由于cpp11编译错误，r tidyr包安装失败(扩展模式x不包含参数包)

Question

我有以下与cp11相关的错误。看起来cp11编译有错误，我不确定如何解决。

我尝试做的是卸载包并重新安装它。

我在RHEL 7上，gcc版本是4.8.5

> install.packages("tidyverse")
Installing package into ‘/datascience/R/x86_64-redhat-linux-gnu-library/3.6’
(as ‘lib’ is unspecified)
also installing the dependency ‘tidyr’

trying URL 'https://cran.rstudio.com/src/contrib/tidyr_1.1.1.tar.gz'
Content type 'application/x-gzip' length 879411 bytes (858 KB)
==================================================
downloaded 858 KB

trying URL 'https://cran.rstudio.com/src/contrib/tidyverse_1.3.0.tar.gz'
Content type 'application/x-gzip' length 712837 bytes (696 KB)
==================================================
downloaded 696 KB

* installing *source* package ‘tidyr’ ...
** package ‘tidyr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG  -I"/usr/lib64/R/library/cpp11/include" -I/usr/local/include  -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches   -m64 -mtune=generic  -c cpp11.cpp -o cpp11.o
In file included from /usr/lib64/R/library/cpp11/include/cpp11/as.hpp:8:0,
                 from /usr/lib64/R/library/cpp11/include/cpp11.hpp:5,
                 from /usr/lib64/R/library/cpp11/include/cpp11/declarations.hpp:8,
                 from cpp11.cpp:4:
/usr/lib64/R/library/cpp11/include/cpp11/protect.hpp: In lambda function:
/usr/lib64/R/library/cpp11/include/cpp11/protect.hpp:185:52: error: parameter packs not expanded with ‘...’:
       return unwind_protect_sexp([&] { return ptr_(a...); });
                                                    ^
/usr/lib64/R/library/cpp11/include/cpp11/protect.hpp:185:52: note:         ‘a’
/usr/lib64/R/library/cpp11/include/cpp11/protect.hpp:185:53: error: expansion pattern ‘a’ contains no argument packs
       return unwind_protect_sexp([&] { return ptr_(a...); });
                                                     ^
make: *** [cpp11.o] Error 1
ERROR: compilation failed for package ‘tidyr’
* removing ‘/datascience/R/x86_64-redhat-linux-gnu-library/3.6/tidyr’
Warning in install.packages :
  installation of package ‘tidyr’ had non-zero exit status
ERROR: dependency ‘tidyr’ is not available for package ‘tidyverse’
* removing ‘/datascience/R/x86_64-redhat-linux-gnu-library/3.6/tidyverse’
Warning in install.packages :
  installation of package ‘tidyverse’ had non-zero exit status

The downloaded source packages are in
    ‘/tmp/Rtmp7JHlRI/downloaded_packages’

Answer 1

正如@Maurits Evers所说，较新版本的gcc将正确编译tidyr。

#Enable the rhscl repository
yum-config-manager --enable rhel-server-rhscl-7-rpms

#Install devtooset-X
yum install devtoolset-X

#Open a shell with the required environment variables.
scl enable devtoolset-X bash

在那之后打开一个R shell。在非交互式脚本中使用的情况下，源scl使能文件，该文件将设置当前外壳中的环境变量

 source /opt/rh/devtoolset-X/enable

Answer 2

我正处于完全相同的情况:尝试在R 3.6.1上安装tidyr，在cpp11和相同版本的gcc (4.8.5)中出现此错误。

我们将g++，gcc，cc+ cc更新为版本：(GCC) 9.3.1 20200408 (红帽9.3.1-2)版权所有(C) 2019年自由软件基金会，Inc.

在更新了GCC之后，我们重新安装了cpp11。

但是：

install.packages(
+   pkgs = "tidyr",
+   dependencies = TRUE,
+   repos = "https://cloud.r-project.org"
+ )
Installing package into ‘/dados/home/t03999/R/x86_64-pc-linux-gnu-library/3.6’
(as ‘lib’ is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/tidyr_1.1.1.tar.gz'
Content type 'application/x-gzip' length 879411 bytes (858 KB)
==================================================
downloaded 858 KB

* installing *source* package ‘tidyr’ ...
** package ‘tidyr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -m64 -std=gnu++11 -I"/usr/lib64/R/../../include/R" -DNDEBUG  -I"/dados/home/t03999/R/x86_64-pc-linux-gnu-library/3.6/cpp11/include" -I/systemr/port/Linux-X64/include/zlib -I/systemr/port/Linux-X64/include/xz -I/systemr/port/Linux-X64/include/bzip2 -I/systemr/port/Linux-X64/include  -fpic  -g -O2  -c cpp11.cpp -o cpp11.o
cpp11.cpp: In function ‘SEXPREC* _tidyr_fillDown(SEXP)’:
cpp11.cpp:10:43: error: ‘unmove’ is not a member of ‘cpp11’
   10 |     return cpp11::as_sexp(fillDown(cpp11::unmove(cpp11::as_cpp<SEXP>(x))));
      |                                           ^~~~~~
cpp11.cpp: In function ‘SEXPREC* _tidyr_fillUp(SEXP)’:
cpp11.cpp:17:41: error: ‘unmove’ is not a member of ‘cpp11’
   17 |     return cpp11::as_sexp(fillUp(cpp11::unmove(cpp11::as_cpp<SEXP>(x))));
      |                                         ^~~~~~
cpp11.cpp: In function ‘SEXPREC* _tidyr_melt_dataframe(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
cpp11.cpp:24:49: error: ‘unmove’ is not a member of ‘cpp11’
   24 |     return cpp11::as_sexp(melt_dataframe(cpp11::unmove(cpp11::as_cpp<cpp11::data_frame>(data)), cpp11::unmove(cpp11::as_cpp<const cpp11::integers&>(id_ind)), cpp11::unmove(cpp11::as_cpp<const cpp11::integers&>(measure_ind)), cpp11::unmove(cpp11::as_cpp<cpp11::strings>(variable_name)), cpp11::unmove(cpp11::as_cpp<cpp11::strings>(value_name)), cpp11::unmove(cpp11::as_cpp<cpp11::sexp>(attrTemplate)), cpp11::unmove(cpp11::as_cpp<bool>(factorsAsStrings)), cpp11::unmove(cpp11::as_cpp<bool>(valueAsFactor)), cpp11::unmove(cpp11::as_cpp<bool>(variableAsFactor))));
      |                                                 ^~~~~~
cpp11.cpp:24:104: error: ‘unmove’ is not a member of ‘cpp11’

我们仍然不知道如何解决这个问题。

Answer 3

我猜错误信息

 error: ‘unmove’ is not a member of ‘cpp11’

是由0.2.0版本的cpp11包中的持续变化引起的。这个Github issue提到了这个问题。解决我的问题的方法是在R中使用以下命令安装一个旧版本的cpp11：

packageurl <- "https://cloud.r-project.org/src/contrib/cpp11_0.1.0.tar.gz"
install.packages(packageurl, repos=NULL, type="source")