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find indices of row subsets

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I am trying to find vectorized matlab function ind = item2ind(item,t) to solve following problem: I have a list of row vectors
item = [2 3 1; 2 1 2; 3 1 1; 1 3 3]
and vector of all possible item elements at each item row vector
t = [1 1 2 2 2 3 3];
I need to find indexes of of separate item rows elements corresponding to the vector t in this way:
ind = [3 6 1; 3 1 4; 6 1 2; 1 6 7]
But
item = [1 1 1]
does not correspond to the vector t, because there are 3 "1" elements, and t contains only 2 "1" elements.
Note: Serial version is inefficient for large item (10000 x 100) and t (1 x 200).
function ind = item2ind(item,t)
[nlp,N] = size(item);
ind = zeros(nlp,N);
for i = 1:nlp
auxitem = item(i,:);
auxt = t;
for j = 1:N
I = find(auxitem(j) == auxt,1,'first');
if ~isempty(I)
auxt(I) = 0;
ind(i,j) = I;
else
error('Incompatible content of item and t.');
end
end
end
end
Additional remarks:
Most of the time is spent on the line:
I = find(auxitem(j) == auxt,1,'first');
Is there any clever trick how to speed up this line of code? I tried this, for example, but without any speedup:
I = ipos(auxitem(j) == auxt); I = I(1);
where ipos is preallocated as:
ipos = 1:length(t);
Thanks in advance for any help ...
  6 Comments
Michal Kvasnicka
Michal Kvasnicka on 9 May 2018
Please read discussion under Chad's answer.
Typical length of "t" is 30-100, maxmimum value of elements at "t" is equal maximum value of elements at array "item".
Yes I have a C compiler...
Please, keep in mind, that vector "t" is not sorted.

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Accepted Answer

Michal Kvasnicka
Michal Kvasnicka on 11 May 2018
Edited: Michal Kvasnicka on 11 May 2018
So far best solution:
function ind = item2ind_new(item,t)
t = t(:);
[m,n] = size(item);
mct = max(accumarray(t,1));
G = accumarray(t,1:length(t),[],@(x) {sort(x)});
G = cellfun(@(x) padarray(x.',[0 mct-length(x)],0,'post'), G, 'UniformOutput', false);
G = vertcat(G{:});
C = cumsum(reshape(item,m,1,n)==item,3);
ia = C(sub2ind(size(C),repelem((1:m).',1,n),repelem(1:n,m,1),repelem(1:n,m,1)));
ind = G(sub2ind(size(G),item,ia));
Any idea how to improve it?

More Answers (2)

Jan
Jan on 9 May 2018
Edited: Jan on 9 May 2018
function ind = item2ind(item, t);
maxRun = length(t) + 1;
[T , TI] = accumsort(t, maxRun);
ind = zeros(size(item));
for k = 1:size(item, 1)
[aItem, aItemI] = accumsort(item(k, :), maxRun);
% [m, index] = ismember(aItem, T);
% Faster with undocumented function:
[m, index] = builtin('_ismemberhelper', aItem, T);
if all(m)
ind(k, aItemI) = TI(index);
else
error('Incompatible item.');
end
end
end
function [T, TI] = accumsort(t, maxRun)
[sortedT, TI] = sort(t);
T = sortedT * maxRun;
c = -1;
for k = 1:numel(T)
if T(k) ~= c
d = 0;
c = T(k);
else
d = d + 1;
end
T(k) = T(k) + d;
end
end
For some test data of size [10'000 x 100] I get a runtime of 0.21 sec instead of 1.3 sec of the original version.
With calling ismember the runtime is 0.41 sec. Internally ismember calls the helper function builtin('_ismemberhelper') for sorted data of type double. If it is known already, that the input is sorted, calling the internal function avoids the overhead.
If you have a C compiler, converting accumsort to a C-mex would be useful.
maxRun must a any number greater than the highest number of repetitions in t. length(t)+1 is guaranteed to be larger.
  9 Comments
Michal Kvasnicka
Michal Kvasnicka on 10 May 2018
@Jan any progress or new ideas on your site?

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Wick
Wick on 9 May 2018
Edited: Wick on 9 May 2018
Here you go. At the sizes you suggested, this shouldn't take too long. It has a single 'for' loop that cycles through the unique values of 't'.
I'm using logical indexing to identify all the elements in 'item' that match the given unique 't' and summing across the row. If the sum exceeds the number of times that value showed up in 't' you get your error. Otherwise I'm using 'cumsum' in a creative fashion (in my ever so humble opinion) to provide the indexes back to the location of the unique value in the original vector 't'.
Good Luck!
function ind = item2ind(item,t)
unique_t = unique(t);
ind = zeros(size(item));
try
% a single 'for' loop as long as the unique elements of t
for jj = 1:length(unique_t)
O = zeros(size(item));
O(item == unique_t(jj)) = 1;
positions_of_t = [0 find(t == unique_t(jj))];
% adding zero so sub_index call below will always reference a non-zero element
sub_index = cumsum(O,2) .* O + 1;
ind = ind + positions_of_t(sub_index);
% this is why we needed the 0 in positions_of_t above
end
catch
error('Incompatible content of item and t.');
end
  12 Comments
Wick
Wick on 9 May 2018
Jan,
My code is faster for small length 't' and much, much slower for large 't'. You vectorized in a completely different way than I did (and used an undocumented function but we won't use that against you). My question is, is there some rule of thumb my snippet of code didn't follow that I should change how I code things? I've always felt I was pretty good at vectorizing my MATLAB code but I've been coming here to learn how to be better. Obviously, you know some tricks I don't.
Thanks.

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