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Jun 21 2023

kislinsk updated the task description for T29646: Evaluate alternatives to the MITK Mailinglist.
Jun 21 2023, 11:35 AM · Moved to git.dkfz.de, MITK
kislinsk triaged T29646: Evaluate alternatives to the MITK Mailinglist as Low priority.
Jun 21 2023, 11:35 AM · Moved to git.dkfz.de, MITK
a178n triaged T29645: Test Plan for SAM as Normal priority.
Jun 21 2023, 9:40 AM · MITK (v2023.12)
a178n triaged T29644: Doxygen documentation for SAM as Normal priority.
Jun 21 2023, 9:39 AM · MITK (v2023.12)
kislinsk closed T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade as Resolved.
Jun 21 2023, 9:31 AM · MITK
kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

Deleted branch from rMITK MITK: bugfix/T29636-fix-itkzlib-rpath.

Jun 21 2023, 9:30 AM · MITK
kislinsk committed rMITKbef10210dc56: Use @rpath for itkzlib on macOS (authored by kislinsk).
Use @rpath for itkzlib on macOS
Jun 21 2023, 9:29 AM
kislinsk committed rMITKd0233ab52eb6: Merge branch 'bugfix/T29636-fix-itkzlib-rpath' into develop (authored by kislinsk).
Merge branch 'bugfix/T29636-fix-itkzlib-rpath' into develop
Jun 21 2023, 9:29 AM
kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

Pushed new branch to rMITK MITK: bugfix/T29636-fix-itkzlib-rpath.

Jun 21 2023, 9:28 AM · MITK

Jun 20 2023

kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

I figured out how to resolve it but before forking again, let's see what the upstream is doing with this information.
https://github.com/InsightSoftwareConsortium/ITK/issues/4084

Jun 20 2023, 12:05 PM · MITK
kompan added a comment to T29442: [Perfusion] Support of OSIPI Caplex.

One way of documenting the applied fitting pipeline in agreement with the lexicon is to export an XML file which describes the pipeline as suggested int the lexicon publication ("A community-endorsed open-source lexicon for contrast-agent based perfusion MRI (CAPLEX): A consensus guidelines report from the ISMRM Open Science Initiative for Perfusion Imaging (OSIPI)".)
In this task it is first collected if all relevant information of the fitting configuration can be extracted in order to build such an XML file.

Jun 20 2023, 11:57 AM · Moved to git.dkfz.de, Request for Discussion, MITK
s434n triaged T29641: [Movie Maker] Allow rotation around different axes as Normal priority.
Jun 20 2023, 10:46 AM · Moved to git.dkfz.de, MITK (v2024.12)
holzwart created T29640: Verboseness in MatchPoint Algorithm Control.
Jun 20 2023, 10:45 AM · MITK (v2024.12), Missing Info
s434n triaged T29639: [Registration] Mapping crashes when super-sampling is activated as Normal priority.
Jun 20 2023, 10:44 AM · Moved to git.dkfz.de, MITK (v2024.12), Missing Info
kompan triaged T29638: ModelFit Inspector crahes sometimes on data selection as Normal priority.
Jun 20 2023, 10:39 AM · MITK (v2024.12)
kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

Okay I don't really understand where the .1 comes from but it is not relevant. The issue is that the reference to libitkzlib does not use rpath like all the other dependencies:

Jun 20 2023, 9:12 AM · MITK
kislinsk renamed T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade from Resolve failing tests after ITK v5.3 upgrade to [macOS] Resolve crashing executables after ITK v5.3 upgrade.
Jun 20 2023, 9:08 AM · MITK
kislinsk closed T29637: VTK build errors on macOS Ventura 13 as Invalid.

Couldn't reproduce anymore with a fresh build.

Jun 20 2023, 7:58 AM · MITK
kislinsk triaged T29637: VTK build errors on macOS Ventura 13 as Normal priority.
Jun 20 2023, 7:07 AM · MITK

Jun 19 2023

kislinsk added a comment to T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0.

Deleted branch from rMITK MITK: bugfix/T29634-UpgradeITK-v5.2.1-v5.3.0.

Jun 19 2023, 11:59 PM · MatchPoint, MITK
kislinsk added a comment to T29633: Upgrade VTK dependency from v9.1.0 to v9.2.6.

