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
gsl package installation problem: gsl-config not found (even though gsl has been installed)
3 messages · pan yang, Loris Bennett, Ismail SEZEN
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
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$ /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