[BioC] SNPRMA: Normalizing...Error in readChar(con, 5) : cannot open the connection

[Benilton Carvalho]

What are your sessionInfo() and traceback()?

If you installed the pd.mapping pkgs from the source, make sure  
you're using the latest version.

If your OS is windows, we're working on a solution for the pd.mapping  
pkgs.

b

On Jun 23, 2007, at 10:56 AM, Alex Lisovich wrote:

> Dear All,
>
> I am getting the following error when using snprma() on oligo
> v.1.0.2-6 with pd.mapping250k.sty which I believe was once discussed
> on the list on June 4, 2007 (see below):
>
>> library(oligo)
>> library(pd.mapping250k.sty)
>> rawData<-read.celfiles(list.celfiles())
>> rma<-snprma(rawData)
>
>> Normalizing...Error in readChar(con, 5) : cannot open the connection
>> In addition: Warning message:
>> cannot open compressed file
>
> I am wondering if this problem was solved and if yes what was a  
> solution.
>
> Thank you in advance for your help!
>
> Alex
>
>
>
>
>> Hi An,
>>
>> that's problably R complaining a file that it didn't find. The
>> strange thing is that I can't reproduce it here. Could you please
>> forward me the results of traceback()?
>>
>> This would happen if, for example, oligo finds the old version of the
>> pd.mapping250k.sty package.
>>
>> b
>
> On Jun 4, 2007, at 8:07 AM, De Bondt, An-7114 [PRDBE] wrote:
>
>>> Hi Ben,
>>>
>>> When using oligo version 1.0.2-3, the pmStrand function indeed
>>> works :-)
>>> but the snprma function results in an error:
>>>
>>>      fsetSty <- read.celfiles(dir()[grep("S.CEL", dir())])
>>>      rmaSty <- snprma(fsetSty)
>>>
>>> Normalizing...Error in readChar(con, 5) : cannot open the connection
>>> In addition: Warning message:
>>> cannot open compressed file
>>>
>>> How can I check which connection needs to be established?
>>>
>>> Thanks in advance for your help!
>>> An
>>>
>
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