Deleted branch from rMITK MITK: bugfix/T29633-UpgradeVTK-v9.1.0-v9.2.6.

Jun 19 2023, 11:59 PM · MITK
kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

I just noticed that it tries to load lib/libitkzlib-5.3.1.dylib, where as the version should be v5.3 instead of v5.3.1. The ITK version upgrade was done from v5.2.1 to v5.3. I wonder if the .1 patch version has been carried over somehow and it can be fixed with a clean build? Let's see what the nightly clients will do tonight.

Jun 19 2023, 3:04 PM · MITK
kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

The mitkImageStatisticsHotspotTest should be fixed now. The reason was the backend of a FFT convolution filter that was not loaded, resp. the corresponding ITK object factory wasn't registered.

Jun 19 2023, 2:59 PM · MITK
kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

Deleted branch from rMITK MITK: bugfix/T29636-FixITKv5.3FailingTests.

Jun 19 2023, 2:56 PM · MITK
kislinsk committed rMITKc373ca3f501f: Register Vnl backend for FFT convolution filter (authored by kislinsk).
Register Vnl backend for FFT convolution filter
Jun 19 2023, 2:56 PM
kislinsk committed rMITK559424478228: Fix ITK image access through MITK image (authored by kislinsk).
Fix ITK image access through MITK image
Jun 19 2023, 2:56 PM
kislinsk committed rMITKfe1e6cf32508: Merge branch 'bugfix/T29636-FixITKv5.3FailingTests' into develop (authored by kislinsk).
Merge branch 'bugfix/T29636-FixITKv5.3FailingTests' into develop
Jun 19 2023, 2:56 PM
kislinsk added a comment to T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade.

Pushed new branch to rMITK MITK: bugfix/T29636-FixITKv5.3FailingTests.

Jun 19 2023, 2:53 PM · MITK
kislinsk triaged T29636: [macOS] Resolve crashing executables after ITK v5.3 upgrade as High priority.
Jun 19 2023, 1:28 PM · MITK
a178n updated subscribers of T29635: SAM tool: Cannot Confirm segmentation properly.
Jun 19 2023, 1:13 PM · MITK (v2023.12)
a178n triaged T29635: SAM tool: Cannot Confirm segmentation properly as Normal priority.
Jun 19 2023, 11:42 AM · MITK (v2023.12)
kislinsk committed rMITK6611cfcc2345: Upgrade ITK from v5.2.1 to v5.3.0 (authored by kislinsk).
Upgrade ITK from v5.2.1 to v5.3.0
Jun 19 2023, 10:27 AM
kislinsk closed T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0 as Resolved by committing rMITKaaf38e8a203f: Upgrade ITK from v5.2.1 to v5.3.0.
Jun 19 2023, 10:27 AM · MatchPoint, MITK
kislinsk committed rMITKaaf38e8a203f: Upgrade ITK from v5.2.1 to v5.3.0 (authored by kislinsk).
Upgrade ITK from v5.2.1 to v5.3.0
Jun 19 2023, 10:27 AM
kislinsk committed rMITK86f936abee97: Upgrade VTK from v9.1.0 to v9.2.6 (authored by kislinsk).
Upgrade VTK from v9.1.0 to v9.2.6
Jun 19 2023, 10:27 AM
kislinsk closed T29633: Upgrade VTK dependency from v9.1.0 to v9.2.6 as Resolved by committing rMITKd4f6e4803b21: Upgrade VTK from v9.1.0 to v9.2.6.
Jun 19 2023, 10:26 AM · MITK
kislinsk committed rMITKd4f6e4803b21: Upgrade VTK from v9.1.0 to v9.2.6 (authored by kislinsk).
Upgrade VTK from v9.1.0 to v9.2.6
Jun 19 2023, 10:26 AM
kislinsk closed T29310: [ITK] Check if ITK 5.3 adds the GrowCut remote module by default as Resolved.

Resolved by T29634.

