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Oct 20 2023

s434n added a revision to T30192: [MxN] UI elements not visible on Mac: Restricted Differential Revision.
Oct 20 2023, 1:14 PM · MITK (v2023.12)

Oct 19 2023

s434n closed T30226: [MxN] Removing a node crashes workbench as Resolved.
Oct 19 2023, 1:16 PM · MITK (v2023.12)

Oct 18 2023

a178n closed T30220: SAM tool: Custom NRRD writer not working as expected in Ubuntu as Resolved.
Oct 18 2023, 9:45 AM · MITK (v2023.12)

Oct 17 2023

kompan added a comment to T29454: Clarify the versions/editions we publish as installer.

For the bigger MITK Workbench version of the 2023.10 release it is planned to include Pharmacokinetics (Perfusion, PET) and ModelFit.
Specifically, the following plugins will be included:

Oct 17 2023, 12:40 PM · MITK (v2024.06), Request for Discussion

Oct 13 2023

floca added a comment to T30222: [Registration] Enable use of parameters for command line MiniApp.

Pushed new branch to rMITK MITK: feature/T30222-MatchImageMiniApp_add_parameter_support.

Oct 13 2023, 9:23 PM · MITK (v2023.12)
a178n added a revision to T30215: [SEG] Support TotalSegmentatorV2: Restricted Differential Revision.
Oct 13 2023, 10:05 AM · MITK (v2024.06)

Oct 12 2023

s434n updated the task description for T30226: [MxN] Removing a node crashes workbench.
Oct 12 2023, 5:05 PM · MITK (v2023.12)
s434n triaged T30226: [MxN] Removing a node crashes workbench as High priority.
Oct 12 2023, 5:02 PM · MITK (v2023.12)
s434n moved T29302: Movie maker plugin does not work correctly with the new mxn multi widget from Cycle to Backlog on the MITK (v2023.12) board.
Oct 12 2023, 10:22 AM · MITK (v2024.06)
s434n moved T29509: [mxn multi widget] Clicking a render window utility toolbar does not change focus from Cycle to Backlog on the MITK (v2023.12) board.
Oct 12 2023, 10:22 AM · MITK (v2024.06)
s434n placed T29302: Movie maker plugin does not work correctly with the new mxn multi widget up for grabs.
Oct 12 2023, 10:21 AM · MITK (v2024.06)
s434n placed T29509: [mxn multi widget] Clicking a render window utility toolbar does not change focus up for grabs.

I looked shortly into this, but couldn't find an easy way to solve it. The problem is that for the desired behavior, one needs to capture not only events of the utility widget itself, but also of all its child widgets.

Oct 12 2023, 10:21 AM · MITK (v2024.06)

Oct 11 2023

floca added a revision to T27718: Miniapp for basic DICOM testing: Restricted Differential Revision.
Oct 11 2023, 2:20 PM · MITK (v2023.12), Kaapana (internal)
s434n moved T30222: [Registration] Enable use of parameters for command line MiniApp from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 12:02 PM · MITK (v2023.12)
floca added a project to T29639: [Registration] Mapping crashes when super-sampling is activated: Missing Info.

Not clear when and how it happens. Need to narrow it down more.

