[英]Cannot compile rstan or Rcpp code in Rstudio with windows 10
I am not managing to compile Rcpp
or rstan
code on Windows.我无法在 Windows 上编译
Rcpp
或rstan
代码。
When I try to compile an rstan
program (below) I receive the error当我尝试编译
rstan
程序(如下)时,我收到错误
Error in compileCode(f, code, language = language, verbose = verbose) : In file included from C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/RcppCommon.h:29, from C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/Rcpp.h:27,
编译代码中的错误(f,代码,语言 = 语言,详细 = 详细):在 C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/ 中包含的文件中RcppCommon.h:29,来自 C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/Rcpp.h:27,
from file18045ecf22e4.cpp:7:C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/Rcpp/r/headers.h:71:10: fatal error: Rh: No such file or directory #include <Rh>
来自 file18045ecf22e4.cpp:7:C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/Rcpp/r/headers.h:71:10: 致命错误: Rh: 没有这样的文件或目录 #include <Rh>
^~~~~compilation terminated.make: *** [C:/PROGRA~1/R/R-40~1.1/etc/x64/Makeconf:229: file18045ecf22e4.o] Error 1^~~~~编译终止.make: *** [C:/PROGRA~1/R/R-40~1.1/etc/x64/Makeconf:229: file18045ecf22e4.o] 错误1
If I try to run the following within Rstudio
it redownloads Rtools but it has been already downloaded如果我尝试在
Rstudio
运行以下内容,它会重新下载 Rtools,但它已被下载
library(Rcpp); evalCpp("2+2")
And running并运行
Sys.which("make")
"C:\\rtools40\\usr\\bin\\make.exe"
Additionally, when I run Sys.which("make")
in the command window it just has ""
, and not the "C:\\rtools40\\usr\\bin\\make.exe".此外,当我在命令窗口中运行
Sys.which("make")
,它只有""
,而不是 "C:\\rtools40\\usr\\bin\\make.exe"。 When I run library(Rcpp); evalCpp("2+2")
当我运行
library(Rcpp); evalCpp("2+2")
library(Rcpp); evalCpp("2+2")
it produces the original error of this tread library(Rcpp); evalCpp("2+2")
它产生这个胎面的原始错误
The original question was related to receiving an error when trying to compile an rstan program.最初的问题与尝试编译 rstan 程序时收到错误有关。
I'm using the code below我正在使用下面的代码
library(StanHeaders)
library(rstan)
values = list(y = rnorm(1000,5,3))
model ="
data {
real y[1000];
}
parameters {
real mu;
real sigma;
}
model {
mu ~ normal(0,10);
sigma ~ normal(0,10);
y ~ normal(mu,sigma);
}
"
fit <- stan(model_code = model, data = values, warmup = 500, iter = 1000,
chains = 4, cores = 2, thin = 1)
posterior = extract(fit)
I keep getting this error message:我不断收到此错误消息:
Error in compileCode(f, code, language = language, verbose = verbose) :
In file included from C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/RcppCommon.h:29, from C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/Rcpp.h:27,
from file18045ecf22e4.cpp:7:C:/Users/thean/AppData/Local/Temp/Rtmp0kEsrn/downloaded_packages/rJava_0.9-13.zip/Rcpp/include/Rcpp/r/headers.h:71:10: fatal error: R.h: No such file or directory #include <R.h> ^~~~~compilation terminated.make: *** [C:/PROGRA~1/R/R-40~1.1/etc/x64/Makeconf:229: file18045ecf22e4.o] Error 1
When I go to this directory I don't have Rcpp.h:27 but I do have Rcpp.h.当我进入这个目录时,我没有 Rcpp.h:27 但我有 Rcpp.h。 Its like this on all the files.
它在所有文件上都是这样。 Please help.
请帮忙。 Thanks
谢谢
sessionInfo()
> R version 4.0.1 (2020-06-06) Platform: x86_64-w64-mingw32/x64 (64-bit)
> Running under: Windows 10 x64 (build 18362)
>
> Matrix products: default
>
> 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] rstan_2.21.2 ggplot2_3.3.2
> StanHeaders_2.21.0-6 Rcpp_1.0.5
>
> loaded via a namespace (and not attached): [1] compiler_4.0.1
> pillar_1.4.6 prettyunits_1.1.1 remotes_2.2.0 tools_4.0.1
> pkgbuild_1.1.0 [7] jsonlite_1.7.0 lifecycle_0.2.0
> tibble_3.0.3 gtable_0.3.0 pkgconfig_2.0.3 rlang_0.4.7
> [13] cli_2.0.2 rstudioapi_0.11 curl_4.3
> parallel_4.0.1 loo_2.3.1 gridExtra_2.3 [19]
> withr_2.2.0 dplyr_1.0.2 generics_0.0.2 vctrs_0.3.4
> stats4_4.0.1 grid_4.0.1 [25] tidyselect_1.1.0
> glue_1.4.2 inline_0.3.15 R6_2.4.1
> processx_3.4.3 fansi_0.4.1 [31] callr_3.4.3
> purrr_0.3.4 magrittr_1.5 codetools_0.2-16
> matrixStats_0.56.0 scales_1.1.1 [37] ps_1.3.4
> ellipsis_0.3.1 assertthat_0.2.1 colorspace_1.4-1 V8_3.2.0
> RcppParallel_5.0.2 [43] munsell_0.5.0 crayon_1.3.4
As it wasn't mentionned, it could simply be a path problem.由于没有提到,它可能只是一个路径问题。
Putting Rtools on the PATH
将 Rtools 放在 PATH 上
After installation is complete, you need to perform one more step to be able to compile R packages: you need to put the location of the Rtools make utilities (bash, make, etc) on the PATH.
安装完成后,您还需要执行一个步骤才能编译 R 包:您需要将 Rtools make 实用程序(bash、make 等)的位置放在 PATH 中。
Try to execute once in R console following command:尝试在 R 控制台中执行一次以下命令:
writeLines('PATH="${RTOOLS40_HOME}\\usr\\bin;${PATH}"', con = "~/.Renviron")
This last step is necessary after Rtools installation .在 Rtools 安装之后,这最后一步是必需的。
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