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Update dependencies pv5.9

Ben Boeckel requested to merge ben.boeckel/common-superbuild:update-dependencies-pv5.9 into master

A rewrite of !367 (closed) which drops the Python update (for now). It's a bit more hairy, so that's going to be put on hold until the rest of the updates are OK (so that problems in Python can be focused on).

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