Hi Everyone,
I am getting the following error message
Error: cannot allocate vector of size 2.6 Gb
In addition: Warning messages:
1: In dim(res$res) = dim(bi) :
Reached total allocation of 8122Mb: see help(memory.size)
2: In dim(res$res) = dim(bi) :
Reached total allocation of 8122Mb: see help(memory.size)
3: In dim(res$res) = dim(bi) :
Reached total allocation of 8122Mb: see help(memory.size)
4: In dim(res$res) = dim(bi) :
Reached total allocation of 8122Mb: see help(memory.size)
Here is the relevant info
> sessionInfo()
R version 2.11.1 (2010-05-31)
x86_64-pc-mingw32
locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252
attached base packages:
[1] splines tcltk stats graphics grDevices utils datasets
[8] methods base
other attached packages:
[1] cluster_1.12.3 WGCNA_0.93 Hmisc_3.8-2
[4] survival_2.35-8 qvalue_1.22.0 flashClust_1.00-2
[7] dynamicTreeCut_1.21 impute_1.22.0
loaded via a namespace (and not attached):
[1] grid_2.11.1 lattice_0.19-11 tools_2.11.1
> memory.size(NA)
[1] 8122.89
> memory.size()
[1] 5443.18
> memory.limit()
[1] 8122
> .Machine$sizeof.pointer
[1] 8
And this is what I am trying to do when I get this error message
> ls()
[1] "datExpr"
> print(object.size(datExpr), units = "auto")
23.5 Mb
> ADJ1=((1+bicor(datExpr, use="pairwise.complete.obs", maxPOutliers=0.05,
> quick=0, pearsonFallback="individual"))/2)^8
If I understand the archives correctly my problem is with memory allocation of
a large vector to the address space. Is there any way to get around this
without having to use a Linux system? Has anyone been able to solve this
problem?
I appreciate any suggestions or help.
Mete Civelek
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