Krystine Sherwin d8b8880ad6 Convert todo comments to directives ...

Could be left in for final version, but my current thinking is not?

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..

examples.rst

Move presentation intro example

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index.rst

Converting PRESENTATION_ExSyn

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installation.rst

Tidy/reflow some things

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scripting_intro.rst

Convert todo comments to directives

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typical_phases.rst

Convert todo comments to directives

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