similar to: Combining: R + Condor in 2009 ? (+foreach maybe?)

Hi, I was wondering if anyone has successfully linked R against the Condor libraries so that R can be run as a Condor job in the "standard" (not "vanilla") universe. The advantage of this would be that due to checkpointing, jobs can be suspended and transferred to another node. There is a good overview by Xianhong Xie here:

Hello, I would be extremely grateful if anyone is able to provide any (rather obscure) advice on using R with Condor. I think I'm following Xianhong Xie's instructions (R News 5(2) 13-15) correctly, but my job just stays held in the queue (for days / months). I've checked condor_status to make sure there are plenty of machines available, but can't see any way to attack the

Hello all, Recently I started playing with running R scripts on the Condor system in my institute. (For more on this, have a look at: Running Long R Jobs with Condor DAG by Xianhong Xie link: http://cran.r-project.org/doc/Rnews/Rnews_2005-2.pdf ) Might someone advice me about the following question: How should I handle the RNG (random number generation) in the running of parallel instances of R

Dear Experts, Could someone recommend some "quick and dirty" HOWTO on condor based cluster? A did a bunch of cluster setups, I always used PBS (or torque lately). But my professor wants his to be Condor. I started reading Condor documentation, and it is vast. And quick route, like: architecture chart, and parameters I need to configure on master/submit, and compute nodes - somehow

I've discussed this a little with Ian off list, but relating to: https://fedoraproject.org/wiki/Features/Condor_Cloud Condor Cloud aims at setting up a bunch of Fedora nodes to act as a mini-cloud managed via the Condor grid infrastructure. So the natural question was... Why not use oVirt Node for this rather than a full Fedora OS install? Pulling condor-cloud and condor RPMs into the core

Hi Everyone, I have group of R jobs that should be submitted to the condor when I submit the jobs to the condor, they don't run and when I checked the Sched Log files the jobs are exiting with status code 10. Previously, the jobs ran well on condor but now when I submit the jobs on condor they aren't running.Can anyone explain the meaning of this? Here is my submit file: # Submit file

Dear all I am implement one grid computing system using GridR package. I am working on windows platform. I did all the configuration according to the GridR tutorial. But it has some errors when I execute grid.apply function. Here is the output from stderr: R: not found java.io.IOException: Error during SCP transfer. at com.trilead.ssh2.SCPClient.get(SCPClient.java:703) at

Full_Name: Juergen Rose Version: 2.8.0 (2008-10-20) OS: Linux 2.6.27.4 x86_64 Intel Submission from: (NULL) (87.185.220.122) If I start as ordinary user rose R and help.start(), the help is displayed in emacs. If I do as the user root, file:///tmp/Rtmpyzlc7Y/.R/doc/html/index.html is shown as expected in a firefox windows. So it seems to be connected with my private configuration. But I can not

Hi everyone,   I'm trying to do an Logistic Politomic Regression in R. Because I have my resposes variables and the aswer is 0 and 1 in 3 bacterial genes. Somebody know how to do this in R in a easy way?   Thank so much,   José Bustos Facultad de Ciencias Universidad Catolica Ssma. Concepcion Chile --- El lun, 31/8/09, r-help-request@r-project.org <r-help-request@r-project..org>

Dear All I am doing one distributed data mining program. So I selected GridR package for the distributed programming. *grid.init(service="local",debug=FALSE, localTmpDir="GridRTmp/") grid.apply("x",UCS, wait=TRUE )* UCS is a function. When I execute this statement, I have some errors like : *cannot load local function/variable: xmlRoot extracted from line: : no

My master is running 12.04 Version: 2.7.11-1ubuntu2 Depends: ruby1.8, puppetmaster-common (= 2.7.11-1ubuntu2) My client is 10.04 Version: 2.6.3-0ubuntu1~lucid1 Depends: puppet-common (= 2.6.3-0ubuntu1~lucid1), ruby1.8 I followed this tutorial to install Puppet on the client: http://shapeshed.com/setting-up-puppet-on-ubuntu-10-04/ (I didn''t need that tar ball because the "best

Hello.. When i use the command Smbpasswd ?a carguillo. It adds this entry in LDAP. # carguello,Personas,NOVA dn: uid=carguello,ou=Personas,o=NOVA uid: carguello sambaSID: S-1-5-21-2532083711-3846753250-2864659012-2328 sambaPrimaryGroupSID: S-1-5-21-2532083711-3846753250-2864659012-513 sambaPwdCanChange: 1075936258 sambaPwdMustChange: 2147483647 sambaLMPassword:

Dear Experts, I know there are many HPC (high performance computing) experts on this list. I'd like to ask your advise. Almost two decades ago I chose to go with OpenPBS (turned down condor and other alternatives for whatever reason) for clusters and number crunchers I support for the Department at the university. It turned out to be not bad, long lived choice. At some point I smoothly

Hi, I am trying to use 'GridR' package for the first time, and I'm running into a strange error from grid.check: > grid.check(gridFun) Error in exists(add) : invalid first argument After playing around in recover mode, I see that this because the variable 'add' created by grid.check is blank: Browse[1]> split[[1]][k] [1] " : " Browse[1]> add [1]

Hi all, Note: selinux was in permissive prior to error Got this with a yum update: abrt_version: 2.0.8 cgroup: cmdline: semodule -n -r oracle-port -b base.pp.bz2 -i accountsd.pp.bz2 ada.pp.bz2 cachefilesd.pp.bz2 cpufreqselector.pp.bz2 chrome.pp.bz2 awstats.pp.bz2 abrt.pp.bz2 aiccu.pp.bz2 amanda.pp.bz2 afs.pp.bz2 apache.pp.bz2 arpwatch.pp.bz2 audioentropy.pp.bz2 asterisk.pp.bz2

I need to serialize computing job requests for two different multicore machines, and in some near future, for a cluster. I have worked with SGE but it requires NFS and other administrative steps, plus it seems a bit overkill for my needs. I guess some simpler queue managing engine may have been developed, possibly over SSH. Any pointers? TIA. -- Eduardo Grosclaude Universidad Nacional del

I suspect I've found a bug buried somewhere deep inside the SMBmv code; I have an application, Archicad, which will not allow you to file->save over the top of an existing file, unless you happen to be the (unix) owner of that file. Unix permissions are mode 664, users can otherwise manipulate the files as expected. I've attempted various combinations/ permutations of

Dear all, We have started using R for data analysis since a few months and find it useful. We are planning to acquire a high-end dedicated system for microarray data analysis and thinking of a distributed environment. I would appreciate if some one could send some pointers regarding how to choose a proper hardware configuration, software (R or other software, esp. MATLAB), issues on setting up

Anyone know how to submit jobs to at or anything else that allows jobs submitted to a queue to be executed consecutively? I have a series of servers that submits a job via an ssh background job but I can only have one execute at any given time. Possibly some clever bash work? Thanks! jlc

Hi All In the past I have worked with parallel processing in R where a function F is applied to the elements of a list L. The more cpu cores one has, the faster the process will run. At the time of launching the process for (F,L) I will have a certain fixed number of cpu's that I can use. I have tested this approach and it works fine (i.e. package 'multicore' , using 'mapply'