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Jul 21 2020

scholzpa added a member for IMSY: muellelu.
Jul 21 2020, 10:15 AM

Jul 20 2020

nolden triaged T27578: 2021.1 Linux installer does not work on Fedora as High priority.
Jul 20 2020, 3:45 PM · MITK (v2022.10)
kislinsk added a comment to T27386: [MultiLabel] Workbench crashes if autocrop is used with opened plugin view without patient image.

There are two separate issues:

Jul 20 2020, 12:31 PM · Cleared, MITK (v2021.02)
kalali added a comment to T27563: Help link (pressing F1) is partially broken.

No I did not check that and currently I don't know why it worked before.

Jul 20 2020, 11:12 AM · MITK (v2021.02)
kislinsk claimed T27386: [MultiLabel] Workbench crashes if autocrop is used with opened plugin view without patient image.

Will look into it today.

Jul 20 2020, 11:08 AM · Cleared, MITK (v2021.02)
kislinsk added a comment to T27563: Help link (pressing F1) is partially broken.

Cool. Thanks for the explanation. Did you also look into the identifiers in v2018.04.2? I wonder wether some identifiers were changed since then or the code that generates the link to the help page.

Jul 20 2020, 11:05 AM · MITK (v2021.02)
kalali updated subscribers of T27386: [MultiLabel] Workbench crashes if autocrop is used with opened plugin view without patient image.

@kislinsk What's the status? We discussed this and the mentioned task last Friday and decided to disable the autocrop-freature for multi-label via data manager context menu if there is no easy solution.

Jul 20 2020, 11:03 AM · Cleared, MITK (v2021.02)
kislinsk renamed T27559: Crash when changing parent data nodes in Data Manager from Adding Segmentation to Parent Crashes to Crash when changing parent data nodes in Data Manager.
Jul 20 2020, 10:57 AM · Cleared, MITK (v2021.02)
thomass added a comment to T27568: US 2D image cannot be read: invalid tilt information.

Just as a remark: I am getting the exact same error, if I want to load a dcm image from a folder that contains more than one image. Those images originate from a cadaver study which means that before acquisiton most of the patient input data is left blank (study,series etc). If I put the files into separate folders, they are loaded correctly.

Jul 20 2020, 10:19 AM · Restricted Project, MITK
kleesiek added a comment to T27569: US DICOM images are displayed turquoise and LUT cannot be changed.

@floca: This would be the most urgent from the tasks, as I did't find a work around so far.

Jul 20 2020, 9:33 AM · Restricted Project, MITK
kleesiek added a comment to T27570: US DICOM images are read as 3D volume.
  • data is taken as is (see also comment to T27568)
  • I'd say the probably correct description would be 2D-Realtime B-Mode where images are made at a constant frame rate (20 fps in the case of the Canon video). If you consider moving the transducer over the body it not necessarily results in a 3D image, more 2D+t - if you keep the transducer at a fixed spot and e.g. only tilt the tranducer, it is more 3D like.
  • I am not aware that there are sensors in the transducer that would give us its position and orientation in space
  • Is e.g. a "Play" button for the z-dimension a possible solution?
Jul 20 2020, 9:31 AM · Auto-closed, Missing Info, Restricted Project, MITK
kleesiek added a comment to T27568: US 2D image cannot be read: invalid tilt information.

Thanks for the remarks and solution options.

Jul 20 2020, 9:13 AM · Restricted Project, MITK
kleesiek added a comment to T27571: Multilabel segmentation does not work with US DICOM images.

@floca: Can you please post a download link for the Mac installer / binary of the most recent version?

Jul 20 2020, 8:54 AM · MITK (v2021.10), Missing Info, Restricted Project

Jul 19 2020

floca closed T27341: Extend Classification classes and software stack to produce more structured results as Resolved.

Rework of the GIF containes some API breaking changes in the GIF class interface.

