Update batch tool

[Nandayang]

I would like to update our harmonization tools and have uploaded the v2.0 version to
https://github.com/chaimeleon-eu/image_batch_lungCT_harmonisation/tree/main/V2.
Could you please integrate it into the platform? Many thanks.

[Palollo]

Does V2 replace the previous version?

[Nandayang]

Does V2 replace the previous version?

Yes, it could replace the previous version

[Palollo]

17.2GB of image size!

Could you use the "runtime" version for the base image instead of the "devel"?
FROM pytorch/pytorch:2.1.2-cuda12.1-cudnn8-devel --> FROM pytorch/pytorch:2.1.2-cuda12.1-cudnn8-runtime
If possible it would be a good point to reduce the size to something more affordable.

Also it would be useful you check the recommendations in the guide.
In that way you can change that:

RUN apt-get update
RUN pip install numpy
RUN pip install SimpleITK
RUN pip install tqdm
RUN pip install scipy

Into that:

RUN pip install --no-cache-dir  numpy SimpleITK tqdm scipy

So if you agree and apply these changes, the image size finally would reduce to 7.66GB

[Nandayang]

@Palollo Yes for sure, I've tested and everything works fine with the 'runtime' version.

[Palollo]

Great, so it is already uploaded as:
harmonisation-lungct:2.0
harmonisation-lungct:latest

[Nandayang]

@Palollo Another issue is that when I try to launch an application to test my batch tool, it always shows 'Not Ready 0 Pod', and I cannot access the remote service (I've tried both desktop-pytorch and jupyter pytorch).

[Palollo]

This is something that can happen when there are not enough resources in that moment, because there are other desktops created by other users.
Just a reminder for anyone who read this: it is important to release (delete) the desktop when the work is finished to let the resources available to other users.
Anyway I can say currently there are resouces available to your desktop, @Nandayang, it should work if you try to launch ;)

[Nandayang]

@Palollo Thanks for your help and it works now. Btw, I made some modifications to the script and could you please help me to update it on the platform? The path is still in https://github.com/chaimeleon-eu/image_batch_lungCT_harmonisation/tree/main/V2
Many thanks

[Palollo]

OK, it's now updated on the platform as:

harmonisation-lungct:2.1
harmonisation-lungct:latest

You should update the dockerfile accordingly:

LABEL name="harmonisation-lungct"
LABEL version="2.1"