
Hi everybody !
I try to build a package to use oligo.
so for that I use pdInfoBuilder and a bpmap file.
I work on a tiling array from affymetrix.  

here is my sessionInfo() :
> sessionInfo()
R version 2.9.0 (2009-04-17) 
i486-pc-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] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] pdInfoBuilder_1.8.1    preprocessCore_1.6.0   oligoClasses_1.5.23   
 [4] RSQLite_0.7-1          DBI_0.2-4              AffyTiling_1.2.0      
 [7] Biobase_2.4.1          aroma.affymetrix_1.0.0 aroma.apd_0.1.3       
[10] R.huge_0.1.7           affxparser_1.16.0      aroma.core_1.0.4      
[13] aroma.light_1.13.1     oligo_1.8.1            affy_1.22.0           
[16] digest_0.3.1           matrixStats_0.1.4      R.rsp_0.3.4           
[19] R.cache_0.1.7          R.utils_1.1.5          R.oo_1.4.6            
[22] R.methodsS3_1.0.3     

loaded via a namespace (and not attached):
[1] affyio_1.8.1      Biostrings_2.12.3 IRanges_1.1.68    splines_2.9.0    
[5] tcltk_2.9.0       tools_2.9.0 

here is my code :
> makePdInfoPackage(seed, destDir=".")
================================================================================
Building annotation package for Affymetrix Tiling array
BPMAP:  Dm_tiling2_MR_v01.bpmap 
CEL..:  gfpa4.CEL 
================================================================================
Parsing file: Dm_tiling2_MR_v01.bpmap ... OK
Getting geometry from CEL file... OK
Getting PMs...OK
Getting MMs...OK
Getting background probes...OK
Getting sequences...OK
Creating package in ./pd.dm.tiling2.mr.v01 
Inserting 18 rows into table "chrom_dict"... OK
Inserting 2870706 rows into table "pmfeature"... Error in sqliteExecStatement(con, statement, bind.data) : 
  RS-DBI driver: (RS_SQLite_exec: could not execute: PRIMARY KEY must be unique)

I don't know why I have this error
does anybody help ?
thanks elsa


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