[R] How to install Tidyverse on Ubuntu 17.04? Getting gcc errors for -fstack-protector-strong and -Wdate-time

Thu Aug 17 17:25:34 CEST 2017

Note also that this is not the best place to ask questions about
installation on Ubuntu -- please post any future Ubuntu-specific
questions to the r-sig-debian mailing list. Subscription info at
https://stat.ethz.ch/mailman/listinfo/r-sig-debian

The tidyverse suite of packages gennerally installs just fine on Ubuntu Zesty.

How did you install R? If you didn't follow the instructions at
https://cran.r-project.org/bin/linux/ubuntu/ I suggest uninstalling
and re-installing as described there. Make sure you install
r-base-dev?

Ubuntu zesty comes with gcc6, which is fine for compiling R packages.
What does "gcc --version" say?

You will also need some additional dependencies, including
libxml2-dev, libcurl4-openssl-dev, and libssl-dev, according to
https://stackoverflow.com/questions/43592316/warning-in-install-packages-installation-of-package-tidyverse-had-non-zero-e#43649793

Best,
Ista

On Thu, Aug 17, 2017 at 5:26 AM, Jocelyn Ireson-Paine via R-help
<r-help at r-project.org> wrote:
> I'm running Ubuntu 17.04 and R 3.4.1. I installed the latter yesterday, so
> I presume it's the latest version. I want to install Tidyverse, which I've
> spent many happy hours with under Windows. But when I do
> install.packages("tidyverse") , I get errors about unrecognized command
> line options to gcc. These start when the install hits the colorspace and
> munsell packages. I'll show an example at the end of this post.
>
> I've not found anyone else who had exactly that problem on Ubuntu 17.04.
> But posts from people with similar problems suggest that my gcc might be a
> version that's too old to recognise the options -fstack-protector-strong
> and -Wdate-time.
>
> Possible work-arounds that I've thought of:
>
> 1) Find an older version of Tidyverse that doesn't need those compiler
> options.
>
> 2) Upgrade my Ubuntu's gcc so that whichever one Tidyverse needs becomes
> the default. But I don't know whether that would nuke other software on my
> machine that expects an older gcc. And I don't know exactly what software
> the installer expects, so I'd have to keep installing different gccs until
> I found one that worked.
>
> (A suggestion: it would be excellent if the installer could detect such
> errors, then fetch and install needed software for itself. If it can't do
> that, couldn't it at least tell me which version it wants, instead of
> making me deduce it from the compiler options it's using?)
>
> 3) Install a new gcc just for Tidyverse, and somehow play with paths to
> fool the installer into calling it. Perhaps by following the advice in
> https://askubuntu.com/questions/466651/how-do-i-use-the-latest-gcc-on-ubuntu
> . But that sounds risky.
>
> 4) Change operating systems? I know Tidyverse works on Windows straight out
> of the box. Maybe it's not designed to work on Ubuntu. Anyone know?
>
> Here's an install that failed:
> R version 3.4.1 (2017-06-30) -- "Single Candle"
> Copyright (C) 2017 The R Foundation for Statistical Computing
> Platform: x86_64-pc-linux-gnu (64-bit)
>
> R is free software and comes with ABSOLUTELY NO WARRANTY.
> You are welcome to redistribute it under certain conditions.
> Type 'license()' or 'licence()' for distribution details.
>
>   Natural language support but running in an English locale
>
> R is a collaborative project with many contributors.
> Type 'contributors()' for more information and
> 'citation()' on how to cite R or R packages in publications.
>
> Type 'demo()' for some demos, 'help()' for on-line help, or
> 'help.start()' for an HTML browser interface to help.
> Type 'q()' to quit R.
