[R-sig-Geo] problem loading sp using Rpy (python)

[Jorge de Jesus]

Hi to all
I am working on Python and Rpy to make automatic interpolations. I need
to use the sp library of R.

When Rpy calls my R scripts it creates an error saying that the sp
package can't be loaded. But inside the R environment everything works ok.

When I removed sp and then reinstalled I got the following error:

trying URL
'http://rm.mirror.garr.it/mirrors/CRAN/src/contrib/sp_0.9-14.tar.gz'
Content type 'application/x-gzip' length 359180 bytes
opened URL
==================================================
downloaded 350Kb

* Installing *source* package 'sp' ...
** libs
Error in library.dynam(lib, package, package.lib) :
shared library 'sp' not found
In addition: Warning messages:
1: package 'sp' contains no R code in: loadNamespace(package,
c(which.lib.loc, lib.loc), keep.source = keep.source)
2: S3 methods ‘as.data.frame.SpatialPoints’,
‘as.data.frame.SpatialPixels’, ‘as.data.frame.SpatialGrid’,
‘as.data.frame.SpatialPointsDataFrame’,
‘as.data.frame.SpatialPixelsDataFrame’,
‘as.data.frame.SpatialGridDataFrame’,
‘as.data.frame.SpatialLinesDataFrame’,
‘as.data.frame.SpatialPolygonsDataFrame’, ‘as.data.frame.GridTopology’,
‘as.matrix.SpatialGridDataFrame’, ‘as.matrix.SpatialPixelsDataFrame’,
‘cbind.SpatialGridDataFrame’, ‘contour.SpatialPixelsDataFrame’,
‘contour.SpatialGridDataFrame’, ‘dim.SpatialPointsDataFrame’,
‘image.SpatialPixelsDataFrame’, ‘image.SpatialGridDataFrame’,
‘lines.Line’, ‘lines.Lines’, ‘lines.SpatialLines’,
‘lines.SpatialLinesDataFrame’, ‘names.SpatialPointsDataFrame’,
‘names.SpatialPixelsDataFrame’, ‘names.SpatialGridDataFrame’,
‘names.SpatialLinesDataFrame’, ‘names.SpatialPolygonsDataFrame’,
‘names<-.SpatialPointsDataFrame’, ‘names<-.SpatialPolygonsDa [... truncated]
During startup - Warning message:
package sp in options("defaultPackages") was not found
gcc -std=gnu99 -I/usr/local/lib/R/include -I/usr/local/lib/R/include
-I/usr/local/include -fpic -g -O2 -c gcdist.c -o gcdist.o
gcc -std=gnu99 -I/usr/local/lib/R/include -I/usr/local/lib/R/include
-I/usr/local/include -fpic -g -O2 -c init.c -o init.o
gcc -std=gnu99 -I/usr/local/lib/R/include -I/usr/local/lib/R/include
-I/usr/local/include -fpic -g -O2 -c pip.c -o pip.o
gcc -std=gnu99 -I/usr/local/lib/R/include -I/usr/local/lib/R/include
-I/usr/local/include -fpic -g -O2 -c Rcentroid.c -o Rcentroid.o
gcc -std=gnu99 -I/usr/local/lib/R/include -I/usr/local/lib/R/include
-I/usr/local/include -fpic -g -O2 -c zerodist.c -o zerodist.o
gcc -std=gnu99 -shared -L/usr/local/lib -o sp.so gcdist.o init.o pip.o
Rcentroid.o zerodist.o -L/usr/local/lib/R/lib -lR
** R
** data
** demo
** inst
** preparing package for lazy loading
Error in code2LazyLoadDB(package, lib.loc = lib.loc, keep.source =
keep.source, :
name space must not be loaded.
Execution halted
ERROR: lazy loading failed for package 'sp'
** Removing '/usr/local/lib/R/library/sp'

The downloaded packages are in
/tmp/RtmpttNUa3/downloaded_packages
Warning message:
installation of package 'sp' had non-zero exit status in: install.packages()


Also I managed to get some extra info from Rpy, where it says the sp
library isn't loaded because of R_alloc() and some namespace problem(?).

Can anyone give me some help on understanding what is the problem and
how to fix it ??

Thanks
Jorge


-- 
Eng. Jorge Samuel Mendes de Jesus

European Commission (EC)
Joint Research Centre Directorate (DG JRC)
Institute for Environment and Sustainability (IES)
TP 441, Via Fermi 1
21020 Ispra (VA)
Italy

Phone: +39 0332 78 3536
Fax:   +39 0332 78 5466

http://rem.jrc.cec.eu.int

"The views expressed are purely those of the writer and may not in any circumstances be regarded as stating an official position of the European Commission"