Jun 19 2023, 10:25 AM · MITK (v2023.12)
kislinsk closed T29310: [ITK] Check if ITK 5.3 adds the GrowCut remote module by default, a subtask of T29309: [GrowCut] Further remarks regarding GrowCut, as Resolved.
Jun 19 2023, 10:25 AM · MITK

Jun 17 2023

kislinsk committed rMPa45efdf97741: Merge branch 'T29634-MigrateToITKv5.3' (authored by kislinsk).
Merge branch 'T29634-MigrateToITKv5.3'
Jun 17 2023, 9:43 AM
kislinsk committed rMPba5a7bad325e: Add more type aliases (authored by kislinsk).
Add more type aliases
Jun 17 2023, 9:43 AM

Jun 16 2023

kislinsk added a revision to T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0: Unknown Object (Differential Revision).
Jun 16 2023, 11:40 PM · MatchPoint, MITK
kislinsk added a comment to T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0.

Pushed new branch to rMITK MITK: bugfix/T29634-UpgradeITK-v5.2.1-v5.3.0.

Jun 16 2023, 11:39 PM · MatchPoint, MITK
kislinsk committed rMPad6984113760: Merge branch 'T29634-MigrateToITKv5.3' (authored by kislinsk).
Merge branch 'T29634-MigrateToITKv5.3'
Jun 16 2023, 3:53 PM
floca added a comment to T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0.

thanks for taking care. 🙏

Jun 16 2023, 3:38 PM · MatchPoint, MITK
floca added a comment to T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0.

they are ok

Jun 16 2023, 3:37 PM · MatchPoint, MITK
kislinsk added a comment to T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0.

@floca Can you check the two commits in the branch above if they are okay for merging?

Jun 16 2023, 3:36 PM · MatchPoint, MITK
kislinsk committed rMP9b7eacf3c2cf: Replace removed point init by vector with init by data pointer (authored by kislinsk).
Replace removed point init by vector with init by data pointer
Jun 16 2023, 3:11 PM
kislinsk committed rMPf6517efa0ce2: Add type aliases for original ITK classes (authored by kislinsk).
Add type aliases for original ITK classes
Jun 16 2023, 3:11 PM
kislinsk added a comment to T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0.

I will migrate MatchPoint in this branch: https://phabricator.mitk.org/source/matchpoint/history/T29634-MigrateToITKv5.3/

Jun 16 2023, 2:54 PM · MatchPoint, MITK
kislinsk triaged T29634: Upgrade ITK from v5.2.1 (patched) to v5.3.0 as Normal priority.
Jun 16 2023, 2:43 PM · MatchPoint, MITK
kislinsk added a revision to T29633: Upgrade VTK dependency from v9.1.0 to v9.2.6: Unknown Object (Differential Revision).
Jun 16 2023, 10:53 AM · MITK
kislinsk added a comment to T29633: Upgrade VTK dependency from v9.1.0 to v9.2.6.

Pushed new branch to rMITK MITK: bugfix/T29633-UpgradeVTK-v9.1.0-v9.2.6.

Jun 16 2023, 10:52 AM · MITK
kislinsk triaged T29633: Upgrade VTK dependency from v9.1.0 to v9.2.6 as Normal priority.
Jun 16 2023, 10:47 AM · MITK
kislinsk added a comment to T29626: Upgrade third party dependencies.

Deleted branch from rMITK MITK: bugfix/T29626-UpgradeThirdPartyDependencies.

Jun 16 2023, 8:45 AM · MITK
kislinsk committed rMITKb3b8e1175899: Upgrade JSON for Modern C++ to v3.11.2 (authored by kislinsk).
Upgrade JSON for Modern C++ to v3.11.2
Jun 16 2023, 8:45 AM
kislinsk committed rMITK0f74ddda49a8: Upgrade lz4 to v1.9.4 (authored by kislinsk).
Upgrade lz4 to v1.9.4
Jun 16 2023, 8:45 AM
kislinsk committed rMITK19cd87ef55db: Upgrade Boost to v1.82.0 (authored by kislinsk).
Upgrade Boost to v1.82.0
Jun 16 2023, 8:45 AM
kislinsk committed rMITKaf6c3b744f29: Upgrade ZLIB to v1.2.13 (authored by kislinsk).
Upgrade ZLIB to v1.2.13
Jun 16 2023, 8:45 AM
kislinsk committed rMITK0d3e2069f73e: Upgrade Poco to v1.12.4 (authored by kislinsk).
Upgrade Poco to v1.12.4
Jun 16 2023, 8:45 AM
kislinsk committed rMITK35fe9afd7d06: Upgrade DCMQI to v1.2.5 (authored by kislinsk).
Upgrade DCMQI to v1.2.5
Jun 16 2023, 8:45 AM
kislinsk committed rMITK75d4e00437be: Upgrade ACVD to latest commit (authored by kislinsk).
Upgrade ACVD to latest commit
Jun 16 2023, 8:45 AM
kislinsk committed rMITK82d9e6043283: Remove custom find script for LZ4 (authored by kislinsk).
Remove custom find script for LZ4
Jun 16 2023, 8:45 AM
kislinsk committed rMITK5d6d6748f212: Depend on LZ4 via plain CMake target (authored by kislinsk).
Depend on LZ4 via plain CMake target
Jun 16 2023, 8:45 AM
kislinsk closed T29626: Upgrade third party dependencies as Resolved by committing rMITK109ffce63047: Upgrade third-party dependencies.
Jun 16 2023, 8:45 AM · MITK
kislinsk committed rMITK109ffce63047: Upgrade third-party dependencies (authored by kislinsk).
Upgrade third-party dependencies
Jun 16 2023, 8:45 AM

