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thomass (Sarina Thomas)
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Projects (12)

User Details

User Since
Aug 1 2016, 12:10 PM (205 w, 9 h)

Recent Activity

Fri, Jul 3

thomass added a comment to T27507: Check the current behavior of the segmentation tools according static and dynamic 4D segmentation.
Plugin namedynamic timestep =0dynamic timestep != 0static t=0static t =2
Thresholdperforms segmentation on all timestepsperforms segmentation on all timestepsperforms segmentation on timestep 0performs segmentation on timestep 0
UL thresholdperforms segmentation on all timestepsperforms segmentation on all timestepsperforms segmentation on timestep 0performs segmentation on timestep 0
Otsuperforms static 3D seg on the selected timestep performs static 3D seg on the selected timestep > it only matters which time point is selected not on which it was created
Fast Marchingit doesn't matter on which timesteps the seeds are selected, they all account for initial image / performs segmentation only on the timestep selected, others are blank
Watershedsegmentation cannot be produced with US4DCyl / LinearModel / performs static 3D seg on the selected timestepperforms segmentation on timestep 0performs segmentation on timestep 2 / it only matters which time point is selected not on which it was created
PickingCreates a 3D segmentation with picked region and deletes all other segmentations (in all timesteps)
Fri, Jul 3, 2:19 PM · Restricted Project, Cleared, MITK (2020)
thomass claimed T27507: Check the current behavior of the segmentation tools according static and dynamic 4D segmentation.
Fri, Jul 3, 11:08 AM · Restricted Project, Cleared, MITK (2020)

Tue, Jun 30

thomass added a revision to T26974: [Segmentation] Region Growing 3D with 4D dataset not working: Unknown Object (Differential Revision).
Tue, Jun 30, 11:26 AM · MITK (2020)

Thu, Jun 25

thomass added a comment to T25825: [Segmentation] Crash using Watershed on different time steps.

But the 3d segmentation has only 1 timestep with duration = sum of durations of all 4D image timesteps, right?

Thu, Jun 25, 1:44 PM · MITK (2020)

Fri, Jun 19

thomass removed a project from T26974: [Segmentation] Region Growing 3D with 4D dataset not working: Missing Info.
Fri, Jun 19, 3:27 PM · MITK (2020)
thomass added a comment to T26974: [Segmentation] Region Growing 3D with 4D dataset not working.

The error described above results from the function add seed that currently takes 3D images only. It can be solved with using a timeselector to crop the current time step and set a 3D seed.
However, the task is related to the discussion on time points versus time steps and should be revised accordingly.

Fri, Jun 19, 3:18 PM · MITK (2020)
thomass added a comment to T27477: [Segmentation] Selection concept displays 'Favorite node list' by default leading to user confusion .

When the workbench is started from scratch it works.

Fri, Jun 19, 11:34 AM · Cleared, MITK (2020)
thomass claimed T26974: [Segmentation] Region Growing 3D with 4D dataset not working.
Fri, Jun 19, 9:49 AM · MITK (2020)

Tue, Jun 16

thomass added a comment to T27477: [Segmentation] Selection concept displays 'Favorite node list' by default leading to user confusion .

I used a master that was three weeks old, I will double check on the current develop

Tue, Jun 16, 10:17 AM · Cleared, MITK (2020)

Wed, Jun 10

thomass moved T27477: [Segmentation] Selection concept displays 'Favorite node list' by default leading to user confusion from Backlog to Segmentation on the MITK (2020) board.
Wed, Jun 10, 10:52 AM · Cleared, MITK (2020)
thomass triaged T27477: [Segmentation] Selection concept displays 'Favorite node list' by default leading to user confusion as High priority.
Wed, Jun 10, 10:47 AM · Cleared, MITK (2020)
thomass added a comment to T25825: [Segmentation] Crash using Watershed on different time steps.
  • Works for dynamic (4D) segmentations
  • Could not be reproduced for static segmentations since the workbench crashes during the creation of a static segmentation (related to T27476)
Wed, Jun 10, 9:45 AM · MITK (2020)
thomass added a comment to T27476: [Segmentation] Crash if new segmentation is created with timestep different than 0.
  1. Works for timestep 0
  2. Independent from segmentation tool so might be a problem of the selection concept not the segmentation
Wed, Jun 10, 9:40 AM · MITK (2020)
thomass updated the task description for T27476: [Segmentation] Crash if new segmentation is created with timestep different than 0.
Wed, Jun 10, 9:36 AM · MITK (2020)
thomass triaged T27476: [Segmentation] Crash if new segmentation is created with timestep different than 0 as High priority.
Wed, Jun 10, 9:34 AM · MITK (2020)

Mon, Jun 8

thomass added a project to T26974: [Segmentation] Region Growing 3D with 4D dataset not working: Missing Info.

