Error when trying to install devtools on Mac

Question

Does anyone has an idea on how to solve this problem? Can't install devtools in R.

install.packages("devtools") also installing the dependencies ‘ps’, ‘fs’, ‘processx’, ‘xopen’, ‘usethis’, ‘callr’, ‘git2r’, ‘pkgbuild’, ‘pkgload’, ‘rcmdcheck’, ‘roxygen2’

• installing source package ‘fs’ ... ** package ‘fs’ successfully unpacked and MD5 sums checked ** using staged installation ** libs x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c error.cc -o error.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c dir.cc -o dir.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c utils.cc -o utils.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c link.cc -o link.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c path.cc -o path.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c file.cc -o file.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c fs.cc -o fs.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c id.cc -o id.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c unix/getmode.cc -o unix/getmode.o x86_64-apple-darwin13.4.0-clang++ -std=gnu++11 -I"/Users/JoaoMoraes/miniconda3/lib/R/include" -DNDEBUG -I./libuv/include -I. -pthread -I"/Users/JoaoMoraes/miniconda3/lib/R/library/Rcpp/include" -D_FORTIFY_SOURCE=2 -mmacosx-version-min=10.9 -I/Users/JoaoMoraes/miniconda3/include -fPIC -march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -stdlib=libc++ -fvisibility-inlines-hidden -fmessage-length=0 -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -c RcppExports.cpp -o RcppExports.o cp -p -f libuv/m4/lt_obsolete.m4 libuv/m4/lt~obsolete.m4 (cd libuv \ && touch aclocal.m4 \ && touch -r aclocal.m4 configure Makefile.in \ && CC="x86_64-apple-darwin13.4.0-clang" CFLAGS="-march=core2 -mtune=haswell -mssse3 -ftree-vectorize -fPIC -fPIE -fstack-protector-strong -O2 -pipe -I/Users/JoaoMoraes/miniconda3/include -fdebug-prefix-map=/opt/concourse/worker/volumes/live/c099f90d-77ff-4dab-4625-1ec5b1f7533d/volume/r-base_1565121802879/work=/usr/local/src/conda/r-base-3.6.1 -fdebug-prefix-map=/Users/JoaoMoraes/miniconda3=/usr/local/src/conda-prefix -fPIC " AR="x86_64-apple-darwin13.4.0-ar" RANLIB="x86_64-apple-darwin13.4.0-ranlib" LDFLAGS="-Wl,-dead_strip_dylibs -Wl,-pie -Wl,-headerpad_max_install_names -Wl,-dead_strip_dylibs -Wl,-rpath,/Users/JoaoMoraes/miniconda3/lib -L/Users/JoaoMoraes/miniconda3/lib" ./configure --quiet) configure: error: in /private/var/folders/s2/cptzh4ls2knbbd767m5gjx380000gn/T/RtmprlvVOz/R.INSTALL14a3b6572446a/fs/src/libuv': configure: error: C compiler cannot create executables Seeconfig.log' for more details make: *** [Makevars:32: libuv/Makefile] Error 77 ERROR: compilation failed for package ‘fs’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/fs’ ERROR: dependency ‘ps’ is not available for package ‘processx’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/processx’
• installing source package ‘git2r’ ... ** package ‘git2r’ successfully unpacked and MD5 sums checked ** using staged installation checking build system type... x86_64-apple-darwin18.7.0 checking host system type... x86_64-apple-darwin18.7.0 checking for gcc... x86_64-apple-darwin13.4.0-clang checking whether the C compiler works... no configure: error: in /private/var/folders/s2/cptzh4ls2knbbd767m5gjx380000gn/T/RtmpfgNUT5/R.INSTALL14b4c40b5b5e8/git2r': configure: error: C compiler cannot create executables Seeconfig.log' for more details ERROR: configuration failed for package ‘git2r’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/git2r’ ERROR: dependency ‘processx’ is not available for package ‘xopen’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/xopen’ ERROR: dependencies ‘fs’, ‘git2r’ are not available for package ‘usethis’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/usethis’ ERROR: dependency ‘processx’ is not available for package ‘callr’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/callr’ ERROR: dependency ‘callr’ is not available for package ‘pkgbuild’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/pkgbuild’ ERROR: dependency ‘pkgbuild’ is not available for package ‘pkgload’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/pkgload’ ERROR: dependencies ‘callr’, ‘pkgbuild’, ‘xopen’ are not available for package ‘rcmdcheck’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/rcmdcheck’ ERROR: dependency ‘pkgload’ is not available for package ‘roxygen2’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/roxygen2’ ERROR: dependencies ‘usethis’, ‘callr’, ‘git2r’, ‘pkgbuild’, ‘pkgload’, ‘rcmdcheck’, ‘roxygen2’ are not available for package ‘devtools’
• removing ‘/Users/JoaoMoraes/miniconda3/lib/R/library/devtools’

The downloaded source packages are in ‘/private/var/folders/s2/cptzh4ls2knbbd767m5gjx380000gn/T/RtmpP8MNFU/downloaded_packages’ Updating HTML index of packages in '.Library' Making 'packages.html' ... done There were 11 warnings (use warnings() to see them)

warnings() Warning messages: 1: In install.packages("devtools") : installation of package ‘fs’ had non-zero exit status 2: In install.packages("devtools") : installation of package ‘processx’ had non-zero exit status 3: In install.packages("devtools") : installation of package ‘git2r’ had non-zero exit status 4: In install.packages("devtools") : installation of package ‘xopen’ had non-zero exit status 5: In install.packages("devtools") : installation of package ‘usethis’ had non-zero exit status 6: In install.packages("devtools") : installation of package ‘callr’ had non-zero exit status 7: In install.packages("devtools") : installation of package ‘pkgbuild’ had non-zero exit status 8: In install.packages("devtools") : installation of package ‘pkgload’ had non-zero exit status 9: In install.packages("devtools") : installation of package ‘rcmdcheck’ had non-zero exit status 10: In install.packages("devtools") : installation of package ‘roxygen2’ had non-zero exit status 11: In install.packages("devtools") : installation of package ‘devtools’ had non-zero exit status

Answer 1

The problem was that I was using R on conda and was installing the package through CRAN.