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Aug 8 2024

kislinsk added a comment to T30505: Fix automatic determination of MITK_OPENSSL_SSL_DLL on older CMake versions.

Deleted branch from rMITK MITK: bugfix/T30505-OpenSSL-FindingDLLs.

Aug 8 2024, 3:10 PM · MITK (v2024.12)
kislinsk added a comment to T30505: Fix automatic determination of MITK_OPENSSL_SSL_DLL on older CMake versions.

Pushed new branch to rMITK MITK: bugfix/T30505-OpenSSL-FindingDLLs.

Aug 8 2024, 3:09 PM · MITK (v2024.12)
kislinsk triaged T30505: Fix automatic determination of MITK_OPENSSL_SSL_DLL on older CMake versions as High priority.
Aug 8 2024, 3:07 PM · MITK (v2024.12)
kislinsk triaged T30504: Update macOS CI status links in README.md as Normal priority.
Aug 8 2024, 7:25 AM · MITK (v2024.12)

Jul 31 2024

floca closed T30476: Expose information of the DICOM reader why blocks where splitted as Resolved.
Jul 31 2024, 4:38 PM · MITK (v2024.12)
floca closed T30486: [DCM] Directory loading feature does not work sometimes as Resolved by committing rMITKc80ff622c8e6: T30476-Expose_DCM_block_split_reason.
Jul 31 2024, 9:40 AM · MITK (v2024.12)

Jul 24 2024

kompan triaged T30494: Standard Display F1 help - missing content as Normal priority.
Jul 24 2024, 11:56 AM · Moved to git.dkfz.de, MITK (v2024.12)

Jul 18 2024

floca added a comment to T30301: Move Totalsegmentator installation into Preferences.

👍

Jul 18 2024, 5:46 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk added a comment to T30301: Move Totalsegmentator installation into Preferences.

This is still an issue also in combination with general UX improvement of AI tools. I suggest to have a closer look on that together in September so we have enough time for a nice design and implementation until v2024.12.

Jul 18 2024, 5:26 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk moved T30301: Move Totalsegmentator installation into Preferences from Backlog to Segmentation on the MITK (v2024.12) board.
Jul 18 2024, 5:23 PM · Moved to git.dkfz.de, MITK (v2024.12)

Jul 16 2024

a178n triaged T30490: [Seg] Add Support TotalSegmentator >= v2.3 as Normal priority.
Jul 16 2024, 8:21 AM · Moved to git.dkfz.de, MITK (v2024.12)

Jul 15 2024

floca added a revision to T30486: [DCM] Directory loading feature does not work sometimes: Restricted Differential Revision.
Jul 15 2024, 2:54 PM · MITK (v2024.12)

Jul 9 2024

floca added a comment to T30476: Expose information of the DICOM reader why blocks where splitted.

Pushed new branch to rMITK MITK: feature/T30476-Expose_DCM_block_split_reason.

Jul 9 2024, 10:58 AM · MITK (v2024.12)
floca triaged T30486: [DCM] Directory loading feature does not work sometimes as Normal priority.
Jul 9 2024, 10:50 AM · MITK (v2024.12)

Jul 8 2024

kislinsk added a comment to T30454: IO Support for Blosc2.

If I would be them, I also wouldn't like to have another metalayer under my belt. I think we can directly go with our own publishing. We may consider to suggest something like a registry, though, for third-party metalayers. :)

Jul 8 2024, 10:23 PM · Moved to git.dkfz.de, MITK (v2024.12)
isensee added a comment to T30454: IO Support for Blosc2.

I am not knowledgeable enough to have a well informed opinion. Some thoughts to consider:

Jul 8 2024, 4:42 PM · Moved to git.dkfz.de, MITK (v2024.12)
floca added a comment to T30454: IO Support for Blosc2.

I think you proposal is worth trying! Great idea.

Jul 8 2024, 9:35 AM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk added a comment to T30454: IO Support for Blosc2.

Is there a defined anatomic coordinate system for blosc or the code that wrote the blosc images? Like LPS or RSA (https://www.slicer.org/wiki/Coordinate_systems) may be it differs form the assumption we have in MITK and therefore the memory layout of the pixels is different.

Jul 8 2024, 8:56 AM · Moved to git.dkfz.de, MITK (v2024.12)

Jul 6 2024

floca added a comment to T30454: IO Support for Blosc2.

