[R] Error with "compiler" and "caret" packages

[Bert Gunter]

Perfectly reasonable questions: I don't have a clue. Perhaps someone
runnig Windows can answer.

-- Bert
Bert Gunter

"The trouble with having an open mind is that people keep coming along
and sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )


On Thu, Jan 26, 2017 at 3:10 PM, Jeff Hughes <jeff.hughes at gmail.com> wrote:
> That sounds like a good thing to check, but what permissions should I be
> checking? I'm not very familiar with how the compiler works -- is it
> creating temp files somewhere that I should check? If you have a suggestion
> for a directory or two that seem like good candidates, I can play around
> with the permissions, but I don't really want to start messing around with
> my entire C: drive or whatever.
>
> Thanks,
> Jeff
>
>
> On Thu, Jan 26, 2017 at 1:25 PM, Bert Gunter <bgunter.4567 at gmail.com> wrote:
>>
>> Check your permissions? They may be denying your process access.
>>
>> Cheers,
>> Bert
>> Bert Gunter
>>
>> "The trouble with having an open mind is that people keep coming along
>> and sticking things into it."
>> -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
>>
>>
>> On Wed, Jan 25, 2017 at 3:23 PM, Jeff Hughes <jeff.hughes at gmail.com>
>> wrote:
>> > Hi there,
>> >
>> > I have been getting an irritating error when trying to use the "caret"
>> > package on one of my machines. Whenever I train any model whatsoever, it
>> > comes back with this error:
>> >
>> > Warning: namespace ‘compiler’ is not available and has been replaced
>> > by .GlobalEnv when processing object ‘sep’
>> > Error in comp(expr, env = envir, options = list(suppressUndefined =
>> > TRUE))
>> > :
>> >   could not find function "makeCenv"
>> >
>> > As a result, the model does not work, and I am unable to use the caret
>> > package. As an example, here is some code that causes the error, though
>> > it
>> > has happened in every case I have tried:
>> >
>> > library(caret)
>> > fit.knn <- train(Species ~ ., data=iris, method="knn")
>> >
>> > I have tried reinstalling the caret package; I have tried reinstalling
>> > R; I
>> > have tried updating all of my packages; nothing has worked. What's more,
>> > this machine is running Windows 10, and I have successfully run the same
>> > code on two other machines running the same version of Windows, the same
>> > version of R, and the same version of the caret package. I have also
>> > only
>> > run into it when using caret, but I don't think the error lies within
>> > that
>> > package itself.
>> >
>> > Here is my sessionInfo() after running the above code in a new R
>> > session:
>> >
>> > R version 3.3.2 (2016-10-31)
>> > Platform: x86_64-w64-mingw32/x64 (64-bit)
>> > Running under: Windows >= 8 x64 (build 9200)
>> >
>> > locale:
>> > [1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United
>> > States.1252    LC_MONETARY=English_United States.1252
>> > [4] LC_NUMERIC=C                           LC_TIME=English_United
>> > States.1252
>> >
>> > attached base packages:
>> > [1] stats     graphics  grDevices utils     datasets  methods   base
>> >
>> > other attached packages:
>> > [1] caret_6.0-73    ggplot2_2.2.1   lattice_0.20-34
>> >
>> > loaded via a namespace (and not attached):
>> >  [1] Rcpp_0.12.8        magrittr_1.5       splines_3.3.2
>> > MASS_7.3-45
>> >      munsell_0.4.3      colorspace_1.3-2
>> >  [7] foreach_1.4.3      minqa_1.2.4        stringr_1.1.0      car_2.1-4
>> >      plyr_1.8.4         tools_3.3.2
>> > [13] parallel_3.3.2     nnet_7.3-12        pbkrtest_0.4-6     grid_3.3.2
>> >       gtable_0.2.0       nlme_3.1-128
>> > [19] mgcv_1.8-16        quantreg_5.29      e1071_1.6-7
>> > class_7.3-14
>> >       MatrixModels_0.4-1 iterators_1.0.8
>> > [25] lme4_1.1-12        lazyeval_0.2.0     assertthat_0.1     tibble_1.2
>> >       Matrix_1.2-7.1     nloptr_1.0.4
>> > [31] reshape2_1.4.2     ModelMetrics_1.1.0 codetools_0.2-15
>> > stringi_1.1.2
>> >      scales_0.4.1       stats4_3.3.2
>> > [37] SparseM_1.74
>> >
>> > Note that the "compiler" package is not loaded for some reason, which I
>> > think it should be (the other machines on which this runs successfully
>> > have
>> > it loaded). But the compiler package is built-in, so I can't seem to
>> > find a
>> > way to load it manually.
>> >
>> > This one has really stumped me, and there are very few relevant hits on
>> > Google. Any help would be much appreciated!
>> >
>> > Jeff
>> >
>> >         [[alternative HTML version deleted]]
>> >
>> > ______________________________________________
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>> > and provide commented, minimal, self-contained, reproducible code.
>
>