Tokyo Web Mining #10での発表資料です

1. Rmpi snow
2011 2 27
(@mokjpn)
2011 2 27 1

2. snow
2011 2 27 2

3. “R”
Wiki RjpWiki
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4. .....
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5. ....
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6. Mac, 8 ....
12 .... R CPU
100%
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7. ,
, 50 ( 5 )
, , , ID, ,
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8. 2 0.3
( )
1 ±90
(
)
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9. (5 )
...50
5
(5 )
1
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10. (R , ...)
Simple Network of Workstations: snow
parLapply
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11. snow ”SOCK”, “MPI”, “PVM”
, Mac
Leopard OpenMPI
(/usr/bin/mpirun )
MPI
R Rmpi
2011 2 27 11

12. 50 sample 5
2 )
system.time (Mac Pro,
2.66GHz Quad-Core Xeon), 4
35.815 6.944 42.481
4 5.226 21.670 26.806
8 5.169 28.009 34.398
2 7.339 23.668 30.854
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13. snow
> # Rmpi snow
> library(Rmpi)
> library(snow)
> cl <- makeCluster(4, “MPI”)
> #( : ).....
> stopCluster(cl)
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14. all2list <- function(cl, all=fakeall, columns=c("OrderAcceptDate.D","Sex",
"Age", "XFT4000", "XQM9800")) {
clusterExport(cl,c("all","columns"))
id <- paste("P",unique(all$PatientID),sep="")
idlist <- as.list(unique(all$PatientID))
names(idlist) <- id
parLapply(cl, idlist, function(x) { ctable <- all[which(all$PatientID ==
x), columns]
return(ctable.sorted <- ctable[order(ctable$OrderAcceptDate.D),])
} )
}
※ clusterExport
export (RjpWiki “R ” )
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15. OrderAcceptDate.D XFT4000 XQM9800 Admission Age Sex PatientID
1 2008-11-11 NA 1.13 55 F 5664297
2 2009-09-11 0.95 0.27 61 M 2989233
3 2010-05-28 0.82 0.92 70 F 3204964
4 2007-08-27 0.21 1.01 38 F 7503779
5 2010-02-18 7.26 0.88 73 M 3090135
6 2010-02-04 0.50 3.30 63 M 7271333
$P2989233
OrderAcceptDate.D Sex Age XFT4000 Admission XQM9800
2009-01-20 M 60 1.09 0.07
2009-02-13 M 60 1.06 0.63
2009-03-03 M 60 0.91 0.27
2009-09-11 M 61 0.95 0.27
2010-05-28 M 61 0.92 0.82
2010-06-25 M 62 1.17 0.33
2010-06-29 M 62 1.10 6.94
※ID,
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16. parLapply lapply
function(x)
unlist vector
rbind
parLapply
lapply
# parLapply : result, : d
d <- data.frame()
for(n in names(result)) {
if(!is.null(a <- result[[n]] )) {
d <<- rbind(d,data.frame(name=n, Sex=a$Sex,Age=a$Age, XFT4000=a$XFT4000))
}
}
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17. Mac R , Rmpi snow
parLapply lapply
list
unlist , $
[[ ]]
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18. Rmpi , snow ,R 50
R
B5
, ISBN 978-4-489-02097-1
4
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