[R-SIG-Mac] Build error - not sure where to look

[Ben Madin]

G'day all,

this is hopefully straightforward, but I'm not sure where to look.

I am trying to build the surveillance package (which is excluded from the binaries because of a memory problem). I have successfully built it previously on Snow Leopard, but I have recently upgraded to Lion (7.3). I have installed the developer tools and the gfortran from r.research.att.com

When I use the GUI it gets this far :

* installing *source* package ‘surveillance’ ...
** package ‘surveillance’ successfully unpacked and MD5 sums checked
** Creating default NAMESPACE file
** libs
*** arch - i386
sh: make: command not found
ERROR: compilation failed for package ‘surveillance’

> sessionInfo()
R version 2.14.1 Patched (2012-02-16 r58370)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)

locale:
[1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_AU.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     


thinking that this might be an architecture issue (I'm in R64 and it's trying to build -386) I try from the command line using --no-multiarch, but it fails saying no such file or directory (output below). Knowing just enough to be dangerous, I think that it means the lines in the src file stcd-assuncaocorea.h :

#include <list>
#include <valarray>

are trying to include some sort of resource (library?), but not looking in the right place. This being the case, I'm not sure how to direct it to the right place, nor where that place is. 

If I'm correct, can someone please help me with this?

cheers

Ben



$ R CMD INSTALL --no-multiarch --build -d surveillance_1.2-1.tar.gz 
processing ‘surveillance_1.2-1.tar.gz’
a file
* installing to library ‘/Library/Frameworks/R.framework/Versions/2.14/Resources/library’
* build_help_types=
* DBG: 'R CMD INSTALL' now doing do_install()
* created lock directory ‘/Library/Frameworks/R.framework/Versions/2.14/Resources/library/00LOCK-surveillance’
* installing *source* package ‘surveillance’ ...
** package ‘surveillance’ successfully unpacked and MD5 sums checked
** Creating default NAMESPACE file
** libs
*** arch - x86_64
about to run R CMD SHLIB -o surveillance.so stcd-assuncaocorrea.cc surveillance.c twins.cc
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64  -I/usr/local/include    -fPIC  -g -O2 -c stcd-assuncaocorrea.cc -o stcd-assuncaocorrea.o
In file included from stcd-assuncaocorrea.cc:8:
stcd-assuncaocorrea.h:14:16: error: list: No such file or directory
stcd-assuncaocorrea.h:15:20: error: valarray: No such file or directory
stcd-assuncaocorrea.cc:9:17: error: cmath: No such file or directory
stcd-assuncaocorrea.cc:10:20: error: iostream: No such file or directory
In file included from stcd-assuncaocorrea.cc:8:
stcd-assuncaocorrea.h:25: error: expected initializer before ‘<’ token
stcd-assuncaocorrea.h:33: error: ‘SVEventLst’ was not declared in this scope
stcd-assuncaocorrea.h:33: error: ‘ev’ was not declared in this scope
stcd-assuncaocorrea.h:34: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.h:34: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.h:35: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.h:35: error: expected primary-expression before ‘double’
stcd-assuncaocorrea.h:36: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.h:36: error: ‘valarray’ is not a member of ‘std’
stcd-assuncaocorrea.h:36: error: expected primary-expression before ‘double’
stcd-assuncaocorrea.h:36: error: initializer expression list treated as compound expression
stcd-assuncaocorrea.h:37: error: ‘SVEventLst’ was not declared in this scope
stcd-assuncaocorrea.h:37: error: ‘ev’ was not declared in this scope
stcd-assuncaocorrea.h:37: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.h:37: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.h:38: error: ‘valarray’ is not a member of ‘std’
stcd-assuncaocorrea.h:38: error: expected primary-expression before ‘double’
stcd-assuncaocorrea.h:38: error: expected primary-expression before ‘unsigned’
stcd-assuncaocorrea.h:38: error: initializer expression list treated as compound expression
stcd-assuncaocorrea.cc:61: error: redefinition of ‘int SistemadeVigilancia’
stcd-assuncaocorrea.h:33: error: ‘int SistemadeVigilancia’ previously defined here
stcd-assuncaocorrea.cc:61: error: ‘SVEventLst’ was not declared in this scope
stcd-assuncaocorrea.cc:61: error: ‘ev’ was not declared in this scope
stcd-assuncaocorrea.cc:62: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.cc:62: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.cc:63: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.cc:63: error: expected primary-expression before ‘double’
stcd-assuncaocorrea.cc:64: error: expected primary-expression before ‘const’
stcd-assuncaocorrea.cc:64: error: ‘valarray’ is not a member of ‘std’
stcd-assuncaocorrea.cc:64: error: expected primary-expression before ‘double’
make: *** [stcd-assuncaocorrea.o] Error 1
ERROR: compilation failed for package ‘surveillance’
* removing ‘/Library/Frameworks/R.framework/Versions/2.14/Resources/library/surveillance’