Jul 19 2020, 3:49 PM · Breaking Change, Noteworthy, HiGHmed, MITK
floca committed rMITK12f6b5044320: First draft of the GIF refactoring (authored by floca).
First draft of the GIF refactoring
Jul 19 2020, 3:40 PM
floca committed rMITK481c477b419e: bug fix in mitk::GIFNeighbourhoodGreyLevelDifference… (authored by floca).
bug fix in mitk::GIFNeighbourhoodGreyLevelDifference…
Jul 19 2020, 3:40 PM
floca committed rMITK6d1b20dac15b: Fixed bug in GIFGreyLevelSizeZone::CalculateFeature (authored by floca).
Fixed bug in GIFGreyLevelSizeZone::CalculateFeature
Jul 19 2020, 3:40 PM
floca committed rMITK400c37024cb7: Fixed gcc compile error. (authored by floca).
Fixed gcc compile error.
Jul 19 2020, 3:40 PM
floca committed rMITK4dd66bacb4b3: Activated prettyprint for the results. (authored by floca).
Activated prettyprint for the results.
Jul 19 2020, 3:40 PM
floca committed rMITK0c1a7036ce2f: propose to put the resampling step (option) for the first checks (authored by floca).
propose to put the resampling step (option) for the first checks
Jul 19 2020, 3:40 PM
floca committed rMITKcd5b12256d88: Ensure that always the originaly loaded data is used for the result report (to… (authored by floca).
Ensure that always the originaly loaded data is used for the result report (to…
Jul 19 2020, 3:40 PM
floca committed rMITKd3972816d2b4: Merge branch 'master' into T27341-New_structured_classifiction_result_format (authored by floca).
Merge branch 'master' into T27341-New_structured_classifiction_result_format
Jul 19 2020, 3:40 PM
floca committed rMITK716c0c4fecb4: Added reader io info to the xml result file (authored by floca).
Added reader io info to the xml result file
Jul 19 2020, 3:40 PM
floca committed rMITKf691dab8c6a7: Fixed gcc error (authored by floca).
Fixed gcc error
Jul 19 2020, 3:40 PM
floca committed rMITKda3af091c5a6: Fixed GCC errors (authored by floca).
Fixed GCC errors
Jul 19 2020, 3:40 PM
floca committed rMITKd04c6c619aea: Added CLResultXMLWriter (authored by floca).
Added CLResultXMLWriter
Jul 19 2020, 3:40 PM
floca committed rMITKe96f10604a06: Added XML result support to CLGlobalImageFeatureParameter (authored by floca).
Added XML result support to CLGlobalImageFeatureParameter
Jul 19 2020, 3:40 PM
floca committed rMITK1fc89e7499fd: Added version to feature info (authored by floca).
Added version to feature info
Jul 19 2020, 3:40 PM
floca committed rMITK9f2897eca263: Fixed Typo in CLResultWriter class name (authored by floca).
Fixed Typo in CLResultWriter class name
Jul 19 2020, 3:40 PM
floca added a project to T24710: Check failing dicom data in MITK-Data: DICOM.
Jul 19 2020, 3:36 PM · DICOM, Restricted Project, MITK
floca moved T24710: Check failing dicom data in MITK-Data from Backlog to MITK Meeting on the Request for Discussion board.
Jul 19 2020, 3:36 PM · DICOM, Restricted Project, MITK
floca added a project to T24710: Check failing dicom data in MITK-Data: Request for Discussion.

Update: the root of many cases of this problem are the same as discussed in T27568: US 2D image cannot be read: invalid tilt information. In the mean while some cases (as OT-MONO2-8-colon) work now (due to fixes of T27321 and T27322) others (like CR-MONO1-10-chest-*) still do not work. The reasons and solutions are the same as described in T27568.

Jul 19 2020, 3:36 PM · DICOM, Restricted Project, MITK
floca closed T27554: Handling of 2D and 2D+t sonographic (US) images as Resolved.

Spawned concrete tasks for each problem.

Jul 19 2020, 3:28 PM · Restricted Project, MITK
floca added a project to T27571: Multilabel segmentation does not work with US DICOM images: Missing Info.

@kleesiek: I cannot reproduce the problem with our current develop/master branch. Does it also fail for you in the recent versions?

Jul 19 2020, 3:27 PM · MITK (v2021.10), Missing Info, Restricted Project
floca triaged T27571: Multilabel segmentation does not work with US DICOM images as Normal priority.
Jul 19 2020, 3:26 PM · MITK (v2021.10), Missing Info, Restricted Project
floca added a project to T27570: US DICOM images are read as 3D volume: Missing Info.

@kleesiek Is it realy temporal resolved (what would be the resolution?) or is it a b scan an therefore more like a volume? Did you anonymize the data somehow, that might thrown away to much geometry information or so?

