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Making them opaque seemed like a nice idea, because all the indexers
could take care of their own command-line arguments. However, it
doesn't work at all when indexing is run via the API.
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Unfortunately, PinkIndexer needs the real camera length for its centre
refinement. Giving a fake value and scaling the resulting shift does
not work - the indexing rate drops with even a small error.
Ideally, this would work in the same way as --wavelength-estimate, by
using a static value from the geometry file if it's given. However,
this is rather complicated to implement because of the way all the units
stuff is implemented. Therefore, this is left as an improvement for the
future.
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This is a more general replacement for --pinkIndexer-thread-count.
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There is absolutely nothing useful that an indexing algorithm can do
with the opaque DataTemplate object.
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This is a more sensible non-indexer-specific and non-Xray-specific
replacement for --pinkIndexer-override-photon-energy
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This allows the indexing method private options structures to be set up
easily.
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