On 2 September 2008 at 18:26, Robert Nuske wrote: | > I may have seen that one problem mentioned earlier to the list. | me to, but can't find it now | | > The location of R's include files is seemingly a bit too exotic for the | > disutils script. | they were placed there by the debian package
Yes, as we were once asked / forced to place architecture-independent files below /usr/share/ | > The setup.py script expects them to be in ${RHOME}/include | > (RHOME being the outcome of running 'R RHOME'). | | by googeling R_INCLUDE_DIR I found that it is not recommended to rely on | ${RHOME}/include | | eg. | http://www.nabble.com/Bug-354775%3A-r-base-core%3A-R-CMD-config-doesn%27t-reflect-new-file-locations-tp3175446p3175720.html It works always everywhere but alas not on Debian. | > There is currently no other way around that than either | > - edit setup.py | > - copy or link the headers. | | one way to get the include dirs | R CMD echo $R_INCLUDE_DIR For rpy (v1) it works out-of-the-box on all Debian systems. But as I recall that may have taken Greg and myself a few iterations over setup.py. I'm sure we can achieve the same for rpy v2, I just haven't gotten to it yet. | but the recommed way of finding the include dirs seems to be: | R CMD config --cppflags | | on my system this returns | -I/usr/share/R/include -I/usr/share/R/include | | but I can't use it with get_rconfig, since get_rconfig checks for -l/-L and | raises an ecxecption otherwise, more or less | | | If I hardcode the include dir in setup.py it finds the headers, but stops | with: | | [EMAIL PROTECTED]:/usr/local/src/rpy_nextgen$ python setup.py install | running install | running build | running build_py | running build_ext | building 'rpy2.rinterface.rinterface' extension | gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions | build/temp.linux-i686-2.5/rpy/rinterface/array.o | build/temp.linux-i686-2.5/rpy/rinterface/r_utils.o | build/temp.linux-i686-2.5/rpy/rinterface/rinterface.o -L/usr/lib/R/lib -L/usr/lib/R/modules -Wl,-R/usr/lib/R/lib -Wl,-R/usr/lib/R/modules -lR -lRlapack -lRblas -o | build/lib.linux-i686-2.5/rpy2/rinterface/rinterface.so -L/usr/lib/R/lib -lR -llapack -lblas | /usr/bin/ld: cannot find -lRlapack | collect2: ld returned 1 exit status | error: command 'gcc' failed with exit status 1 Similarly, prior to the new gfortran-built liblapack / libblas / libatlas packages, we used to build R with its copy of Lapack --- hence -lRlapack. Since last winter, however, we have newer / better lapack libs and no longer use R's lapack source --- hence now [EMAIL PROTECTED]:~> R CMD config --ldflags -L/usr/lib/R/lib -lR [EMAIL PROTECTED]:~> R CMD config LAPACK_LIBS -llapack [EMAIL PROTECTED]:~> Hth, Dirk -- Three out of two people have difficulties with fractions. ------------------------------------------------------------------------- This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK & win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/ _______________________________________________ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list