[BioC] Mas5, normalization method, error

[Wolfgang Huber]

Dear Yisong

I am not promising that this will fix the problem, but can you please 
try this, and report the error, with the latest release version of R and 
Bioconductor rather than these older ones?

Also, and probably more importantly, can you make available some raw 
data (the CEL files or the raw.data object) with which you get this 
problem -  so that we can debug this.

Best wishes
      Wolfgang

----------------------------------------------------
Wolfgang Huber, EMBL-EBI, http://www.ebi.ac.uk/huber


Yisong Zhen ha scritto:
> Dear All,
> 
> I try to use the mas5 to normalize my data. but it failed. However, I
> can use RMA method to normlize the data.
> 
> The following is the error message:
> Loading required package: affyio
> Loading required package: preprocessCore
>> raw.data<-ReadAffy();
>> mas5.data<-mas5(raw.data);
> background correction: mas
> PM/MM correction : mas
> expression values: mas
> background correcting...Error in as.vector(data) : NA/NaN/Inf in
> foreign function call (arg 1).
> 
> Here is my sessioninfo():
> 
>> sessionInfo() ;
> R version 2.7.2 (2008-08-25)
> ia64-unknown-linux-gnu
> 
> locale:
> LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
> 
> attached base packages:
> [1] tools     stats     graphics  grDevices utils     datasets  methods
> [8] base
> 
> other attached packages:
> [1] cint06a520380fcdf_1.18.0 affy_1.18.2              preprocessCore_1.2.1
> [4] affyio_1.8.1             Biobase_2.0.1
> 
> Thanks very much for any help.
> 
> Yisong
> 
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