Is there a defined anatomic coordinate system for blosc or the code that wrote the blosc images? Like LPS or RSA (https://www.slicer.org/wiki/Coordinate_systems) may be it differs form the assumption we have in MITK and therefore the memory layout of the pixels is different.

Jul 6 2024, 11:46 AM · Moved to git.dkfz.de, MITK (v2024.12)

Jul 5 2024

kislinsk added a comment to T30454: IO Support for Blosc2.

First breakthrough: I was able to load and display the b2nd example image from @isensee. The orientation is unexpected, though. Probably rotated 180° (not mirrored?) around the axial axis. Trying to figure out the culprit. I use a the b2nd_to_cbuffer() function to copy the pixel data into the MITK image memory. If this orientation mismatch is systematic, we may be able to solve it by creating a geometry accordingly. At the moment the MITK image is just initialized via pixel type and image dimensions. As far as I am aware, the Blosc2 image does not contain any orientation meta data, right?

Jul 5 2024, 11:17 PM · Moved to git.dkfz.de, MITK (v2024.12)
menjivar added a comment to T30454: IO Support for Blosc2.

If you need additional files to test, I could give you one :)

Jul 5 2024, 12:03 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk updated subscribers of T30454: IO Support for Blosc2.

c-blosc2 basically has 3 dependencies. We already fulfill and can/should use 2 of them: zlib (resp. zlib-ng) and lz4. The third one is zstd which is no issue, since c-blosc2 comes with an internal version of it if not provided externally.

Jul 5 2024, 11:50 AM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk added a comment to T30454: IO Support for Blosc2.

Pushed new branch to rMITK MITK: feature/T30454-Blosc2.

Jul 5 2024, 11:41 AM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk claimed T30454: IO Support for Blosc2.
Jul 5 2024, 10:14 AM · Moved to git.dkfz.de, MITK (v2024.12)

Jun 29 2024

floca closed T30481: [DICOM] Handle multiple images with no position information correctly as Resolved.
Jun 29 2024, 6:17 PM · MITK (v2024.12), Request for Discussion

Jun 28 2024

floca closed T30477: Remove MiniApp suffix from ModelFit cmdapps as Resolved by committing rMITKcaba07b2e50a: BREAKING removed MiniApp suffix from model fit apps.
Jun 28 2024, 12:07 PM · Breaking Change, MITK (v2024.12)
kislinsk closed T29421: Finding CppRestSDK library alternative as Resolved.
Jun 28 2024, 8:51 AM · MITK (v2024.12)
kislinsk added a comment to T29421: Finding CppRestSDK library alternative.

Deleted branch from rMITK MITK: bugfix/T29421-RemoveCPPRestSDK.

Jun 28 2024, 8:51 AM · MITK (v2024.12)

Jun 26 2024

kislinsk added a revision to T30481: [DICOM] Handle multiple images with no position information correctly: Restricted Differential Revision.
Jun 26 2024, 11:53 PM · MITK (v2024.12), Request for Discussion
floca triaged T30481: [DICOM] Handle multiple images with no position information correctly as High priority.
Jun 26 2024, 1:41 PM · MITK (v2024.12), Request for Discussion

Jun 25 2024

floca closed T30478: MITKFileConverter multiple output index before last extension as Invalid.

damn. you are right. Than i will revert it and change AVID to add in front of the first '.'.

Jun 25 2024, 11:02 AM · MITK (v2024.12), Request for Discussion, Breaking Change
kislinsk added a comment to T30478: MITKFileConverter multiple output index before last extension.

Wouldn't that break support of compressed files like foo.nii.gz for example?

Jun 25 2024, 9:57 AM · MITK (v2024.12), Request for Discussion, Breaking Change
floca moved T30478: MITKFileConverter multiple output index before last extension from Backlog to MITK Meeting on the Request for Discussion board.
Jun 25 2024, 9:17 AM · MITK (v2024.12), Request for Discussion, Breaking Change
floca triaged T30478: MITKFileConverter multiple output index before last extension as Normal priority.
Jun 25 2024, 9:17 AM · MITK (v2024.12), Request for Discussion, Breaking Change
kislinsk added a revision to T29421: Finding CppRestSDK library alternative: Restricted Differential Revision.
Jun 25 2024, 4:31 AM · MITK (v2024.12)
kislinsk added a comment to T29421: Finding CppRestSDK library alternative.

