Hi.
On all of my machines, except for a netbook cursed with the GMA500
chipset, the R packages are synced to lenny-cran.
I have been using rpy in a chroot using the official lenny
R packages (2.7.1) given that i have not been able to find
compatible rpy deb packages to work with lenny-cran.
I am able to build the rpy deb package from source in
a 32-bit lenny chroot (with the stock R packages) using
the following sequence
kolmogorov:/tmp$ sudo apt-get source python-rpy
kolmogorov:/tmp/rpy-1.0.3$ sudo apt-get build-dep python-rpy
kolmogorov:/tmp/rpy-1.0.3$ sudo dch -l local 'localrpy'
kolmogorov:/tmp/rpy-1.0.3$ sudo debuild -us -uc
I am running into problems when I am trying to build
the deb packages from source against the AMD64 lenny-cran
packages. Specifically the last step fails. It complains
about (among other things) not finding the R version.
This command seems to work
$ R --version
R version 2.11.0 (2010-04-22)
Copyright (C) 2010 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
I hope that this is an appropriate forum for seeking
help for building rpy against the lenny-cran R packages.
Sincerely,
Kouros
Kouros Owzar
Biostatistics and Bioinformatics
Duke University
kolmogorov:/tmp/rpy-1.0.3# debuild -us -uc
dpkg-buildpackage -rfakeroot -D -us -uc
dpkg-buildpackage: warning: using a gain-root-command while being root
dpkg-buildpackage: set CFLAGS to default value: -g -O2
dpkg-buildpackage: set CPPFLAGS to default value:
dpkg-buildpackage: set LDFLAGS to default value:
dpkg-buildpackage: set FFLAGS to default value: -g -O2
dpkg-buildpackage: set CXXFLAGS to default value: -g -O2
dpkg-buildpackage: source package rpy
dpkg-buildpackage: source version 1.0.3-2local1
dpkg-buildpackage: source changed by root <root at kolmogorov>
dpkg-buildpackage: host architecture amd64
fakeroot debian/rules clean
dh_testdir
dh_testroot
rm -f build-stamp configure-stamp
[ ! -f Makefile ] || /usr/bin/make distclean
(cd doc/ && make clean && rm -vf manual.pdf manual.info manual.dvi \
&& rm -vfr manual_html manual_html.tgz)
make[1]: Entering directory `/tmp/rpy-1.0.3/doc'
rm -f rpy.cp rpy.cps rpy.fn rpy.fns rpy.ky
rm -f rpy.kys rpy.log rpy.pg rpy.pgs rpy.tmp
rm -f rpy.toc rpy.tp rpy.tps rpy.vr rpy.vrs
rm -f rpy.aux
make[1]: Leaving directory `/tmp/rpy-1.0.3/doc'
for python in python2.4 python2.5; \
do $python setup.py clean; \
done
RHOMES= []
DEBUG= True
Setting RHOMES to ['/usr/lib64/R']
Traceback (most recent call last):
File "setup.py", line 109, in ?
RVERSION = rpy_tools.get_R_VERSION(RHOME, force_exec=True)
File "/tmp/rpy-1.0.3/rpy_tools.py", line 103, in get_R_VERSION
raise RuntimeError("Couldn't obtain version number from output\n"
RuntimeError: Couldn't obtain version number from output
of `R --version'.
RHOMES= []
DEBUG= True
Setting RHOMES to ['/usr/lib64/R']
Traceback (most recent call last):
File "setup.py", line 109, in <module>
RVERSION = rpy_tools.get_R_VERSION(RHOME, force_exec=True)
File "/tmp/rpy-1.0.3/rpy_tools.py", line 103, in get_R_VERSION
raise RuntimeError("Couldn't obtain version number from output\n"
RuntimeError: Couldn't obtain version number from output
of `R --version'.
make: *** [clean] Error 1
dpkg-buildpackage: failure: fakeroot debian/rules clean gave error exit
status 2
debuild: fatal error at line 1319:
dpkg-buildpackage -rfakeroot -D -us -uc failed