Help Needed: tidy verse Package installation

Manasi · October 2, 2019, 2:01am

Hi All!
I am new to R studio and have just installed it on my Mac.
I tried installing tidyverse package many a time using install.package("tidyverse") and then loading it using library(tidyverse). This is how it goes:

Warning in install.packages :
installation of package ‘tidyverse’ had non-zero exit status

The downloaded source packages are in
‘/private/var/folders/gm/fknd6g856231bvh1fd9wmp500000gn/T/RtmpXjz00b/downloaded_packages’

library(tidyverse)
Error in library(tidyverse) : there is no package called ‘tidyverse’

andresrcs · October 2, 2019, 2:53am

Hi, welcome!

Could you post the whole error message that you get while running this command?

install.packages("tidyverse")

You are omitting the useful parts

Manasi · October 2, 2019, 2:28pm

andresrcs · October 2, 2019, 2:33pm

You are still not showing the whole message, also, please do not post screenshots, post the actual message instead.

Manasi · October 2, 2019, 4:47pm

> install.packages("tidyverse")
Installing package into ‘/Users/Manasi/Library/R/3.2/library’
(as ‘lib’ is unspecified)
Warning in install.packages :
  dependency ‘knitr’ is not available
also installing the dependencies ‘rmarkdown’, ‘lubridate’, ‘reprex’


  There are binary versions available but the source versions are later:
          binary source needs_compilation
rmarkdown    1.0   1.16             FALSE
lubridate  1.5.6  1.7.4              TRUE

Do you want to install from sources the package which needs compilation?
y/n: y
installing the source packages ‘rmarkdown’, ‘lubridate’, ‘reprex’, ‘tidyverse’

  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 3108k  100 3108k    0     0   776k      0  0:00:04  0:00:04 --:--:--  776k
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100  439k  100  439k    0     0      0      0 --:  0   652k      0 --:--:-- --:--:-- --:--:--     0
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 1027k   17  175k    0     0   27k  100 1027k    0     0   960k      0  0:00:01  0:0-:--  0:00:1  0:00:--:--:--  961k
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 61647  100 61647    0     0      0359k      0 --:--:-- --:--:-- --:--:--:--  360k
ERROR: dependency ‘knitr’ is not available for package ‘rmarkdown’
* removing ‘/Users/Manasi/Library/R/3.2/library/rmarkdown’
Warning in install.packages :
  installation of package ‘rmarkdown’ had non-zero exit status
* installing *source* package ‘lubridate’ ...
** package ‘lubridate’ successfully unpacked and MD5 sums checked
** libs
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c RcppExports.cpp -o RcppExports.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [RcppExports.o] Error 127 (ignored)
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2  -c datetime.c -o datetime.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2  -c period.c -o period.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2  -c tparse.c -o tparse.o
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c update.cpp -o update.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [update.o] Error 127 (ignored)
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"   -fPIC  -mtune=core2 -g -O2  -c utils.c -o utils.o
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c cctz/src/time_zone_fixed.cc -o cctz/src/time_zone_fixed.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [cctz/src/time_zone_fixed.o] Error 127 (ignored)
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c cctz/src/time_zone_if.cc -o cctz/src/time_zone_if.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [cctz/src/time_zone_if.o] Error 127 (ignored)
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c cctz/src/time_zone_impl.cc -o cctz/src/time_zone_impl.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [cctz/src/time_zone_impl.o] Error 127 (ignored)
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c cctz/src/time_zone_info.cc -o cctz/src/time_zone_info.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [cctz/src/time_zone_info.o] Error 127 (ignored)
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c cctz/src/time_zone_libc.cc -o cctz/src/time_zone_libc.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [cctz/src/time_zone_libc.o] Error 127 (ignored)
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c cctz/src/time_zone_lookup.cc -o cctz/src/time_zone_lookup.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [cctz/src/time_zone_lookup.o] Error 127 (ignored)
I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I. -I./cctz/include/ -I./cctz/src/ -I/usr/local/include -I"/Users/Manasi/Library/R/3.2/library/Rcpp/include"      -c cctz/src/time_zone_posix.cc -o cctz/src/time_zone_posix.o
/bin/sh: I/Library/Frameworks/R.framework/Resources/include: No such file or directory
make: [cctz/src/time_zone_posix.o] Error 127 (ignored)
ar rcs libcctz.a ./cctz/src/time_zone_fixed.o ./cctz/src/time_zone_if.o ./cctz/src/time_zone_impl.o ./cctz/src/time_zone_info.o ./cctz/src/time_zone_libc.o ./cctz/src/time_zone_lookup.o ./cctz/src/time_zone_posix.o 
ar: ./cctz/src/time_zone_fixed.o: No such file or directory
ar: ./cctz/src/time_zone_if.o: No such file or directory
ar: ./cctz/src/time_zone_impl.o: No such file or directory
ar: ./cctz/src/time_zone_info.o: No such file or directory
ar: ./cctz/src/time_zone_libc.o: No such file or directory
ar: ./cctz/src/time_zone_lookup.o: No such file or directory
ar: ./cctz/src/time_zone_posix.o: No such file or directory
make: *** [libcctz.a] Error 1
ERROR: compilation failed for package ‘lubridate’
* removing ‘/Users/Manasi/Library/R/3.2/library/lubridate’
* restoring previous ‘/Users/Manasi/Library/R/3.2/library/lubridate’
Warning in install.packages :
  installation of package ‘lubridate’ had non-zero exit status
ERROR: dependency ‘rmarkdown’ is not available for package ‘reprex’
* removing ‘/Users/Manasi/Library/R/3.2/library/reprex’
Warning in install.packages :
  installation of package ‘reprex’ had non-zero exit status
ERROR: dependency ‘reprex’ is not available for package ‘tidyverse’
* removing ‘/Users/Manasi/Library/R/3.2/library/tidyverse’
Warning in install.packages :
  installation of package ‘tidyverse’ had non-zero exit status

The downloaded source packages are in
	‘/private/var/folders/gm/fknd6g856231bvh1fd9wmp500000gn/T/RtmplD7mNU/downloaded_packages’
> library(tidyverse)
Error in library(tidyverse) : there is no package called ‘tidyverse’

Manasi · October 2, 2019, 4:47pm

Here it is the full detail: Being a new member I wasn't allowed to reply yesterday!

andresrcs · October 2, 2019, 5:02pm

The first thing I'm going to advice you is to update your R version, the one you are using is pretty old, the current version is R 3.6.1, usually is easier to install packages on the latest versions.

Also, since you are trying to install packages from source and you are on a Mac system, make sure you have installed/updated xcode in your system

xcode-select --install

Finally, after checking on previous points, try installing again with this command

install.packages("tidyverse", dependencies = TRUE)

Manasi · October 2, 2019, 5:08pm

thanks a lot for the prompt response. will try and update

Manasi · October 2, 2019, 5:26pm

Thanks, just installing the latest version served the purpose.

system · October 9, 2019, 5:26pm

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