[R] Error with "compiler" and "caret" packages
Bert Gunter
bgunter.4567 at gmail.com
Fri Jan 27 02:56:20 CET 2017
Dan:
Strictly speaking library() does not just "load" it -- it "attaches"
it and loads compiler's namespace. I would have presumed that if
needed, the compiler paclage would have been loaded as part of
caret's Namespace import directives, but perhaps that's wrong and the
source of the difficulties.
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 Thu, Jan 26, 2017 at 5:32 PM, Nordlund, Dan (DSHS/RDA)
<NordlDJ at dshs.wa.gov> wrote:
> The compiler package may be installed on your computer, but did you load it with
>
> library(compiler)
>
>
> Dan
>
> Daniel Nordlund, PhD
> Research and Data Analysis Division
> Services & Enterprise Support Administration
> Washington State Department of Social and Health Services
>
>
>> -----Original Message-----
>> From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of Bert
>> Gunter
>> Sent: Thursday, January 26, 2017 4:12 PM
>> To: Jeff Hughes
>> Cc: R-help
>> Subject: Re: [R] Error with "compiler" and "caret" packages
>>
>> 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]]
>> >> >
>> >> > ______________________________________________
>> >> > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> >> > https://stat.ethz.ch/mailman/listinfo/r-help
>> >> > PLEASE do read the posting guide
>> >> > http://www.R-project.org/posting-guide.html
>> >> > and provide commented, minimal, self-contained, reproducible code.
>> >
>> >
>>
>> ______________________________________________
>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> https://stat.ethz.ch/mailman/listinfo/r-help
>> PLEASE do read the posting guide http://www.R-project.org/posting-
>> guide.html
>> and provide commented, minimal, self-contained, reproducible code.
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
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