Question: WGCNA error r studio
0
gravatar for krushnach80
7 months ago by
krushnach80300
krushnach80300 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 • 393 views
ADD COMMENTlink modified 5 months ago by Biostar ♦♦ 20 • written 7 months ago by krushnach80300

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

ADD REPLYlink written 7 months ago by WouterDeCoster29k

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

ADD REPLYlink written 7 months ago by krushnach80300
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 5 months ago by Kevin Blighe21k

"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 5 months ago by krushnach80300

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

ADD REPLYlink written 5 months ago by WouterDeCoster29k
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