[R] Problems with snow and rpvm

From: Vittorio <vdemart1_at_tin.it>
Date: Fri 16 Dec 2005 - 03:36:46 EST


Dear Friends,  

I'm trying to learn to use parallel computation using snow & rpvm
Now, I have two boxes:
1) Pentium 4, pvm 3.4.5, R 2.2.0
with FreeBSD 5.4 (box uffbsd);
2) PowerPC, pvm 3.4.5, R 2.1.1 with
Debian Linux latest stable (box powerpclinux);

I'm using the
instructions in (found in snow.pdf) http://www.stat.uiowa. edu/~luke/R/cluster/cluster.html.

Now ** from the box uffbsd ** using
some of the example binaries boxed with pvm it seems that all works ok:

.....................................
.....................................

pvm> conf
conf
2 hosts, 2 data
formats
                    HOST     DTID     ARCH   SPEED       DSIG
             	  uffbsd    40000  FREEBSD    1000 0x00408841
            

powerpclinux 80000 LINUXPPC 1000 0x0658eb59 pvm> mstat
powerpclinux
mstat powerpclinux

            powerpclinux ok

pvm>
mstat uffbsd
mstat uffbsd

             uffbsd ok

pvm> spawn -> hello
spawn -> hello
[13]

1 successful
t80012
pvm> [13:t80012] i'm t80012
[13:

t80012] from t80013: hello, world from powerpclinux
[13:t80013] EOF
[13:

t80012] EOF
[13] finished

pvm> spawn -> master1
 spawn -> master1
[11]

1 successful
t8000e
pvm> [11:t40013] EOF
[11:t40014] EOF
[11:

t80011] EOF
[11:t40012] EOF
[11:t80010] EOF
[11:t8000f] EOF
[11:t8000e]

Spawning 6 worker tasks ... SUCCESSFUL
[11:t8000e] I got 100.000000

from 1; (expecting 100.000000)
[11:t8000e] I got 300.000000 from 2;

(expecting 300.000000)
[11:t8000e] I got 500.000000 from 3; (expecting
500.000000)
[11:t8000e] I got 500.000000 from 0; (expecting 500.000000)
[11:t8000e] I got 700.000000 from 4; (expecting 700.000000)
[11:t8000e]

I got 900.000000 from 5; (expecting 900.000000)
[11:t8000e] EOF
[11]

finished

pvm> spawn -> master1
spawn -> master1
[10]

1 successful
t4000e
pvm> [10:t40011] EOF
[10:t40010] EOF
[10:t4000f] EOF
[10:t8000d]

EOF
[10:t4000e] Spawning 6 worker tasks ... SUCCESSFUL
[10:t4000e] I

got 700.000000 from 4; (expecting 700.000000)
[10:t4000e] I got

900.000000 from 5; (expecting 900.000000)
[10:t4000e] I got 500.000000

from 3; (expecting 500.000000)
[10:t4000e] I got 300.000000 from 2;

(expecting 300.000000)
[10:t4000e] I got 500.000000 from 0; (expecting
500.000000)
[10:t4000e] I got 100.000000 from 1; (expecting 100.000000)
[10:t4000e] EOF
[10:t8000c] EOF
[10:t8000b] EOF
[10] finished

pvm>
spawn -> slave1
spawn -> slave1
[17]

1 successful
t40019
pvm> spawn ->
slave1
spawn -> slave1
[18]

1 successful
t80017

.........................................
.........................................


Now, starting R ** always
from box uffbsd **

I get the following

........................

>
library(snow)
> cl <- makeCluster(2)
Loading required package: rpvm
>
cl
[[1]]

$tid
[1] 262171

$RECVTAG
[1] 33

$SENDTAG
[1] 22

attr(,"class")
[1] "PVMnode"

[[2]]

$tid
[1] 524312

$RECVTAG
[1] 33

$SENDTAG
[1] 22

attr(,"class")

[1] "PVMnode"

attr(,"class")
[1] "PVMcluster"
......................

But trying any of the commands suggested in the cited website such as:

> clusterCall(cl, function() Sys.info()[c ("nodename","machine")])
> clusterEvalQ(cl, library(boot))
>
clusterApply(cl, 1:2, get("+"), 3)

R invariably freezes and
frustatrated I have to close the terminal session and restart it all over again (to no avail, of course).

The other hint for you could be
that if - instead of a debian powerpc box - I use a second freebsd box with the same software as uffbsd it all works smoothly.

What do you
suggest to check?

Ciao
Vittorio



R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Received on Fri Dec 16 03:46:43 2005

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