>
>> install.packages("tidyverse")
> Installing package into ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4’
> (as ‘lib’ is unspecified)
> also installing the dependencies ‘colorspace’, ‘munsell’, ‘plyr’, ‘psych’,
> ‘reshape2’, ‘bindrcpp’, ‘Rcpp’, ‘digest’, ‘scales’, ‘curl’, ‘openssl’,
> ‘cellranger’, ‘stringi’, ‘selectr’, ‘tidyselect’, ‘broom’, ‘dplyr’,
> ‘forcats’, ‘ggplot2’, ‘haven’, ‘httr’, ‘jsonlite’, ‘lubridate’, ‘modelr’,
> ‘purrr’, ‘readr’, ‘readxl’, ‘stringr’, ‘tibble’, ‘rvest’, ‘tidyr’, ‘xml2’
>
> trying URL 'https://cran.rstudio.com/src/contrib/colorspace_1.3-2.tar.gz'
> Content type 'application/x-gzip' length 293433 bytes (286 KB)
> ==================================================
> downloaded 286 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/munsell_0.4.3.tar.gz'
> Content type 'application/x-gzip' length 97244 bytes (94 KB)
> ==================================================
> downloaded 94 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/plyr_1.8.4.tar.gz'
> Content type 'application/x-gzip' length 392451 bytes (383 KB)
> ==================================================
> downloaded 383 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/psych_1.7.5.tar.gz'
> Content type 'application/x-gzip' length 3219737 bytes (3.1 MB)
> ==================================================
> downloaded 3.1 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/reshape2_1.4.2.tar.gz'
> Content type 'application/x-gzip' length 34688 bytes (33 KB)
> ==================================================
> downloaded 33 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/bindrcpp_0.2.tar.gz'
> Content type 'application/x-gzip' length 8089 bytes
> ==================================================
> downloaded 8089 bytes
>
> trying URL 'https://cran.rstudio.com/src/contrib/Rcpp_0.12.12.tar.gz'
> Content type 'application/x-gzip' length 2421289 bytes (2.3 MB)
> ==================================================
> downloaded 2.3 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/digest_0.6.12.tar.gz'
> Content type 'application/x-gzip' length 120337 bytes (117 KB)
> ==================================================
> downloaded 117 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/scales_0.4.1.tar.gz'
> Content type 'application/x-gzip' length 57703 bytes (56 KB)
> ==================================================
> downloaded 56 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/curl_2.8.1.tar.gz'
> Content type 'application/x-gzip' length 409743 bytes (400 KB)
> ==================================================
> downloaded 400 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/openssl_0.9.6.tar.gz'
> Content type 'application/x-gzip' length 1239339 bytes (1.2 MB)
> ==================================================
> downloaded 1.2 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/cellranger_1.1.0.tar.gz'
> Content type 'application/x-gzip' length 63857 bytes (62 KB)
> ==================================================
> downloaded 62 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/stringi_1.1.5.tar.gz'
> Content type 'application/x-gzip' length 3645872 bytes (3.5 MB)
> ==================================================
> downloaded 3.5 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/selectr_0.3-1.tar.gz'
> Content type 'application/x-gzip' length 42098 bytes (41 KB)
> ==================================================
> downloaded 41 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/tidyselect_0.1.1.tar.gz'
> Content type 'application/x-gzip' length 18670 bytes (18 KB)
> ==================================================
> downloaded 18 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/broom_0.4.2.tar.gz'
> Content type 'application/x-gzip' length 1388242 bytes (1.3 MB)
> ==================================================
> downloaded 1.3 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/dplyr_0.7.2.tar.gz'
> Content type 'application/x-gzip' length 692952 bytes (676 KB)
> ==================================================
> downloaded 676 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/forcats_0.2.0.tar.gz'
> Content type 'application/x-gzip' length 95288 bytes (93 KB)
> ==================================================
> downloaded 93 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/ggplot2_2.2.1.tar.gz'
> Content type 'application/x-gzip' length 2213308 bytes (2.1 MB)
> ==================================================
> downloaded 2.1 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/haven_1.1.0.tar.gz'
> Content type 'application/x-gzip' length 184056 bytes (179 KB)
> ==================================================
