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Fix incorrect type in tool_util.deps and fix package structure. #19702

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Low hanging fruit on #19677.

The dictionary contains lists not dictionaries - this is how it is initialized in galax.app also (https://github.com/galaxyproject/galaxy/blob/dev/lib/galaxy/app.py#L405).

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  • I agree to license these and all my past contributions to the core galaxy codebase under the MIT license.

@nsoranzo
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CircleCI failure unrelated (a rebase would fix it).

@jmchilton jmchilton marked this pull request as ready for review February 27, 2025 02:16
@github-actions github-actions bot added this to the 25.0 milestone Feb 27, 2025
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