Remove some unused code
- Remove all code which was previously marked with
`NotImplementedError("unused")`.
- Remove unsued command line arguments
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@@ -2,6 +2,17 @@
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Changelog
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*********
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Upcoming release (TBD)
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======================
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Changes
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-------
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* Removed the following unused command line options: ``-t``, ``--thermophile``,
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``-a``, ``--alignment``, ``-m``, ``--mutation``, ``--mutator``,
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``--mutator-option``
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* Removed several unused API functions
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Current
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=======
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