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Dec 23 2020

• kleina added a member for MIC: j902n.
Dec 23 2020, 12:43 PM

Nov 4 2020

• kleina added a member for Deep Learning: • s429r.
Nov 4 2020, 12:24 PM

Sep 8 2020

• kleina committed rOBSHYPPOPY2ffecdc1e877: If maximum iterations is reached, self.best contains Wrapped results. We now… (authored by • kleina).
If maximum iterations is reached, self.best contains Wrapped results. We now…
Sep 8 2020, 4:29 AM

Sep 7 2020

• kleina committed rOBSHYPPOPY1358b14d22f9: Merge branch 'T26755_mpi4hyppopy' of https://github.com/MIC-DKFZ/Hyppopy into… (authored by • kleina).
Merge branch 'T26755_mpi4hyppopy' of https://github.com/MIC-DKFZ/Hyppopy into…
Sep 7 2020, 11:09 PM
• kleina committed rOBSHYPPOPYea489f818b8b: Differentiate between "not implemented" and "not started via MPI". (authored by • kleina).
Differentiate between "not implemented" and "not started via MPI".
Sep 7 2020, 11:09 PM
• kleina committed rOBSHYPPOPY1b19f1049760: Handle errors if workers. If error occurs, we send np.nan to the master. (authored by • kleina).
Handle errors if workers. If error occurs, we send np.nan to the master.
Sep 7 2020, 11:09 PM
• kleina committed rOBSHYPPOPY7b1d6048c077: Code cleanup to improve readability. (authored by • kleina).
Code cleanup to improve readability.
Sep 7 2020, 11:09 PM
• kleina removed a parent task for T26805: Make the MPI master work as well: Unknown Object (Maniphest Task).
Sep 7 2020, 9:52 PM · Hyppopy

Aug 19 2020

• kleina updated • kleina.
Aug 19 2020, 10:59 AM

Jul 29 2020

• kleina added a member for Deep Learning: t006d.
Jul 29 2020, 3:13 PM

Jul 28 2020

• kleina added a comment to T27525: Problems while opening MITK scenes created with 2018.04 release with the current master.

I do. I can build the current develop and let you know, if something changed for me.

Jul 28 2020, 10:23 AM · Auto-closed, Missing Info, MITK (v2021.02)

Jul 16 2020

• 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

Jul 8 2020

• kleina added a member for MIC: • k921n.
Jul 8 2020, 11:55 AM
• kleina added a member for Deep Learning: • k921n.
Jul 8 2020, 11:55 AM

Jul 6 2020

• kleina added a comment to T27525: Problems while opening MITK scenes created with 2018.04 release with the current master.

It was a clean build with MITK_BUILD_CONFIGURATION = WorkbenchRelease. I also enabled XNAT and only build "release". But I think that's all.

Jul 6 2020, 5:15 PM · Auto-closed, Missing Info, MITK (v2021.02)
• kleina added a comment to T27525: Problems while opening MITK scenes created with 2018.04 release with the current master.

With the installer you send me it worked :-(
I fetched and pulled develop this morning. What else should I try to narrow it down?

Jul 6 2020, 12:54 PM · Auto-closed, Missing Info, MITK (v2021.02)
• kleina added a comment to T27529: How to do step 1 with Qt-Creator.

AFAIK there is no special tutorial for QtCreator. The code should be the same, as it should (like MITK in general) work on both platforms.
In QtCreator, you select the project you want to build in the lower left corner where the "green play buttons" are.
For your specific question, you need to add cmd arguments when starting the project. Here is a stackoverflow post on how to do that, hope that helps: https://stackoverflow.com/questions/1593288/qtcreator-and-command-line-arguments

Jul 6 2020, 10:56 AM · MITK
• kleina added a comment to T27525: Problems while opening MITK scenes created with 2018.04 release with the current master.

This is the error message, that was not there with the old installer:

Jul 6 2020, 10:17 AM · Auto-closed, Missing Info, MITK (v2021.02)
• kleina added a comment to T27525: Problems while opening MITK scenes created with 2018.04 release with the current master.

