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generateBodies.m
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generateBodies.m
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function [bodies,dist] = generateBodies(maxBodies,target,plotBod,tolFails)
%% [bodies,dist] = generateBodies(maxBodies,target,plotBod,tolFails)
% generates a set of
%% unpack target size
if length(target.size)==1
target.size= target.size*ones(3,1);
end
x_network = target.size(1);
y_network = target.size(2);
z_network = target.size(3);
% initialize variables
cnt_fail = zeros(maxBodies,1);
bodies = cell(1,maxBodies);
dist = zeros(maxBodies);
vol = 0;
poro = 0;
iBody = 1;
fprintf('Generating bodies\n')
% start body creation loop
while iBody < maxBodies && poro<target.porosity
% generate radius for Body by selecting at random in target distribution
r_pore = target.pore_rad(randi(length(target.pore_rad),1));
% if r_pore>target.minRadBody
cont = 1;
% else
% % if we are smaller than minRadBody don't bother generating this
% % one
% cont = 0;
% end
% loop to find position of new body such that it fits requirements
while cont
cont = 0;
% generate position at random
pos = [rand(1)*x_network rand(1)*y_network rand(1)*z_network];
% generate a candidate based at this position
candidateBody = Body(iBody, r_pore, pos);
% test whether candidate fits requirements
dist(iBody,:) = zeros(1,maxBodies);
fail = 0;
for jBody = 1:iBody-1
%dist(iBody,jBody) = norm(candidateBody.pos-bodies{jBody}.pos)-bodies{jBody}.rad-candidateBody.rad;
dist(iBody,jBody) = norm(candidateBody.pos-bodies{jBody}.pos);
if dist(iBody,jBody)-bodies{jBody}.rad-candidateBody.rad<target.minSphereDist; fail = 1; break; end;
end
if fail
% record number of fails
cnt_fail(iBody) = cnt_fail(iBody)+1;
% try again
cont =1;
else
% store the new body - update global variables
bodies{iBody} = candidateBody;
vol = vol + bodies{iBody}.getVolume;
poro = vol/(x_network*y_network*z_network);
iBody = iBody + 1;
end
% check number of fails - if too high, try another radius
if cnt_fail(iBody)>tolFails; fprintf('Too many fails for body %i\n',iBody); cont=0; end;
end
end
fprintf('Done generating %i bodies\n', iBody)
% reshape bodies array to remove empty entries
bodies = bodies(~cellfun('isempty',bodies));
% also reshape distance matrix
dist = dist(1:iBody-1,1:iBody-1);
dist = dist+dist';
% plot bodies and summary stats
if plotBod && ~isempty(bodies)
opt.color = '';
plotBodies(bodies,opt)
end
fprintf('Porosity is %.2f %% \n', poro)
%%