[BioC] arrayQualityMetrics unable to find an inherited method for function \"platformspecific\", for signature \"character\"

henlen [guest] guest at bioconductor.org
Thu Mar 8 11:40:26 CET 2012

when i running arrayQualityMetrics, i met a broblem like this, Error in function (classes, fdef, mtable): unable to find an inherited method for function "platformspecific", for signature "character". 
I want to use arrayQualityMetrics to analyse Affymetrix data- after preprocessing. Before using
arrayQualityMetrics, i used ReadAffy on my CEL file to get an  AffyBatch abject, then used RMA algorithm on the object to obtain a preprocessed dataset, finally called arrayQualityMetrics to analyse the preprocessed, then the error appeared. when called ReadAffy and rma, no erros found, so would u like tell me how to fix that, appreciate very much. And i can call the arrayQualityMetrics on the MLL.A subject provided in the data package ALLMLL without any error.

 -- output of sessionInfo(): 

R version 2.14.2 (2012-02-29)
Platform: x86_64-pc-mingw32/x64 (64-bit)

[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                           LC_TIME=English_United States.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] hgu133acdf_2.9.1           ALLMLL_1.2.11              annotate_1.32.1            affyPLM_1.30.0            
 [5] preprocessCore_1.16.0      gcrma_2.26.0               affyio_1.22.0              maizecdf_2.9.1            
 [9] AnnotationDbi_1.16.18      affy_1.32.1                arrayQualityMetrics_3.10.0 Biobase_2.14.0            
[13] BiocInstaller_1.2.1       

loaded via a namespace (and not attached):
 [1] beadarray_2.4.1     Biostrings_2.22.0   Cairo_1.5-1         cluster_1.14.2      DBI_0.2-5          
 [6] genefilter_1.36.0   grid_2.14.2         Hmisc_3.9-2         hwriter_1.3         IRanges_1.12.6     
[11] KernSmooth_2.23-7   lattice_0.20-0      latticeExtra_0.6-19 limma_3.10.3        RColorBrewer_1.0-5 
[16] RSQLite_0.11.1      setRNG_2009.11-1    splines_2.14.2      survival_2.36-12    SVGAnnotation_0.9-0
[21] tools_2.14.2        vsn_3.22.0          XML_3.9-4.1         xtable_1.7-0        zlibbioc_1.0.1    

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