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Dec 14 2020

kalali moved T27737: Extend "Checkliste Segmentierung – Optionen" from Segmentation to Test/Checklists on the MITK (v2021.02) board.
Dec 14 2020, 11:05 AM · MITK (v2022.04), Cleared
kalali moved T27850: Extend "Checkliste Segmentierung – 3D Segmentierung" from Segmentation to Test/Checklists on the MITK (v2021.02) board.
Dec 14 2020, 11:05 AM · MITK (v2022.04), Cleared
kalali moved T27873: Extend "Checkliste Segmentierung – Interpolation" from Segmentation to Test/Checklists on the MITK (v2021.02) board.
Dec 14 2020, 11:04 AM · MITK (v2022.04), Cleared
kalali moved T27906: Extend "Checkliste Segmentierung – Utilities" from Segmentation to Test/Checklists on the MITK (v2021.02) board.
Dec 14 2020, 11:04 AM · MITK (v2022.04), Cleared
floca reopened T25152: Cannot compare TemporoSpatialStringProperty as "Open".

@thomass This is the issue we talked about last week when you hat problem to use predicates to find some nodes by DICOM tags values.

Dec 14 2020, 10:46 AM · Auto-closed, MITK

Dec 13 2020

floca claimed T28089: [CEST] Error loading custom data due to alleged spacing of 0.
Dec 13 2020, 10:03 PM · Auto-closed, Missing Info, Restricted Project, MITK
floca added a comment to T28089: [CEST] Error loading custom data due to alleged spacing of 0.
  1. Could you provide also a SS example. As it should also work with SS and I would like to know the reason.
  2. A MAC version will be available with the next public MITK release (planned for next january).
  3. Thanks for the example data. I have some questions regarding it:
Dec 13 2020, 10:03 PM · Auto-closed, Missing Info, Restricted Project, MITK

Dec 12 2020

kislinsk closed T28101: Early-out when CMake 3.19 is used as Resolved.
Dec 12 2020, 4:47 AM · MITK (v2021.02)
kislinsk added a comment to T28101: Early-out when CMake 3.19 is used.

Deleted branch bugfix/T28101-CMake3.19.

Dec 12 2020, 4:47 AM · MITK (v2021.02)
kislinsk committed rMITKeab123b123ea: Early out if CMake version is [3.19, 3.19.2) (authored by kislinsk).
Early out if CMake version is [3.19, 3.19.2)
Dec 12 2020, 4:47 AM
kislinsk committed rMITK5b214745c789: Merge branch 'bugfix/T28101-CMake3.19' into develop (authored by kislinsk).
Merge branch 'bugfix/T28101-CMake3.19' into develop
Dec 12 2020, 4:47 AM
kislinsk added a comment to T28101: Early-out when CMake 3.19 is used.

Pushed new branch bugfix/T28101-CMake3.19.

Dec 12 2020, 4:46 AM · MITK (v2021.02)
kislinsk updated subscribers of T28101: Early-out when CMake 3.19 is used.

Will be fixed very soon in CMake 3.19.2: https://gitlab.kitware.com/cmake/cmake/-/issues/21529

Dec 12 2020, 4:19 AM · MITK (v2021.02)

Dec 11 2020

kislinsk triaged T28101: Early-out when CMake 3.19 is used as Unbreak Now! priority.
Dec 11 2020, 2:45 PM · MITK (v2021.02)
kislinsk edited the content of Step 0 - Create a Phabricator account.
Dec 11 2020, 11:04 AM · Onboarding
kislinsk renamed Phabricator Onboarding from Onboarding to Phabricator onboarding.
Dec 11 2020, 10:34 AM · Onboarding
eisenman added a comment to T28097: test errors in aggregateThenRank and rankThenAggregate.
Dec 11 2020, 9:51 AM · challengeR (v1.0)
eisenman updated subscribers of T28097: test errors in aggregateThenRank and rankThenAggregate.

It works for me on the latest develop branch (#921705).

Dec 11 2020, 9:45 AM · challengeR (v1.0)

Dec 10 2020

eisenman created T28100: [dash] Decide on a file management strategy.
Dec 10 2020, 11:45 PM · webChallengeR
eisenman created T28099: [dash] Indicate progress of file upload.
Dec 10 2020, 11:28 PM · webChallengeR
thomass added a comment to T27689: RTDose image can not be serialized and workbench crashes upon loading.

I tried it with my current develop (not the latest due to ongoing QT issues - wip) and it resolves the last warning (predescibed dose) but not the others. According to the D449 this is the one you changed, so as expected I suppose :) As soon as I get the latest develop up and running I will check the diff further.

