Commit 14b36ebe authored by Christoph Ziegenhain's avatar Christoph Ziegenhain
Browse files

prevent error with too little RAM for samtools

parent 46423135

runfeatureCountFUN.R

+4 −1
Original line number Diff line number Diff line
@@ -88,6 +88,9 @@ checkRsubreadVersion<- function(){ 
    mempercpu <- round(100/cpu,0)

  }else{

    mempercpu <- round(mem/cpu,0)

    if(mempercpu==0){

      mempercpu <- 1

    }

  }



  system(paste("samtools sort -n -O 'BAM' -@",cpu,paste0("-m ",mempercpu,"G"),"-o",nfn,fn))

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