Hi, First of all: apologies if I'm missing something obvious.
I'm trying to read a set of CEL files from the ImmGen project, (GSE15907). I'm following the document at http://groups.google.com/group/aroma-affymetrix/web/gene-1-0-st-array-analysis but I'm running into an error I can't interpret. Any help would be most appreciated! My folder structure is the following: /Users/mike/Data/Immgen |-annotationData |---chipTypes |-----MoGene-1_0-st-v1 <--- in here is MoGene-1_0-st-v1,r3.cdf |---samples |-rawData |---GSE15907 |-----MoGene-1_0-st-v1 <--- in here are lots of gzipped CEL files The code I'm using is library('aroma.affymetrix') setwd("/Users/mike/Data/Immgen") cdf <- AffymetrixCdfFile$byChipType("MoGene-1_0-st-v1",tags="r3") cs <- AffymetrixCelSet$byName("GSE15907",cdf=cdf) print(cs) The error I get is [2010-01-28 11:41:18] Exception: Argument 'x' is of length 1 although the range ([0,0]) implies that is should be empty. at throw(Exception(...)) at throw.default(sprintf("Argument 'x' is of length %d although the range ([%s at throw(sprintf("Argument 'x' is of length %d although the range ([%s,%s]) im at getIndices.Arguments(static, ..., length = length) at getIndices(static, ..., length = length) at method(static, ...) at Arguments$getIndex(idx, max = n) at getFile.GenericDataFileSet(this, 1) at getFile(this, 1) at getUnitNamesFile.AffymetrixCelSet(this) at getUnitNamesFile(this) at getChipType.AffymetrixCelSet(this) at getChipType(this) at sprintf("Chip type: %s", getChipType(this)) at as.character.AffymetrixCelSet(x) at as.character(x) at print(as.character(x)) at print.Object(cs) at print(cs) Calls: print ... getIndices.Arguments -> throw -> throw.default -> throw -> throw.Exception Execution halted Has anyone got any ideas as to where I'm going wrong? Cheers, Mike Dewar -- 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. To post to this group, send email to [email protected] To unsubscribe from this group, send email to [email protected] For more options, visit this group at http://groups.google.com/group/aroma-affymetrix?hl=en