What about the Segmentations? I was wrong, I tried with the current develop as well (sorry, was used to having the master branch on clone :-D).
I had Hanno also try it and the segmentations are missing for him as well.
I put an installer into the same folder, you can just start it from the bin folder to reproduce.

Jul 6 2020, 10:11 AM · Auto-closed, Missing Info, MITK (v2021.02)

Jul 3 2020

• kleina lowered the priority of T27525: Problems while opening MITK scenes created with 2018.04 release with the current master from High to Normal.
Jul 3 2020, 3:51 PM · Auto-closed, Missing Info, MITK (v2021.02)
• kleina triaged T27525: Problems while opening MITK scenes created with 2018.04 release with the current master as High priority.
Jul 3 2020, 3:51 PM · Auto-closed, Missing Info, MITK (v2021.02)
• kleina added a comment to T26449: XNAT connection failes due to missing OpenSSL connections.

For Qt 5.12.5 it is OpenSSl 1.1.1

Jul 3 2020, 3:36 PM · Noteworthy, MITK (v2021.02)

Jun 2 2020

• kleina committed rOBSHYPPOPY4cdaf7216741: Removed old debug output. (authored by • kleina).
Removed old debug output.
Jun 2 2020, 2:57 PM
• kleina committed rOBSHYPPOPY6ed53988605b: Handling of constraint errors. (authored by • kleina).
Handling of constraint errors.
Jun 2 2020, 2:57 PM
• kleina committed rOBSHYPPOPY9f7ffc20ff13: fixed iterator (authored by • kleina).
fixed iterator
Jun 2 2020, 2:57 PM
• kleina committed rOBSHYPPOPYdacd1e912814: Updated errormessage (authored by • kleina).
Updated errormessage
Jun 2 2020, 2:57 PM

May 26 2020

• kleina committed rOBSHYPPOPYeeb302b6b1fe: Added CandidateDescriptorWrapper and updated mapping function. Optunity now… (authored by • kleina).
Added CandidateDescriptorWrapper and updated mapping function. Optunity now…
May 26 2020, 5:13 PM

May 15 2020

• kleina committed rOBSHYPPOPY47e2639dcaee: uncommented customized pmap (authored by • kleina).
uncommented customized pmap
May 15 2020, 1:50 PM

May 13 2020

• kleina committed rOBSHYPPOPY24436615c9c6: Fixed typo. (authored by • kleina).
Fixed typo.
May 13 2020, 10:34 AM
• kleina committed rOBSHYPPOPYc5ef45302a73: loss_function_batch works for now, but only receives one candidate. Have to… (authored by • kleina).
loss_function_batch works for now, but only receives one candidate. Have to…
May 13 2020, 10:34 AM

May 12 2020

• kleina committed rOBSHYPPOPY9fe2f8e9cfe3: added some outputs. (authored by • kleina).
added some outputs.
May 12 2020, 7:21 PM
• kleina committed rOBSHYPPOPY8bd563379684: added new line at end of file. (authored by • kleina).
added new line at end of file.
May 12 2020, 7:21 PM
• kleina committed rOBSHYPPOPY6721f6cf30c6: add custom pmap function for optunitysolver. Overwrite loss_function_batch (authored by • kleina).
add custom pmap function for optunitysolver. Overwrite loss_function_batch
May 12 2020, 7:21 PM
• kleina committed rOBSHYPPOPYed27cde65b31: Switch to SolverPool in mpiplayground. Try optunity. (authored by • kleina).
Switch to SolverPool in mpiplayground. Try optunity.
May 12 2020, 7:21 PM

May 8 2020

• kleina triaged T27387: Link in Documentation wrong as Normal priority.
May 8 2020, 3:05 PM · MITK

Mar 27 2020

• kleina added a member for Deep Learning: schellem.
Mar 27 2020, 2:21 PM

Feb 28 2020

• kleina updated subscribers of T27169: In Matchpoint Algorithm Control: Moving and Target point set switch when the RigidICP.3D.default is selected.
Feb 28 2020, 4:32 PM · MITK
• kleina added a comment to T27169: In Matchpoint Algorithm Control: Moving and Target point set switch when the RigidICP.3D.default is selected.