@gaoh: Can you tell what you mean by dynamic mask?

Mon, Jun 8, 2:29 PM · MITK (2020)
thomass lowered the priority of T27067: ImageCropper cannot crop some images (4d?) from High to Normal.

I will leave the task open since the handling in the respective class might need further refactoring to fully understand the behavior (as also mentioned by @kalali in the D279 review).
I remove the MITK2020 tag for now since the mentioned bug is resolved by the fix in D279.

Mon, Jun 8, 2:14 PM · MITK
thomass committed rMITKae05e678acfd: <<Allow 4D image handling in Boundingshapecropper> (authored by thomass).
<<Allow 4D image handling in Boundingshapecropper>
Mon, Jun 8, 2:05 PM
thomass added a comment to T27439: [Segmentation] Support of Mask/Segmentations that are cropped / do not cover the whole image grid.

Task T26596 is mentioned but does not correlate with the Topic asaik...maybe transposed digits in the task number?

Mon, Jun 8, 11:52 AM · MITK

May 26 2020

thomass updated the task description for T27444: [Registration] Manipulator crashes on Start Manual Registration.
May 26 2020, 12:55 PM · MITK (2020)
thomass moved T27444: [Registration] Manipulator crashes on Start Manual Registration from Backlog to Registration on the MITK (2020) board.
May 26 2020, 12:54 PM · MITK (2020)
thomass triaged T27444: [Registration] Manipulator crashes on Start Manual Registration as High priority.
May 26 2020, 12:53 PM · MITK (2020)

Apr 23 2020

thomass committed rMITK3df935e97fdb: initial commit (authored by thomass).
initial commit
Apr 23 2020, 8:20 AM

Apr 22 2020

thomass added a revision to T27067: ImageCropper cannot crop some images (4d?): Unknown Object (Differential Revision).
Apr 22 2020, 1:05 PM · MITK

Apr 15 2020

thomass added a comment to T27067: ImageCropper cannot crop some images (4d?).

The reason seems to be that a BoundingShape as such is 3D with an index of size=3 that does not equal the index array of the 4D image. I will test the fix for other images to make sure.

Apr 15 2020, 12:23 PM · MITK
thomass committed rMITKea9929dd148e: correct index for cropping a 4d image with a 3d bounding box (authored by thomass).
correct index for cropping a 4d image with a 3d bounding box
Apr 15 2020, 12:20 PM
thomass added a comment to T27067: ImageCropper cannot crop some images (4d?).

Pushed new branch T27067-ImageCropperCorrect4D.

Apr 15 2020, 12:20 PM · MITK
thomass claimed T27067: ImageCropper cannot crop some images (4d?).
Apr 15 2020, 11:40 AM · MITK
thomass closed T23551: MITK does not support Dicom Subgroup Tags as Resolved.

This was also communicated to Siemens and only occured when loading their early stage clinical prototype data. Can not be reproduced with the newer data. The task can be closed for now.

Apr 15 2020, 8:11 AM · MITK

Mar 27 2020

thomass triaged T27264: Extent Movie Maker to directly create gifs as Wishlist priority.
Mar 27 2020, 1:38 PM · MITK
thomass triaged T27263: Measurements and pointsets display no valuable information as Normal priority.
Mar 27 2020, 1:31 PM · MITK (2020)
thomass triaged T27262: Plugin for automatic metric computation as Normal priority.
Mar 27 2020, 12:55 PM · MITK

Mar 12 2020

thomass raised the priority of T27177: Segmentation based on Multiframe CT can not be saved as DICOM without error message from Low to Normal.

As stated before, we encountered more examples that raised the unknown exception, so I don’t agree to lower the priority on that.

Mar 12 2020, 3:41 PM · Request for Discussion, Restricted Project, MITK

Mar 3 2020

thomass added a comment to T27177: Segmentation based on Multiframe CT can not be saved as DICOM without error message.