Jun 15 2023

kompan closed T27142: Unit test for average baseline signal, a subtask of T22085: Perfusion Conversion to Concentration: Average Baseline signal, as Resolved.
Jun 15 2023, 12:29 PM · Restricted Project, MITK
kompan closed T27142: Unit test for average baseline signal as Resolved.

This task is done as part of task https://phabricator.mitk.org/T27860.

Jun 15 2023, 12:29 PM · MITK, Restricted Project
kislinsk moved T29630: Command-line app for voxelizing contour sets / RTSTRUCTs in MITK from Backlog to MITK Meeting on the Request for Discussion board.
Jun 15 2023, 8:52 AM · Request for Discussion, MITK
kislinsk moved T29631: Integration of an updated Feature Branch from Backlog to MITK Meeting on the Request for Discussion board.
Jun 15 2023, 8:52 AM · MITK
kislinsk added a comment to T29631: Integration of an updated Feature Branch.

Didn't find any "critical" style issues. It is a single commit, right? rMITKc8283d2c7c3f: Smaller Bugfixes
You may want to search and replace "[Bb]oarder" with "[Bb]order", though, as I guess you intended to refer to "Rand" instead of "Untermieter". :)

Jun 15 2023, 8:51 AM · MITK

Jun 14 2023

goetzm triaged T29631: Integration of an updated Feature Branch as Normal priority.
Jun 14 2023, 3:45 PM · MITK
kompan added a comment to T26840: Mission Homepage Reorganization .

Deleted branch from rMITK MITK: bugfix/T26840-MitkHomepageReorganization-TopLevel-integrationBranch.

Jun 14 2023, 9:51 AM · MITK
kompan added a comment to T27744: [MITKDoc] Revise Model Fit Demo View Documentation.

Deleted branch from rMITK MITK: bugfix/T27744-ReviseModelFitDemo.

Jun 14 2023, 9:49 AM · Cleared, MITK (v2021.02)
kompan added a comment to T29620: Check if GenericFitMiniApp supports the needed model.

The formula for the 23Na-MR data analysis is:

Jun 14 2023, 9:07 AM · Missing Info, MITK, Restricted Project, Restricted Project

Jun 13 2023

kompan committed rMD1665a35eb20a: Add ThreeStepLinearModel test JSON files. (authored by kompan).
Add ThreeStepLinearModel test JSON files.
Jun 13 2023, 1:34 PM
kompan committed rMDc255b57b5d09: Corrections to TwoStepLinearModel test JSON file. (authored by kompan).
Corrections to TwoStepLinearModel test JSON file.
Jun 13 2023, 1:34 PM
kislinsk updated the task description for T29630: Command-line app for voxelizing contour sets / RTSTRUCTs in MITK.
Jun 13 2023, 11:08 AM · Request for Discussion, MITK
kislinsk triaged T29630: Command-line app for voxelizing contour sets / RTSTRUCTs in MITK as Wishlist priority.
Jun 13 2023, 11:07 AM · Request for Discussion, MITK
floca added a comment to T29620: Check if GenericFitMiniApp supports the needed model.

What is the status here?