Dec 10 2020, 7:23 PM · Request for Discussion, MITK
floca claimed T27689: RTDose image can not be serialized and workbench crashes upon loading.

@thomass Please check the patch provided by https://phabricator.mitk.org/D449. It should solve you problem I hope. Would be cool if you could give feedback.

Dec 10 2020, 6:15 PM · Request for Discussion, MITK
wiesenfa moved T27292: Fix toolkit authors from In Progress to Done on the challengeR (v1.0) board.
Dec 10 2020, 1:25 PM · challengeR (v1.0)
wiesenfa moved T27292: Fix toolkit authors from Backlog to In Progress on the challengeR (v1.0) board.
Dec 10 2020, 1:25 PM · challengeR (v1.0)
wiesenfa committed rCHALLENGER9217054b61ae: fix authors (authored by wiesenfa).
fix authors
Dec 10 2020, 1:25 PM
wiesenfa created T28097: test errors in aggregateThenRank and rankThenAggregate.
Dec 10 2020, 11:11 AM · challengeR (v1.0)
wiesenfa moved T28085: Report generation is broken from In Progress to Done on the challengeR (v1.0) board.
Dec 10 2020, 11:09 AM · challengeR (v1.0)
wiesenfa moved T28085: Report generation is broken from Backlog to In Progress on the challengeR (v1.0) board.
Dec 10 2020, 11:09 AM · challengeR (v1.0)
wiesenfa claimed T28085: Report generation is broken.
Dec 10 2020, 11:09 AM · challengeR (v1.0)
wiesenfa committed rCHALLENGER484d1c685a70: bug fixes (authored by wiesenfa).
bug fixes
Dec 10 2020, 11:08 AM
wiesenfa committed rCHALLENGER8fe6dd4d9574: ensure english warnings while testing (authored by wiesenfa).
ensure english warnings while testing
Dec 10 2020, 11:08 AM
gaoh removed a project from T27968: CTP gets stuck on large import: Request for Discussion.
Dec 10 2020, 10:37 AM · Kaapana (internal)
gaoh moved T27968: CTP gets stuck on large import from Discussion to Backlog on the Kaapana (internal) board.

We need a dataset to reporduce the problem, to setup a testsetup.

Dec 10 2020, 10:37 AM · Kaapana (internal)
s669m moved T28091: (for Dec 10 )TFDA Mvp 1 Simple Demo & User-workflow upload provision from Discussion to Resolved on the Kaapana (internal) board.
Dec 10 2020, 10:04 AM · Request for Discussion, Kaapana (internal)
s669m closed T28091: (for Dec 10 )TFDA Mvp 1 Simple Demo & User-workflow upload provision as Resolved.
Dec 10 2020, 10:04 AM · Request for Discussion, Kaapana (internal)

Dec 9 2020

eisenman created T28095: [dash] Develop landing page.
Dec 9 2020, 6:27 PM · webChallengeR
eisenman moved T28094: [dash] Develop web app based on Dash from Backlog to In Progress on the webChallengeR board.
Dec 9 2020, 6:23 PM · webChallengeR
eisenman triaged T28094: [dash] Develop web app based on Dash as High priority.
Dec 9 2020, 6:22 PM · webChallengeR
floca added a comment to T27608: [MITKDoc] Documentation Refurbish - Developer Manual.

@kompan What is the status here? Is it finish. If not, what has to be done to close it. Should be done before we make a release in january and if much is left, we should know what to do. Thanks.

Dec 9 2020, 2:23 PM · Moved to git.dkfz.de, MITK (v2024.12), Cleared
floca moved T28076: [Multilabel Segmentation] Corrector tool 2D does not respect multiple layers from Backlog to Segmentation on the MITK (v2021.02) board.
Dec 9 2020, 2:18 PM · MITK (v2021.02)
floca moved T22412: Workbench crashes when using 2D Region Growin on DWI Image (.nii) on Ubuntu 16.04 from Backlog to Segmentation on the MITK (v2021.02) board.
Dec 9 2020, 2:18 PM · Missing Info, Request for Discussion, MITK (v2021.02)
floca placed T22412: Workbench crashes when using 2D Region Growin on DWI Image (.nii) on Ubuntu 16.04 up for grabs.
Dec 9 2020, 2:18 PM · Missing Info, Request for Discussion, MITK (v2021.02)
s669m created T28091: (for Dec 10 )TFDA Mvp 1 Simple Demo & User-workflow upload provision.
Dec 9 2020, 12:06 PM · Request for Discussion, Kaapana (internal)
s669m moved T28043: TFDA MVP1-Tasks:Tools and Technologies from Discussion to Resolved on the Kaapana (internal) board.
Dec 9 2020, 12:02 PM · Restricted Project, Kaapana (internal)
s669m closed T28043: TFDA MVP1-Tasks:Tools and Technologies as Resolved.
Dec 9 2020, 12:02 PM · Restricted Project, Kaapana (internal)
makr added a comment to T28089: [CEST] Error loading custom data due to alleged spacing of 0.

thanks for reply and your help!