Oct 11 2023, 11:57 AM · MITK (v2024.06), Missing Info
floca added a project to T29098: [3D Segmentation] UL Threshold Tool - 0 intensity value not include in slider range?: Restricted Project.
Oct 11 2023, 11:55 AM · MITK (v2024.06), Restricted Project, Checklist
floca added a project to T29535: Reinit of scene with planar figure while the Display is closed leads to crash: Known Issue.
Oct 11 2023, 11:49 AM · MITK (v2024.06), Known Issue
floca added a subtask for T29130: [WorkBench] Segmentation fault when "Close Project" is invoked and QmitkDataStorageComboBox widget is in UI: T30149: nnUNet(v2) in MITK.
Oct 11 2023, 11:36 AM · MITK
floca added a parent task for T30149: nnUNet(v2) in MITK: T29130: [WorkBench] Segmentation fault when "Close Project" is invoked and QmitkDataStorageComboBox widget is in UI.
Oct 11 2023, 11:36 AM · MITK (v2024.06)
floca placed T27655: [statistics] Logic of DataGeneratorBase blocks the UI thread up for grabs.
Oct 11 2023, 11:28 AM · MITK (v2024.06)
floca closed T28491: [Segmentation] Slice interpolation 'confirm for all slices' sometimes crahes as Resolved.
Oct 11 2023, 11:26 AM · MITK (v2023.12)
kompan claimed T29454: Clarify the versions/editions we publish as installer.
Oct 11 2023, 11:24 AM · MITK (v2024.06), Request for Discussion
floca moved T29454: Clarify the versions/editions we publish as installer from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 11:23 AM · MITK (v2024.06), Request for Discussion
floca triaged T30164: [Segmentation] [Bug] 2D RGB image not correctly handled by SegPreviewTool API tool as Normal priority.
Oct 11 2023, 11:20 AM · MITK (v2024.06), Request for Discussion
floca lowered the priority of T30158: [DCM][SEG] Check why unittests did not detect breaking support of DCM Seg and fix the (unit) test from Unbreak Now! to High.
Oct 11 2023, 11:17 AM · MITK (v2024.06)
kompan placed T29638: ModelFit Inspector crahes sometimes on data selection up for grabs.
Oct 11 2023, 11:17 AM · Next Milestone, MITK (v2024.06)
a178n claimed T30220: SAM tool: Custom NRRD writer not working as expected in Ubuntu.
Oct 11 2023, 11:14 AM · MITK (v2023.12)
kompan claimed T30201: Provide checklist for ModelFit Inspector View.
Oct 11 2023, 11:13 AM · MITK (v2024.06)
a178n placed T29130: [WorkBench] Segmentation fault when "Close Project" is invoked and QmitkDataStorageComboBox widget is in UI up for grabs.
Oct 11 2023, 11:12 AM · MITK
kompan closed T30198: Update checklist for Perfusion Concentration Curve Converter as Resolved.
Oct 11 2023, 11:12 AM · MITK (v2023.12)
s434n triaged T30222: [Registration] Enable use of parameters for command line MiniApp as Normal priority.
Oct 11 2023, 11:05 AM · MITK (v2023.12)
floca moved T29130: [WorkBench] Segmentation fault when "Close Project" is invoked and QmitkDataStorageComboBox widget is in UI from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 11:00 AM · MITK
floca moved T29509: [mxn multi widget] Clicking a render window utility toolbar does not change focus from mxn MultiWidget to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 11:00 AM · MITK (v2024.06)
floca moved T29597: TotalSeg didn't remember python environment from Segmentation to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:59 AM · MITK (v2024.06), Checklist
floca moved T29540: SAM as 2D tool in MITK from Segmentation to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:59 AM · MITK (v2024.06)
floca moved T29302: Movie maker plugin does not work correctly with the new mxn multi widget from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:58 AM · MITK (v2024.06)
floca moved T29295: MONAI Label App as auto-segmentation tool in MITK from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:57 AM · MITK (v2024.06)
floca moved T29651: [Preferences] SAM tool Preferences not rendered nicely on MacOS from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:57 AM · MITK (v2024.06)
floca moved T29539: SAM Python wrapper for MITK from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:57 AM · MITK (v2024.06)
s434n moved T30184: [MxN] Turning on data synchronizing hides newly added nodes from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:52 AM · MITK (v2023.12)
s434n moved T30192: [MxN] UI elements not visible on Mac from Backlog to Cycle on the MITK (v2023.12) board.
Oct 11 2023, 10:50 AM · MITK (v2023.12)
s434n claimed T30192: [MxN] UI elements not visible on Mac.
Oct 11 2023, 10:50 AM · MITK (v2023.12)
a178n added a comment to T30220: SAM tool: Custom NRRD writer not working as expected in Ubuntu.

Yes, that was it. Works now!

Oct 11 2023, 9:56 AM · MITK (v2023.12)
floca added a comment to T30220: SAM tool: Custom NRRD writer not working as expected in Ubuntu.

most likely it is due to wrong locales in the out stream operation on your OS. You have ',' in your file where '.' should be.

Oct 11 2023, 9:24 AM · MITK (v2023.12)
kompan closed T27813: Curve Description Parameters View progress bar 99% as Resolved.
Oct 11 2023, 9:17 AM · MITK (v2023.12)
a178n updated subscribers of T30220: SAM tool: Custom NRRD writer not working as expected in Ubuntu.
Oct 11 2023, 9:15 AM · MITK (v2023.12)
a178n added a comment to T30220: SAM tool: Custom NRRD writer not working as expected in Ubuntu.