The latest Release installer

Mar 3 2020, 1:20 PM · Request for Discussion, Restricted Project, MITK

Mar 2 2020

thomass triaged T27177: Segmentation based on Multiframe CT can not be saved as DICOM without error message as Unbreak Now! priority.
Mar 2 2020, 3:44 PM · Request for Discussion, Restricted Project, MITK

Feb 28 2020

thomass claimed T27106: [MITKDoc] Revise Volume Visualization Plugin Documentation.
Feb 28 2020, 8:10 AM · Cleared, MITK (2020)

Feb 14 2020

thomass updated the task description for T27109: [MITKDoc] Revise Properties Plugin Documentation.
Feb 14 2020, 2:15 PM · Cleared, MITK (2020)
thomass updated the task description for T27105: [MITKDoc] Revise Measurement Plugin Documentation.
Feb 14 2020, 2:14 PM · Cleared, MITK (2020)
thomass updated the task description for T27104: [MITKDoc] Revise Modelfit Plugin Documentation.
Feb 14 2020, 2:14 PM · Cleared, MITK (2020)
thomass updated the task description for T27103: [MITKDoc] Revise Point Set Interaction Plugin Documentation.
Feb 14 2020, 2:14 PM · Cleared, MITK (2020)
thomass updated the task description for T27102: [MITKDoc] Revise Movie Maker Plugin Documentation.
Feb 14 2020, 2:13 PM · Cleared, MITK (2020)
thomass updated the task description for T27101: [MITKDoc] Revise Logging Plugin Documentation.
Feb 14 2020, 2:12 PM · Cleared, MITK (2020)
thomass updated the task description for T27099: [MITKDoc] Revise Clipping Plane Plugin Documentation.
Feb 14 2020, 2:11 PM · Cleared, MITK (2020)
thomass updated the task description for T27098: [MITKDoc] Revise Image Cropper Plugin Documentation.
Feb 14 2020, 2:11 PM · Cleared, MITK (2020)
thomass updated the task description for T27097: [MITKDoc] Revise Statistics Plugin Documentation.
Feb 14 2020, 2:11 PM · Cleared, MITK (2020)
thomass placed T27094: [MITKDoc] Revise Segmentation Utilities Plugin Documentation up for grabs.
Feb 14 2020, 10:43 AM · Cleared, MITK (2020)

Feb 13 2020

thomass committed rMITK00ae9bf751a0: Reorganize plugin list in documentation, changed some list levels and fixed… (authored by thomass).
Reorganize plugin list in documentation, changed some list levels and fixed…
Feb 13 2020, 9:56 AM
thomass claimed T27094: [MITKDoc] Revise Segmentation Utilities Plugin Documentation.
Feb 13 2020, 9:51 AM · Cleared, MITK (2020)
thomass claimed T27098: [MITKDoc] Revise Image Cropper Plugin Documentation.
Feb 13 2020, 9:51 AM · Cleared, MITK (2020)

