Please see all output below including the session info.
Thank you!
> install.packages("tidyverse")
also installing the dependencies ‘ps’, ‘processx’, ‘fansi’, ‘glue’, ‘rlang’, ‘callr’, ‘fs’, ‘stringi’, ‘pillar’, ‘tidyselect’, ‘broom’, ‘dbplyr’, ‘modelr’, ‘reprex’, ‘stringr’, ‘tibble’, ‘tidyr’
There are binary versions available but the source versions are later:
binary source needs_compilation
processx 2.0.0.1 3.2.0 TRUE
glue 1.2.0 1.3.0 TRUE
rlang 0.1.6 0.3.0.1 TRUE
callr 1.0.0 3.0.0 FALSE
stringi 1.1.6 1.2.4 FALSE
pillar 1.0.1 1.3.0 FALSE
tidyselect 0.2.3 0.2.5 TRUE
broom 0.4.3 0.5.0 FALSE
dbplyr 1.1.0 1.2.2 FALSE
modelr 0.1.1 0.1.2 FALSE
stringr 1.2.0 1.3.1 FALSE
tibble 1.3.4 1.4.2 TRUE
tidyr 0.7.2 0.8.2 TRUE
tidyverse 1.1.1 1.2.1 FALSE
Do you want to install from sources the packages which need compilation?
y/n: y
Packages which are only available in source form, and may need compilation of
C/C++/Fortran: ‘ps’ ‘fansi’ ‘fs’
Do you want to attempt to install these from sources?
y/n: y
installing the source packages ‘ps’, ‘processx’, ‘fansi’, ‘glue’, ‘rlang’, ‘callr’, ‘fs’, ‘stringi’, ‘pillar’, ‘tidyselect’, ‘broom’, ‘dbplyr’, ‘modelr’, ‘reprex’, ‘stringr’, ‘tibble’, ‘tidyr’, ‘tidyverse’
trying URL 'https://cran.rstudio.com/src/contrib/ps_1.2.1.tar.gz'
Content type 'application/x-gzip' length 259477 bytes (253 KB)
==================================================
downloaded 253 KB
trying URL 'https://cran.rstudio.com/src/contrib/processx_3.2.0.tar.gz'
Content type 'application/x-gzip' length 97959 bytes (95 KB)
==================================================
downloaded 95 KB
trying URL 'https://cran.rstudio.com/src/contrib/fansi_0.4.0.tar.gz'
Content type 'application/x-gzip' length 266123 bytes (259 KB)
==================================================
downloaded 259 KB
trying URL 'https://cran.rstudio.com/src/contrib/glue_1.3.0.tar.gz'
Content type 'application/x-gzip' length 56368 bytes (55 KB)
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downloaded 55 KB
trying URL 'https://cran.rstudio.com/src/contrib/rlang_0.3.0.1.tar.gz'
Content type 'application/x-gzip' length 817008 bytes (797 KB)
==================================================
downloaded 797 KB
trying URL 'https://cran.rstudio.com/src/contrib/callr_3.0.0.tar.gz'
Content type 'application/x-gzip' length 36365 bytes (35 KB)
==================================================
downloaded 35 KB
trying URL 'https://cran.rstudio.com/src/contrib/fs_1.2.6.tar.gz'
Content type 'application/x-gzip' length 799325 bytes (780 KB)
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downloaded 780 KB
trying URL 'https://cran.rstudio.com/src/contrib/stringi_1.2.4.tar.gz'
Content type 'application/x-gzip' length 17916239 bytes (17.1 MB)
==================================================
downloaded 17.1 MB
trying URL 'https://cran.rstudio.com/src/contrib/pillar_1.3.0.tar.gz'
Content type 'application/x-gzip' length 103104 bytes (100 KB)
==================================================
downloaded 100 KB
trying URL 'https://cran.rstudio.com/src/contrib/tidyselect_0.2.5.tar.gz'
Content type 'application/x-gzip' length 21883 bytes (21 KB)
==================================================
downloaded 21 KB
trying URL 'https://cran.rstudio.com/src/contrib/broom_0.5.0.tar.gz'
Content type 'application/x-gzip' length 1228314 bytes (1.2 MB)
==================================================
downloaded 1.2 MB
trying URL 'https://cran.rstudio.com/src/contrib/dbplyr_1.2.2.tar.gz'
Content type 'application/x-gzip' length 263687 bytes (257 KB)
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downloaded 257 KB
trying URL 'https://cran.rstudio.com/src/contrib/modelr_0.1.2.tar.gz'
Content type 'application/x-gzip' length 118432 bytes (115 KB)
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downloaded 115 KB
trying URL 'https://cran.rstudio.com/src/contrib/reprex_0.2.1.tar.gz'
Content type 'application/x-gzip' length 1029128 bytes (1005 KB)
==================================================
downloaded 1005 KB
trying URL 'https://cran.rstudio.com/src/contrib/stringr_1.3.1.tar.gz'
Content type 'application/x-gzip' length 119156 bytes (116 KB)
==================================================
downloaded 116 KB
trying URL 'https://cran.rstudio.com/src/contrib/tibble_1.4.2.tar.gz'
Content type 'application/x-gzip' length 109808 bytes (107 KB)
==================================================
downloaded 107 KB
trying URL 'https://cran.rstudio.com/src/contrib/tidyr_0.8.2.tar.gz'
Content type 'application/x-gzip' length 378735 bytes (369 KB)
==================================================
downloaded 369 KB
trying URL 'https://cran.rstudio.com/src/contrib/tidyverse_1.2.1.tar.gz'
Content type 'application/x-gzip' length 61647 bytes (60 KB)
==================================================
downloaded 60 KB
* installing *source* package ‘ps’ ...
