Hello, I have difficulties in finding why I cannot load a custom R package in Linux (Suse 10). When I run R CMD check for a package source folder I get the following message: "..... Error in dyn.load(file, ...) : unable to load shared library '/home/yarz/projects/Riman/Riman.Rcheck/Riman/libs/Rimanlib.so': /home/yarz/projects/Riman/Riman.Rcheck/Riman/libs/Rimanlib.so: undefined symbol: immagnify Error in library(Riman) : .First.lib failed for 'Riman' Execution halted It looks like this package has a loading problem: see the messages for details. " The same message I get when I call library(Riman) inside R after installation of the package. The installation via R CMD INSTALL caused no error messages. However, Riman.so had been built before R CMD INSTALL was called, and put into the source subfolder Riman/inst/libs. It was built via a usual gcc call and linked with all the necessary libraries (so it is weird that references seemed to be undefined). The strange thing is that when I borrow Riman.so built by some other person in my group and replace my copy with it, loading problem disappears! We both use the same server with Linux Suse 10, the same R installation, the same version of gcc and the same Makefiles for building Riman.so . We went through variables I might have omitted to set correctly, but they seemed OK. If you could give me any hint on what might be a problem, where else to look, I would be very happy. Many thanks in advance. Regards, Yulia
package has a loading problem
3 messages · Yulia Arzhaeva, Mathieu Ribatet
Have you create a zzz.R file in the R folder? I think your issue is
related to this...
Example of the zzz.R file:
".First.lib" <-
function(lib, pkg)
{
library.dynam("your_pkd_name", package = pkg, lib.loc = lib)
return(invisible(0))
}
This is required when you have C/Fortran code. See the writing R
extension manual.
Best,
Mathieu
Yulia Arzhaeva a ?crit :
Hello, I have difficulties in finding why I cannot load a custom R package in Linux (Suse 10). When I run R CMD check for a package source folder I get the following message: "..... Error in dyn.load(file, ...) : unable to load shared library '/home/yarz/projects/Riman/Riman.Rcheck/Riman/libs/Rimanlib.so': /home/yarz/projects/Riman/Riman.Rcheck/Riman/libs/Rimanlib.so: undefined symbol: immagnify Error in library(Riman) : .First.lib failed for 'Riman' Execution halted It looks like this package has a loading problem: see the messages for details. " The same message I get when I call library(Riman) inside R after installation of the package. The installation via R CMD INSTALL caused no error messages. However, Riman.so had been built before R CMD INSTALL was called, and put into the source subfolder Riman/inst/libs. It was built via a usual gcc call and linked with all the necessary libraries (so it is weird that references seemed to be undefined). The strange thing is that when I borrow Riman.so built by some other person in my group and replace my copy with it, loading problem disappears! We both use the same server with Linux Suse 10, the same R installation, the same version of gcc and the same Makefiles for building Riman.so . We went through variables I might have omitted to set correctly, but they seemed OK. If you could give me any hint on what might be a problem, where else to look, I would be very happy. Many thanks in advance. Regards, Yulia
______________________________________________ R-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Institute of Mathematics Ecole Polytechnique F?d?rale de Lausanne STAT-IMA-FSB-EPFL, Station 8 CH-1015 Lausanne Switzerland http://stat.epfl.ch/ Tel: + 41 (0)21 693 7907
Hi, Yes I have this file already. Yulia On Thu, Jul 10, 2008 at 6:47 PM, Mathieu Ribatet
<mathieu.ribatet at epfl.ch> wrote:
Have you create a zzz.R file in the R folder? I think your issue is related
to this...
Example of the zzz.R file:
".First.lib" <-
function(lib, pkg)
{
library.dynam("your_pkd_name", package = pkg, lib.loc = lib)
return(invisible(0))
}
This is required when you have C/Fortran code. See the writing R extension
manual.
Best,
Mathieu
Yulia Arzhaeva a ?crit :
Hello, I have difficulties in finding why I cannot load a custom R package in Linux (Suse 10). When I run R CMD check for a package source folder I get the following message: "..... Error in dyn.load(file, ...) : unable to load shared library '/home/yarz/projects/Riman/Riman.Rcheck/Riman/libs/Rimanlib.so': /home/yarz/projects/Riman/Riman.Rcheck/Riman/libs/Rimanlib.so: undefined symbol: immagnify Error in library(Riman) : .First.lib failed for 'Riman' Execution halted It looks like this package has a loading problem: see the messages for details. " The same message I get when I call library(Riman) inside R after installation of the package. The installation via R CMD INSTALL caused no error messages. However, Riman.so had been built before R CMD INSTALL was called, and put into the source subfolder Riman/inst/libs. It was built via a usual gcc call and linked with all the necessary libraries (so it is weird that references seemed to be undefined). The strange thing is that when I borrow Riman.so built by some other person in my group and replace my copy with it, loading problem disappears! We both use the same server with Linux Suse 10, the same R installation, the same version of gcc and the same Makefiles for building Riman.so . We went through variables I might have omitted to set correctly, but they seemed OK. If you could give me any hint on what might be a problem, where else to look, I would be very happy. Many thanks in advance. Regards, Yulia
______________________________________________ R-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
-- Institute of Mathematics Ecole Polytechnique F?d?rale de Lausanne STAT-IMA-FSB-EPFL, Station 8 CH-1015 Lausanne Switzerland http://stat.epfl.ch/ Tel: + 41 (0)21 693 7907