R help - Jul 2016 - gsl package installation problem: gsl-config not found (even though gsl has been installed)

Dear R-community,

I faced this problem when I tried to install the R gsl wrapper in my
university's HPC cluster. Before installing the R wrapper, I have already
installed the 'gsl' version 2.1 in my own directory
'/home/pyangac/dev'. I
have tested the gsl installation by compiling the simple program in the gsl
manual (
https://www.gnu.org/software/gsl/manual/html_node/An-Example-Program.html#An-Example-Program
).

After this, I followed the steps in page 30 of the R package's document (
https://cran.r-project.org/web/packages/gsl/gsl.pdf) to install the package
(I didn't do step 3 because I really don't know how to do it, and by
looking at the solutions posted online, nobody had done step 3):

$ /home/pyangac/dev/bin/gsl-config --libs
-L/home/pyangac/dev/lib -lgsl -lgslcblas -lm

$ /home/pyangac/dev/bin/gsl-config --cflags
-I/home/pyangac/dev/include

$ LDFLAGS="-L/home/pyangac/dev/lib -lgsl -lgslcblas -lm"; export
LDFLAGS
$ CPPFALGS="-I/home/pyangac/dev/include"; export CPPFLAGS

$ R CMD INSTALL '/home/pyangac/gsl_1.9-10.1.tar.gz'
* installing to library '/home/pyangac/R_libs'
* installing *source* package 'gsl' ...
** package 'gsl' successfully unpacked and MD5 sums checked
checking for gsl-config... no
configure: error: gsl-config not found, is GSL installed?
ERROR: configuration failed for package 'gsl'
* removing '/home/pyangac/R_libs/gsl'

Does anyone know why this is happening? Is it because I have not go through
step 3?

Your generous help and assistance will be highly appreciated.

Best regards,
Pan

	[[alternative HTML version deleted]]

Dear Pan Yang,

pan yang <hippolionforlily at gmail.com> writes:
> Dear R-community,
>
> I faced this problem when I tried to install the R gsl wrapper in my
> university's HPC cluster. Before installing the R wrapper, I have
already
> installed the 'gsl' version 2.1 in my own directory
'/home/pyangac/dev'. I
> have tested the gsl installation by compiling the simple program in the gsl
> manual (
>
https://www.gnu.org/software/gsl/manual/html_node/An-Example-Program.html#An-Example-Program
> ).
>
> After this, I followed the steps in page 30 of the R package's document
(
> https://cran.r-project.org/web/packages/gsl/gsl.pdf) to install the package
> (I didn't do step 3 because I really don't know how to do it, and
by
> looking at the solutions posted online, nobody had done step 3):
>
> $ /home/pyangac/dev/bin/gsl-config --libs
> -L/home/pyangac/dev/lib -lgsl -lgslcblas -lm
>
> $ /home/pyangac/dev/bin/gsl-config --cflags
> -I/home/pyangac/dev/include
>
> $ LDFLAGS="-L/home/pyangac/dev/lib -lgsl -lgslcblas -lm"; export
LDFLAGS
> $ CPPFALGS="-I/home/pyangac/dev/include"; export CPPFLAGS
>
> $ R CMD INSTALL '/home/pyangac/gsl_1.9-10.1.tar.gz'
> * installing to library '/home/pyangac/R_libs'
> * installing *source* package 'gsl' ...
> ** package 'gsl' successfully unpacked and MD5 sums checked
> checking for gsl-config... no
> configure: error: gsl-config not found, is GSL installed?
> ERROR: configuration failed for package 'gsl'
> * removing '/home/pyangac/R_libs/gsl'
>
> Does anyone know why this is happening? Is it because I have not go through
> step 3?
>
> Your generous help and assistance will be highly appreciated.
>
> Best regards,
> Pan
As the 'configure' program fails to find your GSL configuration, then,
yes, you probably do need to do step 3.  Why don't you just try it out
and see whether it works?

Cheers,

Loris

-- 
This signature is currently under construction.

> $ /home/pyangac/dev/bin/gsl-config --libs
> -L/home/pyangac/dev/lib -lgsl -lgslcblas -lm
> 
> $ /home/pyangac/dev/bin/gsl-config --cflags
> -I/home/pyangac/dev/include
> 
> $ LDFLAGS="-L/home/pyangac/dev/lib -lgsl -lgslcblas -lm"; export
LDFLAGS
> $ CPPFALGS="-I/home/pyangac/dev/include"; export CPPFLAGS
> 
> $ R CMD INSTALL '/home/pyangac/gsl_1.9-10.1.tar.gz'
> * installing to library '/home/pyangac/R_libs'
> * installing *source* package 'gsl' ...
> ** package 'gsl' successfully unpacked and MD5 sums checked
> checking for gsl-config... no
> configure: error: gsl-config not found, is GSL installed?
> ERROR: configuration failed for package 'gsl'
> * removing '/home/pyangac/R_libs/gsl'
> 
> Does anyone know why this is happening? Is it because I have not go through
> step 3?
> 
Similar solution to your 3th step, if gsl was installed to different location,
is to run R with flags and install gsl. Perhaps this helps you build gsl package
without touching source.

CFLAGS="-I/usr/local/opt/gsl/include"
LDFLAGS="-L/usr/local/opt/gsl/lib -lgsl -lgslcblas" R
...
> install.packages("gsl?)
Please, see [1] for more details:

1- http://stackoverflow.com/questions/24781125/installing-r-gsl-package-on-mac