[R] Error during working with wgcna and R

[Uwe Ligges]

On 08.07.2012 13:02, deeksha.malhan wrote:
> Hi
> I am working on co-expression analysis of rice dataset with the help of
> wgcna and R but now I am  at one point which is showing error as shown below
> :
>
>
>   dissTOM = 1-TOMsimilarityFromExpr(datExpr, power = 8);
> Error: cannot allocate vector of size 2.8 Gb
> In addition: Warning messages:
> 1: In matrix(0, nGenes, nGenes) :
>    Reached total allocation of 2550Mb: see help(memory.size)
> 2: In matrix(0, nGenes, nGenes) :
>    Reached total allocation of 2550Mb: see help(memory.size)
> 3: In matrix(0, nGenes, nGenes) :
>    Reached total allocation of 2550Mb: see help(memory.size)
> 4: In matrix(0, nGenes, nGenes) :
>    Reached total allocation of 2550Mb: see help(memory.size)

>
> Help me to resolve this problem

Your problem requires in the next step at least 2.8Gb more memory, but 
you already allocated 2.5Gb which is your maximum, obviously. We really 
cannot help you to reduce the problem size without knowing anything 
about it.

Uwe Ligges



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