Your container will be run with the commands listed at the bottom of the Methods page.
What to include with your submission:
Task 1
- a ready-to-use Docker container with your method renamed to
adamchallenge/[TEAM-NAME]_task1 - the command to execute in your container that will start the processing
- a brief description of the method (1-2 pages)
- expected runtime on CPU (or GPU, please contact us in advance if you want to use a GPU)
Task 2
- a ready-to-use Docker container with your method renamed to
adamchallenge/[TEAM-NAME]_task2 - the command to execute in your container that will start the processing
- a brief description of the method (1-2 pages)
- expected runtime on CPU (or GPU, please contact us in advance if you want to use a GPU)
If you submit under Task 2 then you will also automatically participate in Task 1 as well. We will derive the centre of mass coordinates automatically from the binary masks in our evaluation code.
Submission Instructions for both tasks
Send the four items listed above by email to: adam@isi.uu.nl. If your container is too large to be sent by email, use a large file transfer service (e.g. WeTransfer, up to 2 GB). We can also sent you a voucher for our large file transfer service (up to 500 GB) in advance.
Methods submitted for evaluation in this challenge will only be used by the organisers for this challenge.
After submission
Your container will be checked by the organisers and run on training subject 0 as a test. The results of this will be sent to you, to confirm that your container is working. Submissions are processed regularly, but might take a few days / two weeks. After that, the results will be published on this website and emailed to you.
Docker container
Use docker tag to name your container adamchallenge/[TEAM-NAME]_task1 or adamchallenge/[TEAM-NAME]_task2. Next, use docker save -o [TEAM-NAME]_task1.tar adamchallenge/[TEAM-NAME]_task1 to save your ready-to-use container in a tar archive. Optionally, compress the tar archive. (Use task1 or task2 as required)
Importantly, please use docker save to save the containers and NOT docker export. Also, please remember to add the relevant task number to your container name.
The command
Your container will be tested using the commands listed at the bottom of the Methods page. Specifically, we will run your container in the background (using docker run -d --network none) and then use docker exec [YOUR-COMMAND] to start your method.
We run the containers with the ‘–network none’ argument in order to prevent downloading or uploading of materials from or to the internet.
Please test this in advance on your own system.
Brief description
Include a brief description of your method as a PDF document of 1-2 pages. This document should focus on the method itself and does not need an introduction, results, or discussion section.