WGCNA error r studio

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7.1 years ago

1769mkc ★ 1.2k

I m doing WGCNA analysis ,the moment i try to do TOMplot i get this error in my rstudio

Error: C stack usage 7971860 is too close to the limit

Im running the script on a machine with 128 gb ram ,why am i getting such error i thought there is plenty of memory .

any help or suggestion would be highly appreciated

R • 2.0k views

ADD COMMENT • link updated 6.9 years ago by Biostar 20 • written 7.1 years ago by 1769mkc ★ 1.2k

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Have you tried googling "C stack usage is too close to the limit"? Gives plenty of hits.

ADD REPLY • link 7.1 years ago by WouterDeCoster 47k

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i did there are plenty of links but no one gives a clear solution ..

ADD REPLY • link 7.1 years ago by 1769mkc ★ 1.2k

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I think that I reached this previously when doing partitioning around medoids (PAM) clustering. I think that it's a limit in the very architecture of R and not related to your available memory.

Have you tried running in parallel?

ADD REPLY • link 6.9 years ago by Kevin Blighe 88k

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"Have you tried running in parallel?" yes kevin but still i get the same error I have like 56 cores in the machine and 128 gb of ram...