[BioC] hexbin package installation probs

[James W. MacDonald]

Hi John,



jhs1jjm at leeds.ac.uk wrote:
> Hi, I'm using R 2.5.0 on openSUSE 10.2 x86_64 with biocLite packages. I'm wanted
> to use the arrayQuality package with some agilent data. I'm unable to install
> the hexbin package which is a dependency with the following:
> 
> lxuser at linux-4j12:~/R/x86_64-unknown-linux-gnu-library/2.5> R CMD INSTALL /home/
>                                                                       
> lxuser/hexbin_1.10.0.tar.gz
> * Installing to library '/home/lxuser/R/x86_64-unknown-linux-gnu-library/2.5'
> * Installing *source* package 'hexbin' ...
> ** libs
> gfortran   -fpic   -c hbin.f -o hbin.o
> make: gfortran: Command not found
> make: *** [hbin.o] Error 127
> ERROR: compilation failed for package 'hexbin'
> ** Removing '/home/lxuser/R/x86_64-unknown-linux-gnu-library/2.5/hexbin'
> lxuser at linux-4j12:~/R/x86_64-unknown-linux-gnu-library/2.5> R CMD INSTALL
> /home/lxuser/hexbin_1.10.0.tar.gz                                             *
> Installing to library '/home/lxuser/R/x86_64-unknown-linux-gnu-library/2.5'
> * Installing *source* package 'hexbin' ...
> ** libs
> gfortran   -fpic   -c hbin.f -o hbin.o
> make: gfortran: Command not found
> make: *** [hbin.o] Error 127
> ERROR: compilation failed for package 'hexbin'
> ** Removing '/home/lxuser/R/x86_64-unknown-linux-gnu-library/2.5/hexbin'
> 
> I have the gcc compiler installed according to YAST.

Yes, but gcc isn't gfortran, which is the error you are seeing. 
Installing gfortran would be the first step here.

Best,

Jim


> 
> Thanks
> John
> 
> _______________________________________________
> 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

-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623