Bug fix in compile_taxa.R for user provided table functionality

[andydawson]

Fixed compile_taxa.R so it can now take a user provided table - there was a bug when setting the column number of the conversion list use.list. Also, the warning was always printed, so I added an if statement so it doesn't print when missed is empty.

[andydawson]

I also just fixed another bug in this function - in the case where object is a matrix of data frame, we were trying to access the counts object by doing object$counts. I modified it so it instead just uses object.

[SimonGoring]

Thanks!

On Mon, Oct 20, 2014 at 4:17 PM, Andria Dawson notifications@github.com
wrote:

I also just fixed another bug in this function - in the case where object
is a matrix of data frame, we were trying to access the counts object by
doing object$counts. I modified it so it instead just uses object.

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