Dear Benilton

When trying to use crlmm I get the following:

snprmaResults <- justSNPRMA(cels, phenoData=pheno)
crlmmOut <- crlmm(snprmaResults, correctionFile="outputEM.rda")
M correction not provided. Calculating. Will take several minutes.
Fitting mixture model to 3 arrays. Epsilon must reach 50.
Error in sqliteExecStatement(con, statement, bind.data) : 
  RS-DBI driver: (error in statement: String or BLOB exceeded size limit)

In contrast, justCRLMM works fine: 

crlmmOut <- justCRLMM(cels, phenoData=pheno)
Normalization: 100.00 percent done.
Genotyping: 100.00 percent done.
Finalizing: 100.00 percent done.
Warning message:
In justCRLMM(cels, phenoData = pheno) :
  Please check the contents and remove the directory:
/tmp/Rtmp5ADhAD/crlmm.tmp327b23c6

However, increasing the batch_size results in same error as in crlmm: 

length(featureNames(snprmaResults))
[1] 58960
tmp <- justCRLMM(cels, phenoData=pheno, batch_size=58960)
Normalization: 100.00 percent done.
Genotyping: 000.00 percent done.Error in sqliteExecStatement(con, statement,
bind.data) : 
  RS-DBI driver: (error in statement: String or BLOB exceeded size limit)

Could it  be, that crlmm needs parameter "batch_size", too?
 
sessionInfo()
R version 2.6.1 (2007-11-26) 
x86_64-unknown-linux-gnu 

locale:
C

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

other attached packages:
 [1] pd.mapping50k.xba240_0.3.4 hapmap100kxba_1.3         
 [3] oligo_1.2.2                oligoClasses_1.0.3        
 [5] affxparser_1.10.1          AnnotationDbi_1.0.6       
 [7] preprocessCore_1.0.0       RSQLite_0.6-4             
 [9] DBI_0.2-4                  Biobase_1.16.1            

loaded via a namespace (and not attached):
[1] rcompgen_0.1-17

Best regards
Christian
==============================================
Christian Stratowa, PhD
Boehringer Ingelheim Austria
Dept NCE Lead Discovery - Bioinformatics
Dr. Boehringergasse 5-11
A-1121 Vienna, Austria
Tel.: ++43-1-80105-2470
Fax: ++43-1-80105-2782
email: christian.stratowa@vie.boehringer-ingelheim.com



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