similar to: Re: [openMosix-general] openMosix and R: File I/O issues?

It's generally said that OM needs lots more swap than plain Linux. There has to be someplace to juggle processes around. We use 4 GB nodes with something like 12 GB swap; that plus round-robin logins to distribute home nodes seemed to solve a lot of our problems. To use oMFS to allow processes to write from the node they've migrated to you also need DFSA enabled. That sounds like a great

Hi there, We're attempting to run an LVQ analysis over a cluster of machines via R and openMosix. R spawns several child processes simply by writing commands to several files and using system() to start a slave process. The processes migrate perfectly, and often finish with no reported errors, writing their results into respective files for the parent process to piece together.

Hi there, We're currently attempting to explain a slowdown of an LVQ-type parallel analysis we're working on. We are benchmarking our analysis running over openMosix against the same running via SNOW for R. Both perform similarly on small datasets, but on large datasets SNOW drastically outperforms openMosix. However, these results are achieve running SNOW on the default RedHat

Apologies if this is the wrong place to post this question. In that event, please point me in the right direction. My question is whether or not I can use Xen with OpenMosix. The upshot of what I''m attempting to do is this: 1. Build a two to four node cluster using OpenMosix for "raw horsepower" 2. Use Xen on the OpenMosix cluster to divide the "raw horsepower" any

Hi all, I was hoping to get some advice about a problem that I realize will be difficult to reproduce for some people. I'm running R 1.7.1 on an openMosix (Linux) cluster and have been experiencing some odd slow-downs. If anyone has experience with such a setup (or a similar one) I'd appreciate any help. Here's a simplified version of the problem. I'm trying to run the

Anyone have any experience running OpenMosix on CentOS 3? Are you using a kernel custom built or from somewhere? Any maintenance headaches wrt kernel updates? Thanks in advance. -Alan -- Alan Sparks, UNIX/Linux Systems Integration and Administration <asparks at doublesparks.net>

Thanks very much, Professor Ripley. Reid Huntsinger -----Original Message----- From: ripley at stats.ox.ac.uk [mailto:ripley at stats.ox.ac.uk] Sent: Tuesday, August 06, 2002 3:00 AM To: Huntsinger, Reid Cc: r-help at stat.math.ethz.ch Subject: Re: [R] pipe and binary i/o (on Linux) On Mon, 5 Aug 2002 ripley at stats.ox.ac.uk wrote: > pipe predates readBin, and no one has seen a

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Forgive me if I sent this twice, I think I hit the "send" button by mistake. --- Bj�rn Tore Svinningen <bt@erter.org> wrote: > I''ve seen your post on xen''s forum about running Xen ontop of openssi. > > Have you got''en any further on this idea ? Had the same idea myselves, > but it seems all posts I find end nowhere. Hm, I thought this

The following command, temp <- read.table("c:/rfr/r/test.txt") reads the text file "test.txt", which contains the following lines: 21437 21438 21419-2 21420-2 21421-2 21422-2 and produces the following result: > temp V1 1 21437+0i 2 21438+0i 3 0+0i 4 0+0i 5 0+0i 6 0+0i > These "numbers" are actually sample ID's, and I

In general this is what "apply" does. In your example you could use rowMeans(ar) as well, I think. Reid Huntsinger -----Original Message----- From: Olivier Martin [mailto:olivier.martin at inrialpes.fr] Sent: Tuesday, July 02, 2002 10:55 AM To: r-help Subject: [R] mean and array Hi all, I have an array, one say ar, with 3 dimensions. dim(ar) >200 3 4 I would like to

I often want to use "pipe" with "readBin" to read (binary) data from the standard output of a Perl or C program. For that I need "pipe" to work with the "open='rb'" option. It never worked for me, and after a look at the connections.c file, I see that in "pipe_open" the mode gets passed directly to "popen" (I'm using Linux on

You can use R objects, such as the return from gam, and the predict.gam function, from C. See the R extensions manual. Reid Huntsinger -----Original Message----- From: RenE J.V. Bertin [mailto:rjvbertin at despammed.com] Sent: Thursday, February 27, 2003 3:42 PM To: Wiener, Matthew Cc: r-help at stat.math.ethz.ch Subject: Re: [despammed] RE: [R] multidimensional function fitting On Thu, 27

I don't know the Russell-Rao coefficient but maybe this will help: You can compute the number of times y and x are both 1 (that's what your function f does) by counting 1s in y*x, i.e., sum(y*x), aka t(y)%*%x. Ordinary matrix multiplication does this row-by-column, so if M and N are two binary matrices, M%*%t(N) will have (i,j) entry equal to the count of 1s in common to row i of M and

The PAGE_SIZE constant should be used instead of taking an extra parameter. Moreover, once we use PAGE_SIZE, we can use PAGE_ALIGN() instead of having it open coded. I've only compile tested the lguest launcher as I'm on a 64-bit system but I've tested the virtio-pci device with KVM. Signed-off-by: Anthony Liguori <aliguori@us.ibm.com> diff --git

The PAGE_SIZE constant should be used instead of taking an extra parameter. Moreover, once we use PAGE_SIZE, we can use PAGE_ALIGN() instead of having it open coded. I've only compile tested the lguest launcher as I'm on a 64-bit system but I've tested the virtio-pci device with KVM. Signed-off-by: Anthony Liguori <aliguori@us.ibm.com> diff --git

[ Reposting this here as this Quantian release contains - all CRAN packages as of December 10, 2005 * except the Windows only ones (BRugs, mimR, rcom, RWinEdt) * and three that would not build (Rlsf, ROracle, rJava) for lack of Java, Oracle or rlsf - all BioC packages for release 1.8 * excecpt RMAGEML (needs Java) - for a total of over 800 R packages - a

[ Reposting this here as this Quantian release contains - all CRAN packages as of December 10, 2005 * except the Windows only ones (BRugs, mimR, rcom, RWinEdt) * and three that would not build (Rlsf, ROracle, rJava) for lack of Java, Oracle or rlsf - all BioC packages for release 1.8 * excecpt RMAGEML (needs Java) - for a total of over 800 R packages - a

R allows you to dynamically extend a vector by assigning past the end. So if a has length 10, then assigning to a[11] creates also a[11] with value a2[11] NA. So a is now length 11, while a2 is still length 10. So the occurrence of a[11] has a different meaning on the assigned-to side than on the assigned-from side. E.g. >a <- rep(1,10) >b <- 11 >a2 <- a >a[b] <- a2[b]

[ I hope this is not considered off-topic for the list: A new Quantian release was just announced, and it contains even more R. As before, we have R (now 2.2.1), ESS, Ggobi, Rpy, several BioInfo tools -- but now we also have RSPerl, JGR, rJava and more. A full sync to CRAN and BioC as of Feb 25, 2006 now yields dim(installed.packages())[1] of 877. Feedback welcome, but