difficulty installing the Package kuenm

[agoodman312]

Hi!

I am having a really difficult time downloading the kuenm r package. When I run the code:

devtools::install_github("marlonecobos/kuenm")

I get a long list of errors

devtools::install_github("marlonecobos/kuenm") Downloading GitHub repo marlonecobos/kuenm@HEAD ✓ checking for file ‘/private/var/folders/6w/1004hzrn45n92r7q8sqyzsc80000gn/T/Rtmpx5YHJe/remotesa07c283ef826/marlonecobos-kuenm-c19f6bf/DESCRIPTION’ ... ─ preparing ‘kuenm’: ✓ checking DESCRIPTION meta-information ... ─ cleaning src ─ checking for LF line-endings in source and make files and shell scripts ─ checking for empty or unneeded directories ─ building ‘kuenm_1.1.7.tar.gz’

• installing source package ‘kuenm’ ... using staged installation libs clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp.h:27: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/RcppCommon.h:30: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/r/headers.h:62: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/platform/compiler.h:100: /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:321:9: error: no member named 'signbit' in the global namespace using ::signbit; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:322:9: error: no member named 'fpclassify' in the global namespace using ::fpclassify; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:323:9: error: no member named 'isfinite' in the global namespace using ::isfinite; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:324:9: error: no member named 'isinf' in the global namespace using ::isinf; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:325:9: error: no member named 'isnan' in the global namespace using ::isnan; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:326:9: error: no member named 'isnormal' in the global namespace using ::isnormal; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:327:9: error: no member named 'isgreater' in the global namespace using ::isgreater; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:328:9: error: no member named 'isgreaterequal' in the global namespace using ::isgreaterequal; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:329:9: error: no member named 'isless' in the global namespace using ::isless; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:330:9: error: no member named 'islessequal' in the global namespace using ::islessequal; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:331:9: error: no member named 'islessgreater' in the global namespace using ::islessgreater; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:332:9: error: no member named 'isunordered' in the global namespace using ::isunordered; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:333:9: error: no member named 'isunordered' in the global namespace using ::isunordered; ~~^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:339:9: error: no member named 'abs' in the global namespace; did you mean 'fabs'? using ::abs; ~~^ /usr/local/include/math.h:417:15: note: 'fabs' declared here extern double fabs(double); ^ In file included from RcppExports.cpp:4: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp.h:27: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/RcppCommon.h:30: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/r/headers.h:62: In file included from /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/Rcpp/include/Rcpp/platform/compiler.h:100: /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:644:26: error: no template named 'numeric_limits' bool _FloatBigger = (numeric_limits<_FloatT>::digits > numeric_limits<_IntT>::digits), ^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:644:60: error: no template named 'numeric_limits' bool _FloatBigger = (numeric_limits<_FloatT>::digits > numeric_limits<_IntT>::digits), ^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:645:18: error: no template named 'numeric_limits' int _Bits = (numeric_limits<_IntT>::digits - numeric_limits<_FloatT>::digits)> ^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:645:50: error: no template named 'numeric_limits' int _Bits = (numeric_limits<_IntT>::digits - numeric_limits<_FloatT>::digits)> ^ /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:650:17: error: no template named 'numeric_limits' static_assert(numeric_limits<_FloatT>::radix == 2, "FloatT has incorrect radix"); ^ fatal error: too many errors emitted, stopping now [-ferror-limit=] 20 errors generated. make: *** [RcppExports.o] Error 1 ERROR: compilation failed for package ‘kuenm’
• removing ‘/Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/kuenm’ Warning in i.p(...) : installation of package ‘/var/folders/6w/1004hzrn45n92r7q8sqyzsc80000gn/T//Rtmpx5YHJe/filea07c7c8f7299/kuenm_1.1.7.tar.gz’ had non-zero exit status

I have tried deleting and redownloading Xcode, command line tools, LLVM, gcc, gfortran, and any other compilers, editing my makevars file, but nothing seems to work. Here is my session information.

R version 4.1.2 (2021-11-01) Platform: aarch64-apple-darwin20 (64-bit) Running under: macOS Monterey 12.2.1

Matrix products: default LAPACK: /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/lib/libRlapack.dylib

locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages: [1] stats graphics grDevices utils datasets methods base

other attached packages: [1] raster_3.5-15 sp_1.4-6

loaded via a namespace (and not attached): [1] Rcpp_1.0.8 compiler_4.1.2 prettyunits_1.1.1 remotes_2.4.2
[5] tools_4.1.2 testthat_3.1.2 pkgbuild_1.3.1 pkgload_1.2.4
[9] memoise_2.0.1 lifecycle_1.0.1 lattice_0.20-45 rlang_1.0.1
[13] rstudioapi_0.13 cli_3.2.0 curl_4.3.2 xfun_0.29
[17] fastmap_1.1.0 terra_1.5-21 withr_2.4.3 knitr_1.37
[21] desc_1.4.0 fs_1.5.2 devtools_2.4.3 rprojroot_2.0.2
[25] grid_4.1.2 glue_1.6.2 R6_2.5.1 processx_3.5.2
[29] sessioninfo_1.2.2 callr_3.7.0 purrr_0.3.4 magrittr_2.0.2
[33] codetools_0.2-18 ps_1.6.0 ellipsis_0.3.2 usethis_2.1.5
[37] cachem_1.0.6 crayon_1.5.0 brio_1.1.3

[imanidaniele]

@agoodman312 Were you able to figure out how to install the package? I'm also having trouble installing the package and get this error message:

devtools::install_github("marlonecobos/kuenm") Downloading GitHub repo marlonecobos/kuenm@HEAD ✔ checking for file ‘/private/var/folders/h8/74_5hvg11k3_kl2nntycqjcw0000gn/T/RtmpRKlyCg/remotes17b9f6901ea16/marlonecobos-kuenm-c19f6bf/DESCRIPTION’ ... ─ preparing ‘kuenm’: ✔ checking DESCRIPTION meta-information ... ─ cleaning src ─ checking for LF line-endings in source and make files and shell scripts ─ checking for empty or unneeded directories ─ building ‘kuenm_1.1.7.tar.gz’

• installing source package ‘kuenm’ ... using staged installation libs clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -c RcppExports.cpp -o RcppExports.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -c trap_roc.cpp -o trap_roc.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -Wl,-rpath,/Library/Frameworks/R.framework/Resources/lib /Library/Frameworks/R.framework/Resources/lib/libc++abi.1.dylib -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o kuenm.so RcppExports.o trap_roc.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation clang-7: error: no such file or directory: '/Library/Frameworks/R.framework/Resources/lib/libc++abi.1.dylib' make: *** [kuenm.so] Error 1 ERROR: compilation failed for package ‘kuenm’
• removing ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library/kuenm’ Warning message: In i.p(...) : installation of package ‘/var/folders/h8/74_5hvg11k3_kl2nntycqjcw0000gn/T//RtmpRKlyCg/file17b9f660a5786/kuenm_1.1.7.tar.gz’ had non-zero exit status

R version 4.1.2 (2021-11-01) Platform: x86_64-apple-darwin17.0 Running under: macOS Catalina 10.15.7