[R] Installation problem with "geepack"

[Xianming Tan]

Hi there, 

I just installed the package under windows, and it works very well. However, as I tried to install it on a cluster which uses linux OS,

"Linux lionxc.aset.psu.edu 2.6.18-194.el5 #1 SMP Tue Mar 16 21:52:39 EDT 2010 x86_64 x86_64 x86_64 GNU/Linux"

I always failed.  The message during the installation process is as follows:

> install.packages("geepack")
Warning in install.packages("geepack") :
  argument 'lib' is missing: using '/gpfs/home/xzt1/work/my_Rlibs'
--- Please select a CRAN mirror for use in this session ---
CRAN mirror

Selection: 69
trying URL 'http://lib.stat.cmu.edu/R/CRAN/src/contrib/geepack_1.0-17.tar.gz'
Content type 'application/x-gzip' length 166195 bytes (162 Kb)
opened URL
==================================================
downloaded 162 Kb

* installing *source* package âgeepackâ ...
** libs
icpc -I/usr/global/R/2.11.0/lib64/R/include -I../inst/include -I/usr/local/include  -mp  -fpic  -g -O2 -c famstr.cc -o famstr.o
icpc: command line remark #10010: option '-mp' is deprecated and will be removed in a future release. See '-help deprecated'
../inst/include/tnt/vec.h(152): warning #858: type qualifier on return type is meaningless
      const iterator begin() const { return v_;}
      ^

../inst/include/tnt/vec.h(153): warning #858: type qualifier on return type is meaningless
      const iterator end() const  { return v_ + n_; }
      ^

icpc -I/usr/global/R/2.11.0/lib64/R/include -I../inst/include -I/usr/local/include  -mp  -fpic  -g -O2 -c gee2.cc -o gee2.o
icpc: command line remark #10010: option '-mp' is deprecated and will be removed in a future release. See '-help deprecated'
../inst/include/tnt/vec.h(152): warning #858: type qualifier on return type is meaningless
      const iterator begin() const { return v_;}
      ^

../inst/include/tnt/vec.h(153): warning #858: type qualifier on return type is meaningless
      const iterator end() const  { return v_ + n_; }
      ^

icpc -I/usr/global/R/2.11.0/lib64/R/include -I../inst/include -I/usr/local/include  -mp  -fpic  -g -O2 -c geesubs.cc -o geesubs.o
icpc: command line remark #10010: option '-mp' is deprecated and will be removed in a future release. See '-help deprecated'
../inst/include/tnt/vec.h(152): warning #858: type qualifier on return type is meaningless
      const iterator begin() const { return v_;}
      ^

../inst/include/tnt/vec.h(153): warning #858: type qualifier on return type is meaningless
      const iterator end() const  { return v_ + n_; }
      ^

icpc -I/usr/global/R/2.11.0/lib64/R/include -I../inst/include -I/usr/local/include  -mp  -fpic  -g -O2 -c inter.cc -o inter.o
icpc: command line remark #10010: option '-mp' is deprecated and will be removed in a future release. See '-help deprecated'
../inst/include/tnt/vec.h(152): warning #858: type qualifier on return type is meaningless
      const iterator begin() const { return v_;}
      ^

../inst/include/tnt/vec.h(153): warning #858: type qualifier on return type is meaningless
      const iterator end() const  { return v_ + n_; }
      ^

icpc -I/usr/global/R/2.11.0/lib64/R/include -I../inst/include -I/usr/local/include  -mp  -fpic  -g -O2 -c ordgee.cc -o ordgee.o
icpc: command line remark #10010: option '-mp' is deprecated and will be removed in a future release. See '-help deprecated'
../inst/include/tnt/vec.h(152): warning #858: type qualifier on return type is meaningless
      const iterator begin() const { return v_;}
      ^

../inst/include/tnt/vec.h(153): warning #858: type qualifier on return type is meaningless
      const iterator end() const  { return v_ + n_; }
      ^

icpc -I/usr/global/R/2.11.0/lib64/R/include -I../inst/include -I/usr/local/include  -mp  -fpic  -g -O2 -c param.cc -o param.o
icpc: command line remark #10010: option '-mp' is deprecated and will be removed in a future release. See '-help deprecated'
../inst/include/tnt/vec.h(152): warning #858: type qualifier on return type is meaningless
      const iterator begin() const { return v_;}
      ^

../inst/include/tnt/vec.h(153): warning #858: type qualifier on return type is meaningless
      const iterator end() const  { return v_ + n_; }
      ^

icpc -I/usr/global/R/2.11.0/lib64/R/include -I../inst/include -I/usr/local/include  -mp  -fpic  -g -O2 -c utils.cc -o utils.o
icpc: command line remark #10010: option '-mp' is deprecated and will be removed in a future release. See '-help deprecated'
../inst/include/tnt/vec.h(152): warning #858: type qualifier on return type is meaningless
      const iterator begin() const { return v_;}
      ^

../inst/include/tnt/vec.h(153): warning #858: type qualifier on return type is meaningless
      const iterator end() const  { return v_ + n_; }
      ^

icpc -shared -i-dynamic -mieee-fp -prec-div -O2 -axSSE2,SSE3,SSEE3,SSE4.1,SSE4.2,AVX -lpthread -o geepack.so famstr.o gee2.o geesubs.o inter.o ordgee.o param.o utils.o -L/usr/global/R/2.11.0/lib64/R/lib -lR -L/usr/global/hdf5/1.8.3/lib -Wl,-R/usr/global/hdf5/1.8.3/lib -lhdf5 -lhdf5_hl -lcurl
installing to /gpfs/work/xzt1/my_Rlibs/geepack/libs
** R
** data
** inst
** preparing package for lazy loading
Loading required package: survival
Loading required package: splines
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Error in dyn.load(file, DLLpath = DLLpath, ...) :
  unable to load shared library '/gpfs/work/xzt1/my_Rlibs/geepack/libs/geepack.so':
  /gpfs/work/xzt1/my_Rlibs/geepack/libs/geepack.so: undefined symbol: _Z5ValidIiEN3TNT6VectorIT_EERS3_RNS1_IiEE
ERROR: loading failed
* removing â/gpfs/work/xzt1/my_Rlibs/geepackâ

The downloaded packages are in
        â/tmp/RtmpMofDLd/downloaded_packagesâ
Warning message:
In install.packages("geepack") :
  installation of package 'geepack' had non-zero exit status



Any suggestions are welcome.

Thanks!