R help - Aug 2012 - Why was my R process killed spontaneously?

I tried to use gpuCor function in the gputools package of R to calcuate the
pairwise correlations of a matrix of 40,000 columns.

Becuase there would be memory issues if I use the whole matrix at a time, I
splitted the matrix into submatrix of 10,000 columns and then calculate the
pairwise correlation of different submatrices. There are altogether 4
submatrices, so I need to calculate the pearson correlation of sub matrix 1
with sub matrix 1,2,3,4, and sub matrix 2 with submatrix 1,2,3,4, etc.

The program runs well at first, but at the last step, which is calculating
the correlation between submatrix 4 with itself, the program was killed and
gave no error messages.

Have anybody else encountered this before?

Actually it doesn't have to be related with gpuCor. Just generally
speaking, in what circumstances would a R program be killed spontaneously
without any error messages?

Thanks.

	[[alternative HTML version deleted]]

Yes. Operating systems kill processes that consume excessive resources. That
excess may arise from one large computation or from a small one on top of many
other allocations... the "straw that broke the camel's back"
problem.
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flora flora <floraflora196 at gmail.com> wrote:
>I tried to use gpuCor function in the gputools package of R to calcuate
>the
>pairwise correlations of a matrix of 40,000 columns.
>
>Becuase there would be memory issues if I use the whole matrix at a
>time, I
>splitted the matrix into submatrix of 10,000 columns and then calculate
>the
>pairwise correlation of different submatrices. There are altogether 4
>submatrices, so I need to calculate the pearson correlation of sub
>matrix 1
>with sub matrix 1,2,3,4, and sub matrix 2 with submatrix 1,2,3,4, etc.
>
>The program runs well at first, but at the last step, which is
>calculating
>the correlation between submatrix 4 with itself, the program was killed
>and
>gave no error messages.
>
>Have anybody else encountered this before?
>
>Actually it doesn't have to be related with gpuCor. Just generally
>speaking, in what circumstances would a R program be killed
>spontaneously
>without any error messages?
>
>Thanks.
>
>	[[alternative HTML version deleted]]
>
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