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kompan (Ina Nora Kompan)
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User Since
Nov 6 2017, 1:47 PM (349 w, 3 d)

Recent Activity

Jun 4 2024

kompan added a comment to T30448: MITK snapshots/2024-05-02 Workbench not restarting.
  • Windows Edition: Windows 11 Home
  • MITK Blocked /Scanned: When starting the MitkWorkbench.bat file the Windows system does not let it run intially. A window appears "Windowps protects your PC- Microsoft Defender SmartScreen prevented an ungecognised app from starting- Running this app might put your PC at risk." Then the option "Run anyway" was selected.
  • Installation location: in C drive ( Desktop)
  • Exact terminal output: Command window with a large amount of text appears when the software runs; otherwise, only the first paragraph ("C:\Users\....\bin\MitkWokbench.exe") appears in the command screen.
Jun 4 2024, 9:13 AM · MITK (v2024.12), Missing Info

May 17 2024

kompan renamed T30448: MITK snapshots/2024-05-02 Workbench not restarting from MITK snapshots/2023-12-06 Workbench not restarting to MITK snapshots/2024-05-02 Workbench not restarting.
May 17 2024, 11:23 AM · MITK (v2024.12), Missing Info
kompan created T30448: MITK snapshots/2024-05-02 Workbench not restarting.
May 17 2024, 10:17 AM · MITK (v2024.12), Missing Info

May 16 2024

kompan added a project to T30204: Improve visibility between help files for perfusion: Next Milestone.
May 16 2024, 10:05 AM · MITK (v2024.12), Request for Discussion
kompan added a project to T29638: ModelFit Inspector crahes sometimes on data selection: Next Milestone.
May 16 2024, 10:05 AM · MITK (v2024.12)
kompan added a project to T30432: [Perfusion] Possible to write text into info box: Next Milestone.
May 16 2024, 10:04 AM · MITK (v2024.12)
kompan added a project to T30439: [Perfusion] Only a selection of debug parameter images generated as sub-nodes: Next Milestone.
May 16 2024, 10:03 AM · MITK (v2024.12), Request for Discussion, Checklist
kompan closed T27339: Provide public MITK ModelFit installer on a regular basis, a subtask of T27340: [ModelFit] Request for Mac Workbench installer, as Resolved.
May 16 2024, 10:00 AM · Auto-closed, Restricted Project, MITK
kompan closed T27339: Provide public MITK ModelFit installer on a regular basis as Resolved.

This task is closed since the ModelFit/Perfusion views will be part of MITK v2024.06 and it is planned that they will be part of the official releases from MITK v2024.06 onwards.