I made a short video. Sorry for the powerpoint thingy at the end... was to stupid to figure out how to stop the recording :-P:

Feb 28 2020, 4:30 PM · MITK

Feb 12 2020

• kleina committed rOBSHYPPOPY8a356f884293: replaced MPI.COMM_WORLD with self._mpi_comm (authored by • kleina).
replaced MPI.COMM_WORLD with self._mpi_comm
Feb 12 2020, 9:58 AM

Feb 6 2020

• kleina committed rOBSHYPPOPY230451b1ac37: Add mpi support for RandomsearchSolver (authored by • kleina).
Add mpi support for RandomsearchSolver
Feb 6 2020, 5:00 PM
• kleina committed rOBSHYPPOPY828762fd0573: added mpi_comm to documentation (2) (authored by • kleina).
added mpi_comm to documentation (2)
Feb 6 2020, 5:00 PM
• kleina committed rOBSHYPPOPY31e9f9b0e858: added mpi_comm to documentation (authored by • kleina).
added mpi_comm to documentation
Feb 6 2020, 5:00 PM

Jan 30 2020

• kleina committed rOBSHYPPOPYba147fa770ad: Add possibility to pass comm to MPI classes. (authored by • kleina).
Add possibility to pass comm to MPI classes.
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPY818af7645bd2: testing out different loss_functions in MPI context. (authored by • kleina).
testing out different loss_functions in MPI context.
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPYb3b1fc6637cb: removed prototyping code... (authored by • kleina).
removed prototyping code...
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPY4dca75afb591: make sure to call loss_func_cand_preprocess and loss_func_postprocess correctly… (authored by • kleina).
make sure to call loss_func_cand_preprocess and loss_func_postprocess correctly…
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPYbfa1d6355844: Try both, calling blackbox_function with kwargs and by directly passing… (authored by • kleina).
Try both, calling blackbox_function with kwargs and by directly passing…
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPYceeb9ccaa9a8: Implemented loss_func_cand_preprocess and loss_func_postprocess for… (authored by • kleina).
Implemented loss_func_cand_preprocess and loss_func_postprocess for…
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPYb19055317a61: MPIBlackboxFunction now inherits from BlackBoxFunction and just adds the… (authored by • kleina).
MPIBlackboxFunction now inherits from BlackBoxFunction and just adds the…
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPY7d5a08925371: See T26868: Don't need this anymore. (authored by • kleina).
See T26868: Don't need this anymore.
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPY5c224fb8945b: See T26868. Introduced loss_func_cand_preprocess and loss_func_postprocess. (authored by • kleina).
See T26868. Introduced loss_func_cand_preprocess and loss_func_postprocess.
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPYa153ed802dc6: Fix for T26870 (authored by • kleina).
Fix for T26870
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPY18d366ef41ad: code cleanup... (authored by • kleina).
code cleanup...
Jan 30 2020, 3:24 PM
• kleina committed rOBSHYPPOPY9f38c4e495a4: Added print in worker to see if it is actually doing things... (authored by • kleina).
Added print in worker to see if it is actually doing things...
Jan 30 2020, 3:24 PM

Dec 5 2019

• kleina committed rOBSHYPPOPYff89adc44f40: Updated readme (License and project description). (authored by • kleina).
Updated readme (License and project description).
Dec 5 2019, 3:19 PM

Nov 27 2019

• kleina added a member for Deep Learning: brunkk.
Nov 27 2019, 11:13 AM
• kleina added a member for MIC: brunkk.
Nov 27 2019, 11:12 AM

