[R] Trouble with Installing R Package gsl

[Uwe Ligges]

Looking at the gsl code suggest you can set environmant variables that 
are used by configure, hence setting

GSL_CFLAGS = -I/data1/zhucai/local/gsl/include
GSL_LIBS   = -L/data1/zhucai/local/gsl/lib -lgsl -lgslcblas

before  R CMD INSTALL  should do the trick (untested).

Uwe Ligges



On 24.07.2012 11:36, cai zhu wrote:
> Dear R users:
>
> I have a problem when installing the R package *gsl*. The procedure is as
> follows:
>
> (1) Since it needs a GSL vesion >=1.12, and the GSL library on the serve I
> use is too old, I download GSL 1.15 and install it in my own account, such
> as $HOME/local/gsl.  Because I do not have root access, so it cannot be
> installed in standard folder.
>
> (2) Then I download the source code of R pakage gsl, since I cannot use the
> command *export*, the solution in the package manual *PAGE 29-30* does not
> work for me. I use command as follows to install the package:
>
> R CMD INSTALL
> --configure-args="LDFLAGS=-L/data1/zhucai/local/gsl/lib;PKG_LIBS=-L/data1/zhucai/local/gsl/lib;PKG_CPPFLAGS=-I/data1/zhucai/local/gsl/include"
> 'gsl_1.9-9.tar.gz'
>
> Then I can bypass the version check and  compile the package, however, the
> error message is as follows
>
> ** package ‘gsl’ successfully unpacked and MD5 sums checked
> checking for gsl-config... /usr/local/bin/gsl-config
> checking if GSL version >= 1.12... checking for gcc... gcc
> checking for C compiler default output file name... a.out
> checking whether the C compiler works... yes
> checking whether we are cross compiling... no
> checking for suffix of executables...
> checking for suffix of object files... o
> checking whether we are using the GNU C compiler... yes
> checking whether gcc accepts -g... yes
> checking for gcc option to accept ISO C89... none needed
> configure: error: Need GSL version >= 1.12
> ** libs
> .....compile
> installing to /data1/zhucai/local/R-2.15.1/library/gsl/libs
> ** R
> ** inst
> ** preparing package for lazy loading
> ** help
> *** installing help indices
> ** building package indices
> ** installing vignettes
>     ‘gslpaper.Rnw’
> ** testing if installed package can be loaded
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>    unable to load shared object
> '/data1/zhucai/local/R-2.15.1/library/gsl/libs/gsl.so':
>    libgsl.so.0: cannot open shared object file: No such file or directory
> Error: loading failed
> Execution halted
> ERROR: loading failed
> * removing ‘/data1/zhucai/local/R-2.15.1/library/gsl’
>
> I know it may be because LB_LIBRARY_PATH, but I cannot contract with
> administer easily and no right to modify it, so how can I do about it? BTW,
> the R I used is also installed locally in my own account, which is 2.15.1.
> Any help is appreciated. Thank you very much.
>
> Regards
>                     ZHU Cai
>
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>
>
>
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