Just Emil Kirkegaard Things

Share this post

Installing VIM in R on Mint 17

www.emilkirkegaard.com

Installing VIM in R on Mint 17

Emil O. W. Kirkegaard
Feb 21, 2015
Share
Share this post

Installing VIM in R on Mint 17

www.emilkirkegaard.com

For data imputation, for simplicity I like to use single imputation instead of multiple imputation. This can easily be done with the VIM package using the irmi command. So, I tried to install VIM in R on Mint 17. However:

* installing *source* package ‘robustbase’ ...

** package ‘robustbase’ 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 -D_FORTIFY_SOURCE=2 -g  -c R-rng4ftn.c -o R-rng4ftn.o

gfortran   -fpic  -g -O2 -fstack-protector-strong  -c eigen.f -o eigen.o

/bin/bash: gfortran: command not found

make: *** [eigen.o] Error 127

ERROR: compilation failed for package ‘robustbase’

* removing ‘/home/lenovo/R/x86_64-pc-linux-gnu-library/3.1/robustbase’

Warning in install.packages :

installation of package ‘robustbase’ had non-zero exit status

* installing *source* package ‘vcd’ ...

** package ‘vcd’ successfully unpacked and MD5 sums checked

** R

** data

*** moving datasets to lazyload DB

** demo

** inst

** preparing package for lazy loading

** help

*** installing help indices

** building package indices

** installing vignettes

** testing if installed package can be loaded

* DONE (vcd)

ERROR: dependency ‘robustbase’ is not available for package ‘VIM’

* removing ‘/home/lenovo/R/x86_64-pc-linux-gnu-library/3.1/VIM’

Warning in install.packages :

installation of package ‘VIM’ had non-zero exit status

Now, for many packages, one has to use Synaptic Package Manager or equivalent (Software Manager, apt-get etc.) outside R to install R packages. I installed robustbase thru Synaptic and then tried to install in R again. However:

* installing *source* package ‘robustbase’ ...

** package ‘robustbase’ 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 -D_FORTIFY_SOURCE=2 -g  -c R-rng4ftn.c -o R-rng4ftn.o

gfortran   -fpic  -g -O2 -fstack-protector-strong  -c eigen.f -o eigen.o

/bin/bash: gfortran: command not found

make: *** [eigen.o] Error 127

ERROR: compilation failed for package ‘robustbase’

* removing ‘/home/lenovo/R/x86_64-pc-linux-gnu-library/3.1/robustbase’

Warning in install.packages :

installation of package ‘robustbase’ had non-zero exit status

There is a gforstran package in Synaptic, so I installed that. Then back to R and try to install robustbase again. But then:

/usr/bin/ld: cannot find -llapack

/usr/bin/ld: cannot find -lblas

collect2: error: ld returned 1 exit status

make: *** [robustbase.so] Error 1

ERROR: compilation failed for package ‘robustbase’

* removing ‘/home/lenovo/R/x86_64-pc-linux-gnu-library/3.1/robustbase’

Anyway, sometimes packages in R work despite some missing sub-sub dependencies, and it did in this case. For me. At this time. Using Linux is a new experience every time...

Share
Share this post

Installing VIM in R on Mint 17

www.emilkirkegaard.com
Comments
Top
New
Community

No posts

Ready for more?

© 2023 Emil O. W. Kirkegaard
Privacy ∙ Terms ∙ Collection notice
Start WritingGet the app
Substack is the home for great writing