May 16 2024, 10:00 AM · MITK (v2024.06)
kompan added a project to T30296: [Perfusion] Concentration Curve Converter view does not hide options when deselecting 3D/4D: Next Milestone.
May 16 2024, 9:54 AM · MITK (v2024.12)
kompan added a project to T30437: [Perfusion] Provide example start parameter image for checklists: Next Milestone.
May 16 2024, 9:53 AM · MITK (v2024.12), Checklist
kompan edited projects for T26288: MRI Perfusion view should only generate concentration images once, added: Next Milestone; removed Cleared.
May 16 2024, 9:52 AM · MITK (v2024.12)
kompan added a project to T30440: [Perfusion] Error when loading AIF from csv file in DCE MR Perfusion DataFit View: Next Milestone.
May 16 2024, 9:46 AM · MITK (v2024.12), Checklist
kompan added a project to T30441: [Perfusion] Baseline range bug for variable flip angle conversion: Next Milestone.
May 16 2024, 9:45 AM · MITK (v2024.12), Checklist
kompan closed T27739: Inspection positions deletion in ModelFit not updated in data display. as Resolved.
May 16 2024, 9:42 AM · MITK (v2024.06), Cleared
kompan committed rMITK4f7293627beb: Fix collection of bugs in the ModelFitInspectorView. (authored by kompan).
Fix collection of bugs in the ModelFitInspectorView.
May 16 2024, 9:37 AM
kompan committed rMITK9f2fc5b40ff0: SmartPointer for m_PositionBookmarksNode and m_PositionBookmarks. (authored by kompan).
SmartPointer for m_PositionBookmarksNode and m_PositionBookmarks.
May 16 2024, 9:37 AM
kompan committed rMITK95d32ae25ec5: Remove empty line. (authored by kompan).
Remove empty line.
May 16 2024, 9:37 AM
kompan committed rMITK5d4b27e52ee8: Fix comparison to resolve CI errors. (authored by kompan).
Fix comparison to resolve CI errors.
May 16 2024, 9:37 AM
kompan committed rMITKa20f31105474: Use container iteration to iterated over static parameters. (authored by kompan).
Use container iteration to iterated over static parameters.
May 16 2024, 9:37 AM
kompan committed rMITK9639faf6cc77: Remove old code. (authored by kompan).
Remove old code.
May 16 2024, 9:37 AM
kompan committed rMITKb836340cf070: Hide "Additional input data visibilty" field (T30238) (authored by kompan).
Hide "Additional input data visibilty" field (T30238)
May 16 2024, 9:36 AM
kompan committed rMITK5a4e9e52341d: Fix inspection positions deletion update (T27739). (authored by kompan).
Fix inspection positions deletion update (T27739).
May 16 2024, 9:36 AM
kompan committed rMITK6118a45f16a3: Write vectors of all AIF and AIF Timegrid values into fit result table (T30237). (authored by kompan).
Write vectors of all AIF and AIF Timegrid values into fit result table (T30237).
May 16 2024, 9:36 AM
kompan committed rMITKbe8a6b91885f: Correction to set same colors in display of curves and in the view settings… (authored by kompan).
Correction to set same colors in display of curves and in the view settings…
May 16 2024, 9:36 AM
kompan committed rMITK8bd786bb3b1f: Remove dublication of infoOutput. (authored by kompan).
Remove dublication of infoOutput.
May 16 2024, 9:36 AM

May 15 2024

kompan edited projects for T30428: DCE MR Perfusion DataFit View: Selected Mask widget can't find DICOM segmentation nodes, added: Next Milestone; removed Request for Discussion, Checklist.
May 15 2024, 11:42 AM · MITK (v2024.12)
kompan added a comment to T30428: DCE MR Perfusion DataFit View: Selected Mask widget can't find DICOM segmentation nodes.

In the MitkNodePredicateGeometry to precision is set to 1e-6. So this is at least one of the issues why the old masks are not found. It could be an option to relax the precision, but since the rotation matrix might have a large effect even for small inaccuracies, it needs to be thoroughly tested first how big the effect is if. e.g 1e-4 is accepted.
For now, the new segmentation masks are provided as test data instead of the old masks.

May 15 2024, 11:41 AM · MITK (v2024.12)
kompan moved T30428: DCE MR Perfusion DataFit View: Selected Mask widget can't find DICOM segmentation nodes from Backlog to MITK Meeting on the Request for Discussion board.
May 15 2024, 11:18 AM · MITK (v2024.12)
kompan moved T30439: [Perfusion] Only a selection of debug parameter images generated as sub-nodes from Backlog to Cycle on the MITK (v2024.06) board.
May 15 2024, 10:53 AM · MITK (v2024.12), Request for Discussion, Checklist
kompan moved T30428: DCE MR Perfusion DataFit View: Selected Mask widget can't find DICOM segmentation nodes from Backlog to Cycle on the MITK (v2024.06) board.
May 15 2024, 10:52 AM · MITK (v2024.12)

May 14 2024

kompan added a project to T30428: DCE MR Perfusion DataFit View: Selected Mask widget can't find DICOM segmentation nodes: Request for Discussion.
May 14 2024, 11:36 AM · MITK (v2024.12)
kompan added a comment to T30428: DCE MR Perfusion DataFit View: Selected Mask widget can't find DICOM segmentation nodes.

