What are your build settings for the project? Right-click on the project in the file tree and go down to "Properties". Under "Build Properties" > "Paths", you should have these three include directories:
Quote:
-I$(WIND_BASE)/target/h/coreip
-I$(WIND_BASE)/target/h/WPILib
-I$(WIND_BASE)/target/h
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Under "Build Properties" > "Libraries" you'll need
Quote:
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$(WIND_BASE)/target/lib/WPILib.a
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Make sure you have those settings in place.