robert, joern, problem solved, thanks for your quick response! it was indeed a problem with R 2.6.2 for me. i added the CRAN repository to my yum configuration (because in the official fedora ones the last R version is still 2.6.2) and upgraded to 2.7.0, now everything is fine. once again thanks for your help. cheers martin Robert Gentleman wrote: > > > martin sikora wrote: >> dear list members, >> >> i'm having a problem installing the biomaRt package on my linux >> machine, due to the fact of a compilation error with RCurl. i am >> using R 2.6.2 on fedora 7, and this is the output i get: > > Hi, > 2.6.2 is not the current release, 2.7.0 is, so that is the first > thing to do. > > I don't see what is wrong, but RCurl is not a Bioconductor package, > so this is probably more appropriately asked on the r-help mailing > list. And when posting there, please provide sessionInfo and > information on which version of RCurl you are trying to install. > > best wishes > Robert > > > >> >> gcc -m32 -std=gnu99 -I/usr/include/R -I/usr/include/R >> -DHAVE_LIBIDN_FIELD=1 -I/usr/local/include -fpic -O2 -g -pipe >> -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector >> --param=ssp-buffer-size=4 -m32 -march=i386 -mtune=generic >> -fasynchronous-unwind-tables -c base64.c -o base64.o >> In file included from base64.c:1: >> Rcurl.h:52: error: expected specifier-qualifier-list before ?cetype_t? >> base64.c: In function ?R_base64_decode?: >> base64.c:25: warning: pointer targets in assignment differ in signedness >> base64.c:39: warning: pointer targets in passing argument 1 of >> ?Rf_mkString? differ in signedness >> base64.c: In function ?R_base64_encode?: >> base64.c:60: warning: pointer targets in assignment differ in signedness >> make: *** [base64.o] Error 1 >> >> as far as i know i have all the necessary libraries installed: >> >> $ yum list installed | grep libxml >> libxml2.i386 2.6.31-1.fc7 >> installed libxml2-devel.i386 >> 2.6.31-1.fc7 installed >> libxml2-python.i386 2.6.31-1.fc7 >> installed perl-libxml-perl.noarch >> 0.08-1.2.1 installed >> $ yum list installed | grep curl >> curl.i386 7.16.4-1.fc7 >> installed curl-devel.i386 >> 7.16.4-1.fc7 installed >> python-pycurl.i386 7.16.0-0.1.20061207.fc >> installed >> >> as i am not an expert in linux stuff, i was wondering if there could >> be any other missing libraries? any other ideas? >> >> cheers >> martin >> >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@stat.math.ethz.ch >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > [[alternative HTML version deleted]]