Hi all, I am trying to analyze Nimblegen Human 2.1 M Deluxe Promoter array data using Charm package. My problem is, when I try to import the xys data, program needs the platform design file, as usual, tries to download from BioConductor website but prompts out this error and stops. ... Loading required package: pd.100929.hg19.deluxe.prom.meth.hx1 Attempting to obtain 'pd.100929.hg19.deluxe.prom.meth.hx1' from BioConductor website. Checking to see if your internet connection works... Package 'pd.100929.hg19.deluxe.prom.meth.hx1' was not found in the BioConductor repository. The 'pdInfoBuilder' package can often be used in situations like this. ... So I tried the pdInfoBuilder package to solve my problem. But it also didn't work. Here is what I do and the errors I get: I took the code from this address and modified for myself: http://www.biostat.jhsph.edu/~maryee/charm/index.php/Main/MakingANewAr rayAnnotationPackage library(pdInfoBuilder) ndf <- list.files(pattern = ".ndf", full.names = TRUE) pos <- list.files(pattern = ".pos", full.names = TRUE) xys <- list.files(pattern = ".xys", full.names = TRUE)[1] seed <- new("NgsTilingPDInfoPkgSeed", ndfFile = ndf, xysFile = xys, posFile = pos, author = "Martin Aryee", version = "0.99.0", email = "myemail@jhu.edu", biocViews = "AnnotationData", genomebuild = "HG 18", organism = "Human", species = "Homo sapiens") makePdInfoPackage(seed, destDir = ".") *After the code worked for 2 hours, I got these errors:* Building annotation package for Nimblegen Tiling Array NDF: 100929_HG19_Deluxe_Prom_Meth_HX1.ndf POS: 100929_HG19_Deluxe_Prom_Meth_HX1.pos XYS: 503534_532.xys ====================================================================== ============ Parsing file: 100929_HG19_Deluxe_Prom_Meth_HX1.ndf... OK Parsing file: 100929_HG19_Deluxe_Prom_Meth_HX1.pos... OK Merging NDF and POS files... OK Parsing file: 503534_532.xys... OK Creating package in ./pd.100929.hg19.deluxe.prom.meth.hx1 Inserting 30291 rows into table featureSet... OK Inserting 0 rows into table pmfeature... Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions I really can't figure out what the problem is. Can anybody offer any solutions? Thank you in advance! :) Zeynep Ozkeserli Ankara University Biotechnology Institute [[alternative HTML version deleted]]