In T27669#208859, @floca wrote:

I have checked it with the current develop head under linux (Ubuntu 18) as well. I cannot reproduce the descibed error. Everything is loaded into one volume.

@gaoh May it is an outdated MITK container?

Is this the correct module? https://docs.mitk.org/2018.04/org_mitk_views_cmdlinemodules.html ? Or is there another command line tool?

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

File is correctly saved in the current master.

then build package target in MITK build.

@kislinsk what do you mean with this? Is it just the "normal" process, aka cmake and make in MITK-build. Or do I have to configure something additionally?
I tried the normal way and got also the "normal structure": with a bin, lib, Modules etc folder. Whereas when I download the release 18.04, the libraries are directly packed into the bin folder?

If the "base", the image, is in dcm, and not a nrrd file (which is the case in dcipher, when pulling the images from the PAC), the Segmentation can be saved as DICOM. The created file can be saved in a mounted folder and can then be directly imported via airflow into the pacs.
Directly sending data from MITK to the PACs is not recommended, because otherwise the metadata is not extracted and the segemtation cannot be triggered via kibana!

I reproduced it with the "Installer".

[63.469] Writing image: /home/hanno/mitk/seg.dcm
Input image size: [512, 512, 7]
CodeSequence Exception: missing value in code sequence
#63.470# ERROR: An error occurred during writing the DICOM Seg: JSON Exception: file could not be read.

I just tested it, it works!

The current way in the dicomweb-plugin is for GET, is to use with IHE (Invoke Image Display style).
The data is downloaded in a local temp folder (via SendWADO). And the data is then imported to the datanode via mitk::IOUtil::Load()
So basically, apart from listening to incoming IHE GET requests, it is only a DicomWeb client.
But this could be nice, to use MITK also a DicomWeb server. This Rest API could be used to build a wrapper around.
Also, it could be nice in the current implementation of loading the data to use this.

This issue is not wDB related, but MITK related:
Query with CGET activated and then Retrieve:
Retrieve does not work, MTIK directly shows:

Still valid, but still part of the checklist!

Still not working, but still part of the checklist!

This does still not work (Retrieve from wdB fails, when going throw the "Checkliste DICOM Browser".
I have to look into this.

still not working, but it is part of the checklist "ViewNavigator"

A two step build also works:

The log entries don't tell me a lot, basically I thing for every file it writes: ERROR: setting value to 0
Just in the end, before the termination the log entries change to:

Point 1 and 2 are working.
With point 3: not all the series are downloaded: I retrieved all 5 series of a patient, but only got 2 series. Separately retrieving of each series was fine.

yes I will try, I already tried Q/R with the current installer and the wdb and it worked.

@hentsch I get build errors with the current master (in ubuntu), without your commit everything is fine.
Do I have to change something with cmake flags?
The last lines before failure:
/home/hanno/myDocker/Matchpoint/src/Code/Algorithms/ITK/boxed/mapITKRigid3DMattesMIHeadNeckRegistrationAlgorithmTemplate.tpp:128:25: error: ‘zSize’ was not declared in this scope

region.SetIndex(2, zSize / 3);
                   ^~~~~

/home/hanno/myDocker/Matchpoint/src/Code/Algorithms/ITK/boxed/mapITKRigid3DMattesMIHeadNeckRegistrationAlgorithmTemplate.tpp:139:11: error: ‘spInitializer’ was not declared in this scope

spInitializer->SetMovingImage(this->getInternalMovingImage());
^~~~~~~~~~~~~

/home/hanno/myDocker/Matchpoint/src/Code/Algorithms/ITK/boxed/mapITKRigid3DMattesMIHeadNeckRegistrationAlgorithmTemplate.tpp:139:11: note: suggested alternative: ‘InitializerType’

spInitializer->SetMovingImage(this->getInternalMovingImage());
^~~~~~~~~~~~~
InitializerType

[77/125] Building CXX object Code/IO/C...dir/source/mapGenericImageReader.cpp.o
ninja: build stopped: subcommand failed.

Pushed new branch T24156-ImageNavigatorVisibilityTimeSlider.