> downloaded 179 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/httr_1.3.0.tar.gz'
> Content type 'application/x-gzip' length 147567 bytes (144 KB)
> ==================================================
> downloaded 144 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/jsonlite_1.5.tar.gz'
> Content type 'application/x-gzip' length 1096810 bytes (1.0 MB)
> ==================================================
> downloaded 1.0 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/lubridate_1.6.0.tar.gz'
> Content type 'application/x-gzip' length 317672 bytes (310 KB)
> ==================================================
> downloaded 310 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/modelr_0.1.1.tar.gz'
> Content type 'application/x-gzip' length 83629 bytes (81 KB)
> ==================================================
> downloaded 81 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/purrr_0.2.3.tar.gz'
> Content type 'application/x-gzip' length 126170 bytes (123 KB)
> ==================================================
> downloaded 123 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/readr_1.1.1.tar.gz'
> Content type 'application/x-gzip' length 233793 bytes (228 KB)
> ==================================================
> downloaded 228 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/readxl_1.0.0.tar.gz'
> Content type 'application/x-gzip' length 1936302 bytes (1.8 MB)
> ==================================================
> downloaded 1.8 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/stringr_1.2.0.tar.gz'
> Content type 'application/x-gzip' length 94095 bytes (91 KB)
> ==================================================
> downloaded 91 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/tibble_1.3.3.tar.gz'
> Content type 'application/x-gzip' length 91511 bytes (89 KB)
> ==================================================
> downloaded 89 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/rvest_0.3.2.tar.gz'
> Content type 'application/x-gzip' length 1597137 bytes (1.5 MB)
> ==================================================
> downloaded 1.5 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/tidyr_0.7.0.tar.gz'
> Content type 'application/x-gzip' length 368687 bytes (360 KB)
> ==================================================
> downloaded 360 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/xml2_1.1.1.tar.gz'
> Content type 'application/x-gzip' length 244643 bytes (238 KB)
> ==================================================
> downloaded 238 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/tidyverse_1.1.1.tar.gz'
> Content type 'application/x-gzip' length 23452 bytes (22 KB)
> ==================================================
> downloaded 22 KB
>
> * installing *source* package ‘colorspace’ ...
> ** package ‘colorspace’ successfully unpacked and MD5 sums checked
> ** libs
> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG      -fpic  -g -O2
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -g  -c colorspace.c -o colorspace.o
> gcc: error: unrecognized command line option '-fstack-protector-strong'
> gcc: error: unrecognized command line option '-Wdate-time'
> /usr/lib/R/etc/Makeconf:159: recipe for target 'colorspace.o' failed
> make: *** [colorspace.o] Error 1
> ERROR: compilation failed for package ‘colorspace’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/colorspace’
> Warning in install.packages :
>   installation of package ‘colorspace’ had non-zero exit status
> * installing *source* package ‘psych’ ...
> ** package ‘psych’ successfully unpacked and MD5 sums checked
> ** R
> ** data
> *** moving datasets to lazyload DB
> ** inst
> ** preparing package for lazy loading
> Error : objects ‘rmnorm’, ‘sadmvn’, ‘dmnorm’ are not exported by
> 'namespace:mnormt'
> ERROR: lazy loading failed for package ‘psych’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/psych’
> Warning in install.packages :
>   installation of package ‘psych’ had non-zero exit status
> * installing *source* package ‘Rcpp’ ...
> ** package ‘Rcpp’ successfully unpacked and MD5 sums checked
> ** libs
> g++  -I/usr/share/R/include -DNDEBUG -I../inst/include/     -fpic  -g -O2
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -g  -c Date.cpp -o Date.o
> g++: error: unrecognized command line option '-fstack-protector-strong'
> g++: error: unrecognized command line option '-Wdate-time'
> /usr/lib/R/etc/Makeconf:168: recipe for target 'Date.o' failed
> make: *** [Date.o] Error 1
> ERROR: compilation failed for package ‘Rcpp’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/Rcpp’
> Warning in install.packages :
>   installation of package ‘Rcpp’ had non-zero exit status
> * installing *source* package ‘digest’ ...
> ** package ‘digest’ successfully unpacked and MD5 sums checked
> ** libs
> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG      -fpic  -g -O2
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -g  -c aes.c -o aes.o
> gcc: error: unrecognized command line option '-fstack-protector-strong'
> gcc: error: unrecognized command line option '-Wdate-time'
> /usr/lib/R/etc/Makeconf:159: recipe for target 'aes.o' failed
> make: *** [aes.o] Error 1
> ERROR: compilation failed for package ‘digest’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/digest’
> Warning in install.packages :
>   installation of package ‘digest’ had non-zero exit status
> * installing *source* package ‘curl’ ...
> ** package ‘curl’ successfully unpacked and MD5 sums checked
> Package libcurl was not found in the pkg-config search path.
> Perhaps you should add the directory containing `libcurl.pc'
> to the PKG_CONFIG_PATH environment variable
> No package 'libcurl' found
> Package libcurl was not found in the pkg-config search path.
> Perhaps you should add the directory containing `libcurl.pc'
> to the PKG_CONFIG_PATH environment variable
> No package 'libcurl' found
> Using PKG_CFLAGS=
> Using PKG_LIBS=-lcurl
> ------------------------- ANTICONF ERROR ---------------------------
> Configuration failed because libcurl was not found. Try installing:
>  * deb: libcurl4-openssl-dev (Debian, Ubuntu, etc)
>  * rpm: libcurl-devel (Fedora, CentOS, RHEL)
>  * csw: libcurl_dev (Solaris)
> If libcurl is already installed, check that 'pkg-config' is in your
> PATH and PKG_CONFIG_PATH contains a libcurl.pc file. If pkg-config
> is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
> R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
> --------------------------------------------------------------------
> ERROR: configuration failed for package ‘curl’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/curl’
> Warning in install.packages :
>   installation of package ‘curl’ had non-zero exit status
> * installing *source* package ‘openssl’ ...
> ** package ‘openssl’ successfully unpacked and MD5 sums checked
> Found pkg-config cflags and libs!
> Using PKG_CFLAGS=
> Using PKG_LIBS=-lssl -lcrypto
> ------------------------- ANTICONF ERROR ---------------------------
> Configuration failed because openssl was not found. Try installing:
>  * deb: libssl-dev (Debian, Ubuntu, etc)
>  * rpm: openssl-devel (Fedora, CentOS, RHEL)
>  * csw: libssl_dev (Solaris)
>  * brew: openssl at 1.1 (Mac OSX)
> If openssl is already installed, check that 'pkg-config' is in your
> PATH and PKG_CONFIG_PATH contains a openssl.pc file. If pkg-config
> is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
> R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
> --------------------------------------------------------------------
> ERROR: configuration failed for package ‘openssl’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/openssl’
> Warning in install.packages :
>   installation of package ‘openssl’ had non-zero exit status
> * installing *source* package ‘stringi’ ...
> ** package ‘stringi’ successfully unpacked and MD5 sums checked
> checking for local ICUDT_DIR... icu55/data
> checking for R_HOME... /usr/lib/R
> checking for R... /usr/lib/R/bin/R
> checking for R >= 3.1.0 for C++11 use... yes
> checking for R < 3.4.0 for CXX1X flag use... no
> checking for cat... /bin/cat
> checking for gcc... gcc -std=gnu99
> checking whether the C compiler works... no
> configure: error: in `/tmp/Rtmpu3553h/R.INSTALL28ffe0ce527/stringi':
> configure: error: C compiler cannot create executables
> See `config.log' for more details
> ERROR: configuration failed for package ‘stringi’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/stringi’
> Warning in install.packages :
>   installation of package ‘stringi’ had non-zero exit status
> * installing *source* package ‘jsonlite’ ...