Pushed new branch to rMITK MITK: bugfix/T29421-RemoveCPPRestSDK.

Jun 25 2024, 4:30 AM · MITK (v2024.12)
kislinsk edited projects for T29421: Finding CppRestSDK library alternative, added: MITK (v2024.12); removed MITK.
Jun 25 2024, 4:26 AM · MITK (v2024.12)
kislinsk closed T30430: [TotalSeg] Add check if python venv exists before installation as Resolved.
Jun 25 2024, 4:03 AM · MITK (v2024.06)

Jun 24 2024

floca added a revision to T30477: Remove MiniApp suffix from ModelFit cmdapps: Restricted Differential Revision.
Jun 24 2024, 11:38 AM · Breaking Change, MITK (v2024.12)
floca triaged T30477: Remove MiniApp suffix from ModelFit cmdapps as Normal priority.
Jun 24 2024, 9:59 AM · Breaking Change, MITK (v2024.12)
floca updated subscribers of T30476: Expose information of the DICOM reader why blocks where splitted.

FYI

Jun 24 2024, 9:50 AM · MITK (v2024.12)
floca triaged T30476: Expose information of the DICOM reader why blocks where splitted as Normal priority.
Jun 24 2024, 9:49 AM · MITK (v2024.12)

Jun 19 2024

kislinsk added a comment to T29317: Clean up DICOM Browser plugin.

Deleted branch from rMITK MITK: bugfix/T29317-CleanUpDICOMBrowser.

Jun 19 2024, 11:36 AM · MITK (v2024.12)
kislinsk closed T29317: Clean up DICOM Browser plugin, a subtask of T24398: Dicom plugin: Retrieve does not work, as Wontfix.
Jun 19 2024, 11:36 AM · MITK (v2024.12)
kislinsk closed T29317: Clean up DICOM Browser plugin as Wontfix.

Meanwhile a lot of code in CTK regarding the DICOM browser changed and the branch her is outdated so much that it makes sense to start from scratch again, if really necessary at all.

Jun 19 2024, 11:36 AM · MITK (v2024.12)
kislinsk closed T30255: Allow render window utility widgets on all sides as Wontfix.

We weren't able to get the PR working.

Jun 19 2024, 11:26 AM · MITK (v2024.12), Pull Request
kislinsk added a comment to T30255: Allow render window utility widgets on all sides .

Deleted branch from rMITK MITK: feature/T30255-RenderWindowUtilityWidgets.

Jun 19 2024, 11:25 AM · MITK (v2024.12), Pull Request

Jun 18 2024

a178n added a comment to T30430: [TotalSeg] Add check if python venv exists before installation.

Deleted branch from rMITK MITK: feature/T30430-python-venv-check.

Jun 18 2024, 6:03 PM · MITK (v2024.06)
a178n added a comment to T29295: MONAI Label App as auto-segmentation tool in MITK.

Deleted branch from rMITK MITK: feature/T29295-monai-tool-httplib.

Jun 18 2024, 6:02 PM · Moved to git.dkfz.de, MITK (v2024.12)

Jun 17 2024

kislinsk closed T30448: MITK snapshots/2024-05-02 Workbench not restarting as Invalid.

I close this task as invalid. We were not able to reproduce this issue at all and we never heard of if by anyone else. Feel free to reopen the task if there's a reliable recipe for reproduction.