Feb 12 2020

thomass triaged T27117: [MITKDoc] Revise Matchpoint Algorithm Control Plugin Documentation as Normal priority.
Feb 12 2020, 9:55 AM · Cleared, MITK (2020)
thomass triaged T27116: [MITKDoc] Revise Matchpoint Algorithm Browser Plugin Documentation as Normal priority.
Feb 12 2020, 9:54 AM · Cleared, MITK (2020)
thomass triaged T27115: [MITKDoc] Revise Matchpoint Frame Correction Plugin Documentation as Normal priority.
Feb 12 2020, 9:53 AM · Cleared, MITK (2020)
thomass triaged T27114: [MITKDoc] Revise Matchpoint Mapper Plugin Documentation as Normal priority.
Feb 12 2020, 9:52 AM · Cleared, MITK (2020)
thomass triaged T27113: [MITKDoc] Revise Matchpoint Registration Manipulator Plugin Documentation as Normal priority.
Feb 12 2020, 9:51 AM · Cleared, MITK (2020)
thomass triaged T27112: [MITKDoc] Revise Matchpoint Registration Evaluator Plugin Documentation as Normal priority.
Feb 12 2020, 9:50 AM · Cleared, MITK (2020)
thomass triaged T27111: [MITKDoc] Revise Matchpoint Registration Visualizer Plugin Documentation as Normal priority.
Feb 12 2020, 9:49 AM · Cleared, MITK (2020)
thomass triaged T27110: [MITKDoc] Revise Command Line Tool/ Automatisation Plugin Documentation as Normal priority.
Feb 12 2020, 9:47 AM · Cleared, MITK (2020)
thomass triaged T27109: [MITKDoc] Revise Properties Plugin Documentation as Normal priority.
Feb 12 2020, 9:46 AM · Cleared, MITK (2020)
thomass triaged T27108: [MITKDoc] Revise Remeshing Plugin Documentation as Normal priority.
Feb 12 2020, 9:44 AM · MITK (2020)
thomass triaged T27107: [MITKDoc] Revise Screenshot Maker Plugin Documentation as Normal priority.
Feb 12 2020, 9:43 AM · Cleared, MITK (2020)
thomass triaged T27106: [MITKDoc] Revise Volume Visualization Plugin Documentation as Normal priority.
Feb 12 2020, 9:41 AM · Cleared, MITK (2020)
thomass triaged T27105: [MITKDoc] Revise Measurement Plugin Documentation as Normal priority.
Feb 12 2020, 9:40 AM · Cleared, MITK (2020)
thomass triaged T27104: [MITKDoc] Revise Modelfit Plugin Documentation as Normal priority.
Feb 12 2020, 9:36 AM · Cleared, MITK (2020)
thomass triaged T27103: [MITKDoc] Revise Point Set Interaction Plugin Documentation as Normal priority.
Feb 12 2020, 9:33 AM · Cleared, MITK (2020)
thomass triaged T27102: [MITKDoc] Revise Movie Maker Plugin Documentation as Normal priority.
Feb 12 2020, 9:31 AM · Cleared, MITK (2020)
thomass triaged T27101: [MITKDoc] Revise Logging Plugin Documentation as Normal priority.
Feb 12 2020, 9:29 AM · Cleared, MITK (2020)
thomass triaged T27100: [MITKDoc] Revise DataManager Plugin Documentation as Normal priority.
Feb 12 2020, 9:22 AM · Cleared, MITK (2020)
thomass triaged T27099: [MITKDoc] Revise Clipping Plane Plugin Documentation as Normal priority.
Feb 12 2020, 9:21 AM · Cleared, MITK (2020)
thomass triaged T27098: [MITKDoc] Revise Image Cropper Plugin Documentation as Normal priority.
Feb 12 2020, 9:19 AM · Cleared, MITK (2020)
thomass triaged T27097: [MITKDoc] Revise Statistics Plugin Documentation as Normal priority.
Feb 12 2020, 9:17 AM · Cleared, MITK (2020)
thomass triaged T27096: [MITKDoc] Revise MultiLabel Segmentation Utilities Plugin Documentation as Normal priority.
Feb 12 2020, 8:59 AM · Cleared, MITK (2020)
thomass triaged T27095: [MITKDoc] Revise MultiLabel Segmentation Plugin Documentation as Normal priority.
Feb 12 2020, 8:52 AM · Cleared, MITK (2020)
thomass triaged T27094: [MITKDoc] Revise Segmentation Utilities Plugin Documentation as Normal priority.
Feb 12 2020, 8:49 AM · Cleared, MITK (2020)
thomass triaged T27093: [MITKDoc] Revise Segmentation Plugin as Normal priority.
Feb 12 2020, 8:41 AM · Cleared, MITK (2020)

Feb 7 2020

thomass committed rMITKcddd8da72039: Enable build of QT designer plugin by default (authored by thomass).
Enable build of QT designer plugin by default
Feb 7 2020, 2:33 PM
thomass added a comment to T27076: [CTK] QT designer plugins are not built anymore and cause problems in command line module.

Pushed new branch T27076-ChangeDesignerBuildFlagToDefault.

