I am writing an R package to interface to hdf5 files (yes I know one exists, the issue will be demonstrated using that package). I tend to like to build/install things locally so that aspects of the system I am working on don't cause problems later when attempting to install elsewhere. To this end, I build and install the hdf5 libraries w/out incident:
tar xzf hdf5-1.8.4.tar.bz2 cd hdf5-1.8.4 ./configure --prefix=/home/jbullard/scratch/hdf5_install make && make install Now, I make a shared object using the following (I am compiling hdf5.c directly in src of the hdf5 package): gcc -I/home/jbullard/projects/me/R-builder/lib64/R/include -I/home/jbullard/scratch/hdf5_install/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -c hdf5.c -o hdf5.o gcc -shared -L/usr/local/lib64 -o hdf5.so hdf5.o -L/home/jbullard/scratch/hdf5_install/lib -lhdf5 -lz -lm -L/home/jbullard/projects/me/R-builder/lib64/R/lib -lR I then start R and get the following error: Error in dyn.load("hdf5.so") : unable to load shared library '/home/jbullard/scratch/hdf5/src/hdf5.so': libhdf5.so.6: cannot open shared object file: No such file or directory The solution is set LD_LIBRARY_PATH to /home/jbullard/scratch/hdf5_install/lib Then things work just fine. However, I dislike this option -- Is there any other way which things can be orchestrated completely at package install time? I don't want to go editing any files in the R installation; more like an option to append something to R's LD_LIBRARY_PATH w/in the Makevars.in of the package being installed (in this case, hdf5)? Details of platform below. As always, thanks in advance. jim R version 2.11.0 Under development (unstable) (2010-02-08 r51110) x86_64-unknown-linux-gnu locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=C LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base HDF5 Version 1.8.4 R hdf5 package: hdf5_1.6.9.tar.gz Linux mp-1246 2.6.31-19-generic #56-Ubuntu SMP Thu Jan 28 02:39:34 UTC 2010 x86_64 GNU/Linux ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel