[BioC] RCurl compilation error - fedora 7

[Robert Gentleman]

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
> 
> 
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> 
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-- 
Robert Gentleman, PhD
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
PO Box 19024
Seattle, Washington 98109-1024
206-667-7700
rgentlem at fhcrc.org