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Last seen 10.3 years ago
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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