That was it, Ben set me straight, sorry for the time waster! On Jun 3, 2012, at 8:33 PM, Vincent Carey wrote: On Sun, Jun 3, 2012 at 11:08 PM, Simon Melov <smelov at="" buckinstitute.org<mailto:smelov="" at="" buckinstitute.org="">> wrote: I've been beating my head against the wall for several hours trying to see why I cant build a library for a nimblegen expression array, using the oligo and pdInfoBuilder packages. I dont see any errors when building the library for a 12plex yeast genome expression array.... makePdInfoPackage(seed, destDir = "/Library/Frameworks/R.framework/Versions/2.15/Resources/library/") ====================================================================== ========== Building annotation package for Nimblegen Expression Array NDF: 100718_Scer_EXP.ndf XYS: 532785A01_Chip6.330.2012.5.8_532.xys ====================================================================== ========== Parsing file: 100718_Scer_EXP.ndf... OK Parsing file: 532785A01_Chip6.330.2012.5.8_532.xys... OK Merging NDF and XYS files... OK Preparing contents for featureSet table... OK Preparing contents for bgfeature table... OK Preparing contents for pmfeature table... OK Creating package in /Library/Frameworks/R.framework/Versions/2.15/Reso urces/library//pd.100718.scer.exp Inserting 5777 rows into table featureSet... OK Inserting 137040 rows into table pmfeature... OK Counting rows in featureSet Counting rows in pmfeature Creating index idx_pmfsetid on pmfeature... OK Creating index idx_pmfid on pmfeature... OK Creating index idx_fsfsetid on featureSet... OK Saving DataFrame object for PM. Done. > but when I try to use the library in oligo, it fails for some reason library(pd.100718.scer.exp) Error in library(pd.100718.scer.exp) : 'pd.100718.scer.exp' is not a valid installed package What happened when you ran R CMD INSTALL (or install.packages?) sessionInfo()? > Can anyone help? I'm at my wits end... _______________________________________________ Bioconductor mailing list Bioconductor at r-project.org<mailto:bioconductor at="" r-project.org=""> https://stat.ethz.ch/mailman/listinfo/bioconductor Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor