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Wed, Sep 20

kompan removed a project from T30168: Fail to load NIFTI images due to error "itk only supports orthonormal direction cosines": Request for Discussion.

Discussion result: Use permissive mode always switched on. No preferences needed.

Wed, Sep 20, 11:57 AM · MITK
kompan removed a project from T30186: PixelDumper view in MITK release: Request for Discussion.

Discussion result: Feature is useful but not as plugin on its own but instead as part of the statistics plugin (as an additional button like copy to clipboard).

Wed, Sep 20, 11:37 AM · MITK
kompan moved T30186: PixelDumper view in MITK release from Backlog to MITK Meeting on the Request for Discussion board.
Wed, Sep 20, 11:25 AM · MITK
kompan moved T30168: Fail to load NIFTI images due to error "itk only supports orthonormal direction cosines" from Backlog to MITK Meeting on the Request for Discussion board.
Wed, Sep 20, 11:24 AM · MITK

Tue, Sep 19

floca added a project to T30186: PixelDumper view in MITK release: Request for Discussion.
Tue, Sep 19, 11:39 AM · MITK
floca updated the task description for T30186: PixelDumper view in MITK release.
Tue, Sep 19, 11:38 AM · MITK
floca added a comment to T30186: PixelDumper view in MITK release.

Is there some additional functionality involved or could we just add it as another MIME type for images instead of a dedicated plugin?

Yes there is. As only (potentially) the pixel values of image parts with an mask should be exported. And you can select multiple image (as long as they have the same geometry), there pixel values will be exported into the same table.

Tue, Sep 19, 11:38 AM · MITK

Fri, Sep 8

floca added a comment to T26397: Multilabel Segmentation file cannot be converted to multilabel segmentation in MITK.

@full Is this still an issue (with the current release)?

Fri, Sep 8, 11:59 AM · MITK

Aug 17 2023

kislinsk added a comment to T30186: PixelDumper view in MITK release.

As far as I understand the plugin's purpose it is basically an export of an image as CSV file? And the request is to add it to MITK instead of eMITK? Is there some additional functionality involved or could we just add it as another MIME type for images instead of a dedicated plugin?

Aug 17 2023, 9:16 PM · MITK

Aug 16 2023

kislinsk closed T30176: [Segmentation Task List] Improve task selection for long task lists as Resolved.
Aug 16 2023, 1:17 PM · MITK
kislinsk closed T30177: Add command-line app for converting contours like RTSTRUCT to masks as Resolved.
Aug 16 2023, 1:17 PM · MITK
kislinsk added a comment to T30177: Add command-line app for converting contours like RTSTRUCT to masks.

Deleted branch from rMITK MITK: feature/T30177-ContourModelSetToSegmentationApp.

Aug 16 2023, 1:17 PM · MITK
kislinsk added a comment to T30176: [Segmentation Task List] Improve task selection for long task lists.

Deleted branch from rMITK MITK: feature/T30176-FindTask.

Aug 16 2023, 9:30 AM · MITK

Aug 12 2023

floca updated the task description for T30186: PixelDumper view in MITK release.
Aug 12 2023, 5:09 PM · MITK
floca triaged T30186: PixelDumper view in MITK release as Normal priority.
Aug 12 2023, 5:04 PM · MITK
floca closed T26368: [ModelFitInspector] Performance if multiple bookmark points are added as Wontfix.

After we have moved to Qt6, we then have QtCharts to our disposal and migrate to that.

Aug 12 2023, 3:19 PM · Restricted Project, Restricted Project, MITK
floca closed T26368: [ModelFitInspector] Performance if multiple bookmark points are added, a subtask of T25832: Migrate ModelFit inspector plugin to MitkChart, as Wontfix.
Aug 12 2023, 3:19 PM · Restricted Project, Restricted Project, MITK
floca closed T26367: [ModelFitInspector] Remove bookmark doesn't work, a subtask of T25832: Migrate ModelFit inspector plugin to MitkChart, as Wontfix.
Aug 12 2023, 3:17 PM · Restricted Project, Restricted Project, MITK
floca closed T26367: [ModelFitInspector] Remove bookmark doesn't work as Wontfix.

