install with R 3.2

[kmezhoud]

Hi,
I am trying to install RcppEigen from Rstudio or R server with few RAM 512.
Thanks

Sys.info()
                                      sysname 
                                      "Linux" 
                                      release 
                          "3.13.0-57-generic" 
                                      version 
"#95-Ubuntu SMP Fri Jun 19 09:28:15 UTC 2015" 
                                     nodename 
                           "CancerPortal.org" 
                                      machine 
                                     "x86_64" 
                                        login 
                                   "kmezhoud" 
                                         user 
                                   "kmezhoud" 
                               effective_user 
                                   "kmezhoud"  

I found some trouble with "Setting LC_CTYPE failed, using "C"". I set

sudo defaults write org.R-project.R force.LANG en_US.UTF-8

kmezhoud@CancerPortal:~$ locale
locale: Cannot set LC_CTYPE to default locale: No such file or directory
locale: Cannot set LC_ALL to default locale: No such file or directory
LANG=en_US.UTF-8
LANGUAGE=
LC_CTYPE=UTF-8
LC_NUMERIC="en_US.UTF-8"
LC_TIME="en_US.UTF-8"
LC_COLLATE="en_US.UTF-8"
LC_MONETARY="en_US.UTF-8"
LC_MESSAGES="en_US.UTF-8"
LC_PAPER="en_US.UTF-8"
LC_NAME="en_US.UTF-8"
LC_ADDRESS="en_US.UTF-8"
LC_TELEPHONE="en_US.UTF-8"
LC_MEASUREMENT="en_US.UTF-8"
LC_IDENTIFICATION="en_US.UTF-8"
LC_ALL=

From git

install_github("RcppCore/RcppEigen")
Downloading GitHub repo RcppCore/RcppEigen@master
Installing RcppEigen
'/usr/lib/R/bin/R' --no-site-file --no-environ --no-save --no-restore CMD  \
  INSTALL '/tmp/Rtmpe7EGOC/devtools49ce5d7ba19/RcppCore-RcppEigen-2104c36'  \
  --library='/home/kmezhoud/R/x86_64-pc-linux-gnu-library/3.2'  \
  --install-tests 

During startup - Warning message:
Setting LC_CTYPE failed, using "C" 
* installing *source* package 'RcppEigen' ...
** libs
g++ -I/usr/share/R/include -DNDEBUG   -I"/usr/local/lib/R/site-library/Rcpp/include"  -I../inst/include -fpic  -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g  -c RcppEigen.cpp -o RcppEigen.o
g++ -I/usr/share/R/include -DNDEBUG   -I"/usr/local/lib/R/site-library/Rcpp/include"  -I../inst/include -fpic  -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g  -c RcppExports.cpp -o RcppExports.o
g++ -I/usr/share/R/include -DNDEBUG   -I"/usr/local/lib/R/site-library/Rcpp/include"  -I../inst/include -fpic  -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g  -c fastLm.cpp -o fastLm.o
g++: internal compiler error: Killed (program cc1plus)
Please submit a full bug report,
with preprocessed source if appropriate.
See <file:///usr/share/doc/gcc-4.8/README.Bugs> for instructions.
make: *** [fastLm.o] Error 4
ERROR: compilation failed for package 'RcppEigen'
* removing '/home/kmezhoud/R/x86_64-pc-linux-gnu-library/3.2/RcppEigen'
Error: Command failed (1)

From cran

> install.packages("RcppEigen")
Installing package into ‘/home/kmezhoud/R/x86_64-pc-linux-gnu-library/3.2’
(as ‘lib’ is unspecified)
--2015-11-01 07:02:58--  https://cran.rstudio.com/src/contrib/RcppEigen_0.3.2.5.1.tar.gz
Resolving cran.rstudio.com (cran.rstudio.com)... 54.230.184.187
Connecting to cran.rstudio.com (cran.rstudio.com)|54.230.184.187|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 1235892 (1.2M) [application/x-gzip]
Saving to: ‘/tmp/RtmpRJfZ0o/downloaded_packages/RcppEigen_0.3.2.5.1.tar.gz’

     0K .......... .......... .......... .......... ..........  4% 4.28M 0s
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  1200K ......                                                100%  111M=0.2s

2015-11-01 07:02:58 (7.75 MB/s) - ‘/tmp/RtmpRJfZ0o/downloaded_packages/RcppEigen_0.3.2.5.1.tar.gz’ saved [1235892/1235892]

* installing *source* package ‘RcppEigen’ ...
** package ‘RcppEigen’ successfully unpacked and MD5 sums checked
** libs
g++ -I/usr/share/R/include -DNDEBUG   -I"/usr/local/lib/R/site-library/Rcpp/include"  -I../inst/include -fpic  -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g  -c RcppEigen.cpp -o RcppEigen.o
g++ -I/usr/share/R/include -DNDEBUG   -I"/usr/local/lib/R/site-library/Rcpp/include"  -I../inst/include -fpic  -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g  -c RcppExports.cpp -o RcppExports.o
g++ -I/usr/share/R/include -DNDEBUG   -I"/usr/local/lib/R/site-library/Rcpp/include"  -I../inst/include -fpic  -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g  -c fastLm.cpp -o fastLm.o
g++: internal compiler error: Killed (program cc1plus)
Please submit a full bug report,
with preprocessed source if appropriate.
See <file:///usr/share/doc/gcc-4.8/README.Bugs> for instructions.
make: *** [fastLm.o] Error 4
ERROR: compilation failed for package ‘RcppEigen’
* removing ‘/home/kmezhoud/R/x86_64-pc-linux-gnu-library/3.2/RcppEigen’
Warning in install.packages :
  installation of package ‘RcppEigen’ had non-zero exit status

[eddelbuettel]

You cannot do that. You need more RAM. C++ is somewhat hungry for it, templates even more so, and Rcpp and Eigen have lots of the latter.

[eddelbuettel]

PS You also do NOT need to do it as there is a package you can install with sudo apt-get install r-cran-rcppeigen. That will fit onto 512mb of RAM. Not sure how much compilation you'll be able to afterwards though...

[kmezhoud]

Thanks @eddelbuettel
I installed the package with this way.

[levinyi]

how to install RcppEigen by yum？Im not in ubuntu.