Hi @LISA_mri_challenge!
during the Docker submission I have encountered an error indicating that the "segs" files are missing:
... wf-Task2a/validation-phase.cwl ...
... Missing required input parameter 'segs' ...
So my question is do we need to also take into account that the name variation could contain either LISA_VALIDATION_SEG_0001_hipp.nii.gz and LISA_TESTING_SEG_0001_hipp.nii.gz? That is due to the validation-phase wrapper used in the pipeline, looking for LISA_VALIDATION_SEG_* during that step?
When we select which type of task 2 (task2a or task2b) to Submit Docker Repository to it shows in the explanation that "A ZIP file is to be expected that contains the .nii.gz files" but that is only true for the validation phase that has ended though? And for the testing we don't need that? could that be the source of error? are the test tasks not activated yet? :)
To clarify, my current Docker framework for Task2a is dealing with the following as described here (https://www.synapse.org/Synapse:syn68633106/wiki/633398):
Expected inputs to Docker from an "input" file:
- input
- LISA_TESTING_0001_CISO.nii.gz
- LISA_TESTING_0002_CISO.nii.gz
- LISA_TESTING_0003_CISO.nii.gz
- ...
Expected outputs from Docker to an "output" file:
-output
- LISA_TESTING_SEG_0001_hipp.nii.gz
- LISA_TESTING_SEG_0002_hipp.nii.gz
- LISA_TESTING_SEG_0003_hipp.nii.gz
- ...
Thank you for taking the time to help during this process,
Musti
Created by Musti Kadhim Musti oh I'm sorry I totally missed out on the updated dates on your page regarding the testing phase opening (https://www.synapse.org/Synapse:syn68633106/wiki/633381). I was confused because of the dates on your YouTube video: https://www.youtube.com/watch?v=PwpQRM71WyU&t=4412s (timestamp 59:40).
Thank you very much for the information! @LISA_mri_challenge
Musti Hi @Musti and @YasarMehmood,
Thank you for your question and for carefully following the submission instructions.
To clarify:
For the validation phase, only the zip file submission is required.
Docker submissions are only applicable for the testing phase, which has not officially started yet.
If you are seeing errors when attempting to submit a Docker image now, that is expected — the submission queue for Docker-based test phase evaluations will open once the testing phase officially begins on September 2nd.
You're welcome to prepare your Docker image in advance, but please hold off on submitting it until the testing phase starts.
Let us know if you have any further questions!
Best regards,
The LISA 2025 Challenge Organziers Hello,
I am getting the same error with my Docker submission. I used the instructions given on the following wiki page:
https://www.synapse.org/Synapse:syn68633106/wiki/633398
I have a couple of questions related to the testing phase, which is scheduled to run from September 2nd to September 10th:
Is the submission failing because the testing phase hasn't officially started yet?
Should we hold off on submitting our Docker images until the testing phase begins?
Best,