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I'm currently in a process of re-creating a resource working set in Eclipse, which would include ~130 projects. But as I'm setting a resource working set, I don't let the projects checked, but instead only let relevant folders and files checked, i.e. pom.xml + /src folder + /target/generated-* folders.

Is there a way to automate this?

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In Window > Preferences: Oomph > Dynamic Working Set you can specify a working set based on repository location or name patterns.

See Eclipse Wiki - Dynamic Working Sets for details.

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Interesting - although the so-called User Manual is so succinct - but this feature builds up Java working sets, not resource-based ones.

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