Why is Matlab giving an UndefinedFunction error in this parfor loop?
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UPDATE: I decided to take the opportunity to update to R2018b, and the problem is gone. Who knows what caused it, but this problem is no longer a problem. Thanks if you were already thinking about it!
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I am having some trouble assigning values to a cell array inside a parfor loop. Here is what I think are the relevant parts of the script:
isoBins = cell(1,nBins);
parfor nBin = 1:nBins
for ii = 1:iters
%build a cell called isoClasses%
end
isoBins{nBin} = isoClasses;
end
Within the parfor, isoBins is only referenced once, at the end of each loop, exactly as shown above. It is initialized immediately before the parfor, also exactly as shown above. The code runs fine, with the expected results, when I replace 'parfor' with 'for'. But the parallel code throws:
Error using enumerateAllGraphs (line 87)
An UndefinedFunction error was thrown on the workers for 'isoBins'. This might be because the
file containing 'isoBins' is not accessible on the workers. Use addAttachedFiles(pool, files)
to specify the required files to be attached. See the documentation for
'parallel.Pool/addAttachedFiles' for more details.
Caused by:
Undefined function or variable 'isoBins'.
I have searched both here and on the broader web, and haven't found anything that helps; I tried building a minimal example and it doesn't throw the error. I'm at a complete loss, so anything will help. Thanks!
Just in case the full code is helpful, here it is:
% Parallelize isomorphism calculations
allSequenceBins = sequenceBins.values;
isoBins = cell(1,nBins);
% each isoBin cell contains isomorphism classes of one particular deg seq
parfor nBin = 1:nBins % TODO: parfor
fePairs = allSequenceBins{nBin};
nPairs = numel(fePairs);
isoClasses = {};
for fePair = 1:nPairs
% build G
fe = fePairs{fePair};
F = zeros(n);
E = zeros(n);
F(sub2ind([n,n],fe(1,:),1:n)) = 1;
E(sub2ind([n,n],fe(2,:),1:n)) = 1;
FE = F - E;
G = digraph(FE);
% check G against reps of each extant class
nClasses = numel(isoClasses);
placed = 0; % when placed, set to 1 and break
for nClass = 1:nClasses
isoClass = isoClasses{nClass};
repG = isoClass{1};
if isisomorphic(repG,G,'EdgeVariables','Weight')
nInClass = numel(isoClass);
isoClass{nInClass+1} = G;
placed = 1;
isoClasses{nClass} = isoClass;
break;
end
end
if placed
continue
else
isoClasses{nClasses+1} = {G};
end
end
isoBins{nBin} = isoClasses;
end
2 个评论
Richard Buckalew
2018-10-2
Walter Roberson
2018-10-3
(Richard updated MATLAB versions, which fixed the problem.)
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此问题已关闭。
2018-10-2
2018-10-3
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