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Avoid pickle in multiple places

Ask Hjorth Larsen requested to merge remove-old-pickle-stuff into master

This removes io functionality in several places using pickle.

  • Change STM read/write to use JSON (this bit is tested and apparently works)
  • Remove untested read and write methods on Cluster
  • Remove pickle stuff from bundlemanipulate. The module is untested so it'll be broken if I made a mistake

@schiotz Can you say something about how reasonable this is for bundlemanipulate and Cluster? For Cluster it would probably not be difficult to port to JSON but I can't spend time on unused/untested stuff.

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