%ERICMAC class definition % % Usage: % cluster=ericmac(); % cluster=ericmac('np',3); % cluster=ericmac('np',3,'login','username'); classdef ericmac properties (SetAccess=public) % {{{1 name='ericmac' login='larour'; np=3; port=0; codepath=[issmtier() '/bin']; executionpath=[issmdir() '/execution']; valgrind=[issmtier() '/externalpackages/valgrind/install/bin/valgrind']; valgrindlib=[issmtier() '/externalpackages/valgrind/install/lib/libmpidebug.so']; valgrindsup=[issmtier() '/externalpackages/valgrind/issm.supp']; %}}} end methods function cluster=ericmac(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(ericmac)), cluster.(fieldname)=fieldvalue; else disp(['''' fieldname ''' is not a property of cluster ericmac']); 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(' codepath: %s',cluster.codepath)); disp(sprintf(' executionpath: %s',cluster.executionpath)); disp(sprintf(' valgrind: %s',cluster.valgrind)); disp(sprintf(' valgrindlib: %s',cluster.valgrindlib)); disp(sprintf(' valgrindsup: %s',cluster.valgrindsup)); end %}}} function IsConsistent(cluster) % {{{1 if cluster.np>4, error('IsConsistent error message: number of processors should be less than 4!'); end if isnan(cluster.np), error('IsConsistent error message: number of processors should not be NaN!'); end end %}}} function BuildQueueScript(cluster,md) % {{{1 %retrieve parameters modelname=md.name; solution_type=md.solution_type; mem_debug=md.mem_debug; %open file for writing: fid=fopen([modelname '.queue'],'w'); %write instructions for launching a job on the cluster fprintf(fid,'#!/bin/sh\n'); if mem_debug==0, fprintf(fid,'mpirun -np %i %s/issm.exe %s %s %s.bin %s.petsc %s.outbin %s.lock 2> %s.errlog >%s.outlog & ',cluster.np,cluster.codepath,EnumToString(solution_type),cluster.executionpath,modelname,modelname,modelname,modelname,modelname,modelname); else %fprintf(fid,'LD_PRELOAD=%s mpirun -np %i %s --leak-check=full --gen-suppressions=all --suppressions=%s %s/issm.exe %s %s %s.bin %s.petsc %s.outbin %s.lock 2> %s.errlog >%s.outlog & ',cluster.valgrindlib,cluster.np,cluster.valgrind,cluster.valgrindsup,cluster.codepath,EnumToString(solution_type),cluster.executionpath,modelname,modelname,modelname,modelname,modelname,modelname); fprintf(fid,'LD_PRELOAD=%s mpirun -np %i %s --leak-check=full --suppressions=%s %s/issm.exe %s %s %s.bin %s.petsc %s.outbin %s.lock 2> %s.errlog >%s.outlog & ',cluster.valgrindlib,cluster.np,cluster.valgrind,cluster.valgrindsup, cluster.codepath,EnumToString(solution_type),cluster.executionpath,modelname,modelname,modelname,modelname,modelname,modelname); end %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.runtimename ' && mkdir ' md.runtimename ... ' && cd ' md.runtimename ' && mv ../' md.runtimename '.tar.gz ./ && tar -zxf ' md.runtimename '.tar.gz && source ' md.name '.queue ']; if ~strcmpi(options.batch,'yes'), %compress the files into one zip. compressstring=['tar -zcf ' md.runtimename '.tar.gz ' md.name '.bin ' md.name '.queue ' md.name '.petsc ']; if md.qmu_analysis, compressstring=[compressstring md.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.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.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.runtimename '/']; %What packages are we picking up from remote cluster packages={[md.name '.outlog'],[md.name '.errlog']}; if md.qmu_analysis, packages{end+1}=[md.name '.qmu.err']; packages{end+1}=[md.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.name '.outbin']; end %copy files from cluster to present directory issmscpin(cluster.name, cluster.login, cluster.port, directory, packages); end %}}} end end