R help - Feb 2006 - Limit of matrix + naming

Hi all,

 

I have read a data matrix of 304 x 404 using read.table.  When I am
trying to name the colnames, with first try colnames(L5)<-list(2:305),

I keep getting error message such as 

 

Error in "colnames<-"(`*tmp*`, value = list(c(2, 3, 4, 5, 6, 7, 8,
9,  :


        length of 'dimnames' [2] not equal to array extent

 

and I don't know why.  But, if I look at the original names in terms of
V1, V2, the rownames are repeated again after V256.  Is there a
limitation?  

 

Thanks.

 

Yen Lin


	[[alternative HTML version deleted]]

hi group, 
 I have a list of 100 elements (genes), that are to be
queried in postgres.  The out of the file is processed
for fisher test and written back as a file with
pvalues.
For one such operation there are 54 lines of code. 

I replicated the same code changing the query element
and file name to write back. 

I created a jumbo 100*54 = 5400 lines of code by
replication. 

I saved this file as .R and ran it as:
R CMD BATCH myfile.R..

The program ran for ~40 mins. ( each operation takes 5
mins). after going home, I checked the stats and saw
that the program got aborted leaving 8 output files in
directory. 

I checked /var/log/messages and found :

localhost kernel: R[1304] general protection
rip:2a988c919e rsp:7fbfff87f0 error:0


postgres did not log any error message. 

This is my first time I am running my R code in BATCH
mode. I am a new to programming in R and I have been
working directly with R interface. 

Could any one guess what could have been the problem. 

Thanks
Sri

Looking at length(list(2:305)) and str(list(2:305)) can be instructive.  You
don't need the list(), and you probably want to use `legal' names for
variables.

Andy

From: Chia, Yen Lin
> 
> Hi all,
> 
>  
> 
> I have read a data matrix of 304 x 404 using read.table.  When I am
> trying to name the colnames, with first try colnames(L5)<-list(2:305),
> 
> I keep getting error message such as 
> 
>  
> 
> Error in "colnames<-"(`*tmp*`, value = list(c(2, 3, 4, 5, 6, 
> 7, 8, 9,  :
> 
> 
>         length of 'dimnames' [2] not equal to array extent
> 
>  
> 
> and I don't know why.  But, if I look at the original names 
> in terms of
> V1, V2, the rownames are repeated again after V256.  Is there a
> limitation?  
> 
>  
> 
> Thanks.
> 
>  
> 
> Yen Lin
> 
> 
> 	[[alternative HTML version deleted]]
> 
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