I compared the geometry of the dynamic image, the old mask (which could not be found anymore) and a new mask (is found), using the Details info box in MITK. I found small differences in the geometries between the old mask and the dynamic image, but not between the new mask and the dynamic image. Namely:
Spacing:
dynamic image: [1.0156, 1.0156, 5.99998]
old mask: [1.0156, 1.0156, 5.99997]
new mask: [1.0156, 1.0156, 5.99998]

May 14 2024, 11:36 AM · MITK (v2024.12)

May 10 2024

kompan triaged T30441: [Perfusion] Baseline range bug for variable flip angle conversion as Normal priority.
May 10 2024, 10:55 AM · MITK (v2024.12), Checklist
kompan triaged T30440: [Perfusion] Error when loading AIF from csv file in DCE MR Perfusion DataFit View as Normal priority.
May 10 2024, 10:24 AM · MITK (v2024.12), Checklist
kompan triaged T30439: [Perfusion] Only a selection of debug parameter images generated as sub-nodes as Normal priority.
May 10 2024, 9:55 AM · MITK (v2024.12), Request for Discussion, Checklist

May 8 2024

kompan added a comment to T30435: Rename "Time" to "Timestep" in Image Navigator?.

It is not straighforward which name to use, since what is displayed in the Image Navigator depends on if the dynamic image has been globally or locally initiated. Therefore, for now we keep the name "Time" in the Image Navigator. What is shown is therefore not obvious for the user and should be documented clearly in the F1 help. It needs to be checked if this is the case.
A solution could be to provide a separate slider in the ModelFit Inspector View.

May 8 2024, 11:21 AM · MITK (v2024.12), Checklist
kompan added projects to T30425: [SEG] Segment Anything - Loading errors occur when opening the preferences: MITK (v2024.06), Checklist.
May 8 2024, 11:03 AM · MITK (v2024.12), Checklist
kompan moved T18489: Help perspective cannot be closed from Backlog to Cycle on the MITK (v2024.06) board.
May 8 2024, 9:57 AM · MITK (v2024.12), Request for Discussion
kompan reopened T18489: Help perspective cannot be closed as "Open".
May 8 2024, 9:41 AM · MITK (v2024.12), Request for Discussion
kompan added a comment to T18489: Help perspective cannot be closed.

Since this issue was pointed out by a user recently (and I also found it confusing before reading this task description), I would like to re-open this task for discussion.

May 8 2024, 9:40 AM · MITK (v2024.12), Request for Discussion

May 7 2024

kompan triaged T30437: [Perfusion] Provide example start parameter image for checklists as Low priority.
May 7 2024, 10:49 AM · MITK (v2024.12), Checklist
kompan triaged T30436: [Perfusion] Checkbox for Start Parameters instead of radio button as Low priority.
May 7 2024, 10:43 AM · MITK (v2024.12), Checklist
kompan added a project to T30435: Rename "Time" to "Timestep" in Image Navigator?: Request for Discussion.
May 7 2024, 10:40 AM · MITK (v2024.12), Checklist
kompan triaged T30435: Rename "Time" to "Timestep" in Image Navigator? as Normal priority.
May 7 2024, 9:48 AM · MITK (v2024.12), Checklist
kompan triaged T30434: [Perfusion] Concentration curve converter VFA box tab key skips flip angles as Normal priority.
May 7 2024, 9:40 AM · MITK (v2024.12), Checklist
kompan triaged T30433: [Perfusion] Inconsistent appearance of info box message "Cannot compute parameters. No node selected." as Normal priority.
May 7 2024, 9:11 AM · MITK (v2024.12)
kompan updated the task description for T30432: [Perfusion] Possible to write text into info box.
May 7 2024, 9:03 AM · MITK (v2024.12)
kompan triaged T30432: [Perfusion] Possible to write text into info box as Normal priority.
May 7 2024, 8:57 AM · MITK (v2024.12)

May 6 2024

kompan added a comment to T30428: DCE MR Perfusion DataFit View: Selected Mask widget can't find DICOM segmentation nodes.

