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Enhancing e-Infrastructures with Advanced Technical Computing: Parallel MATLAB® on the Grid

by Arjav Chakravarti

 

12 Sep 2008 (Updated 12 Nov 2008)

Code covered by BSD License  

code exercises for M11 tutorial at SC08

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File Information
Description

The MATLAB and gLite code exercises for the M11 tutorial at SC08, jointly delivered by The MathWorks and EGEE

Note: Exercise 2 and Exercise 6 were written to operate on large data sets. However, in order to comply with restrictions on data uploads to MATLAB Central, a reduced data set has been provided.

MATLAB release MATLAB 7.7 (R2008b)
Other requirements All programs require Parallel Computing Toolbox. MATLAB Distributed Computing Server is optional. Some programs require SimBiology or Optimization Toolbox
Zip File Content  
Published M Files Exercise1_SimBio_parfor, Exercise3_SimBio_jobs, Exercise5_batch_parfor, Exercise6_batch_spmd, Message Passing used in Calculating the Block Average of a Distributed Matrix, Parfor version of Portfolio Optimization, Parfor version of Portfolio Optimization, Parfor version of Portfolio Optimization, Parfor version of Portfolio Optimization, Portfolio Optimization Demo (with Distributed Arrays and SPMD)
Other Files
Tutorial_Code/,
Tutorial_Code/Demos/,
Tutorial_Code/Demos/Demo1_parfor/,
Tutorial_Code/Demos/Demo1_parfor/Demo1_plot_optim.m,
Tutorial_Code/Demos/Demo1_parfor/Demo1_PorfolioOptim.m,
Tutorial_Code/Demos/Demo1_parfor/Demo1_setup_optim.m,
Tutorial_Code/Demos/Demo1_parfor/Demo1_task_optim.m,
Tutorial_Code/Demos/Demo1_parfor/Demo1_task_optim_parfor.m,
Tutorial_Code/Demos/Demo1_parfor/html/,
Tutorial_Code/Demos/Demo1_parfor/html/paralleldemo_optim_parfor.png,
Tutorial_Code/Demos/Demo1_parfor/html/paralleldemo_optim_parfor_01.png,
Tutorial_Code/Demos/Demo1_parfor/html/paralleldemo_optim_parfor_02.png,
Tutorial_Code/Demos/Demo1_parfor/html/paralleldemo_optim_parfor_03.png,
Tutorial_Code/Demos/Demo1_parfor/private/,
Tutorial_Code/Demos/Demo1_parfor/private/pConvertToPVArrays.m,
Tutorial_Code/Demos/Demo1_parfor/private/pctdemo_data_mvar.mat,
Tutorial_Code/Demos/Demo1_parfor/private/pctdemo_data_optim.mat,
Tutorial_Code/Demos/Demo1_parfor/private/pDemoFigure.m,
Tutorial_Code/Demos/Demo1_parfor/private/pTypeChecker.m,
Tutorial_Code/Demos/Demo2_spmd/,
Tutorial_Code/Demos/Demo2_spmd/Demo2_spmd.m,
Tutorial_Code/Demos/Demo3_batch/,
Tutorial_Code/Demos/Demo3_batch/Demo3_batchPortfolioOptim.m,
Tutorial_Code/Demos/Demo3_batch/Demo3_batchSPMD.m,
Tutorial_Code/Demos/Demo3_batch/Demo3_plot_optim.m,
Tutorial_Code/Demos/Demo3_batch/Demo3_setup_optim.m,
Tutorial_Code/Demos/Demo3_batch/Demo3_spmd_script.m,
Tutorial_Code/Demos/Demo3_batch/Demo3_task_optim_parfor.m,
Tutorial_Code/Demos/Demo3_batch/Demo3_task_optim_script.m,
Tutorial_Code/Demos/Demo3_batch/html/,
Tutorial_Code/Demos/Demo3_batch/html/paralleldemo_optim_parfor.png,
Tutorial_Code/Demos/Demo3_batch/html/paralleldemo_optim_parfor_01.png,
Tutorial_Code/Demos/Demo3_batch/html/paralleldemo_optim_parfor_02.png,
