I am trying to install aroma.affymetrix on a linux cluster. 
I run source("http://aroma-project.org/hbLite.R";)  and 

The program attempts to install/upgrade R.methodsS3 but this doesn't seem 
to work.  A lot of output is produced as R tries to install all of the 
various dependencies so it is hard to tell what is going wrong but there 
seems to be a problem with lazy loading. 
I frequently see the message
Error in R.methodsS3:::export(...tmpfcn) <- TRUE : invalid function in 
complex assignment 
Error : unable to load R code in package R.methodsS3 
Error : lazy loading failed for package R.methodsS3

In the end a large number of warnings are produced which say that 
installation of the R.methodsS3, R.oo, R.utils, R.cache, R.filesets, 
R.devices, R.rsp, matrixStats,aroma.core, aroma.light  have non-zero exit 
status.  I assume this means these packages are not installed.  

Any thoughts on how to fix these problems? 


When reporting problems on aroma.affymetrix, make sure 1) to run the latest 
version of the package, 2) to report the output of sessionInfo() and 
traceback(), and 3) to post a complete code example.

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