It seems to be an issue with this specific dataset. I made new set of segmentations (Prostate label and AIF label) and stored them each as DICOM segmentation. And now I find that the segmentation nodes are found as expected. It needs to be determined if the old data set is somehow corrupted or if it is a backwards compatibility issue (the masks were initially created in 2019).

May 6 2024, 11:10 AM · MITK (v2024.12)
kompan added a subtask for T29524: SAM in MITK: T30427: [SEG] No status change message after changing model type to ‘vit_l’..
May 6 2024, 10:02 AM · MITK
kompan added a parent task for T30427: [SEG] No status change message after changing model type to ‘vit_l’.: T29524: SAM in MITK.
May 6 2024, 10:02 AM · MITK (v2024.12), Checklist
kompan triaged T30427: [SEG] No status change message after changing model type to ‘vit_l’. as Normal priority.
May 6 2024, 10:02 AM · MITK (v2024.12), Checklist
kompan added a subtask for T29524: SAM in MITK: T30426: [SEG] Highlight importance of level window in Segment Anything.
May 6 2024, 9:58 AM · MITK
kompan added a parent task for T30426: [SEG] Highlight importance of level window in Segment Anything: T29524: SAM in MITK.
May 6 2024, 9:58 AM · Checklist, MITK (v2024.06)
kompan triaged T30426: [SEG] Highlight importance of level window in Segment Anything as Normal priority.
May 6 2024, 9:57 AM · Checklist, MITK (v2024.06)
kompan triaged T30425: [SEG] Segment Anything - Loading errors occur when opening the preferences as Normal priority.
May 6 2024, 9:54 AM · MITK (v2024.12), Checklist
kompan updated the task description for T30424: [SEG] Reduce size of dots in Segment Anything.
May 6 2024, 9:44 AM · MITK (v2024.12), Checklist
kompan triaged T30424: [SEG] Reduce size of dots in Segment Anything as Normal priority.
May 6 2024, 9:42 AM · MITK (v2024.12), Checklist
kompan triaged T30423: [SEG] Segment Anything misleading GPU message for first time users as Normal priority.
May 6 2024, 9:33 AM · Checklist, MITK (v2024.06)

