[BioC] virtualArray package

[Karl [guest]]

Hi,

I am very interested in using the virtual array package and have been trying it out. However,  i have been getting this error (see below) even with the test data in the paper. Could you kindly advise please?


 -- output of sessionInfo(): 


> my_virtualArrays$iPSC_hESC_noBatchEffect <- virtualArrayExpressionSets()
Now preprocessing raw data of GSE23402: Loading annotations...
Usinghgu133plus2as Bioconductor annotation package for datasetGSE23402.
Loading required package: hgu133plus2.db
Loading required package: AnnotationDbi
Loading required package: GenomeInfoDb
Loading required package: org.Hs.eg.db
Loading required package: DBI


Now preprocessing raw data of GSE23402: Collapsing expression values to their median...
Using identifier as id variables
Now preprocessing raw data of GSE23402: Annotating expression values with SYMBOL...
Now preprocessing raw data of GSE26428: Loading annotations...
Usinghgug4112aas Bioconductor annotation package for datasetGSE26428.
Loading required package: hgug4112a.db

Now preprocessing raw data of GSE26428: Collapsing expression values to their median...
Using identifier as id variables
Now preprocessing raw data of GSE26428: Annotating expression values with SYMBOL...
Error: 2 errors; first error:
  Error in array(x, c(length(x), 1L), if (!is.null(names(x))) list(names(x), : 'data' must be of a vector type, was 'NULL'

For more information, use bplasterror(). To resume
  calculation, re-call the function and set the
  argument 'BPRESUME' to TRUE or wrap the previous
  call in bpresume().

First traceback:
  22: virtualArrayExpressionSets()
  21: lapply(all_expression_sets, virtualArrayBuildfData, collapse_fun = collapse_fun, 
          identifier = identifier)
  20: lapply(all_expression_sets, virtualArrayBuildfData, collapse_fun = collapse_fun, 
          identifier = identifier)
  19: bplapply(X, FUN, ..., BPRESUME = BPRESUME, BPPARAM = BPPARAM)
  18: bplapply(X, FUN, ..., BPRESUME = BPRESUME, BPPARAM = BPPARAM)
  17: bplapply(X = X, FUN = FUN, ..., BPRESUME = BPRESUME, BPPARAM = SerialParam(catch.errors = BPPARAM$catch.errors))
  16: bplapply(X = X, FUN = FUN, ..., BPRESUME = BPRESUME, BPPARAM = SerialParam(catch.errors = BPPARAM$catch.errors))

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