code/stage1/wrapper.R

   1 ppam_exe = function(path=".", np=parallel::detectCores(), data=NULL, args="DontLetMeEmpty")
   2 {
   3     command_line = paste("mpirun -np ",np," ",path,"/ppam.exe cluster",sep="")
   4
   5     #if data provided (as data.frame or matrix...): binarize it, and add it as first argument
   6     if (!is.null(data))
   7     {
   8         if (!is.character(data))
   9         {
  10             #assuming matrix or data.frame, WITH row names (identifiers; could be line number...)
  11             write.csv(data, "/tmp/data_csv", row.names=TRUE, col.names=FALSE)
  12             system(paste(path,"/ppam.exe serialize /tmp/data_csv /tmp/data_bin 0 0",sep=""))
  13         } else
  14         {
  15             system(paste(path,"/ppam.exe serialize ",data," /tmp/data_bin 0 0",sep=""))
  16         }
  17         command_line = paste(command_line," /tmp/data_bin",sep="")
  18     }
  19
  20     command_line = paste(command_line," ",args,sep="")
  21     system(command_line)
  22 }