Question: Error in Rnbeads:Error in logger.error(em) : Could not create file. cannot popen '/usr/bin/which 'gs' 2>/dev/null', probable reason 'Cannot allocate memory'
1
gravatar for preethibagopi28
23 months ago by
preethibagopi2810 wrote:

I'm analysis the Illumina 450k methylation data using Rnbeads.

I came across this error. I need help to rectify this error

 

The command which I've used :

>rnb.set<-rnb.run.analysis(dir.reports=report.dir, sample.sheet=sample.annotation,data.dir=idat.dir, data.type="infinium.idat.dir")

After 5 hours it shows the error like this.

Error:

2017-11-11 22:43:21    10.7    INFO             Mapping 3 traits to point colors and types
2017-11-11 22:44:02    10.7   ERROR             Could not create file. cannot popen '/usr/bin/which 'gs' 2>/dev/null', probable reason 'Cannot allocate memory'
Error in logger.error(em) :
  Could not create file. cannot popen '/usr/bin/which 'gs' 2>/dev/null', probable reason 'Cannot allocate memory'
In addition: There were 50 or more warnings (use warnings() to see the first 50)

 

Thanks in advance.

ADD COMMENTlink written 23 months ago by preethibagopi2810

did you ever figure this out?  I'm having same issue.  Was it just not enough space on analysis drive?

ADD REPLYlink modified 18 months ago • written 18 months ago by gaiusjaugustus0
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