[R-sig-hpc] Rsge combined with mclapply?

Daniel Sabanés Bové daniel.sabanesbove at ifspm.uzh.ch
Tue Jun 5 12:19:43 CEST 2012

Dear Dan Bode,

first of all I would like to thank you very much for your R-package 
"Rsge". It looks very helpful, because I need to submit my parallel jobs 
on the local cluster using SGE.

Actually I have a trivially parallel problem which could be sequentially 
solved by lapply(), and on a single machine with multiple cores by 
mclapply() from the base R-package "parallel". Because the local cluster 
has nodes with multiple cores, I would like to combine sge.parLapply (to 
distribute to nodes) with mclapply (not lapply, to distribute to cores 
in each node).

Before doing some modifications to sge.parParApply like introducing 
another apply.method for mclapply, I would like to be sure that you have 
not already programmed a nice solution for this problem. So, did you 
already have the same problem as I am facing now? Would you think 
another apply.method for sge.parParApply would be a good way to go?

Thank you very much in advance for any hints or suggestions.

Best regards
Daniel Sabanes

Daniel Sabanés Bové
University of Zurich
Institute of Social and Preventive Medicine
Division of Biostatistics
Hirschengraben 84
CH-8001 Zurich

Tel. +41 (0)44 634 49 73
Fax: +41 (0)44 634 43 86
URL : http://www.biostat.uzh.ch/aboutus/people/sabanes.html

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