Jun 13 2023, 10:59 AM · Missing Info, MITK, Restricted Project, Restricted Project
kislinsk added a revision to T29626: Upgrade third party dependencies: Unknown Object (Differential Revision).
Jun 13 2023, 10:49 AM · MITK

Jun 12 2023

kislinsk closed T29627: cpp mircoservoces raise doc warnings as Resolved.
Jun 12 2023, 4:20 PM · MITK
kislinsk added a comment to T29627: cpp mircoservoces raise doc warnings.

Deleted branch from rMITK MITK: bugfix/T29627-FixDoxygenWarnings.

Jun 12 2023, 4:20 PM · MITK
kislinsk committed rMITK11a0eabe0248: Fix Doxygen warnings (authored by kislinsk).
Fix Doxygen warnings
Jun 12 2023, 4:19 PM
kislinsk committed rMITK60bb8ccf0a75: Merge branch 'bugfix/T29627-FixDoxygenWarnings' into develop (authored by kislinsk).
Merge branch 'bugfix/T29627-FixDoxygenWarnings' into develop
Jun 12 2023, 4:19 PM
kislinsk added a comment to T29627: cpp mircoservoces raise doc warnings.

Pushed new branch to rMITK MITK: bugfix/T29627-FixDoxygenWarnings.

Jun 12 2023, 4:18 PM · MITK
kislinsk added a comment to T27189: REST API for data storage.

@gaoh gave green light in Slack to delete the branch during a housekeeping effort.

Jun 12 2023, 1:42 PM · Moved to git.dkfz.de, MITK (v2024.12), Restricted Project, Request for Discussion
kislinsk added a comment to T27189: REST API for data storage.

Deleted branch from rMITK MITK: feature/T27189-RestApiForDataStorage.

Jun 12 2023, 1:40 PM · Moved to git.dkfz.de, MITK (v2024.12), Restricted Project, Request for Discussion
kislinsk added a comment to T28578: [mxn multi widget] Optimization of the mxn multi widget.

Deleted branch from rMITK MITK: feature/T28578-Test-MxN-installer.

Jun 12 2023, 11:15 AM · Moved to git.dkfz.de, MITK
kislinsk added a comment to T28544: Difference of loading RT data DicomBrowser vs. "Standard loading".

Deleted branch from rMITK MITK: bugfix/T28544-difference-RT-data-loading.

Jun 12 2023, 11:09 AM · Moved to git.dkfz.de, MITK (v2024.12), Request for Discussion
a178n added a comment to T29566: TotalSegmentator GUI bug: Install button not Activated correctly.

Deleted branch from rMITK MITK: feature/T29566-totalseg-checklist-bugfix.

Jun 12 2023, 11:09 AM · Checklist, MITK (v2023.04)
a178n added a comment to T29541: nnUNet tool Update documentation.

Deleted branch from rMITK MITK: feature/T29541-nnunet-update-doku.

Jun 12 2023, 11:09 AM · Checklist, MITK (v2023.04)
a178n added a comment to T29567: TotalSeg: inferencing issue on MacOS.

Deleted branch from rMITK MITK: feature/T29567-totalseg-macos-fix.

Jun 12 2023, 11:08 AM · MITK (v2023.12)
kislinsk claimed T29627: cpp mircoservoces raise doc warnings.

What's your doxygen version?

Jun 12 2023, 7:59 AM · MITK

Jun 6 2023

neher triaged T29627: cpp mircoservoces raise doc warnings as Normal priority.
Jun 6 2023, 9:05 AM · MITK

Jun 2 2023

kislinsk updated the task description for T29626: Upgrade third party dependencies.
Jun 2 2023, 4:51 PM · MITK
kislinsk added a comment to T29626: Upgrade third party dependencies.

Pushed new branch to rMITK MITK: bugfix/T29626-UpgradeThirdPartyDependencies.

Jun 2 2023, 4:50 PM · MITK
kislinsk updated the task description for T29626: Upgrade third party dependencies.
Jun 2 2023, 4:47 PM · MITK
kislinsk triaged T29626: Upgrade third party dependencies as Normal priority.
Jun 2 2023, 4:47 PM · MITK
s434n committed rRTTB2b478446abcb: align test result matrices for better overview (authored by s434n).
align test result matrices for better overview
Jun 2 2023, 10:57 AM
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