May 1 2024

kompan committed rMITKf298153c27b2: Update data selection concept in perfusion/modelfit-related views. (authored by kompan).
Update data selection concept in perfusion/modelfit-related views.
May 1 2024, 8:15 AM
kompan committed rMITK906ce4ac4140: Repeat corrections for MR Perfusion. (authored by kompan).
Repeat corrections for MR Perfusion.
May 1 2024, 8:15 AM
kompan committed rMITKa1bd0c09c54e: Remove dead code. (authored by kompan).
Remove dead code.
May 1 2024, 8:15 AM
kompan committed rMITK8eb45528ac17: Remove OnNodeSelectionChanged and reset mask predicate for PET. (authored by kompan).
Remove OnNodeSelectionChanged and reset mask predicate for PET.
May 1 2024, 8:15 AM
kompan committed rMITKffaf3da5fac1: Reset mask predicate. (authored by kompan).
Reset mask predicate.
May 1 2024, 8:15 AM
kompan committed rMITK7acf10d1152a: Use the mitkMultiLabelNodePredicateHelper in curve descriptive parameters view. (authored by kompan).
Use the mitkMultiLabelNodePredicateHelper in curve descriptive parameters view.
May 1 2024, 8:15 AM
kompan committed rMITK2f14d924c089: Remove OnNodeSelectionChanged. (authored by kompan).
Remove OnNodeSelectionChanged.
May 1 2024, 8:15 AM
kompan committed rMITK61e77a7bff1a: Remove dead code. (authored by kompan).
Remove dead code.
May 1 2024, 8:15 AM
kompan committed rMITK4cb395b1b500: Same correction steps for PET as for generic data fitting view. (authored by kompan).
Same correction steps for PET as for generic data fitting view.
May 1 2024, 8:15 AM
kompan committed rMITKc8336cd00130: Different slots for image and the mask. (authored by kompan).
Different slots for image and the mask.
May 1 2024, 8:15 AM
kompan committed rMITK5d06aed0f17a: Use GetMultiLabelSegmentationPredicate instead of constructed predicates. (authored by kompan).
Use GetMultiLabelSegmentationPredicate instead of constructed predicates.
May 1 2024, 8:15 AM
kompan committed rMITK5629a1bd0df4: Rename function to prevent hidden overloaded virtual function error. (authored by kompan).
Rename function to prevent hidden overloaded virtual function error.
May 1 2024, 8:15 AM
kompan committed rMITK3c59babcb338: Remove duplicate code. (authored by kompan).
Remove duplicate code.
May 1 2024, 8:15 AM
kompan committed rMITKecc10778abda: Fix T30217 - Change data selection concept for curve description parameters… (authored by kompan).
Fix T30217 - Change data selection concept for curve description parameters…
May 1 2024, 8:15 AM
kompan committed rMITK294ad53644d0: Change data selection concept in the PET Dynamic View. (authored by kompan).
Change data selection concept in the PET Dynamic View.
May 1 2024, 8:15 AM
kompan committed rMITK27f21c3f793c: Fix T30217 - change data selection concept in the Generic Data Fitting View. (authored by kompan).
Fix T30217 - change data selection concept in the Generic Data Fitting View.
May 1 2024, 8:15 AM

Apr 19 2024

kompan committed rMITK7a59bd54fe89: Fix a collection of UI bugs in Perfusion and ModelFit. (authored by kompan).
Fix a collection of UI bugs in Perfusion and ModelFit.
Apr 19 2024, 9:16 AM
kompan committed rMITK891ca05736c7: Fix T30341 - Same location for buttons for T1 and T2 conversion (authored by kompan).
Fix T30341 - Same location for buttons for T1 and T2 conversion
Apr 19 2024, 9:16 AM
kompan committed rMITK4e930ff758a5: T30278 - Disable conversion tab for descriptive Brix. (authored by kompan).
T30278 - Disable conversion tab for descriptive Brix.
Apr 19 2024, 9:16 AM
kompan committed rMITK14653aa49d03: T30343, T30339 -Add mask info box to GenericDataFitting, MRPerfusion an… (authored by kompan).
T30343, T30339 -Add mask info box to GenericDataFitting, MRPerfusion an…
Apr 19 2024, 9:16 AM
kompan committed rMITK788416a6f44e: Fix T30276-Remove AIF image selection when "Select AIF from File" is chosen (authored by kompan).
Fix T30276-Remove AIF image selection when "Select AIF from File" is chosen
Apr 19 2024, 9:16 AM

Feb 28 2024

kompan moved T27739: Inspection positions deletion in ModelFit not updated in data display. from Backlog to Cycle on the MITK (v2024.06) board.
Feb 28 2024, 9:27 AM · MITK (v2024.06), Cleared
kompan closed T27814: Refactor ModelFit Generic Data Fitting view to use new selection concept as Resolved.

This task is closed and will be worked on as part of task https://phabricator.mitk.org/T30217.

Feb 28 2024, 9:26 AM · MITK (v2024.06), Cleared
kompan moved T29638: ModelFit Inspector crahes sometimes on data selection from Backlog to Cycle on the MITK (v2024.06) board.
Feb 28 2024, 9:23 AM · MITK (v2024.12)
kompan closed T27664: Check conversion from signal to concentration for a turboFLASH sequence as Wontfix.
Feb 28 2024, 9:22 AM · MITK (v2024.06), Cleared
kompan moved T30204: Improve visibility between help files for perfusion from Backlog to Cycle on the MITK (v2024.06) board.
Feb 28 2024, 9:21 AM · MITK (v2024.12), Request for Discussion

Feb 27 2024

kompan closed T30203: Provide checklist for Fit Generator Demo as Wontfix.

