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> I am sort of surprised that there isn't a widely used tool that uses codegen to generate jni bindings sort of like what the jna does but at build time

There are several, including SWIG.

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Which is still a pita to use unless maybe you really know what youre doing.

Binding generation is really difficult to approach as a general problem, which is why I've found that SWIG unfortunately doesn't help much in non-trivial cases.

All the good bindings I use are generated by custom systems (ie, usually some Python scripts) tailored for the specific way their library works.

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