** package ‘ps’ successfully unpacked and MD5 sums checked
** libs
clang -Wall -mtune=core2 -g -O2 -Wall px.c -o px
In file included from px.c:11:
In file included from /usr/include/stdlib.h:65:
/usr/include/sys/wait.h:109:10: fatal error: 'sys/signal.h' file not found
#include <sys/signal.h> /* [XSI] for siginfo_t */
^
1 error generated.
make: *** [px] Error 1
ERROR: compilation failed for package ‘ps’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/ps’
Warning in install.packages :
installation of package ‘ps’ had non-zero exit status
* installing *source* package ‘fansi’ ...
** package ‘fansi’ successfully unpacked and MD5 sums checked
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c assumptions.c -o assumptions.o
In file included from assumptions.c:21:
In file included from /Library/Frameworks/R.framework/Resources/include/Rinternals.h:46:
In file included from /Library/Developer/CommandLineTools/usr/bin/../lib/clang/7.0.2/include/limits.h:37:
In file included from /usr/include/limits.h:64:
/usr/include/machine/limits.h:6:10: fatal error: 'i386/limits.h' file not found
#include <i386/limits.h>
^
1 error generated.
make: *** [assumptions.o] Error 1
ERROR: compilation failed for package ‘fansi’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/fansi’
Warning in install.packages :
installation of package ‘fansi’ had non-zero exit status
* installing *source* package ‘glue’ ...
** package ‘glue’ successfully unpacked and MD5 sums checked
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c glue.c -o glue.o
In file included from glue.c:1:
In file included from /Library/Frameworks/R.framework/Resources/include/Rinternals.h:46:
In file included from /Library/Developer/CommandLineTools/usr/bin/../lib/clang/7.0.2/include/limits.h:37:
In file included from /usr/include/limits.h:64:
/usr/include/machine/limits.h:6:10: fatal error: 'i386/limits.h' file not found
#include <i386/limits.h>
^
1 error generated.
make: *** [glue.o] Error 1
ERROR: compilation failed for package ‘glue’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/glue’
* restoring previous ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/glue’
Warning in install.packages :
installation of package ‘glue’ had non-zero exit status
* installing *source* package ‘rlang’ ...
** package ‘rlang’ successfully unpacked and MD5 sums checked
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./lib/ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c capture.c -o capture.o
In file included from capture.c:1:
In file included from /Library/Frameworks/R.framework/Resources/include/Rinternals.h:46:
In file included from /Library/Developer/CommandLineTools/usr/bin/../lib/clang/7.0.2/include/limits.h:37:
In file included from /usr/include/limits.h:64:
/usr/include/machine/limits.h:6:10: fatal error: 'i386/limits.h' file not found
#include <i386/limits.h>
^
1 error generated.
make: *** [capture.o] Error 1
ERROR: compilation failed for package ‘rlang’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rlang’
* restoring previous ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rlang’
Warning in install.packages :
installation of package ‘rlang’ had non-zero exit status
* installing *source* package ‘fs’ ...
** package ‘fs’ successfully unpacked and MD5 sums checked
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./libuv/include -I. -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include" -fPIC -Wall -mtune=core2 -g -O2 -c dir.cc -o dir.o
In file included from dir.cc:2:
In file included from ./libuv/include/uv.h:62:
In file included from ./libuv/include/uv-unix.h:43:
/usr/include/signal.h:63:10: fatal error: 'sys/signal.h' file not found
#include <sys/signal.h>
^
1 error generated.
make: *** [dir.o] Error 1
ERROR: compilation failed for package ‘fs’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/fs’
Warning in install.packages :
installation of package ‘fs’ had non-zero exit status
* installing *source* package ‘stringi’ ...
