[BioC] Error loading, on Bioconductor 1.8, exprSet generated with bioconductor 1.7
raffaele.calogero at unito.it
Thu Jun 8 09:07:19 CEST 2006
You are right, I check the object creation, it was July 2005, therefore
it was created with the release 1.6 of Bioconductor.
This is the output of the class(tr7.rma)
I manage to see the content of the object with show(tr7.rma) also on
However, the str(tr7.rma) gives the error
Error in FUN(X[], ...) : no slot of name "reporterInfo" for this
object of class "exprSet"
I have then created a new instace of exprSet in the following way:
xx<-new('exprSet', exprs = exprs(tr7.rma), phenoData=pd.xx)
I had to recreate also the phenoData instance since the varMetadata
variable was missed in my phenoData.
However, this problem rise the question: is ti reasonable to use exprSet
objects as backup?
Thanks for your help
Martin Morgan wrote:
>Can you provide just a bit more information? What's the result of
>Also, I suspect that tr7.rma was created not in the last release of
>Biobase, but the release before that (at least). I say this because
>the 'reporterInfo' slot was present in the 1.7 release.
>In the mean time, I suspect that
>will display the contents of your object.
>rcaloger <raffaele.calogero at unito.it> writes:
>>today I was working on an Affy exprSet I saved before the new release of
>>I loaded it but I got the following error when I tried to show it:
>>Error in slot(object, what) : no slot of name "pubMedIds" for this
>>object of class "MIAME"
>>Furthermore, if I issue the command:
>>I got this error:
>>Error in FUN(X[], ...) : no slot of name "reporterInfo" for this
>>object of class "exprSet"
>>I was expecting that there should be some sort of back compatibility
>>with at least the previous release of the exprSet.
>>The error comes using the Biobase Version: 1.10.0.
>>There is any way to fix the problem or Do I have to install again the
>>old release of Bioconductor?
>>Prof. Raffaele A. Calogero
>>Bioinformatics and Genomics Unit
>>Dipartimento di Scienze Cliniche e Biologiche
>>c/o Az. Ospedaliera S. Luigi
>>Regione Gonzole 10, Orbassano
>>tel. ++39 0116705420
>>Lab. ++39 0116705408
>>Fax ++39 0119038639
>>Mobile ++39 3333827080
>>email: raffaele.calogero at unito.it
>>Bioconductor mailing list
>>Bioconductor at stat.math.ethz.ch
>>Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
Prof. Raffaele A. Calogero
Bioinformatics and Genomics Unit
Dipartimento di Scienze Cliniche e Biologiche
c/o Az. Ospedaliera S. Luigi
Regione Gonzole 10, Orbassano
tel. ++39 0116705420
Lab. ++39 0116705408
Fax ++39 0119038639
Mobile ++39 3333827080
email: raffaele.calogero at unito.it
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