Hi, this message only applies users of OSX 10.6 ("Snow Leopard") or
OSX 10.7 ("Lion") running R v2.14.0 or newer.It has been reported that if one (i) on R v2.14.0, (ii) on OSX 10.6 or 10.7, (iii) install the *binary* build of affxparser v1.26.2 by Bioconductor, then affxparser causes R to crash completely: https://stat.ethz.ch/pipermail/bioc-devel/2011-November/002969.html Kasper Hansen has provided a binary build of affxparser v1.26.2 for OSX 10.6 (and possibly also OSX 10.7*). You can install that one by: source("http://www.braju.com/R/hbLite.R";); hbBiocLite("affxparser"); It will detect whether you need this specially patch or not, and install the proper version for you. If you have already installed the fault version from Bioconductor, just uninstall by remove.packages("affxparser") and retry. You can verify that you have the patched version installed by: > packageDescription("affxparser")$Packaged [1] "2011-11-20 16:44:36 UTC; khansen" Cheers, Henrik (*) If you have access to OSX 10.7 ("Lion"), could you please check whether the patched version of affxparser on OSX or not, and report back? Try the following: library("affxparser"); readCdfHeader("annotationData/chipTypes/Mapping250K_Nsp/Mapping250K_Nsp.cdf"); It should not crash R, but return a list of CDF attributes. The above CDF can be downloaded from: http://www.aroma-project.org/data/annotationData/chipTypes/Mapping250K_Nsp/Mapping250K_Nsp.cdf.gz -- 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/
