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Dec 9 2022

k688h moved T28357: Running Isolated container in Kaapana ( Instead of Default Docker) from Restricted Project Column to Restricted Project Column on the Restricted Project board.
Dec 9 2022, 12:07 PM · Restricted Project, Kaapana (internal)
k688h moved T28043: TFDA MVP1-Tasks:Tools and Technologies from Restricted Project Column to Restricted Project Column on the Restricted Project board.
Dec 9 2022, 12:07 PM · Restricted Project, Kaapana (internal)

Nov 30 2022

kislinsk moved T27718: Miniapp for basic DICOM testing from In candidates to Backlog on the MITK (v2023.04) board.
Nov 30 2022, 12:23 PM · MITK (v2023.04), Kaapana (internal)
kislinsk moved T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context from In candidates to Backlog on the MITK (v2023.04) board.
Nov 30 2022, 12:23 PM · MITK (v2023.04), Kaapana (internal)
floca moved T28884: MITK Flowbench -Save Seg not working, due to file naming issues from Backlog to Segmentation on the MITK (v2023.04) board.
Nov 30 2022, 10:23 AM · MITK (v2023.04), Request for Discussion, Kaapana (internal)
floca moved T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context from Backlog to In candidates on the MITK (v2023.04) board.
Nov 30 2022, 10:16 AM · MITK (v2023.04), Kaapana (internal)
a178n edited projects for T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context, added: MITK (v2023.04); removed MITK, Next Milestone.
Nov 30 2022, 9:15 AM · MITK (v2023.04), Kaapana (internal)

Nov 25 2022

floca added a comment to T27718: Miniapp for basic DICOM testing.

Discussion result: nice to have wären auch die Informationen des "first pass" (-> welche reader configuratoin, findet wieviele volumes und welche Dateien werden verwendet) schön.

Nov 25 2022, 2:11 PM · MITK (v2023.04), Kaapana (internal)
floca moved T27718: Miniapp for basic DICOM testing from Backlog to In candidates on the MITK (v2023.04) board.
Nov 25 2022, 11:08 AM · MITK (v2023.04), Kaapana (internal)
floca edited projects for T27718: Miniapp for basic DICOM testing, added: MITK (v2023.04); removed MITK.
Nov 25 2022, 11:07 AM · MITK (v2023.04), Kaapana (internal)

Oct 10 2022

s037r added a member for Kaapana (internal): b556m.
Oct 10 2022, 5:36 PM

Sep 21 2022

k688h removed a project from T28357: Running Isolated container in Kaapana ( Instead of Default Docker): Request for Discussion.
Sep 21 2022, 2:58 PM · Restricted Project, Kaapana (internal)
k688h removed a project from T28043: TFDA MVP1-Tasks:Tools and Technologies: Request for Discussion.
Sep 21 2022, 2:58 PM · Restricted Project, Kaapana (internal)
floca closed T28886: MITK Flowbench - Reopen created segmentation not working as Invalid.

To make our live a bit easier. I would say it is a data problem ;).

Sep 21 2022, 9:36 AM · MITK (v2022.10), Missing Info, Kaapana (internal)
gaoh added a comment to T28886: MITK Flowbench - Reopen created segmentation not working.

oh so I forgot to send it: But this is, what my browser had cashed: "Yes, so I recently tested it, with the current release."
But also, if I remember correctly, this was due to the Phantom dataset we have as the default dataset:
I removed a few slices at the end, and now it is working.

Sep 21 2022, 9:28 AM · MITK (v2022.10), Missing Info, Kaapana (internal)
floca added a comment to T28886: MITK Flowbench - Reopen created segmentation not working.

@gaoh Ping

Sep 21 2022, 9:07 AM · MITK (v2022.10), Missing Info, Kaapana (internal)

Sep 15 2022

j870n added a member for Kaapana (internal): kausch.
Sep 15 2022, 3:23 PM

Aug 11 2022

k656s added a member for Kaapana (internal): s280a.
Aug 11 2022, 6:08 PM

Jul 22 2022

gaoh added a comment to T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context.

ok, but then the GPU problem is also feasible! If it is for a pre-known time-limited usage, like in an interactive session, I don't see a problem assigning a GPU to the container.

Jul 22 2022, 2:26 PM · MITK (v2023.04), Kaapana (internal)
floca added a comment to T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context.
In T29243#240152, @gaoh wrote:

What is the advantage of running nnunet in MITK in kaapana, over directly running nnunet in kaapana?

If you have a bunch of data, then the airflow workflow is the way to go.

Jul 22 2022, 2:15 PM · MITK (v2023.04), Kaapana (internal)
gaoh added a comment to T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context.

To point 1, in Kubernetes you can mount any path/volume to the desired mounting point. So I could just mount the directory in the MITK container in e.g. /models

Jul 22 2022, 1:49 PM · MITK (v2023.04), Kaapana (internal)
a178n triaged T29243: nnUNet in MITK: Downloading pre-trained models in Kaapana context as Low priority.
Jul 22 2022, 12:49 PM · MITK (v2023.04), Kaapana (internal)

Jul 18 2022

l597s added a member for Kaapana (internal): j870n.
Jul 18 2022, 3:42 PM

Jul 11 2022

k656s added a member for Kaapana (internal): p472e.
Jul 11 2022, 4:31 PM

Jun 15 2022

s669m added a member for Kaapana (internal): j860d.
Jun 15 2022, 4:16 PM

Jun 1 2022

gaoh added a member for Kaapana (internal): l597s.
Jun 1 2022, 12:52 PM

May 17 2022

gaoh added a comment to T28884: MITK Flowbench -Save Seg not working, due to file naming issues.

yes, that will help. Also, this worklist will be quite helpful, allowing a new form of "batch-processing".

