[BioC] Ruuid had non-zero exit status

[Robert Gentleman]

zph at herald.ox.ac.uk wrote:
> Hi,
> 
> I must say that the same gcc and glib2 work fine to compile
> R pre-2.3.x

  From the look  of the error messages my guess is that R (or Ruuid) and 
glib are using the same macro names.

  Can you see what they are? So from your first report, I would look at:
/usr/local/include/glib-2.0/glib/gtypes.h:41: error: syntax error before
"typedef"

  line 41 of that file (and in mine I see that previous to that they 
included glibconfig.h, so that is probably the culprit. It gets kind of 
messy, as you need to try putting in ifdefs and seeing what happens. 
There are no easy solutions here, that I can see. (You could try 
updating either glib or gcc to see if that fixes the issue)

  best wishes
   Robert


> 
> Here're some additional information:
> 
> zph at orac [zph]$ gcc --version
> gcc (GCC) 3.4.2
> Copyright (C) 2004 Free Software Foundation, Inc.
> This is free software; see the source for copying conditions.  There is NO
> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR 
> PURPOSE.
> 
> zph at orac [zph]$ pkg-config --modversion glib-2.0
> 2.6.2
> 
> Regards,
> 
> Zong-Pei
> Dear ,
> 
> 
> Regards,
> 
> Zong-Pei
> -------------------------------------
> Dr Zong-Pei Han
> UNIX Systems Administrator
> Computational Biology Research Group
> University of Oxford
> 
> Tel: 01865 285731
> http://www.compbio.ox.ac.uk/
> -------------------------------------
> 
> 
> On Mon, 12 Jun 2006, Seth Falcon wrote:
> Date: Mon, 12 Jun 2006 08:35:39 -0700
> From: Seth Falcon <sfalcon at fhcrc.org>
> To: bioconductor at stat.math.ethz.ch
> Subject: Re: [BioC] Ruuid had non-zero exit status
> 
> zph at herald.ox.ac.uk writes:
> 
>> Hope someone can point the right direction to solve
>> the problem. Thanks.
> 
> Hmm, what version of glib-2.0 do you have?
> 
> Try: pkg-config --modversion glib-2.0
> 
> What version of gcc?
> 
> + seth
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
> 

-- 
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