Dear everyone

   I wonder whether someone come across such questions when using BRB ArrayTool "Import Data" function

  #Error in file(file, ifelse(append,"a","w")):

  # cannot open the connection

  #Error occurred while executing the following R command:

  #  channelcount<-ImportGSE(GSENumber,tempfolder,PlatformID,Applylog)

  Thanks!

I think you have may have your wires crossed. BRB-ArrayTools is an analysis tool available from the NIH:

  http://brb.nci.nih.gov/BRB-ArrayTools

and you should send any questions about it to them. This support site is for Bioconductor software.

BRB-ArrayTools is not part of Bioconductor. The Bioconductor package called "ArrayTools" is quite a different thing.

I think I've figure out the cause.The function of arraytools dependent on the R package "GEOquery" and require three file: GSE matrix file and GSE soft file and GPL soft file. Any incompletely downloadation would cause the report of error in my case. I directly download three file from GEO and save the to the R temp folders and solve the problem.