Jul 19 2020, 3:24 PM · Auto-closed, Missing Info, Restricted Project, MITK
floca triaged T27570: US DICOM images are read as 3D volume as Normal priority.
Jul 19 2020, 3:22 PM · Auto-closed, Missing Info, Restricted Project, MITK
floca triaged T27568: US 2D image cannot be read: invalid tilt information as Normal priority.
Jul 19 2020, 3:09 PM · Restricted Project, MITK
floca triaged T27569: US DICOM images are displayed turquoise and LUT cannot be changed as Normal priority.
Jul 19 2020, 3:08 PM · Restricted Project, MITK
floca moved T27568: US 2D image cannot be read: invalid tilt information from Backlog to MITK Meeting on the Request for Discussion board.

Should discuss in the MITK meeting about the solutions.

Jul 19 2020, 3:04 PM · Restricted Project, MITK
floca created T27568: US 2D image cannot be read: invalid tilt information.
Jul 19 2020, 3:03 PM · Restricted Project, MITK
floca placed T27554: Handling of 2D and 2D+t sonographic (US) images up for grabs.

As this task containes multiple issues/tasks, I have splitt it in sub tasks. This meta task will be closed as the work will be done in the sub tasks.

Jul 19 2020, 2:39 PM · Restricted Project, MITK

Jul 17 2020

kalali added a comment to T27563: Help link (pressing F1) is partially broken.

TLDR: Basically one needs to check if the plugin-id is the same as the page-identifier inside the *.dox-file. Looking at the Registration-plugins it is clear why these are not working.

Jul 17 2020, 2:33 PM · MITK (v2021.02)
neher closed T27567: ODF glyp visualization is broken as Resolved.
Jul 17 2020, 2:02 PM · MITK Diffusion
floca raised the priority of T27559: Crash when changing parent data nodes in Data Manager from Normal to High.
Jul 17 2020, 12:49 PM · Cleared, MITK (v2021.02)
kalali added a comment to T27559: Crash when changing parent data nodes in Data Manager.

I found out that this is a basic problem of changing of parent nodes. It can also be reproduced in a much more simpler way:

  1. Open Pic3D
  2. Open US4DCyl
  3. Make one image the child node of the other image
  4. Crash
Jul 17 2020, 12:35 PM · Cleared, MITK (v2021.02)
neher committed rMITKDIFF6452bb11656a: Merge branch 'T27567-GlyphIssue' (authored by neher).
Merge branch 'T27567-GlyphIssue'
Jul 17 2020, 11:01 AM
neher committed rMITKDIFF5d95610af7d7: widget name change (authored by neher).
widget name change
Jul 17 2020, 11:00 AM
neher added a comment to T27567: ODF glyp visualization is broken.

Pushed new branch T27567-GlyphIssue.

Jul 17 2020, 11:00 AM · MITK Diffusion
neher triaged T27567: ODF glyp visualization is broken as Normal priority.
Jul 17 2020, 10:56 AM · MITK Diffusion

Jul 16 2020

kahl added a comment to T27564: [Segmentation] Integrate deep learning methods for Segmentation in MITK.

Pushed new branch feature/T27564-integrate-deeplearning-segmentation.

Jul 16 2020, 6:44 PM · MITK
kleina committed rOBSHYPPOPY98e6c5c254d9: Introduced DynamicPSOSelver and mpiplayground_dynpso (authored by kleina).
Introduced DynamicPSOSelver and mpiplayground_dynpso
Jul 16 2020, 3:44 PM
kleina committed rOBSHYPPOPYe0041a35d427: updated mpiplayground (authored by kleina).
updated mpiplayground
Jul 16 2020, 3:44 PM
kleina committed rOBSHYPPOPY01baaa6c1ac3: MPISolverWrapper can now handle loss functions with (x,y) (authored by kleina).
MPISolverWrapper can now handle loss functions with (x,y)
Jul 16 2020, 3:44 PM
nolden added a project to T27554: Handling of 2D and 2D+t sonographic (US) images: Restricted Project.