Nov 21 2019

• kleina committed rOBSHYPPOPYf73700a66405: Actually using the introduces loss_function_call_batch. (authored by • kleina).
Actually using the introduces loss_function_call_batch.
Nov 21 2019, 2:11 PM
• kleina committed rOBSHYPPOPY5c477913132f: Introduced loss_function_call_batch. Each solver lib might need some special… (authored by • kleina).
Introduced loss_function_call_batch. Each solver lib might need some special…
Nov 21 2019, 2:11 PM
• kleina committed rOBSHYPPOPY1c7ce1f48358: updated mpiplayground. (authored by • kleina).
updated mpiplayground.
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPYbb1cfb13317d: CandidateDescriptor in extra file (actual code this time). (authored by • kleina).
CandidateDescriptor in extra file (actual code this time).
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPYc61e3ab15d97: Code cleanup of MPIBlackboxFunction. (authored by • kleina).
Code cleanup of MPIBlackboxFunction.
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPY3fd379043e07: Cleanup of HyppopySolver. loss_function uses loss_function_batch internally now. (authored by • kleina).
Cleanup of HyppopySolver. loss_function uses loss_function_batch internally now.
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPYf09a89dc7736: Removed some TODOs and comments. (authored by • kleina).
Removed some TODOs and comments.
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPY755be657e49d: Moved CandidateDescriptor to own file. (authored by • kleina).
Moved CandidateDescriptor to own file.
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPY87002effbb4c: Cleanup of MPISolverWrapper. Removed some TODOs and comments. Worker now also… (authored by • kleina).
Cleanup of MPISolverWrapper. Removed some TODOs and comments. Worker now also…
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPYa8ef7d01492f: Processed some comments. (authored by • kleina).
Processed some comments.
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPYe722f3fd81d2: reimplemented call_batch in MPIBlackboxFunction. (authored by • kleina).
reimplemented call_batch in MPIBlackboxFunction.
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPY7c48ce825346: Introduced CandidateDescriptor in Gridsearch_solver. Fixed typo in error… (authored by • kleina).
Introduced CandidateDescriptor in Gridsearch_solver. Fixed typo in error…
Nov 21 2019, 1:50 PM
• kleina committed rOBSHYPPOPYcaa03252837f: introduced CandidateDescriptor and changed loss_function_batch() according to… (authored by • kleina).
introduced CandidateDescriptor and changed loss_function_batch() according to…
Nov 21 2019, 1:50 PM

Nov 11 2019

• kleina triaged T26805: Make the MPI master work as well as Wishlist priority.
Nov 11 2019, 10:56 AM · Hyppopy

Nov 5 2019

• kleina committed rOBSHYPPOPY7aafa3c76728: get_candidate_list is static now (authored by • kleina).
get_candidate_list is static now
Nov 5 2019, 2:11 PM
• kleina committed rOBSHYPPOPY9fef26354805: Had to change some member initialization which was originally done in the run… (authored by • kleina).
Had to change some member initialization which was originally done in the run…
Nov 5 2019, 2:11 PM
• kleina committed rOBSHYPPOPY749e409d0b62: added mpi4py to the project requirements. (authored by • kleina).
added mpi4py to the project requirements.
Nov 5 2019, 2:11 PM
• kleina committed rOBSHYPPOPY5501c757a11e: Added method get_candidate_list to GridsearchSolver. At the moment, this is the… (authored by • kleina).
Added method get_candidate_list to GridsearchSolver. At the moment, this is the…
Nov 5 2019, 2:11 PM
• kleina committed rOBSHYPPOPYf941968f514d: Added MPIBlackboxFunction. At the moment there is not really MPI stuff… (authored by • kleina).
Added MPIBlackboxFunction. At the moment there is not really MPI stuff…
Nov 5 2019, 2:11 PM
• kleina committed rOBSHYPPOPYe066214ed9b1: Added MPI_TAGS enums, that are used for message sending. More convenient than… (authored by • kleina).
Added MPI_TAGS enums, that are used for message sending. More convenient than…
Nov 5 2019, 2:11 PM
• kleina committed rOBSHYPPOPYc35132c17c3a: Added MPISolverwrapper.py. This class wraps a solver and enables it to use mpi. (authored by • kleina).
Added MPISolverwrapper.py. This class wraps a solver and enables it to use mpi.
Nov 5 2019, 2:11 PM
• kleina committed rOBSHYPPOPYfe290b641e94: added mpiplayground.py for prototyping of mpi stuff. (authored by • kleina).
added mpiplayground.py for prototyping of mpi stuff.
Nov 5 2019, 2:11 PM

