[EXTERNAL] Re: all.equal failure

On 05/04/2019 10:19 a.m., Therneau, Terry M., Ph.D. wrote:

Duncan,
?? I should have included it in my original note, but

??? ? all.equal(unclass(t0x), unclass(t1x))

returns TRUE as well.? I had tried that as well. ? But a further look at 
all.equal.default shows the following line right near the top:
???? if (is.language(target) || is.function(target))
???????? return(all.equal.language(target, current, ...))

and that path explicitly ignores attributes.

Which R version are you using?? I see deparse(target) and deparse(current) in 
all.equal.language(), and those should not be ignoring attributes according to the 
documentation.

Duncan Murdoch

I'll change my original original title to "all.equal was not a good tool for testing 
certain code issues".

Thanks for the pointer,

Terry



On 4/5/19 9:00 AM, Duncan Murdoch wrote:

On 05/04/2019 9:03 a.m., Therneau, Terry M., Ph.D. via R-devel wrote:

This arose in testing [.terms and has me confused.

data(esoph)?? # use a standard data set

t0x <- terms(model.frame( ~ tobgp, data=esoph))
t1 <-? terms(model.frame(ncases ~ agegp + tobgp, data=esoph))
t1x <- (delete.response(t1))[-1]

? > all.equal(t0x, t1x)
[1] TRUE

# the above is wrong, because they actually are not the same

? > all.equal(attr(t0x, 'dataClasses'), attr(t1x, 'dataClasses'))
[1] "Names: 1 string mismatch"
[2] "Lengths (1, 2) differ (string compare on first 1)"

As documented, all.equal() is generic, with methods for different classes.? The 
classes of both t0x and t1x are

?c("terms","formula")

with no all.equal.terms method, so all.equal.formula is called. That method isn't 
specifically documented, but you can see its definition as

function (target, current, ...)
{
??? if (length(target) != length(current))
??????? return(paste0("target, current differ in having response: ",
??????????? length(target) == 3L, ", ", length(current) == 3L))
??? if (!identical(deparse(target), deparse(current)))
??????? "formulas differ in contents"
??? else TRUE
}

So the issue is that deparse(t0x) and deparse(t1x) give the same strings with no 
attributes shown, even though "showAttributes" is set by default.?? I haven't traced 
through the C code to see where things are going wrong.

Duncan Murdoch

? > sessionInfo()
R Under development (unstable) (2019-04-05 r76323)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.2 LTS

Matrix products: default
BLAS:?? /usr/local/src/R-devel/lib/libRblas.so
LAPACK: /usr/local/src/R-devel/lib/libRlapack.so

locale:
? ?[1] LC_CTYPE=en_US.UTF-8?????? LC_NUMERIC=C
? ?[3] LC_TIME=en_US.UTF-8??????? LC_COLLATE=C
? ?[5] LC_MONETARY=en_US.UTF-8??? LC_MESSAGES=en_US.UTF-8
? ?[7] LC_PAPER=en_US.UTF-8?????? LC_NAME=C
? ?[9] LC_ADDRESS=C?????????????? LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats???? graphics? grDevices utils???? datasets methods base

loaded via a namespace (and not attached):
[1] compiler_3.7.0 tools_3.7.0


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