> ** package ‘jsonlite’ successfully unpacked and MD5 sums checked
> ** libs
> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -Iyajl/api     -fpic  -g -O2
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -g  -c base64.c -o base64.o
> gcc: error: unrecognized command line option '-fstack-protector-strong'
> gcc: error: unrecognized command line option '-Wdate-time'
> /usr/lib/R/etc/Makeconf:159: recipe for target 'base64.o' failed
> make: *** [base64.o] Error 1
> ERROR: compilation failed for package ‘jsonlite’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/jsonlite’
> Warning in install.packages :
>   installation of package ‘jsonlite’ had non-zero exit status
> ERROR: dependency ‘colorspace’ is not available for package ‘munsell’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/munsell’
> Warning in install.packages :
>   installation of package ‘munsell’ had non-zero exit status
> ERROR: dependency ‘Rcpp’ is not available for package ‘plyr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/plyr’
> Warning in install.packages :
>   installation of package ‘plyr’ had non-zero exit status
> ERROR: dependency ‘Rcpp’ is not available for package ‘bindrcpp’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/bindrcpp’
> Warning in install.packages :
>   installation of package ‘bindrcpp’ had non-zero exit status
> ERROR: dependency ‘Rcpp’ is not available for package ‘tidyselect’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/tidyselect’
> Warning in install.packages :
>   installation of package ‘tidyselect’ had non-zero exit status
> ERROR: dependencies ‘jsonlite’, ‘curl’, ‘openssl’ are not available for
> package ‘httr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/httr’
> Warning in install.packages :
>   installation of package ‘httr’ had non-zero exit status
> ERROR: dependency ‘stringi’ is not available for package ‘stringr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/stringr’
> Warning in install.packages :
>   installation of package ‘stringr’ had non-zero exit status
> ERROR: dependency ‘Rcpp’ is not available for package ‘tibble’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/tibble’
> Warning in install.packages :
>   installation of package ‘tibble’ had non-zero exit status
> ERROR: dependency ‘Rcpp’ is not available for package ‘xml2’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/xml2’
> Warning in install.packages :
>   installation of package ‘xml2’ had non-zero exit status
> ERROR: dependencies ‘plyr’, ‘stringr’, ‘Rcpp’ are not available for package
> ‘reshape2’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/reshape2’
> Warning in install.packages :
>   installation of package ‘reshape2’ had non-zero exit status
> ERROR: dependencies ‘plyr’, ‘munsell’, ‘Rcpp’ are not available for package
> ‘scales’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/scales’
> Warning in install.packages :
>   installation of package ‘scales’ had non-zero exit status
> ERROR: dependency ‘tibble’ is not available for package ‘cellranger’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/cellranger’
> Warning in install.packages :
>   installation of package ‘cellranger’ had non-zero exit status
> ERROR: dependency ‘stringr’ is not available for package ‘selectr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/selectr’
> Warning in install.packages :
>   installation of package ‘selectr’ had non-zero exit status
> ERROR: dependencies ‘bindrcpp’, ‘Rcpp’, ‘tibble’ are not available for
> package ‘dplyr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/dplyr’
> Warning in install.packages :
>   installation of package ‘dplyr’ had non-zero exit status
> ERROR: dependency ‘tibble’ is not available for package ‘forcats’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/forcats’
> Warning in install.packages :