** package ‘stringi’ successfully unpacked and MD5 sums checked
checking for R_HOME... /Library/Frameworks/R.framework/Resources
checking for R... /Library/Frameworks/R.framework/Resources/bin/R
checking for endianness... little
checking for R >= 3.1.0 for C++11 use... yes
checking for R < 3.4.0 for CXX1X flag use... yes
checking for cat... /bin/cat
checking for local ICUDT_DIR... icu61/data
checking for gcc... clang
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
checking how to run the C preprocessor... clang++ -E
configure: error: in `/private/var/folders/d1/36t110qd04gdl5qt5r5t0ydr0000gn/T/RtmpXFtZ5m/R.INSTALL12be256ba4e8/stringi':
configure: error: C preprocessor "clang++ -E" fails sanity check
See `config.log' for more details
ERROR: configuration failed for package ‘stringi’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/stringi’
* restoring previous ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/stringi’
Warning in install.packages :
installation of package ‘stringi’ had non-zero exit status
ERROR: dependency ‘ps’ is not available for package ‘processx’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/processx’
Warning in install.packages :
installation of package ‘processx’ had non-zero exit status
ERROR: dependency ‘fansi’ is not available for package ‘pillar’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/pillar’
Warning in install.packages :
installation of package ‘pillar’ had non-zero exit status
* installing *source* package ‘tidyselect’ ...
** package ‘tidyselect’ successfully unpacked and MD5 sums checked
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include" -fPIC -Wall -mtune=core2 -g -O2 -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from /Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include/Rcpp.h:27:
In file included from /Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include/RcppCommon.h:29:
In file included from /Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include/Rcpp/r/headers.h:52:
In file included from /Library/Frameworks/R.framework/Resources/include/R.h:44:
In file included from /Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/cstdlib:86:
In file included from /usr/include/stdlib.h:65:
/usr/include/sys/wait.h:109:10: fatal error: 'sys/signal.h' file not found
#include <sys/signal.h> /* [XSI] for siginfo_t */
^
1 error generated.
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘tidyselect’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/tidyselect’
* restoring previous ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/tidyselect’
Warning in install.packages :
installation of package ‘tidyselect’ had non-zero exit status
* installing *source* package ‘stringr’ ...
** package ‘stringr’ successfully unpacked and MD5 sums checked
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
namespace ‘stringi’ 1.1.2 is being loaded, but >= 1.1.7 is required
ERROR: lazy loading failed for package ‘stringr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/stringr’
Warning in install.packages :
installation of package ‘stringr’ had non-zero exit status
ERROR: dependency ‘processx’ is not available for package ‘callr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/callr’
Warning in install.packages :
installation of package ‘callr’ had non-zero exit status
ERROR: dependency ‘pillar’ is not available for package ‘tibble’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/tibble’
Warning in install.packages :
installation of package ‘tibble’ had non-zero exit status
ERROR: dependency ‘tibble’ is not available for package ‘dbplyr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/dbplyr’
Warning in install.packages :
installation of package ‘dbplyr’ had non-zero exit status
ERROR: dependencies ‘callr’, ‘fs’ are not available for package ‘reprex’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/reprex’
Warning in install.packages :
installation of package ‘reprex’ had non-zero exit status
ERROR: dependency ‘tibble’ is not available for package ‘tidyr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/tidyr’
Warning in install.packages :
installation of package ‘tidyr’ had non-zero exit status
ERROR: dependencies ‘stringr’, ‘tibble’, ‘tidyr’ are not available for package ‘broom’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/broom’
Warning in install.packages :
installation of package ‘broom’ had non-zero exit status
ERROR: dependencies ‘broom’, ‘tibble’, ‘tidyr’ are not available for package ‘modelr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/modelr’
Warning in install.packages :
installation of package ‘modelr’ had non-zero exit status
ERROR: dependencies ‘broom’, ‘dbplyr’, ‘modelr’, ‘reprex’, ‘stringr’, ‘tibble’, ‘tidyr’ are not available for package ‘tidyverse’
* removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/tidyverse’
Warning in install.packages :
installation of package ‘tidyverse’ had non-zero exit status
The downloaded source packages are in
‘/private/var/folders/d1/36t110qd04gdl5qt5r5t0ydr0000gn/T/Rtmp5cFNGj/downloaded_packages’
> library(tidyverse)
Error in library(tidyverse) : there is no package called ‘tidyverse’
> sessionInfo()
R version 3.3.3 (2017-03-06)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X Yosemite 10.10.5
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
loaded via a namespace (and not attached):
[1] tools_3.3.3 yaml_2.1.14