This is the sample NRRD file written by the above mentioned writer function. It can't be opened in Python or by

.
Error log:

Exception occurred when reading file /tmp/mitk-sam-OBvksy/sam-in-QOdQsN/3111588501110146159.nrrd:
/home/user1/DKFZ/nnUNet_work/MITK_nnunet/build/ep/src/ITK/Modules/IO/NRRD/src/itkNrrdImageIO.cxx:292:
itk::ERROR: NrrdImageIO(0x561dd4b8c4b0): ReadImageInformation: Error reading /tmp/mitk-sam-OBvksy/sam-in-QOdQsN/3111588501110146159.nrrd:
[nrrd] nrrdLoad: trouble reading "/tmp/mitk-sam-OBvksy/sam-in-QOdQsN/3111588501110146159.nrrd"
[nrrd] nrrdRead: trouble
[nrrd] _nrrdRead: trouble reading NRRD file
[nrrd] _nrrdFormatNRRD_read: trouble parsing space origin info |(-185,04367065429688,-161,31900024414062)|
[nrrd] _nrrdReadNrrdParse_space_origin: couldn't parse origin "(-185,04367065429688,-161,31900024414062)"
[nrrd] _nrrdSpaceVectorParse: space dimension is 2, but seem to have 4 coefficients
Oct 11 2023, 9:15 AM · MITK (v2023.12)

Oct 10 2023

a178n triaged T30220: SAM tool: Custom NRRD writer not working as expected in Ubuntu as Normal priority.
Oct 10 2023, 3:01 PM · MITK (v2023.12)
floca edited projects for T29454: Clarify the versions/editions we publish as installer, added: MITK (v2023.12); removed MITK (v2023.04).
Oct 10 2023, 12:07 PM · MITK (v2024.06), Request for Discussion
kislinsk added a comment to T30155: Bounding boxes / ROIs in MITK.

Pushed new branch to rMITK MITK: feature/T30155-ROI.

Oct 10 2023, 10:26 AM · MITK (v2024.06)

Oct 5 2023

kislinsk closed T30216: Reduce amount of CMake warnings in MITK as Resolved by committing rMITK0dd98a1e2c63: Reduce amount of CMake warnings in MITK.
Oct 5 2023, 7:53 AM · MITK (v2023.12)

Oct 4 2023

a178n added a comment to T30215: [SEG] Support TotalSegmentatorV2.

Pushed new branch to rMITK MITK: feature/T30215-totalseg-v2-update.

Oct 4 2023, 5:25 PM · MITK (v2024.06)
kislinsk added a revision to T30216: Reduce amount of CMake warnings in MITK: Restricted Differential Revision.
Oct 4 2023, 2:25 PM · MITK (v2023.12)
kislinsk triaged T30216: Reduce amount of CMake warnings in MITK as Normal priority.
Oct 4 2023, 2:21 PM · MITK (v2023.12)
a178n renamed T30215: [SEG] Support TotalSegmentatorV2 from Support TotalSegmentatorV2 to [SEG] Support TotalSegmentatorV2.
Oct 4 2023, 2:15 PM · MITK (v2024.06)
a178n triaged T30215: [SEG] Support TotalSegmentatorV2 as Normal priority.
Oct 4 2023, 8:24 AM · MITK (v2024.06)

Sep 29 2023

kislinsk added a comment to T30213: Poco fails to build if the library names of OpenSSL are not libcrypto.lib and libssl.lib.

Deleted branch from rMITK MITK: bugfix/T30213-PocoOpenSSL.

Sep 29 2023, 2:53 PM · MITK (v2023.12)
kislinsk closed T30213: Poco fails to build if the library names of OpenSSL are not libcrypto.lib and libssl.lib as Resolved by committing rMITK859410e34da9: Fix CMake build of Poco Crypto with custom libcrypto.lib names.
Sep 29 2023, 2:53 PM · MITK (v2023.12)

Sep 28 2023

kislinsk added a comment to T30213: Poco fails to build if the library names of OpenSSL are not libcrypto.lib and libssl.lib.

Pushed new branch to rMITK MITK: bugfix/T30213-PocoOpenSSL.

