorithm and interaction, added: MITK (v2021.10); removed Next Milestone, MITK.
Apr 7 2021, 9:39 PM · MITK (v2024.06)