Gad, On 24 June 2009 at 11:43, Gad Abraham wrote: | Hi, | | I have an RData file containing a GeneSetCollection object | (Bioconductor), http://www.cs.mu.oz.au/~gabraham/c2.RData. I think it | uses lazy loading because packages are only loaded when I access the | object (see below) in the R console. | | When I try the same with Rscript, it segfaults. This happens on 2.9.0 | both on Linux and Mac: | | Rscript -e 'load("c2.RData"); c2[1]' | | *** caught segfault *** | address (nil), cause 'memory not mapped' | | Traceback: | 1: c2[1] | aborting ... | Segmentation fault (core dumped) | | | Is this a bug?
I'd say so. The alternative R scripting tool -- r aka littler -- is fine, but complains that I don't have the corresponding BioC packages: e...@ron:/tmp$ wget http://www.cs.mu.oz.au/~gabraham/c2.RData [...] e...@ron:/tmp$ r -e'load("c2.RData"); print(c2[1])' [[1]] <S4 object of class "GeneSet"> e...@ron:/tmp$ r -e'load("c2.RData"); print(str(c2));' Loading required package: GSEABase Error in .requirePackage(package) : unable to find required package "GSEABase" In addition: Warning message: In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : there is no package called 'GSEABase' e...@ron:/tmp$ r is e.g. at http://dirk.eddelbuettel.com/code/littler.html Dirk -- Three out of two people have difficulties with fractions. ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