>   installation of package ‘forcats’ had non-zero exit status
> ERROR: dependency ‘stringr’ is not available for package ‘lubridate’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/lubridate’
> Warning in install.packages :
>   installation of package ‘lubridate’ had non-zero exit status
> ERROR: dependency ‘tibble’ is not available for package ‘purrr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/purrr’
> Warning in install.packages :
>   installation of package ‘purrr’ had non-zero exit status
> ERROR: dependencies ‘Rcpp’, ‘tibble’ are not available for package ‘readr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/readr’
> Warning in install.packages :
>   installation of package ‘readr’ had non-zero exit status
> ERROR: dependencies ‘digest’, ‘plyr’, ‘reshape2’, ‘scales’, ‘tibble’ are
> not available for package ‘ggplot2’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/ggplot2’
> Warning in install.packages :
>   installation of package ‘ggplot2’ had non-zero exit status
> ERROR: dependencies ‘Rcpp’, ‘readr’, ‘tibble’, ‘forcats’ are not available
> for package ‘haven’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/haven’
> Warning in install.packages :
>   installation of package ‘haven’ had non-zero exit status
> ERROR: dependencies ‘cellranger’, ‘Rcpp’, ‘tibble’ are not available for
> package ‘readxl’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/readxl’
> Warning in install.packages :
>   installation of package ‘readxl’ had non-zero exit status
> ERROR: dependencies ‘xml2’, ‘httr’, ‘selectr’ are not available for package
> ‘rvest’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/rvest’
> Warning in install.packages :
>   installation of package ‘rvest’ had non-zero exit status
> ERROR: dependencies ‘dplyr’, ‘purrr’, ‘Rcpp’, ‘stringi’, ‘tibble’,
> ‘tidyselect’ are not available for package ‘tidyr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/tidyr’
> Warning in install.packages :
>   installation of package ‘tidyr’ had non-zero exit status
> ERROR: dependencies ‘plyr’, ‘dplyr’, ‘tidyr’, ‘psych’, ‘stringr’,
> ‘reshape2’ are not available for package ‘broom’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/broom’
> Warning in install.packages :
>   installation of package ‘broom’ had non-zero exit status
> ERROR: dependencies ‘purrr’, ‘tibble’, ‘broom’, ‘dplyr’, ‘tidyr’ are not
> available for package ‘modelr’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/modelr’
> Warning in install.packages :
>   installation of package ‘modelr’ had non-zero exit status
> ERROR: dependencies ‘broom’, ‘dplyr’, ‘forcats’, ‘ggplot2’, ‘haven’,
> ‘httr’, ‘jsonlite’, ‘lubridate’, ‘modelr’, ‘purrr’, ‘readr’, ‘readxl’,
> ‘stringr’, ‘tibble’, ‘rvest’, ‘tidyr’, ‘xml2’ are not available for package
> ‘tidyverse’
> * removing ‘/home/popx/R/x86_64-pc-linux-gnu-library/3.4/tidyverse’
> Warning in install.packages :
>   installation of package ‘tidyverse’ had non-zero exit status
>
> The downloaded source packages are in
>     ‘/tmp/RtmplZrBGp/downloaded_packages’
> Warning message:
> R graphics engine version 12 is not supported by this version of RStudio.
> The Plots tab will be disabled until a newer version of RStudio is
> installed.
>> sessionInfo()
> R version 3.4.1 (2017-06-30)
> Platform: x86_64-pc-linux-gnu (64-bit)
> Running under: Ubuntu 17.04
>
> Matrix products: default
> BLAS: /usr/lib/libblas/libblas.so.3.7.0
> LAPACK: /usr/lib/lapack/liblapack.so.3.7.0
>
> locale:
>  [1] LC_CTYPE=en_GB.UTF-8       LC_NUMERIC=C
>  [3] LC_TIME=en_GB.UTF-8        LC_COLLATE=en_GB.UTF-8
>  [5] LC_MONETARY=en_GB.UTF-8    LC_MESSAGES=en_GB.UTF-8
>  [7] LC_PAPER=en_GB.UTF-8       LC_NAME=C
>  [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods
> [7] base
>
> loaded via a namespace (and not attached):
> [1] compiler_3.4.1 tools_3.4.1
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.