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Hi, I am not 100% sure, but you could try get("1441536_at", envir=get(sprintf("%sLOCUSID", cleancdfname(cdfName(x), addcdf=FALSE)))) Ariel./ On September 1, 2005 09:35 am, Groot, Philip de wrote: > Hello all, > > > > I have the following particular problem. Consider the following two > R/BioC commands: > > > > 1. > get("1441536_at", envir=mouse4302LOCUSID) > > [1] 208715 > > 2. get("1441536_at", envir=sprintf("%sLOCUSID", cleancdfname(cdfName(x), > addcdf=FALSE))) > > Error in get(x, envir, mode, inherits) : invalid 'envir' argument > > > > The problem with the second command is that the 'envir' variable is > presented as a character string. R cannot handle this and I cannot > overcome this problem. Somehow, I must make it clear to R that this is > not a string, but that it is a variable name. Has anyone any idea how to > do this? This problem seems to be an obvious one, but I spent quite some > time on this without finding a solution. > > > > Regards, > > > > Philip de Groot > > Wageningen University > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- Ariel Chernomoretz, Ph.D. Centre de recherche du CHUL 2705 Blv Laurier, bloc T-367 Sainte-Foy, Qc G1V 4G2 (418)-525-4444 ext 46339

Groot, Philip de wrote: > Hello all, > > > > I have the following particular problem. Consider the following two > R/BioC commands: > > > > 1. > get("1441536_at", envir=mouse4302LOCUSID) > > [1] 208715 > > 2. get("1441536_at", envir=sprintf("%sLOCUSID", cleancdfname(cdfName(x), > addcdf=FALSE))) Here is an example from GOHyperG() in the GOstats package: getDataEnv <- function(name, lib) { get(paste(lib, name, sep = ""), mode = "environment") } Then you would use get("1441536_at", getDataEnv("LOCUSID", sub("cdf$","", cleancdfname(cdfName(x))))) Best, Jim > > Error in get(x, envir, mode, inherits) : invalid 'envir' argument > > > > The problem with the second command is that the 'envir' variable is > presented as a character string. R cannot handle this and I cannot > overcome this problem. Somehow, I must make it clear to R that this is > not a string, but that it is a variable name. Has anyone any idea how to > do this? This problem seems to be an obvious one, but I spent quite some > time on this without finding a solution. > > > > Regards, > > > > Philip de Groot > > Wageningen University > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623

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