  1. I solved the problem by changing from SS to multiple slice sequence. However, I am still struggling to get an CEST parameter map. Is there an updated manual available? I attached some sample data as well, see comment 3.
  2. Windows 10. But would prefer if there is a MAC version available.
  3. please find the sample data here: https://wetransfer.com/downloads/15f5ec7d7e9396f1e2d6736dee8d9eed20201209090335/c188ee6f22a20cefbc955818f0f5557c20201209090357/dc6f49

Its a mouse with brain tumor and I used the following parameters (7T MRI): CEST ampl. 4%, B1:3uT, delta t: 90us, sweep from 2000 Hz in 200Hz steps to -2000Hz (10 to -10 ppm).

Dec 9 2020, 10:14 AM · Auto-closed, Missing Info, Restricted Project, MITK
kalali added a comment to T25152: Cannot compare TemporoSpatialStringProperty.

I vaguely remember what it was used for: In the context of SemanticRelations but I can't find a related commit. So I guess we just leave it as it is and see if it pops up (once we talk again about the SemanticRelations and its future use).

Dec 9 2020, 9:57 AM · Auto-closed, MITK

Dec 8 2020

kislinsk added a comment to T27689: RTDose image can not be serialized and workbench crashes upon loading.

If this is now a crash but wasn't before, the TinyXML-2 migration is also a good candidate.
edit: Oh, was already authored in August. Sorry for the noise.

Dec 8 2020, 8:18 PM · Request for Discussion, MITK
thomass added a comment to T27689: RTDose image can not be serialized and workbench crashes upon loading.

Might be related to T25305

Dec 8 2020, 6:38 PM · Request for Discussion, MITK
floca added a comment to T27153: Fit CRMO2-model to mean value of ROI.

@kompan Is this still open? You marked it in your report list as "in usage" or did you ment something else with "statsitical analysis of 17O data"?

Dec 8 2020, 4:25 PM · Restricted Project
floca added a project to T28089: [CEST] Error loading custom data due to alleged spacing of 0: Missing Info.

@makr Could you please let us know:

  1. if the problem still persists
  2. What OS do you use?
  3. Could you provide any kind of example data for us to reproduce the error?
Dec 8 2020, 3:53 PM · Auto-closed, Missing Info, Restricted Project, MITK
floca added a comment to CEST User Manual.

@makr Sorry for not responding directly. I was not aware that the comment section was open and I was not subscribed to the document thus recieved no notification. I hope you are still interested. I moved the issued to T28089. Would be great if you could have a look and give feedback. Thanks.

Dec 8 2020, 3:51 PM · MITK
floca triaged T28089: [CEST] Error loading custom data due to alleged spacing of 0 as Normal priority.
Dec 8 2020, 3:48 PM · Auto-closed, Missing Info, Restricted Project, MITK
m113r renamed T28014: Augmentation Refinement from Additional Augmentation Refinement to Augmentation Refinement.
Dec 8 2020, 1:18 PM · m113r
eisenman triaged T28085: Report generation is broken as High priority.
Dec 8 2020, 1:16 PM · challengeR (v1.0)
m113r moved T28014: Augmentation Refinement from Backlog to Experiment Backlog on the m113r board.
Dec 8 2020, 1:12 PM · m113r
kislinsk removed a project from T28062: Fix IsotropicWavelets (ITK) dependency: Noteworthy.
Dec 8 2020, 9:50 AM · MITK (v2021.02)

Dec 7 2020

kislinsk closed T28081: Create shortcuts for executables in Windows installers/packages, a subtask of T27196: Rewrite packaging of MITK, as Resolved.
Dec 7 2020, 10:15 PM · Moved to git.dkfz.de, MITK, Cleared
kislinsk closed T28081: Create shortcuts for executables in Windows installers/packages as Resolved.
Dec 7 2020, 10:15 PM · Cleared, MITK (v2021.02)
kislinsk added a comment to T28081: Create shortcuts for executables in Windows installers/packages.

Deleted branch bugfix/T28081-ShortcutsInWindowsInstallers.

Dec 7 2020, 10:14 PM · Cleared, MITK (v2021.02)
kislinsk committed rMITK7ba5ffbb2e50: Create shortcuts in Windows installers/packages (authored by kislinsk).
Create shortcuts in Windows installers/packages
Dec 7 2020, 10:14 PM
kislinsk committed rMITKa9f7c91fd852: Remove redist part (authored by kislinsk).
Remove redist part
Dec 7 2020, 10:14 PM
kislinsk committed rMITKccbaf060bde7: Merge branch 'bugfix/T28081-ShortcutsInWindowsInstallers' into develop (authored by kislinsk).
Merge branch 'bugfix/T28081-ShortcutsInWindowsInstallers' into develop
Dec 7 2020, 10:14 PM
kislinsk added a comment to T28081: Create shortcuts for executables in Windows installers/packages.

Pushed new branch bugfix/T28081-ShortcutsInWindowsInstallers.

Dec 7 2020, 10:13 PM · Cleared, MITK (v2021.02)
kislinsk triaged T28081: Create shortcuts for executables in Windows installers/packages as Normal priority.
Dec 7 2020, 10:09 PM · Cleared, MITK (v2021.02)
kislinsk updated subscribers of T27196: Rewrite packaging of MITK.
Dec 7 2020, 10:07 PM · Moved to git.dkfz.de, MITK, Cleared
floca added a project to T22412: Workbench crashes when using 2D Region Growin on DWI Image (.nii) on Ubuntu 16.04: Missing Info.
In T22412#93426, @goch wrote:

This crutch should be removed when redesigning the tools.

@floca I stumbled upon this and I was wondering if this crutch can be removed with the changes made in T27490.

May be. We would need to test it.
@neher do we have suiteable testdata?

Dec 7 2020, 9:12 PM · Missing Info, Request for Discussion, MITK (v2021.02)
kislinsk closed T28080: Microsoft Visual C++ Redistributable not included in packages anymore, a subtask of T27196: Rewrite packaging of MITK, as Resolved.
Dec 7 2020, 8:44 PM · Moved to git.dkfz.de, MITK, Cleared
kislinsk closed T28080: Microsoft Visual C++ Redistributable not included in packages anymore as Resolved.
Dec 7 2020, 8:44 PM · Cleared, MITK (v2021.02)
kislinsk added a comment to T28080: Microsoft Visual C++ Redistributable not included in packages anymore.

Deleted branch bugfix/T28080-RedistPackagingAndNSISGenerator.

Dec 7 2020, 8:44 PM · Cleared, MITK (v2021.02)
kislinsk committed rMITKc63dd0997faa: Rely on InstallRequiredSystemLibraries to handle runtime DLLs (authored by kislinsk).
Rely on InstallRequiredSystemLibraries to handle runtime DLLs
Dec 7 2020, 8:44 PM
kislinsk committed rMITKb9f6499dd3f3: Merge branch 'bugfix/T28080-RedistPackagingAndNSISGenerator' into develop (authored by kislinsk).
Merge branch 'bugfix/T28080-RedistPackagingAndNSISGenerator' into develop
Dec 7 2020, 8:43 PM
kalali updated subscribers of T22412: Workbench crashes when using 2D Region Growin on DWI Image (.nii) on Ubuntu 16.04.
Dec 7 2020, 8:43 PM · Missing Info, Request for Discussion, MITK (v2021.02)
kalali reopened T22412: Workbench crashes when using 2D Region Growin on DWI Image (.nii) on Ubuntu 16.04 as "Open".
In T22412#93426, @goch wrote:

This crutch should be removed when redesigning the tools.

Dec 7 2020, 8:41 PM · Missing Info, Request for Discussion, MITK (v2021.02)
kislinsk added a comment to T28080: Microsoft Visual C++ Redistributable not included in packages anymore.

Pushed new branch bugfix/T28080-RedistPackagingAndNSISGenerator.

Dec 7 2020, 8:40 PM · Cleared, MITK (v2021.02)
kislinsk triaged T28080: Microsoft Visual C++ Redistributable not included in packages anymore as Normal priority.
Dec 7 2020, 8:28 PM · Cleared, MITK (v2021.02)
kislinsk added a comment to T23249: Ensure openSSL availability for MITK installers using XNAT plugin or other REST services.

At least for XNAT this was recently resolved in T26449: XNAT connection failes due to missing OpenSSL connections.

