source: issm/trunk-jpl-damage/src/m/classes/clusters/cosmos.m@ 11330

%COSMOS class definition
%
%   Usage:
%      cluster=cosmos();
%      cluster=cosmos('np',3);
%      cluster=cosmos('np',3,'login','username');

classdef cosmos
    properties (SetAccess=public) 
                 % {{{1
                 name='cosmos'
                 login='larour';
                 np=128;
                 port=0;
                 queue='shortq';
                 time=3*60;
                 codepath='/work00/edw/larour/issm-2.0/bin';
                 executionpath='/work00/edw/larour/Execution';
                 %}}}
         end
         methods
                 function cluster=cosmos(varargin) % {{{1
                         options=pairoptions(varargin{:});
                         for i=1:size(options.list,1),
                                 fieldname=options.list{i,1};
                                 fieldvalue=options.list{i,2};
                                 if ismember(fieldname,properties('cosmos')),
                                         cluster.(fieldname)=fieldvalue;
                                 else
                                         disp(['''' fieldname ''' is not a property of cluster cosmos']);
                                 end
                         end
                 end
                 %}}}
                 function disp(cluster) % {{{1
                         %  display the object
                         disp(sprintf('class ''%s'' object ''%s'' = ',class(cluster),inputname(1)));
                         disp(sprintf('    name: %s',cluster.name));
                         disp(sprintf('    login: %s',cluster.login));
                         disp(sprintf('    np: %i',cluster.np));
                         disp(sprintf('    port: %i',cluster.port));
                         disp(sprintf('    queue: %s',cluster.queue));
                         disp(sprintf('    time: %i',cluster.time));
                         disp(sprintf('    codepath: %s',cluster.codepath));
                         disp(sprintf('    executionpath: %s',cluster.executionpath));
                 end
                 %}}}
                 function checkconsistency(cluster,md,solution,analyses) % {{{1

                         available_queues={'debug','shortq','longq'};
                         queue_requirements_time=[60*1 60*3 60*17];
                         queue_requirements_np=[32 128 256];

                         QueueRequirements(available_queues,queue_requirements_time,queue_requirements_np,cluster.queue,cluster.np,cluster.time)
                 end
                 %}}}
                 function BuildQueueScript(cluster,md) % {{{1

                         %retrieve parameters 
                         modelname=md.miscellaneous.name; 
                         solution=md.private.solution;

                         %open file for writing: 
                         fid=fopen([modelname '.queue'],'w');

                         fprintf(fid,'#!/bin/bash\n');
                         fprintf(fid,'#PBS -l select=%i:ncpus=1\n',cluster.np);
                         fprintf(fid,'#PBS -N %s\n',modelname);
                         fprintf(fid,'#PBS -l walltime=%i\n',time*60); %walltime is in seconds.
                         fprintf(fid,'#PBS -q %s\n',queue);
                         fprintf(fid,'#PBS -o %s.outlog \n',modelname);
                         fprintf(fid,'#PBS -e %s.errlog \n',modelname);
                         fprintf(fid,'export PBS_O_WORKDIR=%s\n',cluster.executionpath);
                         fprintf(fid,'cd $PBS_O_WORKDIR\n');
                         fprintf(fid,'export OMP_NUM_THREADS=1\n');
                         fprintf(fid,'ulimit -s unlimited\n');
                         fprintf(fid,'ulimit -c 0\n');
                         fprintf(fid,'/opt/mpich/gm/intel10.1/bin/mpiexec -np %i %s/issm.exe %s %s %s',cluster.np,cluster.codepath,EnumToString(solution),cluster.executionpath,modelname);

                         %close file
                         fclose(fid);

                 end
                 %}}}
                 function LaunchQueueJob(cluster,md,options)% {{{1
                         
                         %lauch command, to be executed via ssh
                         launchcommand=['cd ' cluster.executionpath ' && rm -rf ./' md.private.runtimename ' && mkdir ' md.private.runtimename ...
                                        ' && cd ' md.private.runtimename ' && mv ../' md.private.runtimename '.tar.gz ./ && tar -zxf ' md.private.runtimename '.tar.gz  && qsub -S/bin/sh ' modelname '.queue '];

                        if ~strcmpi(options.batch,'yes'),
                                
                                %compress the files into one zip.
                                compressstring=['tar -zcf ' md.private.runtimename '.tar.gz ' md.miscellaneous.name '.bin ' md.miscellaneous.name '.queue '  md.miscellaneous.name '.petsc '];
                                if md.qmu.isdakota,
                                        compressstring=[compressstring md.miscellaneous.name '.qmu.in'];
                                end
                                system(compressstring);
                                
                                disp('uploading input file and queueing script');
                                issmscpout(md.cluster.name,md.cluster.executionpath,md.cluster.login,md.cluster.port,{[md.private.runtimename '.tar.gz']});
                                
                                disp('launching solution sequence on remote cluster');
                                issmssh(md.cluster.name,md.cluster.login,md.cluster.port,launchcommand);

                        else
                                disp('batch mode requested: not launching job interactively');
                                disp('launch solution sequence on remote cluster by hand');
                        end

                 end
                 %}}}
                 function Download(cluster,md)% {{{1

                        %some check
                        if isempty(md.private.runtimename),
                                error('pfe Download error message: supply runtime name for results to be loaded!');
                        end

                        %Figure out the  directory where all the files are in: 
                        directory=[cluster.executionpath '/' md.private.runtimename '/'];

                        %What packages are we picking up from remote cluster
                        packages={[md.miscellaneous.name '.outlog'],[md.miscellaneous.name '.errlog']};
                        if md.qmu.isdakota,
                                packages{end+1}=[md.miscellaneous.name '.qmu.err'];
                                packages{end+1}=[md.miscellaneous.name '.qmu.out'];
                                if isfield(md.qmu.params,'tabular_graphics_data'),
                                        if md.qmu.params.tabular_graphics_data==true,
                                                packages{end+1}='dakota_tabular.dat'; 
                                        end
                                end
                        else
                                packages{end+1}=[md.miscellaneous.name '.outbin'];
                        end

                        %copy files from cluster to present directory
                        issmscpin(cluster.name, cluster.login, cluster.port, directory, packages);
                end %}}}
        end
end