I tried that and I still get the same error:
>makePDpackage("Mm_PromPR_v01_NCBIv35.bpmap",file1="Mm_PromPR_v02.cif",manufacturer="affymetrix", type="tiling")
affymetrix tiling 
The package will be called pd.mm.prompr.v01.ncbiv35 
Error in makeBPMAPenv(designFile, file1, genomebuild = genomebuild) : 
  SET_VECTOR_ELT() can only be applied to a 'list', not a 'NULL'
> sessionInfo()
R version 2.6.0 Under development (unstable) (2007-06-09 r41897) 
i386-pc-mingw32 
locale:
LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=English_United States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
attached base packages:
[1] splines   tools     stats     graphics  grDevices utils     datasets  methods   base     
other attached packages:
[1] makePlatformDesign_1.1.1    oligo_0.99.98               BufferedMatrixMethods_1.1.2 BufferedMatrix_1.1.1       
[5] RSQLite_0.5-4               DBI_0.2-3                   Biobase_1.15.14             affyio_1.5.4               
> 


----- Original Message ----
From: Ingrid H. G. Østensen <Ingrid.H.G.Ostensen@rr-research.no>
To: Ben Bolstad <bmb@bmbolstad.com>
Cc: bioconductor@stat.math.ethz.ch
Sent: Wednesday, June 20, 2007 11:42:40 PM
Subject: Re: [BioC] makePDpackage problem



Hi

Thanks for the help, but I am still a bit confused.

Do I have to install the dev. version of Bioconuctor to be able to make this work?

The arrays were given to me by the peoples at the lab to check if there is any thing on the arrays and the quality of the results. Is there some other way to do this?

Regards,
Ingrid





This is an error I have fixed in the devel branch (boils down to a
problem in affyio). If there is sufficient demand I will back-patch it
to the release branch. The bug was originally manifesting only in the
windows build, and drove me crazy for the better part of a weekend, was
basically driven by an interaction between pointer aliasing and gcc
optimization.

Best,

Ben

> My problem: When I try to run the command I get the following error.
> 
> 
> > makePDpackage("Sp20b_M_v04.bpmap", file1 = "Sp20b_M_v04.cif", manufacturer = "affymetrix",type="tiling")
> affymetrix tiling 
> The package will be called pd.sp20b.m.v04 
> Error in makeBPMAPenv(designFile, file1, genomebuild = genomebuild) : 
>         SET_VECTOR_ELT() can only be applied to a 'list', not a 'NULL'
> 
> My session info is as follows:
> > sessionInfo()
> R version 2.5.0 (2007-04-23) 
> i386-pc-mingw32 
> 
> locale:
> LC_COLLATE=Norwegian (Bokml)_Norway.1252;LC_CTYPE=Norwegian (Bokml)_Norway.1252;LC_MONETARY=Norwegian (Bokml)_Norway.1252;LC_NUMERIC=C;LC_TIME=Norwegian (Bokml)_Norway.1252
> 
> attached base packages:
>  [1] "grid"      "splines"   "tools"     "stats"     "graphics"  "grDevices" "utils"     "datasets"  "methods"   "base"     
> 
> other attached packages:
>    makePlatformDesign                 oligo BufferedMatrixMethods        BufferedMatrix               RSQLite 
>               "1.0.0"             "1.0.2-3"               "1.0.0"               "1.0.0"               "0.5-4" 
>                   DBI           tilingArray                pixmap                   vsn                 limma 
>               "0.2-3"              "1.14.0"               "0.4-7"               "2.2.0"              "2.10.0" 
>           strucchange              sandwich                   zoo          affyQCReport           geneplotter 
>               "1.3-2"               "2.0-2"               "1.3-1"              "1.14.0"              "1.14.0" 
>               lattice              annotate          RColorBrewer               affyPLM                 gcrma 
>              "0.15-8"              "1.14.1"               "0.2-3"              "1.12.0"               "2.8.0" 
>           matchprobes              affydata                xtable            simpleaffy            genefilter 
>               "1.8.1"              "1.11.2"               "1.4-6"             "2.10.11"              "1.14.1" 
>              survival                  affy                affyio               Biobase 
>                "2.31"              "1.14.0"               "1.4.0"              "1.14.0"
> 
> 
> 
> 
> 
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> 
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