Tutorial_Code/Demos/Demo3_batch/html/paralleldemo_optim_parfor_03.png,
Tutorial_Code/Demos/Demo3_batch/private/,
Tutorial_Code/Demos/Demo3_batch/private/pConvertToPVArrays.m,
Tutorial_Code/Demos/Demo3_batch/private/pctdemo_data_mvar.mat,
Tutorial_Code/Demos/Demo3_batch/private/pctdemo_data_optim.mat,
Tutorial_Code/Demos/Demo3_batch/private/pDemoFigure.m,
Tutorial_Code/Demos/Demo3_batch/private/pTypeChecker.m,
Tutorial_Code/Demos/Demo4_jobs/,
Tutorial_Code/Demos/Demo4_jobs/Demo4_plot_optim.m,
Tutorial_Code/Demos/Demo4_jobs/Demo4_PorfolioOptim.m,
Tutorial_Code/Demos/Demo4_jobs/Demo4_setup_optim.m,
Tutorial_Code/Demos/Demo4_jobs/Demo4_task_optim.m,
Tutorial_Code/Demos/Demo4_jobs/Demo4_task_optim_jobs.m,
Tutorial_Code/Demos/Demo4_jobs/html/,
Tutorial_Code/Demos/Demo4_jobs/html/paralleldemo_optim_parfor.png,
Tutorial_Code/Demos/Demo4_jobs/html/paralleldemo_optim_parfor_01.png,
Tutorial_Code/Demos/Demo4_jobs/html/paralleldemo_optim_parfor_02.png,
Tutorial_Code/Demos/Demo4_jobs/html/paralleldemo_optim_parfor_03.png,
Tutorial_Code/Demos/Demo4_jobs/private/,
Tutorial_Code/Demos/Demo4_jobs/private/pConvertToPVArrays.m,
Tutorial_Code/Demos/Demo4_jobs/private/pctdemo_data_mvar.mat,
Tutorial_Code/Demos/Demo4_jobs/private/pctdemo_data_optim.mat,
Tutorial_Code/Demos/Demo4_jobs/private/pctdemo_helper_getUniqueErrors.m,
Tutorial_Code/Demos/Demo4_jobs/private/pctdemo_helper_split_vector.m,
Tutorial_Code/Demos/Demo4_jobs/private/pDemoFigure.m,
Tutorial_Code/Demos/Demo4_jobs/private/pTypeChecker.m,
Tutorial_Code/Demos/Demo5_MPI/,
Tutorial_Code/Demos/Demo5_MPI/Demo5_MPI.m,
Tutorial_Code/Demos/Demo6_batch_parfor/,
Tutorial_Code/Demos/Demo6_batch_parfor/Demo6_batchPortfolioOptim.m,
Tutorial_Code/Demos/Demo6_batch_parfor/Demo6_plot_optim.m,
Tutorial_Code/Demos/Demo6_batch_parfor/Demo6_setup_optim.m,
Tutorial_Code/Demos/Demo6_batch_parfor/Demo6_task_optim_parfor.m,
Tutorial_Code/Demos/Demo6_batch_parfor/Demo6_task_optim_script.m,
Tutorial_Code/Demos/Demo6_batch_parfor/html/,
Tutorial_Code/Demos/Demo6_batch_parfor/html/paralleldemo_optim_parfor.png,
Tutorial_Code/Demos/Demo6_batch_parfor/html/paralleldemo_optim_parfor_01.png,
Tutorial_Code/Demos/Demo6_batch_parfor/html/paralleldemo_optim_parfor_02.png,
Tutorial_Code/Demos/Demo6_batch_parfor/html/paralleldemo_optim_parfor_03.png,
Tutorial_Code/Demos/Demo6_batch_parfor/private/,
Tutorial_Code/Demos/Demo6_batch_parfor/private/pConvertToPVArrays.m,
Tutorial_Code/Demos/Demo6_batch_parfor/private/pctdemo_data_mvar.mat,
Tutorial_Code/Demos/Demo6_batch_parfor/private/pctdemo_data_optim.mat,
Tutorial_Code/Demos/Demo6_batch_parfor/private/pDemoFigure.m,
Tutorial_Code/Demos/Demo6_batch_parfor/private/pTypeChecker.m,
Tutorial_Code/Exercises/,
Tutorial_Code/Exercises/Exercise1_parfor/,
Tutorial_Code/Exercises/Exercise1_parfor/Exercise1_SimBio_parfor.m,
Tutorial_Code/Exercises/Exercise1_parfor/GeneRegulation.sbproj,
Tutorial_Code/Exercises/Exercise1_parfor/html/,
Tutorial_Code/Exercises/Exercise1_parfor/html/Exercise1_SimBio_parfor.png,
Tutorial_Code/Exercises/Exercise1_parfor/html/Exercise1_SimBio_parfor_01.png,
