[BioC] add a gene symbol colums in an exprSet or a matrix / infinite recursion error message

[Robert Gentleman]

On Mon, Oct 04, 2004 at 11:40:25AM +0200, Florence Combes wrote:
> Dear all,
> 
> I actually encounter an error message in relation with infinite recursion 
> when I try to call the write.table() function for a matrix of 288 columns 
> (288 hgu133a arrays ).
> The error message is:
> 
> Error: evaluation nested too deeply: infinite recursion / 
> options(expression=)?
> 
> I searched the email archives and I found that I could use the command:
> 
> options(expressions=10000)
> 
> to solve this problem but it does not change anything. So I would like to 
> know if I have to increase to 20000 or more in the above line ?
> Has someone already encountered same problem ???
> 

  It looks like you may not have done what you intended to do. Can you
  show us a small working example (perhaps using the test data set,
  eset, that comes with Biobase), it is pretty hard to tell otherwise.

  Robert


> 
> My goal is to add a column which includes the genesymbol before exporting 
> the data with write.table(). I do this with the functions
> getSYMBOL
> and
> cbind() to add the column at the expreSet I previously transformed in a 
> matrix object.
> 
> If someone  know how to do that in another way which would allow me not to 
> encounter the error message above, please tell me....
> 
> Any help kindly accepted.....
> 
> thanks a lot,
> 
> Florence.
> 
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| Robert Gentleman                 phone : (617) 632-5250                   |
| Associate Professor              fax:   (617)  632-2444                   |
| Department of Biostatistics      office: M1B20                            |
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