/
odegetdp.m
executable file
·254 lines (228 loc) · 7.86 KB
/
odegetdp.m
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function varargout = odegetdp (fun, trange, init, varargin)
%ODEGETDP Calls getdp with a syntax similar to odeXY solvers.
% Download getdp from http://getdp.info
% The source code is distributed under the terms of the GNU General
% Public License (GPL) (version 2 or later).
if (nargin >= 4)
if (~ isstruct (varargin{1}))
getdpopts = struct ();
funarguments = varargin;
elseif (numel (varargin) > 1)
%# varargin{1} is an options structure opt
getdpopts = varargin{1};
funarguments = {varargin{2:numel (varargin)}};
else % if (isstruct (varargin{1}))
getdpopts = varargin{1};
funarguments = {};
end %if
else % nargin == 3
getdpopts = struct ();
funarguments = {};
end %if
if (~isnumeric (trange) || ~isvector (trange))
error ('Octave:invalid-input-arg', ...
'odegetp: TRANGE must be a numeric vector');
end %if
if (numel (trange) < 2)
error ('Octave:invalid-input-arg', ...
'odegetp: TRANGE must contain at least 2 elements');
elseif (trange(1) >= trange(2))
error ('Octave:invalid-input-arg', ...
'odegetp: invalid time span, TRANGE(1) >= TRANGE(2)');
end %if
trange = trange(:);
if (~ isnumeric (init) || ~ isvector (init) || any(isnan(init)) )
error ('Octave:invalid-input-arg', ...
'odegetp: INIT must be a numeric vector');
end %if
init = init(:);
% Check if model exists
if (~ischar(fun))
fun = func2str(fun);
end
[fdir,fname,fext] = fileparts(fun);
if ~exist(fun,'file') || ~strcmp(fext,'.pro')
error ('Octave:invalid-input-arg', ...
'odegetdp: FUN must be a valid getdp FUN.pro file');
else % get absolute path
fdir = cd(cd(fdir));
end %if
% Check for getdp executable
if ~isfield(getdpopts,'Executable')
getdpopts.Executable = 'getdp';
end %if
[status, output] = system([getdpopts.Executable ' --version' ' 2>&1']);
if status
error ('Octave:invalid-input-arg', ...
'odegetdp: getdp not found, you may use "Executable" in the option structure.');
else
getdpver = regexp(output,'\d\.\d\d\.\d','match','once');
end %if
if ~isfield(getdpopts,'Verbose')
getdpopts.Verbose=0;
end %if
% Choose TimeStep
if ~isfield(getdpopts,'TimeStep')
getdpopts.TimeStep = (trange(end)-trange(1))/100;
fprintf(['odegetdp: choosing default time step dt=' num2str(getdpopts.TimeStep) 's\n'])
elseif getdpopts.TimeStep<=0
error ('Octave:invalid-input-arg', ...
'odegetdp: Time step must be positive.');
end %if
% Process optional funarguments
funargstr = '';
for i=1:2:length(funarguments)
if isnumeric(funarguments{i+1})
funargstr = [funargstr ' -setnumber ' funarguments{i} ' ' num2str(funarguments{i+1})];
else
funargstr = [funargstr ' -setstring ' funarguments{i} ' ' funarguments{i+1}];
end %if
end %if
% Choose PreProcessing
if ~isfield(getdpopts,'PreProcessing')
getdpopts.PreProcessing = '#1';
%fprintf('odegetdp: choosing default PreProcessing "#1"\n')
end %if
% Choose first Resolution
if ~isfield(getdpopts,'Resolution')
getdpopts.Resolution = '#1';
%fprintf('odegetdp: choosing default Resolution "#1"\n')
end %if
% Check if mesh exists
mshfile = fullfile(fdir,[fname '.msh']);
if ~exist(mshfile,'file')
error(['odegetdp: run gmsh on beforehand to create a msh-file: ' mshfile]);
end %if
% Create a file with the given initial value
tmpdir = tempname();
mkdir(tmpdir);
tmpname = fullfile(tmpdir,fname);
resdir = fullfile(tmpdir,'res');
prefile = fullfile(tmpdir,[fname '.pre']);
resfile = fullfile(tmpdir,[fname '.res'])
% Do preprocessing step
exe_string = [getdpopts.Executable ' "' fun '"' ...
' -pre "' getdpopts.PreProcessing '"' ...
' -msh "' mshfile '"' ...
' -name "' tmpname '"' ...
' -res "' resfile '"' ...
