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Error Handling in R

October 9th, 2012 2 comments

It’s often the case that I want to write an R script that loops over multiple datasets, or different subsets of a large dataset, running the same procedure over them: generating plots, or fitting a model, perhaps. I set the script running and turn to another task, only to come back later and find the loop has crashed partway through, on an unanticipated error. Here’s a toy example:

> inputs = list(1, 2, 4, -5, 'oops', 0, 10)

> for(input in inputs) {
+   print(paste("log of", input, "=", log(input)))
+ }

[1] "log of 1 = 0"
[1] "log of 2 = 0.693147180559945"
[1] "log of 4 = 1.38629436111989"
[1] "log of -5 = NaN"
Error in log(input) : Non-numeric argument to mathematical function
In addition: Warning message:
In log(input) : NaNs produced

The loop handled the negative arguments more or less gracefully (depending on how you feel about NaN), but crashed on the non-numeric argument, and didn’t finish the list of inputs.

How are we going to handle this?

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