For those interested I got a reply from the makers of the CDF files and apparently it is an issue on their end. Here is their reply:
We have been studying the problem and we have discovered a bug in perfect match and mismatch probes annotation that makes Env2Cdf function unable to use packages from GATExplorer. We send you GeneMapper and TranscriptMapper for HG_U133_Plus2 with the bug corrected. In a couple of days we will upload all the packages to GATExplorer website. Looks like it was an issue on their end. On Oct 12, 12:48 pm, Fong <fongchunc...@gmail.com> wrote: > Hi, > > I've found a set of R packages (CDF) files from a service called > GATExplorer (http://bioinfow.dep.usal.es/xgate/mapping/mapping.php? > content=rprogram) and I am trying to create a CDF file from the R > packages. I've followed the instructions found > athttp://www.aroma-project.org/node/41 > but I am running to errors. This is what happens: > > Env2Cdf("genemapperhgu133plus2cdf", "u1332plus_ivt_breast_A.CEL", > overwrite=TRUE) > Loading required package: affxparser > Reading environment: genemapperhgu133plus2cdf. > Reading CEL file header. > Creating CDF list for 20172 units. > Error in FUN(X[[1L]], ...) : no 'dimnames' attribute for array > > I am not too familiar with how CDF R packages work. Does anyone have > any advice on what I could do? > > Thanks, > > Fong -- 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/
