On 08/30/2012 02:24 PM, Douglas Bates wrote:
But the RcppEigen package should not access Eigen 3.1.1 headers other
than the ones that it provides. Yes, in a sane world we would be able
to install Debian packages of libraries like Eigen 3.1.1, Suitesparse,
etc. and access the code from an R package. However doing so in a
portable way is quite nontrivial. The Rcpp and RcppEigen packages
provide their own header files in the inst/include subdirectory of the
source package which becomes the include subdirectory of the
installed package. Packages that use these headers should have
"LinkingTo: Rcpp, RcppEigen" in their DESCRIPTION file so that these
header files are found.
So RcppEigen should be completely separate from any Eigen or
Suitesparse packages that you have installed on your machine. If your
code is accessing the system Eigen or Suitesparse libraries it will
all blow up, in the way you have described. Your code should have the
line
#include<RcppEigen.h>
and nothing else related to Eigen or Suitesparse.
This is all assuming that I haven't accidentally left a line referring
to cholmod.h in the RcppEigen include files.
Dear Doug:
I think I understand all that. But, I am not intentionally co-mingling
sources. For example, this is what I see when I try to install
RcppEigen from source ...
# R CMD INSTALL RcppEigen_0.3.1.tar.gz
* installing to library '/opt/local/lib64/R/library'
* installing *source* package 'RcppEigen' ...
** package 'RcppEigen' successfully unpacked and MD5 sums checked
** libs
g++ -I/opt/local/lib64/R/include -I/opt/local/include
-I"/opt/local/lib64/R/library/Rcpp/include" -I../inst/include -fpic -g
-c RcppEigen.cpp -o RcppEigen.o
In file included from ../inst/include/RcppEigenForward.h:31,
from ../inst/include/RcppEigen.h:25,
from RcppEigen.cpp:22:
/opt/local/include/Eigen/CholmodSupport:9:23: error: cholmod.h: No such
file or directory
Something is pulling in the Eigen header file
/opt/local/include/Eigen/CholmodSupport
--
Rodney Sparapani, PhD Center for Patient Care and Outcomes Research
Sr. Biostatistician http://www.mcw.edu/pcor
4 wheels good, 2 wheels better! Medical College of Wisconsin (MCW)
WWLD?: What Would Lombardi Do? Milwaukee, WI, USA
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