Sep 28 2023, 3:23 PM · MITK (v2023.12)
kislinsk added a revision to T30213: Poco fails to build if the library names of OpenSSL are not libcrypto.lib and libssl.lib: Restricted Differential Revision.
Sep 28 2023, 11:57 AM · MITK (v2023.12)
kislinsk updated the task description for T30213: Poco fails to build if the library names of OpenSSL are not libcrypto.lib and libssl.lib.
Sep 28 2023, 11:01 AM · MITK (v2023.12)
kislinsk triaged T30213: Poco fails to build if the library names of OpenSSL are not libcrypto.lib and libssl.lib as High priority.
Sep 28 2023, 11:00 AM · MITK (v2023.12)

Sep 27 2023

floca added a comment to T30207: Add org.mitk.gui.qt.dicominspector to release.

I think in doubt I would just move but not merge it for now. If we see that it is needed or wanted we can make the effort and merge it. It would be better than not offering this feature at all.

Sep 27 2023, 11:01 AM · Request for Discussion, MITK (v2023.12)
floca added a project to T30207: Add org.mitk.gui.qt.dicominspector to release: Request for Discussion.

The dicom inspector has one additional dependency to module MITKDICOM. Therefore if we merge the inspector plugins also our normal inspector could only be build if DICOM module is activated. (Which it currently is per default).

Sep 27 2023, 10:56 AM · Request for Discussion, MITK (v2023.12)
floca claimed T30210: [SEG] Add dedicated reader for label image stack support.
Sep 27 2023, 10:50 AM · MITK (v2024.06)
floca claimed T30209: [SEG] Add a writer for label image stack support.
Sep 27 2023, 10:49 AM · MITK (v2024.06)
floca claimed T27718: Miniapp for basic DICOM testing.
Sep 27 2023, 10:39 AM · MITK (v2023.12), Kaapana (internal)

Sep 26 2023

kompan added a comment to T27813: Curve Description Parameters View progress bar 99%.

In fact, this problem occurs not just for the progress bar, but the progress itself, e.g. also in the info box 1 is currently never reached even if the descriptive parameter calculation process is finished. The reason for this bug is that the progress is stored in a member variable which is updated after the progress event is invoked. Therefore, the progress variable is always lagging one update behind. This is fixed by changing the order of the called functions.
The fix is done for the descriptive parameter calculation, but also for the pixel and ROI-wise fitting.

Sep 26 2023, 9:19 AM · MITK (v2023.12)

Sep 20 2023

kompan removed a project from T30205: Check and update perfusion user manual: Request for Discussion.
Sep 20 2023, 11:29 AM · MITK (v2024.06)
kompan added a comment to T30205: Check and update perfusion user manual.

Integrate into F1 help. Make MITK ModelFit Webpage deprecated for manual section with link to doxygen documentation.

Sep 20 2023, 11:29 AM · MITK (v2024.06)
kompan moved T30205: Check and update perfusion user manual from Backlog to MITK Meeting on the Request for Discussion board.
Sep 20 2023, 11:25 AM · MITK (v2024.06)
kompan removed a project from T30207: Add org.mitk.gui.qt.dicominspector to release: Request for Discussion.
Sep 20 2023, 11:19 AM · Request for Discussion, MITK (v2023.12)
kompan added a comment to T30207: Add org.mitk.gui.qt.dicominspector to release.

It is a useful feature and should be part of the next release.
Open to dos:

  • Checklist
  • check dependencies of the view. If the view does not have more dependencies then our property inspector should be merged.
Sep 20 2023, 11:18 AM · Request for Discussion, MITK (v2023.12)
kompan added a project to T30205: Check and update perfusion user manual: Request for Discussion.
Sep 20 2023, 9:56 AM · MITK (v2024.06)

Sep 15 2023

kompan closed T30199: Update checklist for Perfusion Curve Description Parameters as Resolved.
Sep 15 2023, 9:43 AM · MITK (v2023.12)
kompan removed a project from T27813: Curve Description Parameters View progress bar 99%: Cleared.
Sep 15 2023, 9:41 AM · MITK (v2023.12)