Tutorial_Code/Exercises/Exercise1_parfor/pngsforSimBio/,
Tutorial_Code/Exercises/Exercise1_parfor/pngsforSimBio/active.png,
Tutorial_Code/Exercises/Exercise1_parfor/pngsforSimBio/dimer.png,
Tutorial_Code/Exercises/Exercise1_parfor/pngsforSimBio/dimer1.png,
Tutorial_Code/Exercises/Exercise1_parfor/pngsforSimBio/inactive.png,
Tutorial_Code/Exercises/Exercise1_parfor/pngsforSimBio/null.png,
Tutorial_Code/Exercises/Exercise1_parfor/pngsforSimBio/protein.png,
Tutorial_Code/Exercises/Exercise1_parfor/sbiosimulate_wrapper.m,
Tutorial_Code/Exercises/Exercise1_parfor/simulation.m,
Tutorial_Code/Exercises/Exercise2_spmd/,
Tutorial_Code/Exercises/Exercise2_spmd/Exercise2_loadReturns.m,
Tutorial_Code/Exercises/Exercise2_spmd/Exercise2_plot_optim.m,
Tutorial_Code/Exercises/Exercise2_spmd/Exercise2_task_optim.m,
Tutorial_Code/Exercises/Exercise2_spmd/html/,
Tutorial_Code/Exercises/Exercise2_spmd/html/main_Exercise2_PortOptim_spmd.png,
Tutorial_Code/Exercises/Exercise2_spmd/html/main_Exercise2_PortOptim_spmd_01.png,
Tutorial_Code/Exercises/Exercise2_spmd/main_Exercise2_PortOptim_spmd.m,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt1.mat,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt2.mat,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt3.mat,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt4.mat,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt5.mat,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt6.mat,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt7.mat,
Tutorial_Code/Exercises/Exercise2_spmd/stockTimeInt8.mat,
Tutorial_Code/Exercises/Exercise3_jobs/,
Tutorial_Code/Exercises/Exercise3_jobs/Exercise3_SimBio_jobs.m,
Tutorial_Code/Exercises/Exercise3_jobs/GeneRegulation.sbproj,
Tutorial_Code/Exercises/Exercise3_jobs/html/,
Tutorial_Code/Exercises/Exercise3_jobs/html/Exercise3_SimBio_jobs.png,
Tutorial_Code/Exercises/Exercise3_jobs/html/Exercise3_SimBio_jobs_01.png,
Tutorial_Code/Exercises/Exercise3_jobs/pngsforSimBio/,
Tutorial_Code/Exercises/Exercise3_jobs/pngsforSimBio/active.png,
Tutorial_Code/Exercises/Exercise3_jobs/pngsforSimBio/dimer.png,
Tutorial_Code/Exercises/Exercise3_jobs/pngsforSimBio/dimer1.png,
Tutorial_Code/Exercises/Exercise3_jobs/pngsforSimBio/inactive.png,
Tutorial_Code/Exercises/Exercise3_jobs/pngsforSimBio/null.png,
Tutorial_Code/Exercises/Exercise3_jobs/pngsforSimBio/protein.png,
Tutorial_Code/Exercises/Exercise3_jobs/sbiosimulate_wrapper.m,
Tutorial_Code/Exercises/Exercise3_jobs/simulation.m,
Tutorial_Code/Exercises/Exercise4_MPI/,
Tutorial_Code/Exercises/Exercise4_MPI/calcRequiredDims.m,
Tutorial_Code/Exercises/Exercise4_MPI/createSurface.m,
Tutorial_Code/Exercises/Exercise4_MPI/Exercise4_Image_MPI.m,
Tutorial_Code/Exercises/Exercise4_MPI/haloNodes.m,
Tutorial_Code/Exercises/Exercise4_MPI/html/,
Tutorial_Code/Exercises/Exercise4_MPI/html/Exercise4_Image_MPI.png,
Tutorial_Code/Exercises/Exercise4_MPI/html/Exercise4_Image_MPI_01.png,
Tutorial_Code/Exercises/Exercise4_MPI/sampleFunctionAvg.m,
Tutorial_Code/Exercises/Exercise4_MPI/sampleFunctionNoAvg.m,
