MacOS Big Sur x86_64环境下R devtools安装bandle包编译错误求助

我尝试使用如下命令安装R包：

devtools::install_github('ococrook/bandle')

运行过程中持续出现编译问题，返回大量报错，首先是与BH依赖相关的报错：

clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include    -fPIC  -Wall -g -O2  -Wall -pedantic -fdiagnostics-color=always -c Bessel2ndKind.cpp -o Bessel2ndKind.o
   In file included from Bessel2ndKind.cpp:1:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include/RcppArmadillo.h:34:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include/Rcpp.h:59:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include/Rcpp/exceptions_impl.h:38:
   In file included from /usr/local/include/execinfo.h:28:
   /usr/local/include/os/base.h:274:37: warning: type nullability specifier '_Nullable' is a Clang extension [-Wnullability-extension]
   typedef void (*os_function_t)(void *_Nullable);
                                       ^
   Bessel2ndKind.cpp:621:55: warning: explicitly assigning value of variable of type 'int' to itself [-Wself-assign]
                                              nk, tau, D = D, j + 1, nu).t();
                                                       ~ ^ ~
   Bessel2ndKind.cpp:774:49: warning: explicitly assigning value of variable of type 'int' to itself [-Wself-assign]
                                        nk, tau, D = D, j + 1).t();
                                                 ~ ^ ~
   In file included from Bessel2ndKind.cpp:2:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include/boost/math/special_functions/bessel.hpp:24:
   /Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include/boost/math/special_functions/detail/bessel_ik.hpp:97:18: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
       BOOST_ASSERT(abs(x) <= 2);
                    ^
   /Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include/boost/math/special_functions/detail/bessel_ik.hpp:366:9: note: in instantiation of function template specialization 'boost::math::detail::temme_ik<long double, boost::math::policies::policy<detail::forwarding_arg1, detail::forwarding_arg2>>' requested here
           temme_ik(u, x, &Ku, &Ku1, pol);             // Temme series
           ^
   /Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include/boost/math/special_functions/bessel.hpp:246:4: note: in instantiation of function template specialization 'boost::math::detail::bessel_ik<long double, boost::math::policies::policy<detail::forwarding_arg1, detail::forwarding_arg2>>' requested here
      bessel_ik(v, x, &I, &K, need_k, pol);
      ^
   /Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include/boost/math/special_functions/bessel.hpp:258:11: note: in instantiation of function template specialization 'boost::math::detail::cyl_bessel_k_imp<long double, boost::math::policies::policy<detail::forwarding_arg1, detail::forwarding_arg2>>' requested here
      return cyl_bessel_k_imp(v, x, bessel_no_int_tag(), pol);
             ^

其次是与RcppArmadillo相关的报错：

clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include    -fPIC  -Wall -g -O2  -Wall -pedantic -fdiagnostics-color=always -c leapfrogGPcpp.cpp -o leapfrogGPcpp.o
   In file included from leapfrogGPcpp.cpp:1:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include/RcppArmadillo.h:34:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include/Rcpp.h:59:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include/Rcpp/exceptions_impl.h:38:
   In file included from /usr/local/include/execinfo.h:28:
   /usr/local/include/os/base.h:274:37: warning: type nullability specifier '_Nullable' is a Clang extension [-Wnullability-extension]
   typedef void (*os_function_t)(void *_Nullable);
                                       ^
   In file included from leapfrogGPcpp.cpp:1:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include/RcppArmadillo.h:31:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include/RcppArmadilloForward.h:49:
   In file included from /Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include/armadillo:646:
   /Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include/armadillo_bits/op_inv_meat.hpp:200:28: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
       const  T abs_det_val = std::abs(det_val);

我已尝试多个公开解决方案，均未解决问题，暂无其他排查思路，恳请各位提供帮助，非常感谢。

解决步骤 #

你遇到的是macOS环境下R编译C++源码包的典型版本兼容问题，按以下步骤操作即可解决：

• 第一步：确认R版本和芯片架构匹配：如果是M1/M2等Apple Silicon芯片，不要使用Rosetta转译的x86版R，直接安装ARM架构的官方R安装包
• 第二步：更新所有核心编译依赖到最新版本，在R控制台运行：

install.packages(c("BH", "Rcpp", "RcppArmadillo"), type = "source")

• 第三步：调整macOS的R编译配置，在用户根目录下新建.R/Makevars文件，写入以下内容：

CXX_STD = CXX11
CXXFLAGS += -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include
LDFLAGS += -L/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib

如果是Apple Silicon芯片，额外追加一行配置：

FLIBS = -L/opt/homebrew/opt/gfortran/lib/gcc/current -lgfortran -lquadmath -lm

• 第四步：重启R会话，重新运行bandle的安装命令即可。

内容的提问来源于stack exchange，提问作者Isaac