[BioC] Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings,

[Dr. Sanjay Bhatikar]

Hi Sally,

    I think what this means is you have in your header a label in the 
1st position.

    The simple way to solve this would be to delete the header label of 
the 1st column. Try it!

Cheers!
- Sanjay

Sally wrote:
> I am using limma and am trying to set up an ExpressionSet.  When I use the following script to read in a table  of expression data (17,329 rows x 29 columns, tab delimited):
>
> exprdata<-read.table("exprsData.txt", header=TRUE)
>
> I get the following error message:
>
> Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings,  : 
>   line 304 did not have 29 elements
>
>
>
> I looked at line 304 and it looks fine.  All 29 columns have data.
>
> I have also set options(expressions=400000)
>
> Have I reached some maximum # of expressions that can be read in, or is it another problem?  If I have reached a maximum #, is there a fix?
>
>
> My exprsData.txt file looks like this (note this is not the whole spreadsheet)
>
>       Feature c0M1 c0M2 c0M3 c0M4 
>       U179971 -4.7472 -4.43814 -4.3977 -2.97843 
>       e1 -0.24565 -0.53124 0.109064 -0.01936 
>       e2 -0.71906 0.035403 -0.16786 0.528748 
>       e3 -0.17362 0.32998 -0.0791 -0.50046 
>       e4 0.065989 0.003221 -0.30596 -0.42857 
>       e5 0.269098 -0.34523 -0.98694 -0.57842 
>       e6 0.038301 -0.09612 0.190023 -0.10283 
>       e7 -0.06462 -0.56698 -0.34373 0.285194 
>       e8 -1.10146 -0.06621 0.337491 -0.1891 
>       CA054869 -0.83861 0.145514 -0.40484 -0.18785 
>       CB490276 -0.71377 0.569419 -0.99984 -0.51384 
>
>
> Thank you
>
> Sally Goldes
> 	[[alternative HTML version deleted]]
>
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