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Upgrade dependencies

Some changes were necesssary after upgrading babel deps:

 - preset-stage-3 has been removed because it is deprecated. Instead
 the separate proposals which are necessary for typescript were added
 - removed some configuration from the transform-runtime plugin that
 were already the default

Some changes were necessary after upgrading TypeScript:
 - Declarations output is now a temporary directory, after which the
 files are copied to their final destination using shx. This is
 because TypeScript adds the output directory of a build to the
 excludes array, which causes issues when the output directory is
 the root of the repository

Other updates:
 - The minimum node version was bumped from 6 to 8

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