[R] memory.size help

[dxc13]

I have 512 MB RAM with a 1.5 GHz processor.  The dataset I am working with
increases with size with every iteration of the function that I am writing. 
R can handle the input data which is about 10,000 records, and a single
iteration with 19,500 observations.  After this, I get the memory.size()
error message.
I have only written 1 other R function so I am not too familiar with
optimizing code.  Do you have any suggestions?


Andris Jankevics wrote:
> 
> You havn't said anithing about your OS and version. But basicly I means,
> that 
> you don't have enoigh RAM or swap memory aviable on your system. How large 
> dataset you have?
> 
> 1. You can optimise your code. :) 
> 
> or
> 
> 2. You can just add more RAM to your system, or you can add more swap
> space on 
> your HDD. Work with data in swap will be really slow.
> 
> In linux OS you can add additional swap space, by these commmands:
> 
> 2 GB file:
> 
> dd if=/dev/zero of=/swapfile1 bs=1024 count=2097152
> mkswap /swapfile1
> swapon /swapfile1
> 
> 
> 
> On Friday 31 August 2007 15:27:58 dxc13 wrote:
>> w1 <- outer(xk$xk1, data[,x1], function(y,z) abs(z-y))
>> w2 <- outer(xk$xk2, data[,x2], function(y,z) abs(z-y))
>> w1[w1 > d1] <- NA
>> w2[w2 > d2] <- NA
>> i1 <- ifelse(!is.na(w1),yvals[col(w1)],NA)
>> i2 <- ifelse(!is.na(w2),yvals[col(w2)],NA)
>> zk <- numeric(nrow(xk))      #DEFININING AN EMPTY VECTOR TO HOLD ZK
>> VALUES
>> for(x in 1:nrow(xk)) {
>>         k <- intersect(i1[x,], i2[x,])
>>         zk[x] <- mean(unlist(k), na.rm = TRUE)
>> }
>> xk$zk <- zk
>> data <- na.omit(xk)
> 
> 
> 
> -- 
> Andris Jankevics
> Assistant
> Department of Medicinal Chemistry
> Latvian Institute of Organic Synthesis
> Aizkraukles 21, LV-1006, Riga, Latvia
> 
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> and provide commented, minimal, self-contained, reproducible code.
> 
> 

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