[BioC] A circular problem: re-annotation of custom PM only probes

[Marc Carlson]

Hi Ariel,

Well something seems to be amiss, because the latest version of 
Bioconductor does not have a matchprobes package and hasn't for some 
time.  Can you please provide the output of sessionInfo()?  I am 
concerned that you might possibly have packages mixed from different 
releases.  It is still not clear to me what what is happening to you.  
Do you have a reproducible example of what you did so that I can try it 
here?

And while I am mentioning these things it might help you to have a peek 
at our posting guide:

http://www.bioconductor.org/help/mailing-list/posting-guide/


   Marc



On 06/22/2011 06:27 PM, Ariel Grostern wrote:
> Hello,
> I would like to re-annotate probes for a custom PM-only chip. I tried 
> using altcdfenvs, but discovered that I first needed a make a probes 
> database for my CDF library. To do this I tried using 
> makeProbePackage, only to discover that the package matchprobes does 
> not accept that my probes are PM-only. Like several people before me, 
> I get the error message
>
> Error in rep(NA, max(pm1, mm1, pm2, mm2)) : invalid 'times' argument
>
> THere has been mention that going back to an older version of 
> matchprobes will overcome this PM-only problem. Does anyone know of 
> other workarounds?
>
> I am using the most up-to-date version of R and its packages.
>
> Thanks,
> Ariel Grostern
> UC Berkeley
>
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