Sep 11 2019

• kleina added a member for Deep Learning: • graf.
Sep 11 2019, 10:52 AM

Aug 30 2019

• kleina added a member for Deep Learning: t543a.
Aug 30 2019, 9:49 AM

Jul 31 2019

• kleina moved T26439: Extending embeddings.py with gensen and skipthought from In Progress to Review/Discussion on the NLP board.
Jul 31 2019, 9:49 AM · NLP

Jul 11 2019

• kleina triaged T26486: PACS mouse mode does not allow scrolling with mouse wheel as High priority.

According to Nina this is kind of a dealbreaker for her and really slows her down. I would give this one a high priority in BlackSwan context.

Jul 11 2019, 11:49 AM · Breaking Change, MITK (v2021.10)

Jul 3 2019

• kleina closed T26449: XNAT connection failes due to missing OpenSSL connections as Resolved.

Here are the DLLs we used for the BlackSwan demo.

Jul 3 2019, 3:10 PM · Noteworthy, MITK (v2021.02)
• kleina added a comment to T26449: XNAT connection failes due to missing OpenSSL connections.

This issue can be solved by copying the following DLLs to the exe path of the workbench:

Jul 3 2019, 3:08 PM · Noteworthy, MITK (v2021.02)
• kleina triaged T26449: XNAT connection failes due to missing OpenSSL connections as Normal priority.
Jul 3 2019, 3:06 PM · Noteworthy, MITK (v2021.02)

Jun 7 2019

• kleina added a member for MIC: j562r.
Jun 7 2019, 10:58 AM
• kleina added a member for Deep Learning: j562r.
Jun 7 2019, 10:57 AM

May 29 2019

• kleina added a comment to T26029: [image statistics plugin] 4D image + 4D segmentation as mask does not work.

Yeah, we did... to be honest, I don't know if it is merged yet. @kausch can you please check this?

May 29 2019, 11:54 AM · Restricted Project, MITK

May 24 2019

• kleina added a member for MIC: schererj.
May 24 2019, 3:15 PM
• kleina added a member for MIC: • laie.
May 24 2019, 2:20 PM
• kleina updated the image for MIC from F792370: profile to F1370452: profile.
May 24 2019, 1:39 PM

May 14 2019

• kleina added a comment to T26276: Segmentation created for multiple timepoints on 3D+t images.

Ok, I tested it on my current developing build, which is branched off of master from 2019-04-29 (a0ba9d263118bc2df2aa922c124c3db57acbd2dc). I can reproduce the error as described in the description. So I guess to answer your question @kislinsk: The status is "still open".

May 14 2019, 10:39 AM · MITK

May 13 2019

• kleina added a comment to T26276: Segmentation created for multiple timepoints on 3D+t images.

I forgot to enable the segmentation plugin... I'll test it tomorrow.

May 13 2019, 4:49 PM · MITK
• kleina added a comment to T26276: Segmentation created for multiple timepoints on 3D+t images.

I can reproduce it. I did exactly the steps in the task description. I used MITK.2018.4.0 installer. I'll check on a (more or less) current master.

May 13 2019, 4:33 PM · MITK
• kleina added a comment to T26276: Segmentation created for multiple timepoints on 3D+t images.

Wait for it...

May 13 2019, 4:30 PM · MITK

May 9 2019

• kleina updated • kleina.
May 9 2019, 11:24 AM

May 7 2019

• kleina committed rMITK9680b016958e: removed trained net from qrc (authored by • kleina).
removed trained net from qrc
May 7 2019, 4:44 PM
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