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

Fri Jan 27 02:32:05 CET 2017

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.