Segment Template

[ericspod]

Fixes #513 .

Description

This is the template for segmentation bundles. Users can create their own new bundles by copying and adapting this one.

Multi-GPU support is a work in progress, it doesn't work for me but it should be fine.

Status

Ready

Please ensure all the checkboxes:

• Codeformat tests passed locally by running ./runtests.sh --codeformat.
• In-line docstrings updated.
• Update version and changelog in metadata.json if changing an existing bundle.
• Please ensure the naming rules in config files meet our requirements (please refer to: CONTRIBUTING.md).
• Ensure versions of packages such as monai, pytorch and numpy are correct in metadata.json.
• Descriptions should be consistent with the content, such as eval_metrics of the provided weights and TorchScript modules.
• Files larger than 25MB are excluded and replaced by providing download links in large_file.yml.
• Avoid using path that contains personal information within config files (such as use /home/your_name/ for "bundle_root").

[wyli]

/build

[wyli]

thanks, it looks good to me

[yiheng-wang-nv]

/build

[yiheng-wang-nv]

We may also think about how to check if the whole .yaml files do not have typo or syntax issues. It seems we cannot use similar unit tests on this template bundle.
cc @wyli @KumoLiu @Nic-Ma

[ericspod]

We may also think about how to check if the whole .yaml files do not have typo or syntax issues. It seems we cannot use similar unit tests on this template bundle.

For this we can simply run any YAML file through pyyaml, any JSON file through the in-built json library, and then further check any Python expressions by attempting to parse them with the in-built ast library. This would do a static check without running the code that should be good enough to catch most things.

[wyli]

/build