' -setnumber timemax ' num2str(trange(2)) ...
' -setnumber dtime ' num2str(getdpopts.TimeStep) ...
' -setstring ResDir "' resdir '"' ...
funargstr ' 2>&1'];
% Error and debug output
if getdpopts.Verbose==1
[status] = system(exe_string);
else
[status,output] = system(exe_string);
end %if
if status
error('odegetdp: preprocessing failed');
end %if
% check if init is correct
numdof = length(init);
numpres = getdp_preresolution(prefile);
if (numdof~=sum(numpres))
warning (['odegetdp: INIT has wrong size: ' int2str(numdof) ' instead of ' int2str(numpres) ': ' prefile]);
end
% Create initial data
set_resolution(resfile,trange(1),init,numdof);
% Choose PostOperation
if isfield(getdpopts,'PostOperation')
funargstr = [funargstr ' -pos ' getdpopts.PostOperation];
end %if
% Launch GetDP to get solution and postproc
exe_string = [getdpopts.Executable ' "' fun '"'...
' -restart' ... %"' getdpopts.Resolution '" ' ...
' -msh "' mshfile '"' ...
' -name "' tmpname '"' ...
' -res "' resfile '"' ...
' -setnumber timemax ' num2str(trange(2)) ...
' -setnumber dtime ' num2str(getdpopts.TimeStep) ...
' -setstring ResDir "' resdir '"' ...
funargstr ' 2>&1'];
if getdpopts.Verbose==1
[status] = system(exe_string);
else
[status,output] = system(exe_string);
end %if
if status
error('odegetdp: solving failed');
end %if
% Read results
[t,y] = getdp_read_resolution(resfile,numdof);
% Return solution
if nargout==2
varargout{1} = t';
varargout{2} = y';
else
varargout{1} = struct('x',t,'y',y,'solver','odegetdp',...
'version',getdpver,'TempName',tmpname);
end %if
%[status] = rmdir(tmpdir,'s');
end %function
function set_resolution(file,t,x,numdofs)
fid = fopen(file,'w');
% get positions of dofdata in x vector
dofpos = cumsum([0;numdofs]);
% start writing res file
fprintf(fid, '$ResFormat /* GetDP 2.10.0, ascii */\n');
fprintf(fid, '1.1 0\n');
fprintf(fid, '$EndResFormat\n');
for j=1:length(t)
for k=1:length(numdofs)
fprintf(fid, '$Solution /* DofData #%d */\n',num2str(k-1));
fprintf(fid, '%d %.16f 0 %d\n',k-1,t(j),j-1);
y(1,:)=x([1+dofpos(k):dofpos(k+1)]);
fprintf(fid, '%.16f %.16f\n',[real(y);imag(y)]);
fprintf(fid, '$EndSolution\n');
end %for k
end %for j
fclose(fid);
if any(isnan(x)) || any(isnan(t))
warning('odegetdp: something went wrong')
end
end %function
function [t,x] = getdp_read_resolution(file,numdofs)
fid = fopen(file);
% init solution vector, may contain several dofdata sets
x = zeros(sum(numdofs),0);
% init vector of time steps
t = [];
% init vector of time step numbers
j = 0;
oldstep = 0;
% get positions of dofdata in x vector
dofpos = cumsum([0;numdofs]);
while feof(fid) == 0
line = fgetl(fid);
val = str2double(line);
if findstr(line,'$Solution')
line = fgetl(fid);
% dofdata-number time-value time-imag-value time-step-number
tmp = sscanf(line,'%d %f %f %d');
% check if the time-step-number has advanced
if oldstep<1+tmp(4)
j = j + 1;
oldstep = 1 + tmp(4);
elseif oldstep>1+tmp(4)
error('odegetdp: error reading file %s.\ntime step %d is stored after %d',...
file, tmp(4),oldstep-1);
end
k = 1 + tmp(1);
t(1,j) = tmp(2);
% read complex dofdata set into solution vector
xtmp = fscanf(fid,'%f',[2 numdofs(k)])';
x([1+dofpos(k):dofpos(k+1)],j) = xtmp(:,1)+imag(xtmp(:,2));
elseif findstr(line,'$ResFormat')
line = fgetl(fid);
if ~strcmp(line(1:3),'1.1')
error('odegetdp: unknown file format version');
end %if wrong version
end %if solution
end %while
fclose(fid);
if any(any(isnan(x))) || any(isnan(t))
error('getdp_read_resolution: file contains NaN')
end
end %function