在 CentOS-6.5 下使用源码安装的 R-3.6.0 在安装包的时候出现 “C++11 standard requested but CXX11 is not defined” 错误。下面是参考的解决方法。

    1. > install.packages("pillar")
    2. also installing the dependencies ‘digest’, ‘vctrs’
    4. trying URL 'http://mirror.lzu.edu.cn/CRAN/src/contrib/digest_0.6.19.tar.gz'
    5. Content type 'application/octet-stream' length 140243 bytes (136 KB)
    6. ==================================================
    7. downloaded 136 KB
    9. ......
    11. * installing *source* package ‘digest’ ...
    12. ** package ‘digest’ successfully unpacked and MD5 sums checked
    13. ** using staged installation
    14. ** libs
    16. Error in .shlib_internal(args) :
    17.   C++11 standard requested but CXX11 is not defined
    18. * removing ‘/RiboBio/Bioinfo/Pipeline/SoftWare/R/R-3.6.0/lib64/R/library/digest’
    19. ERROR: dependency ‘digest’ is not available for package ‘vctrs’
    20. * removing ‘/RiboBio/Bioinfo/Pipeline/SoftWare/R/R-3.6.0/lib64/R/library/vctrs’
    21. ERROR: dependency ‘vctrs’ is not available for package ‘pillar’
    22. * removing ‘/RiboBio/Bioinfo/Pipeline/SoftWare/R/R-3.6.0/lib64/R/library/pillar’
    24. The downloaded source packages are in
    25.         ‘/tmp/RtmpcowP8e/downloaded_packages’
    26. Updating HTML index of packages in '.Library'
    27. Making 'packages.html' ... done
    28. Warning messages:
    29. 1: In install.packages("pillar") :
    30.   installation of package ‘digest’ had non-zero exit status
    31. 2: In install.packages("pillar") :
    32.   installation of package ‘vctrs’ had non-zero exit status
    33. 3: In install.packages("pillar") :
    34.   installation of package ‘pillar’ had non-zero exit status
    35. >

    解决方法：《“CXX11 is not defined” problem in MRO 3.4》

    (Actually I vaguely remember encountering the same problem in MRO 3.3, and solved it using similar method. Unfortunately I didn’t write it down.)

    Note: MRO means Microsoft R Open (previously Revolution R) Recently I tried to set up the R development environment on a fresh Linux system, every thing went well until I hit this error installing xgboost: Package installation error: “C++11 standard requested but CXX11 is not defined”**After some Googling I found > this Github issue. It appears to be a MRO-specific problem, and > mjmg provided a working solution.> The gist is, replacing every “CXX1X” with “CXX11” in R compiler configuration files (System wide: ${R_HOME}/etc/Makeconf Per-user: ~/.R/Makevars) and fill in some values:

    1. CXX11 = g++
    2. CXX11FLAGS = -O2 -g $(LTO)
    3. CXX11PICFLAGS = -fPIC
    4. CXX11STD = -std=c++11

    That’s it!

    我个人的解决方法是，直接修改 /Bioinfo/Pipeline/SoftWare/R/R-3.6.0/lib64/R/etc/Makeconf 文件，替换下面的内容：

    1. CXX11 = g++
    2. CXX11FLAGS = -O2 -g $(LTO)
    3. CXX11PICFLAGS = -fPIC
    4. CXX11STD =
    • CXX11STD 值必须为空，否则在 R 中 install.packages() 会出现另外的错误：cc1plus: error: unrecognized command line option “-std=c++11”。