Sep 11 2023

floca placed T29392: [SEG] Add dedicated writer to store multi-label images in nifti up for grabs.
Sep 11 2023, 3:01 PM · MITK (v2024.06)
floca triaged T30210: [SEG] Add dedicated reader for label image stack support as Normal priority.
Sep 11 2023, 3:00 PM · MITK (v2024.06)
floca updated the task description for T30209: [SEG] Add a writer for label image stack support.
Sep 11 2023, 2:36 PM · MITK (v2024.06)
floca triaged T30209: [SEG] Add a writer for label image stack support as Normal priority.
Sep 11 2023, 2:36 PM · MITK (v2024.06)
floca triaged T30208: [SEG] Add support to read/write stack of label images from/to a mitk label image as Normal priority.
Sep 11 2023, 2:34 PM · MITK (v2024.06)
floca renamed T29392: [SEG] Add dedicated writer to store multi-label images in nifti from [Segmentation] Add dedicated writer to store multi-label images in nifti to [SEG] Add dedicated writer to store multi-label images in nifti.
Sep 11 2023, 1:58 PM · MITK (v2024.06)
floca moved T30207: Add org.mitk.gui.qt.dicominspector to release from Backlog to MITK Meeting on the Request for Discussion board.
Sep 11 2023, 11:43 AM · Request for Discussion, MITK (v2023.12)
floca triaged T30207: Add org.mitk.gui.qt.dicominspector to release as Normal priority.
Sep 11 2023, 11:43 AM · Request for Discussion, MITK (v2023.12)
kompan triaged T30206: Parameter naming in mitkPixelBasedParameterFitImageGeneratorTest and mitkROIBasedParameterFitImageGenerator as Normal priority.
Sep 11 2023, 11:05 AM · MITK (v2024.06)
kompan triaged T30205: Check and update perfusion user manual as Normal priority.
Sep 11 2023, 8:14 AM · MITK (v2024.06)
kompan triaged T30204: Improve visibility between help files for perfusion as Normal priority.
Sep 11 2023, 8:10 AM · Next Milestone, Request for Discussion, MITK (v2024.06)
kompan moved T30202: Provide checklist for ModelFit Generic Data Fitting from Backlog to Tests/Checklists on the MITK (v2023.12) board.
Sep 11 2023, 8:01 AM · MITK (v2024.06)
kompan moved T30203: Provide checklist for Fit Generator Demo from Backlog to Tests/Checklists on the MITK (v2023.12) board.
Sep 11 2023, 8:01 AM · MITK (v2024.06)
kompan triaged T30203: Provide checklist for Fit Generator Demo as Normal priority.
Sep 11 2023, 8:01 AM · MITK (v2024.06)
kompan triaged T30202: Provide checklist for ModelFit Generic Data Fitting as Normal priority.
Sep 11 2023, 8:00 AM · MITK (v2024.06)
kompan moved T30201: Provide checklist for ModelFit Inspector View from Backlog to Tests/Checklists on the MITK (v2023.12) board.
Sep 11 2023, 7:56 AM · MITK (v2024.06)
kompan triaged T30201: Provide checklist for ModelFit Inspector View as Normal priority.
Sep 11 2023, 7:48 AM · MITK (v2024.06)
kompan moved T30200: Update checklist for Perfusion DCE MRI Perfusion Datafit from Backlog to Tests/Checklists on the MITK (v2023.12) board.
Sep 11 2023, 7:46 AM · MITK (v2024.06)
kompan triaged T30200: Update checklist for Perfusion DCE MRI Perfusion Datafit as Normal priority.
Sep 11 2023, 7:46 AM · MITK (v2024.06)
kompan moved T30199: Update checklist for Perfusion Curve Description Parameters from Backlog to Tests/Checklists on the MITK (v2023.12) board.
Sep 11 2023, 7:45 AM · MITK (v2023.12)
kompan triaged T30199: Update checklist for Perfusion Curve Description Parameters as Normal priority.
Sep 11 2023, 7:45 AM · MITK (v2023.12)
kompan moved T30198: Update checklist for Perfusion Concentration Curve Converter from Backlog to Tests/Checklists on the MITK (v2023.12) board.
Sep 11 2023, 7:43 AM · MITK (v2023.12)
kompan triaged T30198: Update checklist for Perfusion Concentration Curve Converter as Normal priority.
Sep 11 2023, 7:43 AM · MITK (v2023.12)
kompan removed a project from T27350: Refactoring of T1 map calculation/selection for perfusion and CEST: Cleared.
Sep 11 2023, 7:39 AM · MITK (v2024.06)