After we have moved to Qt6, we then have QtCharts to our disposal and migrate to that.

Aug 12 2023, 3:17 PM · Restricted Project, Restricted Project, MITK
floca closed T26366: [ModelFitInspector] Fixed scaling doesn't work yet as Wontfix.

After we have moved to Qt6, we then have QtCharts to our disposal and migrate to that.

Aug 12 2023, 3:17 PM · Restricted Project, Restricted Project, MITK
floca closed T26366: [ModelFitInspector] Fixed scaling doesn't work yet, a subtask of T25832: Migrate ModelFit inspector plugin to MitkChart, as Wontfix.
Aug 12 2023, 3:17 PM · Restricted Project, Restricted Project, MITK
floca added a comment to T25832: Migrate ModelFit inspector plugin to MitkChart.

Should be done after(!) we have moved to Qt6 as we then have QtCharts to our disposal and migrate to that.

Aug 12 2023, 3:15 PM · Restricted Project, Restricted Project, MITK
floca added a subtask for T26473: Optimize QmitkChartWidget interface: T29406: Make MITK compatible with Qt 6.
Aug 12 2023, 3:11 PM · MITK
floca added a comment to T26473: Optimize QmitkChartWidget interface.

Should be done after(!) we have moved to Qt6 as we then have QtCharts to our disposal and migrate to that.

Aug 12 2023, 3:11 PM · MITK

Aug 11 2023

a178n closed T29560: TotalSegmentator Label naming scheme, a subtask of T29437: [SEG] Add TotalSegmentator, as Resolved.
Aug 11 2023, 2:55 PM · MITK

Aug 9 2023

a178n placed T29437: [SEG] Add TotalSegmentator up for grabs.
Aug 9 2023, 5:22 PM · MITK
s434n removed a project from T30181: Add option for a "mean" line profile in statistics view: Request for Discussion.
Aug 9 2023, 12:14 PM · Restricted Project, MITK
s434n merged task T29630: Command-line app for voxelizing contour sets / RTSTRUCTs in MITK into T30177: Add command-line app for converting contours like RTSTRUCT to masks.
Aug 9 2023, 11:52 AM · Request for Discussion, MITK
s434n merged T29630: Command-line app for voxelizing contour sets / RTSTRUCTs in MITK into T30177: Add command-line app for converting contours like RTSTRUCT to masks.
Aug 9 2023, 11:52 AM · MITK
s434n removed a project from T29454: Clarify the versions/editions we publish as installer: Request for Discussion.

We want to have:

  • a slick minimum Workbench version
  • a fuller / bigger version. Exact contents and name still need to be compiled (e.g. Perfusion, Fitting, ...)
Aug 9 2023, 11:46 AM · MITK

Aug 6 2023

kislinsk added a revision to T30176: [Segmentation Task List] Improve task selection for long task lists: Restricted Differential Revision.
Aug 6 2023, 11:41 AM · MITK

Aug 4 2023

floca triaged T30183: [REG] Add Elastix support to MITK as Normal priority.
Aug 4 2023, 10:22 AM · MITK

Aug 3 2023

kislinsk added a revision to T30177: Add command-line app for converting contours like RTSTRUCT to masks: Restricted Differential Revision.
Aug 3 2023, 10:26 PM · MITK
floca added a project to T30181: Add option for a "mean" line profile in statistics view: Request for Discussion.
Aug 3 2023, 3:54 PM · Restricted Project, MITK
kislinsk added a comment to T30177: Add command-line app for converting contours like RTSTRUCT to masks.
Example 1
MitkContoursToImage.bat --reference image.dcm --input rtstruct_contours.dcm --output output.nrrd
Aug 3 2023, 3:54 PM · MITK
floca triaged T30181: Add option for a "mean" line profile in statistics view as Normal priority.
Aug 3 2023, 3:50 PM · Restricted Project, MITK
kislinsk added a comment to T30177: Add command-line app for converting contours like RTSTRUCT to masks.