Added FS-E IT since this is coming from DKFZ radiology

Jul 16 2020, 2:08 PM · Restricted Project, MITK
kleesiek updated subscribers of T27554: Handling of 2D and 2D+t sonographic (US) images.
Jul 16 2020, 2:08 PM · Restricted Project, MITK
kahl triaged T27564: [Segmentation] Integrate deep learning methods for Segmentation in MITK as Normal priority.
Jul 16 2020, 11:45 AM · MITK
floca edited the content of CEST User Manual.
Jul 16 2020, 9:31 AM · MITK

Jul 15 2020

floca updated the task description for T27563: Help link (pressing F1) is partially broken.
Jul 15 2020, 10:58 PM · MITK (v2021.02)
floca moved T27563: Help link (pressing F1) is partially broken from Backlog to Documentation on the MITK (v2021.02) board.
Jul 15 2020, 10:04 PM · MITK (v2021.02)
floca triaged T27563: Help link (pressing F1) is partially broken as High priority.
Jul 15 2020, 10:04 PM · MITK (v2021.02)
floca published a new version of CEST User Manual.
Jul 15 2020, 9:51 PM · MITK
floca deleted CEST User Manual.
Jul 15 2020, 8:15 PM
floca created an object: CEST User Manual.
Jul 15 2020, 8:15 PM · MITK
floca renamed CEST User Manual from Cest Getting Started to CEST User Manual.
Jul 15 2020, 8:13 PM
floca created an object: CEST User Manual.
Jul 15 2020, 8:11 PM
floca created an object: CEST References.
Jul 15 2020, 8:10 PM
floca created an object: CEST.
Jul 15 2020, 7:47 PM
floca committed rMITK3679ac58bd8c: T27442 Removed unmanaged geometry (authored by floca).
T27442 Removed unmanaged geometry
Jul 15 2020, 3:55 PM
floca committed rMITKdde92852c0d3: Fixed review remarks (authored by floca).
Fixed review remarks
Jul 15 2020, 3:55 PM
floca committed rMITK5fbf4a6c399b: Deleted unnecessary file (authored by floca).
Deleted unnecessary file
Jul 15 2020, 3:55 PM
floca committed rMITKcf8af6dd2e78: Containes some missed review (D321) changes (authored by floca).
Containes some missed review (D321) changes
Jul 15 2020, 3:55 PM
floca committed rMITK7ad532360885: Removed unmanaged geometry (authored by floca).
Removed unmanaged geometry
Jul 15 2020, 3:55 PM
floca closed T27442: PlanarFigure uses unmanged/uncontrolled pointer for PlaneGeometry, a subtask of T27441: PlanarFigure clone is in invalid state due to copy of unmanged/uncontrolled pointer for PlaneGeometry, as Resolved.
Jul 15 2020, 3:55 PM · Missing Info, Request for Discussion, MITK (v2021.02)
floca closed T27442: PlanarFigure uses unmanged/uncontrolled pointer for PlaneGeometry as Resolved by committing rMITK7ad532360885: Removed unmanaged geometry.
Jul 15 2020, 3:55 PM · Cleared, MITK (v2021.02)
floca committed rMITK956f7971d12a: T27549 Rechecked if IntroPart was created in OpenIntro and enforce its… (authored by floca).
T27549 Rechecked if IntroPart was created in OpenIntro and enforce its…
Jul 15 2020, 3:16 PM
floca committed rMITKaf8e86e1c90f: Rechecked if IntroPart was created in OpenIntro and enforce its visibility. (authored by floca).
Rechecked if IntroPart was created in OpenIntro and enforce its visibility.
Jul 15 2020, 3:16 PM
floca closed T27549: Workbench IntroPart is hidden behind editor as Resolved by committing rMITKaf8e86e1c90f: Rechecked if IntroPart was created in OpenIntro and enforce its visibility..
Jul 15 2020, 3:16 PM · MITK (v2021.02)
floca added a project to T27545: Extract MITK Workbench intro part: Noteworthy.

Document how you can use your own intropart. Changlog and dev docu (where?)

