[Bioc-devel] graph package dependency on libiconv or libintl

Robert Gentleman rgentlem at fhcrc.org
Fri May 2 01:55:42 CEST 2008

Hi Dan,

Dan Tenenbaum wrote:
> Hello,
> I have seen this topic mentioned before, but I have a bit to add--
> I installed the gaggle package from the new bioconductor (using R 2.7). 
> It depends on (among other things) the graph package.
> When I tried:
> library(gaggle)
> ...after installing the gaggle package, I got an error about how my 
> libiconv library was out of date. This was on a mac, so I just 
> downloaded the latest libiconv using macports, make a symbolic link to 
> where R was looking for it, and all was well.
> However, on another mac, it complained not about libiconv but libintl. I 
> can't seem to find a place to download the libintl library.
> I installed the package on Windows and it was just fine--no complaints 
> about missing libraries.
> So what I'd like to know is:
> 1) Where can I find this libintl package
> 2) Are these packages really necessary? It would be so much easier to 
> tell my users to just "biocLite();biocLite('gaggle')" than have them go 
> through all the steps necessary to build these libraries. Especially 
> when it does not seem necessary on windows.

   It seems to be specific to the Mac and to the way that binaries are 
built on the Mac (and nothing to do with graph or other packages which 
seem to be caught up in this).  I am not quite sure why none of this was 
noticed earlier, but I suspect that many users simply did not try the 
available binaries.

> 3) Could this have to do with the email that just was sent out about how 
> binary packages are not yet available for Tiger (both of the Macs I 
> tried to install on are running Tiger)? Might I have better luck if I 
> wait for the tiger binaries?

   Yes, you should see everything working in that case.  So waiting a 
few days seems like the best idea.  There should be an announcement when 
these are ready and then if things still don't work we would appreciate 
yet another email of this sort,


> Thanks
> Dan - maintainer of gaggle package
> _______________________________________________
> Bioc-devel at stat.math.ethz.ch mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel

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
rgentlem at fhcrc.org

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