How to run fmincon on a cluster?
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Hi all, I want to run a matlab function, containing "fmincon" on a cluster. I used this code on my PC to use all of 4 cores.
matlabpool open 4
options=optimset('UseParallel','always');
[u,fval,exitflag] =fmincon(J,u0,[],[],[],[],lb,ub,[],options);
matlabpool close
When I want to run the same code on a cluster it returns this error: Error using ==> matlabpool>iVerifyJava at 379 matlabpool is not supported because Java is not currently available.
Error in ==> matlabpool at 92
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Edric Ellis
il 2 Mar 2011
How are you running the code on a cluster? It looks like you may be running "matlab -nojvm" on the cluster - as the error message suggests, you need the JVM available to run "matlabpool", so you need to run "matlab -nodisplay" instead.
Rather than using standard MATLAB/PCT licences on the cluster, you may wish to consider using MATLAB Distributed Computing Server licences ( MDCS product page ). That way, you can submit a "matlabpool job" directly from your desktop to the cluster where it will execute consuming only MDCS licences.
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Victor
il 2 Mar 2011
Hi all, Actually some times it depends from one cluster to another cluster, but you can try this steps: (Good luck :))
No matter which version you are using, the number of threads can be significantly reduced by turning off MATLAB's Java Virtual Machine (JVM), and forcing it to use a single computation thread. This can be done using the options:
matlab -nodisplay -nojvm -singleCompThread
(Note: -singleCompThread is supported only in MATLAB 7.8 and 7.9.)
If your MATLAB program is using a multithreaded library such as Intel MKL, you should also set the number of threads to one before executing "bsub":
export OMP_NUM_THREADS=1
bsub -n 1 -W HH:MM [...] matlab -nodisplay -nojvm -singleCompThread [...]
If, for any reason, you really want to use multiple threads, you must request an equivalent number of CPUs when you submit your job:
export OMP_NUM_THREADS=N
bsub -n N ...
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