The Fit Generator Demo is no part of the currentl releases, therefore no checklist is provided.

Feb 27 2024, 9:35 AM · MITK (v2024.06)

Feb 26 2024

kompan added a project to T30204: Improve visibility between help files for perfusion: Request for Discussion.
Feb 26 2024, 11:43 AM · MITK (v2024.12), Request for Discussion
kompan closed T30205: Check and update perfusion user manual as Wontfix.

This task is closed as wontfix since the perfusion ModelFit user manual is not provided anymore. All the information available in the user manual is given via the F1-help/ the plugin documentation at https://docs.mitk.org/2023.12/PluginListPage.html.

Feb 26 2024, 11:42 AM · MITK (v2024.06)
kompan closed T28776: Perfusion DataFit View: Inconsistencies in the signal conversion using the turboFLASH sequence as Wontfix.

This task is closed as wontfix since we decided to not support this conversion method anymore (see https://phabricator.mitk.org/T30225).

Feb 26 2024, 11:38 AM · MITK (v2024.06), Checklist
kompan closed T27350: Refactoring of T1 map calculation/selection for perfusion and CEST as Wontfix.

I looked into the issue in more detail and found that the current implementation of the variable flip angle T_1-mapping cannot be easily replaced with a more general T_1-mapping approach. The reason for this is that not just the T_1-map is calculated but also the signal scaling factor S_0 is determined (which is additionally required for the conversion).

Feb 26 2024, 11:33 AM · MITK (v2024.06)
kompan closed T27746: New data selection concept for Fit Generator Demo View as Wontfix.

The Fit Generator Demo View is not part of the MITK release and is not actively supported anymore for now.

Feb 26 2024, 11:13 AM · MITK (v2024.06)

Feb 15 2024

kompan closed T29620: Check if GenericFitMiniApp supports the needed model as Resolved.

This fitting task was applied not to many cases, therefore AVID batch processing was not required and fitting was done in MITK using the formula parser.

Feb 15 2024, 10:24 AM · Missing Info, MITK, Restricted Project, Restricted Project

Dec 11 2023

kompan added a comment to T24795: ModelFit visualization bug?.

In the current ModelFit Inspector version, the current time point is not marked at all. When moving through the time steps in the Image Navigator all data points are displayed at the same color, the current time point is not highlighted in another color. We should discuss if we want this behaviour back and check if there is a bug due to which this functionality is not present anymore.

Dec 11 2023, 10:43 AM · Auto-closed, MITK, Restricted Project

Dec 5 2023

kompan closed T30200: Update checklist for Perfusion DCE MRI Perfusion Datafit as Resolved.
Dec 5 2023, 11:04 AM · MITK (v2024.06)
kompan closed T30202: Provide checklist for ModelFit Generic Data Fitting as Resolved.
Dec 5 2023, 11:04 AM · MITK (v2024.06)
kompan closed T30201: Provide checklist for ModelFit Inspector View as Resolved.
Dec 5 2023, 11:03 AM · MITK (v2024.06)
kompan closed T30206: Parameter naming in mitkPixelBasedParameterFitImageGeneratorTest and mitkROIBasedParameterFitImageGenerator as Resolved.
Dec 5 2023, 10:55 AM · MITK (v2024.06)
kompan closed T28937: [ModelFit] Rethink mitkT2DecayModel as Resolved.
Dec 5 2023, 10:54 AM · MITK (v2024.06)
kompan closed T27654: Refactor concentration curve converter view to use new selection concept as Resolved.
Dec 5 2023, 10:50 AM · MITK (v2024.06), Cleared