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]]

