Question: (Closed) Error: Allocate vector size in R - Running in server (not local)
0
gravatar for muralinmars
5.6 years ago by
muralinmars80
France
muralinmars80 wrote:

I am running in to this problem of memory allocation (Error: cannot allocate vector of size xxxMb) when try to run R script in a server: R script calculates Pvalue from the output of ProbAbel. 

server memory allocation: IBM iDataPlex Linux #1.2.6.32.46-0.3-default LOAD LEVELER 4.1.1.3

 

# @ resources=ConsumableCpus(1) ConsumableMemory(24gb) 
# @ job_type = serial
# @ class = A
R sessioninfo:

R version 2.10.0 (2009-10-26) 
x86_64-unknown-linux-gnu 
locale:
[1] C
attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

Most of the troubleshoots advised here in this page are attributed to local machines;;;;;;

Any help would be great... let me know if you need additional details

thanks M

linux probabel R • 2.3k views
ADD COMMENTlink written 5.6 years ago by muralinmars80
1

Your process is running out of memory. Please ask for help on such errors - using the latest version of R and BioC and providing a reproducible example including file sizes - to either BioC or R-help, your R version is 5 years old, you won't receive any helpful comments without using the latest version there either. Hint: difference between local and server is irrelevant here.

ADD REPLYlink modified 5.6 years ago • written 5.6 years ago by Michael Dondrup47k

Hello muralinmars!

We believe that this post does not fit the main topic of this site.

Out of memory error, not sufficiently documented, nor reproducible, nor specifically related to bioinformatics.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

Cheers!

ADD REPLYlink modified 5.6 years ago • written 5.6 years ago by Michael Dondrup47k
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