May 17 2022, 3:34 PM · MITK (v2023.04), Request for Discussion, Kaapana (internal)
floca added a comment to T28884: MITK Flowbench -Save Seg not working, due to file naming issues.

@gaoh maybe also the worklist feature covered by T29159 would also help/suffice? Than you could explicitly define the output path.

May 17 2022, 9:48 AM · MITK (v2023.04), Request for Discussion, Kaapana (internal)

May 16 2022

floca moved T28884: MITK Flowbench -Save Seg not working, due to file naming issues from Backlog to Segmentation on the MITK (v2022.10) board.
May 16 2022, 12:31 PM · MITK (v2023.04), Request for Discussion, Kaapana (internal)
floca moved T28886: MITK Flowbench - Reopen created segmentation not working from Backlog to Segmentation on the MITK (v2022.10) board.
May 16 2022, 12:31 PM · MITK (v2022.10), Missing Info, Kaapana (internal)
gaoh lowered the priority of T28884: MITK Flowbench -Save Seg not working, due to file naming issues from Normal to Low.

Yes, so I changed it already, and I am using the seriesUID as name for the images. Additionally, I had to add the layer property: Because by introducing the image name property, somehow the layer is also set (to a high number, probably). When I create a new SEG without setting the layer of the image to 0, the SEG is only put on top, when opening the data manager.

May 16 2022, 10:02 AM · MITK (v2023.04), Request for Discussion, Kaapana (internal)

May 13 2022

floca edited projects for T28884: MITK Flowbench -Save Seg not working, due to file naming issues, added: MITK (v2022.10), Request for Discussion; removed MITK, Next Milestone.

@gaoh could you join the discussion?
Also may be the worklist feature T29159 would be an additional way to circumvent it.?!?

May 13 2022, 2:39 PM · MITK (v2023.04), Request for Discussion, Kaapana (internal)
floca edited projects for T28886: MITK Flowbench - Reopen created segmentation not working, added: MITK (v2022.10); removed MITK, Next Milestone.

@gaoh Would you be so kind and verify that the problem still exists? Thanks.

May 13 2022, 2:35 PM · MITK (v2022.10), Missing Info, Kaapana (internal)

Apr 29 2022

kislinsk edited projects for T28884: MITK Flowbench -Save Seg not working, due to file naming issues, added: Next Milestone, MITK; removed MITK (v2022.04).
Apr 29 2022, 1:38 PM · MITK (v2023.04), Request for Discussion, Kaapana (internal)
kislinsk edited projects for T28886: MITK Flowbench - Reopen created segmentation not working, added: Next Milestone, MITK; removed MITK (v2022.04).
Apr 29 2022, 1:38 PM · MITK (v2022.10), Missing Info, Kaapana (internal)

Apr 21 2022

k688h added a member for Kaapana (internal): s037r.
Apr 21 2022, 1:26 PM

Apr 12 2022

k656s added a member for Kaapana (internal): m391k.
Apr 12 2022, 2:05 PM

Mar 24 2022

kislinsk removed a member for Kaapana (internal): Unknown Object (User).
Mar 24 2022, 4:54 PM
kislinsk added a member for Kaapana (internal): kaapana-ci.
Mar 24 2022, 1:59 PM
kislinsk removed a member for Kaapana (internal): Unknown Object (User).
Mar 24 2022, 1:57 PM

Mar 23 2022

schererj added a member for Kaapana (internal): Unknown Object (User).
Mar 23 2022, 5:10 PM

Mar 22 2022

k656s added a member for Kaapana (internal): m167k.
Mar 22 2022, 2:27 PM

Mar 21 2022

schererj moved T28962: Model selection for GetTaskModelOperator from Discussion to Resolved on the Kaapana (internal) board.
Mar 21 2022, 10:23 AM · Kaapana (internal)
schererj moved T28993: 3rd March: Backend WG Presentation from Discussion to Resolved on the Kaapana (internal) board.
Mar 21 2022, 10:23 AM · Kaapana (internal)
schererj moved T28906: Import airflow module error from Discussion to Resolved on the Kaapana (internal) board.
Mar 21 2022, 10:23 AM · Kaapana (internal)

Mar 10 2022

p212r closed T28993: 3rd March: Backend WG Presentation as Resolved.
Mar 10 2022, 9:35 AM · Kaapana (internal)

Mar 1 2022

u851l removed a watcher for Kaapana (internal): u851l.
Mar 1 2022, 5:19 PM
u851l added a watcher for Kaapana (internal): u851l.
Mar 1 2022, 5:19 PM

Feb 24 2022

s669m triaged T28993: 3rd March: Backend WG Presentation as Normal priority.
Feb 24 2022, 10:06 AM · Kaapana (internal)

Feb 10 2022

t543a closed T28962: Model selection for GetTaskModelOperator as Resolved.
Feb 10 2022, 10:21 AM · Kaapana (internal)