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Description of Changes

Rework of generateInputFiles and runPipelineAgainstFiles methods to use Map<String, Resource> instead of List<Resource> for better file handling and mapping.

You can now add multiple files in fileInput and refer to a file by its name in operations.parameters.inputFile.
Closes #(2023)

Rework of `generateInputFiles` and `runPipelineAgainstFiles` methods to use `Map<String, Resource>` instead of `List<Resource>` for better file handling and mapping.

You can now add multiple files in `fileInput` and refer to a file by its name in `operations.parameters.inputFile`.
@dosubot dosubot bot added the size:L This PR changes 100-499 lines ignoring generated files. label Oct 17, 2025
@stirlingbot stirlingbot bot added Java Pull requests that update Java code Back End Issues related to back-end development API API-related issues or pull requests Test Testing-related issues or pull requests refactor Code changes that neither fix a bug nor add a feature labels Oct 17, 2025
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API API-related issues or pull requests Back End Issues related to back-end development Java Pull requests that update Java code refactor Code changes that neither fix a bug nor add a feature size:L This PR changes 100-499 lines ignoring generated files. Test Testing-related issues or pull requests

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