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Using TableToTable_conversion I can convert a CSV file to a table in a geodatabase, but how can make this table be the default attribute table for a raster in the geodatabase?

I can't seem to find anything on this...

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This may be what you're looking for: Joining tables to your raster attribute table
See also: Essentials of Joining Tables

A second probably more difficult option is to manipulate your CSV file to match Arc's ASCII raster format and then use ASCII to Raster to create a new raster that perfectly overlays your target raster, then Combine those two rasters.

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