Feb 7 2020, 2:33 PM · MITK
thomass triaged T27076: [CTK] QT designer plugins are not built anymore and cause problems in command line module as Normal priority.
Feb 7 2020, 2:22 PM · MITK

Jan 23 2020

thomass committed rMITKd113c03e9199: Change layout of end user plugins (authored by thomass).
Change layout of end user plugins
Jan 23 2020, 9:13 AM

Jan 22 2020

thomass committed rMITKa60b344b8604: Move miniapp section to different location and reorganize layout (authored by thomass).
Move miniapp section to different location and reorganize layout
Jan 22 2020, 4:04 PM
thomass committed rMITK5ea3d0a459d0: Rearrange plugin list (authored by thomass).
Rearrange plugin list
Jan 22 2020, 4:04 PM

Jan 20 2020

thomass committed rMITK83657a10cd35: Merge branch 'T26840-MitkHomepageReorganization-TopLevel' of ssh://phabricator. (authored by thomass).
Merge branch 'T26840-MitkHomepageReorganization-TopLevel' of ssh://phabricator.
Jan 20 2020, 7:22 PM
thomass committed rMITK26a23e607635: Reorganize Workbench page and plugin list wip (authored by thomass).
Reorganize Workbench page and plugin list wip
Jan 20 2020, 7:22 PM
thomass added a reverting change for rMITK580b376a4cb5: fixed docu typos mentioned in T26841: rMITK80ba8f5e8497: Revert "fixed docu typos mentioned in T26841".
Jan 20 2020, 7:22 PM
thomass committed rMITK80ba8f5e8497: Revert "fixed docu typos mentioned in T26841" (authored by thomass).
Revert "fixed docu typos mentioned in T26841"
Jan 20 2020, 7:22 PM
thomass committed rMITK580b376a4cb5: fixed docu typos mentioned in T26841 (authored by thomass).
fixed docu typos mentioned in T26841
Jan 20 2020, 7:22 PM

Jan 10 2020

thomass updated the task description for T26754: Review checklists.
Jan 10 2020, 9:20 PM · Request for Discussion, Unknown Object (Project), MITK
thomass triaged T26989: [Checklist] GUI test data originates from different sources as Normal priority.
Jan 10 2020, 8:45 PM · Unknown Object (Project), Request for Discussion, MITK
thomass triaged T26988: [Checklist] LevelWindow checklist does not provide explicit expected results for sufficient verification as Normal priority.
Jan 10 2020, 8:38 PM · Request for Discussion, Unknown Object (Project), MITK

Jan 9 2020

thomass updated the task description for T26754: Review checklists.
Jan 9 2020, 1:53 PM · Request for Discussion, Unknown Object (Project), MITK

Jan 8 2020

thomass updated subscribers of T26972: Dialog and plugin layout seems to be not shown correctly on laptops.
Jan 8 2020, 3:12 PM · MITK (2020)
thomass triaged T26972: Dialog and plugin layout seems to be not shown correctly on laptops as Normal priority.
Jan 8 2020, 3:09 PM · MITK (2020)
thomass triaged T26968: [DataManager] "Show only selected nodes" button causes 2D widgets in the 3D renderwindow to vanish as Normal priority.
Jan 8 2020, 2:45 PM · MITK
thomass triaged T26967: [Segmentation] Pressing the X button on threshold confirm dialogs does not stop the execution as Normal priority.
Jan 8 2020, 2:17 PM · Restricted Project, Cleared, MITK (2020)

Nov 28 2019

thomass claimed T26841: Documentation typo.
Nov 28 2019, 10:22 AM
thomass committed rMITKe28eb32145c3: Restructure landing page and move AboutMITK section (authored by thomass).
Restructure landing page and move AboutMITK section
Nov 28 2019, 10:03 AM

Nov 22 2019

thomass committed rMITK369758f5ca9e: Initial cleanup and re-organization wip (authored by thomass).
Initial cleanup and re-organization wip
Nov 22 2019, 1:13 PM
thomass added a comment to T26840: Mission Homepage Reorganization .

Pushed new branch T26840-MitkHomepageReorganization-TopLevel.

Nov 22 2019, 1:12 PM · MITK

Nov 21 2019

thomass triaged T26840: Mission Homepage Reorganization as Normal priority.
Nov 21 2019, 3:37 PM · MITK

Nov 20 2019

thomass committed rMITKb5750690feff: Changes made to the datamanager plugin documentation, modified images and text (authored by thomass).
Changes made to the datamanager plugin documentation, modified images and text
Nov 20 2019, 3:19 PM

Jul 2 2019

thomass added a project to T26388: Colorcoding for surfaces does not work correctly: Restricted Project.
Jul 2 2019, 2:24 PM · Restricted Project, MITK