Thanks for this information. I'll add it to the list to check whether I have to bump up the version requirements for R.methodsS3 et al.
/Henrik On Thu, Sep 6, 2012 at 12:26 PM, Mike <michael.gorm...@gmail.com> wrote: > FYI for other users that encounter this problem. Upgrading to the latest > version of R solved my installation problems. > > Thanks, > Mike > > > On Thursday, September 6, 2012 2:31:52 PM UTC-4, Mike wrote: >> >> Thanks Henrik. I'll post back once I upgrade to let the community know >> whether this solved my issues or not. >> >> On Thursday, September 6, 2012 2:12:28 PM UTC-4, Henrik Bengtsson wrote: >>> >>> On Thu, Sep 6, 2012 at 10:09 AM, Mike <michael...@gmail.com> wrote: >>> > I am trying to install in R.12.1. Is this causing the problem? >>> >>> That's certainly possible, yes. Although I try not to restrict the >>> code/packages to require the very latest versions of R, I do *not* >>> validate that they actually work for such old versions of R. >>> >>> Whatever analysis you're planning to do with R, the Aroma framework or >>> Bioconductor, it's just not worth wasting the time doing it with R >>> v2.12.x. It's lonely, dark and cold back there. Instead, install >>> latest R v2.15.1 patched and go from there. >>> >>> /Henrik >>> >>> > >>> > >>> > On Thursday, September 6, 2012 12:52:59 PM UTC-4, Mike wrote: >>> >> >>> >> I am trying to install aroma.affymetrix on a linux cluster. >>> >> >>> >> I run source("http://aroma-project.org/hbLite.R") and >>> >> hbInstall("aroma.affymetrix") >>> >> >>> >> 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? >>> >> >>> >> Thanks, >>> >> Mike >>> > >>> > -- >>> > 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. >>> > >>> > >>> > You received this message because you are subscribed to the Google >>> > Groups >>> > "aroma.affymetrix" group with website http://www.aroma-project.org/. >>> > To post to this group, send email to aroma-af...@googlegroups.com >>> > To unsubscribe and other options, go to >>> > http://www.aroma-project.org/forum/ > > -- > 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. > > > You received this message because you are subscribed to the Google Groups > "aroma.affymetrix" group with website http://www.aroma-project.org/. > To post to this group, send email to aroma-affymetrix@googlegroups.com > To unsubscribe and other options, go to http://www.aroma-project.org/forum/ -- 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. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/