The app is now called MitkContoursToImage. By default it outputs classic binary images for each contour set in the input. Use the --format/-f flag (defaults to binary) to change the output format to label or multilabel. The former outputs single-label segmentations for each contour set in the input and the latter outputs a single multi-label segmentation with labels for each contour set. Note that each label will be in its own layer/group to allow for overlapping labels.

Aug 3 2023, 3:48 PM · MITK
kislinsk added a comment to T30177: Add command-line app for converting contours like RTSTRUCT to masks.

Pushed new branch to rMITK MITK: feature/T30177-ContourModelSetToSegmentationApp.

Aug 3 2023, 2:20 PM · MITK

Aug 2 2023

kislinsk triaged T30177: Add command-line app for converting contours like RTSTRUCT to masks as Wishlist priority.
Aug 2 2023, 11:48 AM · MITK
kislinsk renamed T30169: Hot keys for iterating through slices (while segmenting) from Hot keys for iterating throw slices (while segmenting) to Hot keys for iterating through slices (while segmenting).
Aug 2 2023, 11:44 AM · Request for Discussion, MITK

Aug 1 2023

kislinsk added a comment to T30176: [Segmentation Task List] Improve task selection for long task lists.

Pushed new branch to rMITK MITK: feature/T30176-FindTask.

Aug 1 2023, 4:50 PM · MITK
kislinsk added a comment to T29650: mitk-flow " Please reinitialize the selected segmentation image!" problem.

I just did the Pic3D/brain test mentioned above and it works with v2023.04.

Aug 1 2023, 3:36 PM · Next Milestone, Request for Discussion, MITK
kislinsk triaged T30176: [Segmentation Task List] Improve task selection for long task lists as High priority.
Aug 1 2023, 3:15 PM · MITK
kislinsk triaged T29650: mitk-flow " Please reinitialize the selected segmentation image!" problem as Normal priority.
Aug 1 2023, 3:11 PM · Next Milestone, Request for Discussion, MITK
kislinsk added a comment to T29650: mitk-flow " Please reinitialize the selected segmentation image!" problem.

We could set up a test case to check if it is still an issue in the context of segmentation task lists. A segmentation task list with two tasks, one task referencing Pic3D.nrrd, the other task referencing the tilted brain.nrrd image. If this is working with the latest release it should be a proof that is not an issue anymore.

Aug 1 2023, 3:11 PM · Next Milestone, Request for Discussion, MITK
kislinsk closed T30167: Volumetric feature calculation limited to voxels with label == 1 in MITK Radiomics as Wontfix.

Thanks for the report. We recently removed this functionality from MITK so I would like to close this task as Wontfix if you are fine with the workaround you mentioned?

Aug 1 2023, 3:04 PM · MITK
kislinsk triaged T30169: Hot keys for iterating through slices (while segmenting) as Wishlist priority.
Aug 1 2023, 3:02 PM · Request for Discussion, MITK

Jul 31 2023

floca renamed T30175: [Py] UC4 - All images in data storage that are visible are set opacity 50% in a specific render window from [Py] UC2 - All images in data storage that are visible are set opacity 50% in a specific render window to [Py] UC4 - All images in data storage that are visible are set opacity 50% in a specific render window.
Jul 31 2023, 8:04 PM · MITK
floca renamed T30175: [Py] UC4 - All images in data storage that are visible are set opacity 50% in a specific render window from [Py] UC2 - All images in data storage that are visible are stored to [Py] UC2 - All images in data storage that are visible are set opacity 50% in a specific render window.
Jul 31 2023, 8:04 PM · MITK
floca created T30175: [Py] UC4 - All images in data storage that are visible are set opacity 50% in a specific render window.
Jul 31 2023, 7:56 PM · MITK