[BioC] Dilution

[Kasper Daniel Hansen]

Yup, I double checked: you are using an outdated version of affydata,  
the current version is 1.11.3. With the current version the code works.

Kasper

On Jan 23, 2008, at 10:09 PM, Kasper Daniel Hansen wrote:

> You might want to do an
>    Dilution = updateObject(Dilution)
> my guess is that you are using a recent version of affy/Biobase with
> an old version of the Dilution dataset. You could also just re-
> install Dilution, that should fix it (assuming that you are running a
> recent version of R etc)
>
> Kasper
>
> On Jan 23, 2008, at 9:43 PM, Yuan Jian wrote:
>
>> Hi Robert,
>>   thanks for your reply. I tried several time to reinstall
>> packages, but failed to find solution.
>>   here is seeeionInfor:
>>> sessionInfo()
>> R version 2.6.1 (2007-11-26)
>> i386-pc-mingw32
>>   locale:
>> LC_COLLATE=English_Australia.1252;LC_CTYPE=English_Australia.
>> 1252;LC_MONETARY=English_Australia.
>> 1252;LC_NUMERIC=C;LC_TIME=English_Australia.1252
>>   attached base packages:
>> [1] tools     stats     graphics  grDevices datasets  utils
>> methods   base
>>   other attached packages:
>>  [1] hgu95av2cdf_2.0.0      affydata_1.4.0
>> preprocessCore_1.0.0   affyio_1.6.1           Biobase_1.16.2
>>  [6] aroma.affymetrix_0.8.3 affy_1.16.0
>> aroma.apd_0.1.3        R.huge_0.1.5           digest_0.3.1
>> [11] aroma.light_1.6.0      affxparser_1.10.2
>> R.rsp_0.3.3            R.cache_0.1.6          EBImage_2.2.0
>> [16] R.utils_0.9.8          R.oo_1.4.1             R.methodsS3_1.0.0
>>
>>
>>
>> Robert Gentleman <rgentlem at fhcrc.org> wrote:
>>   Hi Yuan,
>> Please read the posting guide for this mailing list and follow the
>> directions there, and especially provide the output of sessionInfo.
>>
>> I don't see any problems with these commands, so I suspect you have
>> some issues with your installation.
>>
>> best wishes
>> Robert
>>
>> Yuan Jian wrote:
>>> Hello,
>>>
>>> I have struggled the following simple commands for long time, can
>>> you please fix the problem?
>>>
>>>> library("affydata")
>>>> data(Dilution)
>>>> pm(Dilution, "1001_at")[1:3, ]
>>> Error in assayData(object) :
>>> no slot of name "assayData" for this object of class "AffyBatch"
>>>
>>> Thanks
>>> Yuan
>>>
>>>
>>>
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>>
>> -- 
>> Robert Gentleman, PhD
>> Program in Computational Biology
>> Division of Public Health Sciences
>> Fred Hutchinson Cancer Research Center
>> 1100 Fairview Ave. N, M2-B876
>> PO Box 19024
>> Seattle, Washington 98109-1024
>> 206-667-7700
>> rgentlem at fhcrc.org
>>
>>
>>
>> ---------------------------------
>>
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>
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