Jun 17 2024, 2:42 PM · MITK (v2024.12), Missing Info
kislinsk triaged T18489: Help perspective cannot be closed as Low priority.
Jun 17 2024, 2:38 PM · MITK (v2024.12), Request for Discussion
kislinsk closed T22458: Merging a label in the MultiLabel segmentation plugin leaves one label without a segmentation, a subtask of T27807: [MultiLabel Segmentation] Inspection of module and plugin, as Wontfix.
Jun 17 2024, 2:36 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk closed T22593: Update the MitkMultilabelTestDriver, a subtask of T27807: [MultiLabel Segmentation] Inspection of module and plugin, as Wontfix.
Jun 17 2024, 2:36 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk closed T16026: Distinct tool names for 2d and 3d segmentation tools, a subtask of T28479: [Segmentation] Rethink / reevaluate our existing segmentation tools / algorithms, as Wontfix.
Jun 17 2024, 2:36 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29063: When all the folds are selected in "Folds" dropdown box, then show "All Folds" instead of "All", added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T26294: Should we move DICOMPropertyPath helper to Core, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · Moved to git.dkfz.de, MITK (v2024.12), DICOM
kislinsk edited projects for T27090: Provide standard NodePredicates, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · Moved to git.dkfz.de, MITK (v2024.12), Request for Discussion
kislinsk edited projects for T19477: Select which dicom tags are used to create a nodes name, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · MITK (v2024.12), Request for Discussion, Bugzilla
kislinsk edited projects for T28852: [DICOM] support temporal position and encoding for MR images, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T27189: REST API for data storage, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · Moved to git.dkfz.de, MITK (v2024.12), Restricted Project, Request for Discussion
kislinsk edited projects for T29236: Check for prerequisites and give meaningful hints for missing packages, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T24799: Optimize DicomRTIOMimeTypes, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:34 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T25305: Property enums of DICOM module are not supported by scene serialization, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Restricted Project
kislinsk edited projects for T30255: Allow render window utility widgets on all sides , added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · MITK (v2024.12), Pull Request
kislinsk edited projects for T29300: Improve feedback for progress of long running tasks/operations, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29588: [MxN] Lock icon is unintuitive, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Checklist
kislinsk edited projects for T29581: [Segmentation] Switch tool icon next to cursor when inverting via Ctrl, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Checklist
kislinsk edited projects for T25357: Refactor DataNode::GetPropertylist(..) for more const correctness, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29580: [Measurement] Unclear how to end drawing with some tools, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Checklist
kislinsk edited projects for T29616: [DICOM] Add option to save images as DICOM, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29435: MITK example for usage of the ICP algorithm, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · MITK (v2024.12), Pull Request
kislinsk edited projects for T29641: [Movie Maker] Allow rotation around different axes, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T27031: [Image statistics] Define identifier for statistics and histogram, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T27149: [Segmentation] Interpolation nodes / position nodes are not correctly hidden, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · MITK (v2024.12)
kislinsk edited projects for T27270: Planar figures are inconsistently bound by reference image, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T27847: [MITKDoc] Chart Example view documentation, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T27099: [MITKDoc] Revise Clipping Plane Plugin Documentation, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Cleared
kislinsk edited projects for T27269: PlanarCircle shrinks in size when moved towards image boundaries, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T27451: [Registration] Mapper: Changed default level/window after identity mapping , added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Cleared
kislinsk edited projects for T27495: [Registration] Evaluator/Manipulator wipe mode is lacking one click behind, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Cleared
kislinsk edited projects for T27608: [MITKDoc] Documentation Refurbish - Developer Manual, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Cleared
kislinsk edited projects for T27834: [MITKDoc] Revise CEST views documentation, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T28480: [Checklist] [Test data] Define publicly available location to store user test data, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T27846: [MITKDoc] Segmentation Flow view documentation, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T28246: Create UI test for LevelWindow QtWidgets, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T28499: Refactor/rewrite RegionGrowing3D tool, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T28146: Rework how SegTool2D should add contour markers, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T28181: [Segmentation] Should warning messages be passed on to the UI?, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T28275: [Segmentation] AdaptiveRegionGrowingTool must be refactored / 4D Segmentation returns error message when point is not on the correct timestep, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29112: Hover state of planar figures is not reset when the mouse pointer is out of scene, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Cleared
kislinsk edited projects for T29302: Movie maker plugin does not work correctly with the new mxn multi widget, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29210: Clarify / remove axis-labeling for anatomical planes, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Request for Discussion
kislinsk edited projects for T29090: [3D Segmentation] Threshold tool preview draws contours in green and not in the active label color. , added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · MITK (v2024.12), Request for Discussion, Checklist
kislinsk edited projects for T29284: Refactor segmentation plugin user manual documentation, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · MITK (v2024.12)
kislinsk edited projects for T29242: Revamp nnUNet tool GUI, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29303: IGT classes do not work correctly with the new mxn multi widget, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29026: [File Loading] File reading options for surface files are not remembered, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Kaapana (internal)
kislinsk edited projects for T29509: [mxn multi widget] Clicking a render window utility toolbar does not change focus, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12)
kislinsk edited projects for T29570: [Preferences] Render window decoration color not immediately updated in Image Navigator, added: MITK (v2024.12); removed MITK (v2024.06).
Jun 17 2024, 2:33 PM · Moved to git.dkfz.de, MITK (v2024.12), Checklist