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Hmm. Can you send the compiler error you got that suggested this was the remedy. I can maybe convince myself the reverse situation is possible (e.g. if you told the compiler via CFLAGS or CXXFLAGS that you wanted a static exectuable, it would get bothered if it found only .so's to resolve a given library dependence). But, I can't think of how the situation you encountered would manifest.
I closed the terminal session trying to get other, unrelated things to work, but this is what I remember: cannot find symbol or cannot load symbol. I quick bit of google searching suggested the need for the shared library path.
I configured to just use HDF5 and it needed the HDF5 shared libraries as well as the json-c/install/lib. This is not listed in the INSTALL.md
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