Hi Hernik, Clearing the cache as you suggested did the trick:
> clearCache(dirs="aroma.affymetrix", recursive=TRUE, prompt=FALSE) Calculation of the sets of pobes with common SNP nucleotide pairs took much more time after clearing the cache and I finally got 6 groups + "missing" as expected. There must have been some corrupt files in my cache. Thanks again for your help! Best, Hans-Ulrich -- -- 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 firstname.lastname@example.org To unsubscribe and other options, go to http://www.aroma-project.org/forum/ --- You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group. To unsubscribe from this group and stop receiving emails from it, send an email to aroma-affymetrix+unsubscr...@googlegroups.com. For more options, visit https://groups.google.com/groups/opt_out.