Jul 15 2020, 3:12 PM · Noteworthy, Restricted Project, Restricted Project, MITK
floca committed rMITK74e6469ec33d: T27545 Extract IntroPart into own plugin (authored by floca).
T27545 Extract IntroPart into own plugin
Jul 15 2020, 3:12 PM
floca committed rMITKb749094a15cd: Extract IntroPart into own plugin (authored by floca).
Extract IntroPart into own plugin
Jul 15 2020, 3:12 PM
floca closed T27545: Extract MITK Workbench intro part as Resolved by committing rMITKb749094a15cd: Extract IntroPart into own plugin.
Jul 15 2020, 3:12 PM · Noteworthy, Restricted Project, Restricted Project, MITK
floca committed rMITK299e4454a05b: T27553 Crash_in_DICOMReaderServiceActivator: (authored by floca).
T27553 Crash_in_DICOMReaderServiceActivator:
Jul 15 2020, 2:46 PM
floca committed rMITKe51d05dec594: Fixed review remark (authored by floca).
Fixed review remark
Jul 15 2020, 2:46 PM
floca committed rMITK92e293e1f30b: Fixed review remarks (authored by floca).
Fixed review remarks
Jul 15 2020, 2:46 PM
floca committed rMITK4ff822b2e44c: Fixed error in helper implementation (authored by floca).
Fixed error in helper implementation
Jul 15 2020, 2:46 PM
floca committed rMITKbd72d44ab50c: Refactored code to use the DICOMTagsOfInterestAddHelper to avoid (authored by floca).
Refactored code to use the DICOMTagsOfInterestAddHelper to avoid
Jul 15 2020, 2:46 PM
floca committed rMITKb0b2a58cef91: Introduce Helper to ensure adding of tags of interest view service listening (authored by floca).
Introduce Helper to ensure adding of tags of interest view service listening
Jul 15 2020, 2:46 PM
floca closed T27553: Crash in DICOMReaderServiceActivator due to uninitialized module "DICOMReader" as Resolved by committing rMITKbd72d44ab50c: Refactored code to use the DICOMTagsOfInterestAddHelper to avoid.
Jul 15 2020, 2:46 PM · MITK (v2021.02)
floca committed rMITK29247b427341: Prevented race condition that can lead to a crash when creating… (authored by floca).
Prevented race condition that can lead to a crash when creating…
Jul 15 2020, 2:46 PM
kahl triaged T27561: Clients for building pyMITK Project as Normal priority.
Jul 15 2020, 1:14 PM · Auto-closed, Request for Discussion, MITK, CI
floca moved T27545: Extract MITK Workbench intro part from Restricted Project Column to Restricted Project Column on the Restricted Project board.
Jul 15 2020, 10:26 AM · Noteworthy, Restricted Project, Restricted Project, MITK
floca claimed T27545: Extract MITK Workbench intro part.
Jul 15 2020, 10:25 AM · Noteworthy, Restricted Project, Restricted Project, MITK
floca moved T27547: Update CEST icons from Restricted Project Column to Restricted Project Column on the Restricted Project board.
Jul 15 2020, 10:22 AM · Restricted Project, MITK

Jul 14 2020

floca added a comment to T27043: Refactor ModelFit and Pharmacokinetics plugins to use new selection concept.

@floca There is still an issue in the UI: When using the mitkSingleNodeSelectionWidget for the mask selection instead of the QmiktDataStorageComboBox, the mask selection field in the UI becomes larger than the time series selection field (see D348). It only gets reduced in size when further options, i.e. a model are selected. At least on first attempt, I couldn't get both to have the same size. Maybe you have an idea how to fix this and make it look pretty again?

Jul 14 2020, 8:46 PM · Cleared, MITK (v2021.02)
floca edited projects for T27559: Crash when changing parent data nodes in Data Manager, added: MITK (v2021.02); removed MITK.
Jul 14 2020, 8:45 PM · Cleared, MITK (v2021.02)
goetzm added a comment to T25826: Update Radiomics GUI.

Pushed new branch T25826-RadiomicsUpdate-V3.

Jul 14 2020, 6:29 PM · Auto-closed, MITK
kalali added a revision to T27556: Refactor VolumeVisualization plugin to use the new node selection widgets: Restricted Differential Revision.
Jul 14 2020, 4:47 PM · MITK (v2021.02)
floca added a comment to T27549: Workbench IntroPart is hidden behind editor.

thanks for the thorough check.

Jul 14 2020, 2:59 PM · MITK (v2021.02)
kalali added a comment to T27549: Workbench IntroPart is hidden behind editor.

I think I can remember it differently in earlier version

I checked installer 2016 / 2018 and some 2017 BlackSwan Demos and couldn't find a scenario where the Welcome Screen was the active tab, but anyways.

Jul 14 2020, 2:15 PM · MITK (v2021.02)