Question: WGCNA error r studio
0
gravatar for krushnach80
10 months ago by
krushnach80350
krushnach80350 wrote:

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 • 463 views
ADD COMMENTlink modified 8 months ago by Biostar ♦♦ 20 • written 10 months ago by krushnach80350

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

ADD REPLYlink written 10 months ago by WouterDeCoster32k

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

ADD REPLYlink written 10 months ago by krushnach80350
1

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 REPLYlink written 8 months ago by Kevin Blighe28k

"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...

ADD REPLYlink written 8 months ago by krushnach80350

What about this? https://stackoverflow.com/a/14719448/6631639

ADD REPLYlink written 8 months ago by WouterDeCoster32k
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