It appears you are facing a garbage collection issue.

?gc

Corey

On Thu, Jun 3, 2010 at 3:13 PM, Andreas Yankopolus <andreas@yank.to> wrote:

> I'm running an Ubuntu 10.04 system and installed R 2.10.1 through the
> package manger. I then installed Rgraphviz 1.24 and graph 1.26 through R.
>
> I'm trying to understand why a complex function my team wrote causes R's
> memory footprint viewed through top to increase every time it's run. I
> traced the increase in memory usage to layoutGraph() and wrote the following
> short function that reproduces the problem:
>
> foo <- function () {
>  library(Rgraphviz)
>  set.seed(123)
>  V <- letters[1:26]
>  M <- 1:2
>  g1 <- randomGraph(V, M, 0.5)
>  edgemode(g1) <- "directed"
>  x <- layoutGraph(g1,name="foo",layoutType="twopi", recipEdges="distinct")
> }
>
> I expected that any memory allocated by this function would be freed when
> it returns, but that's not the case. Is there something that I need to be
> doing to to clean up after using layoutGraph?
>
> Thanks,
>
> Andreas
>
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>

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