I can't install packaged Xgboost

Posit Professional & Hosted Products Posit Cloud
1 
> install.packages("xgboost", dependencies = FALSE)
Installing package into ‘/home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.4’
(as ‘lib’ is unspecified)
trying URL 'http://package-proxy/src/contrib/xgboost_0.71.2.tar.gz'
Content type 'application/gzip' length 762532 bytes (744 KB)
==================================================
downloaded 744 KB

* installing *source* package ‘xgboost’ ...
** package ‘xgboost’ successfully unpacked and MD5 sums checked
configure: creating ./config.status
config.status: creating src/Makevars
** libs
Makevars:17: -DXGBOOST_STRICT_R_MODE=1
Makevars:17: -DDMLC_LOG_BEFORE_THROW=0
Makevars:17: -DDMLC_ENABLE_STD_THREAD=0
Makevars:17: -DDMLC_DISABLE_STDIN=1
Makevars:17: -DDMLC_LOG_CUSTOMIZE=1
Makevars:17: -DXGBOOST_CUSTOMIZE_LOGGER=1
Makevars:17: -DRABIT_CUSTOMIZE_MSG_
Makevars:17: -DRABIT_STRICT_CXX98_
g++ -std=gnu++11 -I/opt/R/3.4.4/lib/R/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_  -I/usr/local/include  -fopenmp  -fpic  -g -O2 -c xgboost_R.cc -o xgboost_R.o
g++ -std=gnu++11 -I/opt/R/3.4.4/lib/R/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_  -I/usr/local/include  -fopenmp  -fpic  -g -O2 -c xgboost_custom.cc -o xgboost_custom.o
gcc -I/opt/R/3.4.4/lib/R/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_  -I/usr/local/include   -fpic  -g -O2  -c xgboost_assert.c -o xgboost_assert.o
gcc -I/opt/R/3.4.4/lib/R/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_  -I/usr/local/include   -fpic  -g -O2  -c init.c -o init.o
g++ -std=gnu++11 -I/opt/R/3.4.4/lib/R/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_  -I/usr/local/include  -fopenmp  -fpic  -g -O2 -c amalgamation/xgboost-all0.cc -o amalgamation/xgboost-all0.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-5/README.Bugs> for instructions.
make: *** [amalgamation/xgboost-all0.o] Error 4
/opt/R/3.4.4/lib/R/etc/Makeconf:166: recipe for target 'amalgamation/xgboost-all0.o' failed
ERROR: compilation failed for package ‘xgboost’
* removing ‘/home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.4/xgboost’
Warning in install.packages :
  installation of package ‘xgboost’ had non-zero exit status

The downloaded source packages are in
	‘/tmp/RtmpSIrIQi/downloaded_packages’
2

As @josh points out in this thread, the g++: internal compiler error: Killed (program cc1plus) suggests you're out of memory.

1 Like
3

I have built and cached xgboost.

2 Likes
4

A post was split to a new topic: If Rstudio hasn't built and cached a package you may not be able to install it?