Tutorial_Code/Exercises/Exercise5_parfor_batch/,
Tutorial_Code/Exercises/Exercise5_parfor_batch/Exercise5_batch_parfor.m,
Tutorial_Code/Exercises/Exercise5_parfor_batch/Exercise5_interactive_parfor.m,
Tutorial_Code/Exercises/Exercise5_parfor_batch/Exercise5_jobs.m,
Tutorial_Code/Exercises/Exercise5_parfor_batch/Exercise5_simBioScriptParfor.m,
Tutorial_Code/Exercises/Exercise5_parfor_batch/GeneRegulation.sbproj,
Tutorial_Code/Exercises/Exercise5_parfor_batch/html/,
Tutorial_Code/Exercises/Exercise5_parfor_batch/html/Exercise5_batch_parfor.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/html/Exercise5_batch_parfor_01.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/pngsforSimBio/,
Tutorial_Code/Exercises/Exercise5_parfor_batch/pngsforSimBio/active.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/pngsforSimBio/dimer.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/pngsforSimBio/dimer1.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/pngsforSimBio/inactive.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/pngsforSimBio/null.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/pngsforSimBio/protein.png,
Tutorial_Code/Exercises/Exercise5_parfor_batch/sbiosimulate_wrapper.m,
Tutorial_Code/Exercises/Exercise5_parfor_batch/simulation.m,
Tutorial_Code/Exercises/Exercise6_spmd_batch/,
Tutorial_Code/Exercises/Exercise6_spmd_batch/Exercise6_batch_spmd.m,
Tutorial_Code/Exercises/Exercise6_spmd_batch/Exercise6_interactive_spmd.m,
Tutorial_Code/Exercises/Exercise6_spmd_batch/Exercise6_loadReturns.m,
Tutorial_Code/Exercises/Exercise6_spmd_batch/Exercise6_OptimScriptSPMD.m,
Tutorial_Code/Exercises/Exercise6_spmd_batch/Exercise6_plot_optim.m,
Tutorial_Code/Exercises/Exercise6_spmd_batch/Exercise6_task_optim.m,
Tutorial_Code/Exercises/Exercise6_spmd_batch/html/,
Tutorial_Code/Exercises/Exercise6_spmd_batch/html/Exercise6_batch_spmd.png,
Tutorial_Code/Exercises/Exercise6_spmd_batch/html/Exercise6_batch_spmd_01.png,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt1.mat,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt2.mat,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt3.mat,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt4.mat,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt5.mat,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt6.mat,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt7.mat,
Tutorial_Code/Exercises/Exercise6_spmd_batch/stockTimeInt8.mat
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12 Nov 2008

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Tag Applied By Date/Time
distributed processing Arjav Chakravarti 22 Oct 2008 10:19:11
parallel computing Arjav Chakravarti 22 Oct 2008 10:19:11
sc08 Arjav Chakravarti 22 Oct 2008 10:19:11
parallel Arjav Chakravarti 22 Oct 2008 10:19:11
matlab Arjav Chakravarti 22 Oct 2008 10:19:11
distributed Arjav Chakravarti 22 Oct 2008 10:19:11
grid Arjav Chakravarti 22 Oct 2008 10:19:12
egee Arjav Chakravarti 22 Oct 2008 10:19:12
mathworks Arjav Chakravarti 22 Oct 2008 10:19:12
 

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