[BioC] "oligo" crashes in windows XP

[Morten Mattingsdal]

Hello Benilton,
At first I tried 20 .cel files, but reduced it to 4. In both cases R 
dies after ~0.5 sec after the command is issued. These are Affyemtrix 
500k arrays (in reality they are 250k since the same sample is digested 
by two diferent enzymes, STY and NSP on two different arrays, making one 
500k virtual array out of two physical 250k arrays)

NB these are official HapMap 500k arrays downloaded from 
http://hapmap.jst.go.jp/downloads/raw_data/affy500k/

hope this is helpful

morten

> Hi Morten,
>
> thanks for your feedback. I'll look into that.
>
> Does R die right after you use read.celfiles() or it takes a little 
> bit? How many CEL files are you reading in and what array?
>
> Thanks,
>
> b
>
> On Jan 16, 2007, at 7:52 AM, Morten Mattingsdal wrote:
>
>> Hello everyone,
>>
>> I'm learning to analyze Affymetrix SNP chips and having a go at the
>> "oligo" package and the crlmm function.
>> The problem is that R crashes when I try to read in the .CEL files. Ive
>> tried with both 2.4.0 and 2.5.0dev with the folowing command:
>>
>> files <- list.celfiles()
>> snpFSet <- read.celfiles(files)
>> * R Dies
>>
>> I'm aware that "oligo" is in development, I just want to let the
>> developers to know that R crashes in windows.
>>
>> mvh
>> morten
>>
>>
>>
>> SessionInfo()
>>
>> R version 2.5.0 Under development (unstable) (2007-01-13 r40470)
>> i386-pc-mingw32
>>
>> locale:
>> LC_COLLATE=Norwegian (Bokmål)_Norway.1252;LC_CTYPE=Norwegian
>> (Bokmål)_Norway.1252;LC_MONETARY=Norwegian
>> (Bokmål)_Norway.1252;LC_NUMERIC=C;LC_TIME=Norwegian (Bokmål)_Norway.1252
>>
>> attached base packages:
>> [1] "splines"   "tools"     "stats"     "graphics"  "grDevices"
>> "utils"     "datasets"  "methods"   "base"
>>
>> other attached packages:
>>                 oligo BufferedMatrixMethods
>> BufferedMatrix               RSQLite
>> DBI                affyio               Biobase
>>             "0.99.62"               "0.1.1"
>> "0.1.27"              "0.4-18"              "0.1-12"
>> "1.3.2"             "1.13.34"
>>
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>
>
>