Dec 7 2020, 8:17 PM · Restricted Project, CSI-HD, MITK
kislinsk closed T28060: CMake Policy CMP0091 does not work well with dependencies that are based on CMake version < 3.15 as Resolved.
Dec 7 2020, 8:15 PM · MITK
wiesenfa added a comment to T27925: Use cases of annotator option.

would defer to after release

Dec 7 2020, 3:58 PM · challengeR
wiesenfa added a comment to T27494: Check which files are still relevant.

please close if ok

Dec 7 2020, 3:58 PM · challengeR
wiesenfa committed rCHALLENGER77411271cd7a: fix podium (authored by wiesenfa).
fix podium
Dec 7 2020, 3:51 PM
wiesenfa committed rCHALLENGERd7c27e2a6dad: fix (authored by wiesenfa).
fix
Dec 7 2020, 3:51 PM
wiesenfa committed rCHALLENGER4a677bed212f: style (authored by wiesenfa).
style
Dec 7 2020, 3:51 PM
wiesenfa committed rCHALLENGER38ac623e8adc: add annotor (authored by wiesenfa).
add annotor
Dec 7 2020, 3:51 PM
wiesenfa added a comment to T27925: Use cases of annotator option.

added to documentation of as.challenge():
(arg annotator:) If multiple annotators annotated the test cases, a string specifying the name of the column that contains the annotator identifiers. Only applies to rang-then-aggregate. Use with caution: Currently not tested.

Dec 7 2020, 3:18 PM · challengeR
wiesenfa moved T27925: Use cases of annotator option from Backlog to In Progress on the challengeR (v1.0) board.
Dec 7 2020, 3:16 PM · challengeR
wiesenfa committed rCHALLENGER17905fc80c85: add man for annotator (authored by wiesenfa).
add man for annotator
Dec 7 2020, 3:16 PM
wiesenfa added a comment to T27971: Provide code for podium plot in vignette "Visualizations".

added

podium(ranking)

to vignette.
podium() does have a different syntax for layouting (it is not ggplot2 but base graphics) but vignette does not describe layouting for ggplot2 plots either

Dec 7 2020, 2:20 PM · challengeR (v1.0)
wiesenfa moved T27971: Provide code for podium plot in vignette "Visualizations" from Backlog to Done on the challengeR (v1.0) board.
Dec 7 2020, 2:18 PM · challengeR (v1.0)
wiesenfa committed rCHALLENGER6267c97aeb1b: T27971 podium in visualizations vignette (authored by wiesenfa).
T27971 podium in visualizations vignette
Dec 7 2020, 2:13 PM
wiesenfa committed rCHALLENGERf899ce83619a: add euclidean consensus man (authored by wiesenfa).
add euclidean consensus man
Dec 7 2020, 2:13 PM
wiesenfa committed rCHALLENGER269f169422a0: update man (authored by wiesenfa).
update man
Dec 7 2020, 2:13 PM
wiesenfa committed rCHALLENGERccd930a457fd: add details for euclidean consensus (authored by wiesenfa).
add details for euclidean consensus
Dec 7 2020, 2:13 PM
wiesenfa placed T27998: Interpretation of consensus ranking values needs further explanation up for grabs.
Dec 7 2020, 2:03 PM · challengeR (v1.0)
wiesenfa moved T27998: Interpretation of consensus ranking values needs further explanation from Backlog to In Progress on the challengeR (v1.0) board.
Dec 7 2020, 2:03 PM · challengeR (v1.0)
wiesenfa added a comment to T27998: Interpretation of consensus ranking values needs further explanation.

report() does not know what type of consensus ranking method had been used.
I added sentence
"Consensus ranking according to mean ranks across tasks if method="euclidean" where in case of ties (equal ranks for multiple algorithms) the average rank is used, i.e. ties.method="average"."
to help for consensus() and would suggest to also add this to the vignette/readme, but not to report. Could someone of you please take care of this?

Dec 7 2020, 2:03 PM · challengeR (v1.0)
kalali added a comment to T28076: [Multilabel Segmentation] Corrector tool 2D does not respect multiple layers.

This task will be fixed with D447 (see https://phabricator.mitk.org/D447?vs=2005&id=2006#toc).

Dec 7 2020, 1:28 PM · MITK (v2021.02)
kalali triaged T28076: [Multilabel Segmentation] Corrector tool 2D does not respect multiple layers as Normal priority.
Dec 7 2020, 1:20 PM · MITK (v2021.02)
kalali closed T28051: [Multilabel Segmentation] Fill / Erase tool does not respect multiple layers as Resolved.

This task will be fixed with D447 (see D448#13472).

Dec 7 2020, 1:10 PM · MITK (v2021.02)
kalali closed T28051: [Multilabel Segmentation] Fill / Erase tool does not respect multiple layers, a subtask of T27807: [MultiLabel Segmentation] Inspection of module and plugin, as Resolved.
Dec 7 2020, 1:10 PM · Moved to git.dkfz.de, MITK (v2024.12)