Error using 'graph' function in matlab R2019b

I have created a binarized symmetric matrix A (n x n) which represents the connectivity matrix with 1's and 0's - 1 representing the existence of an edge. This error though is general and works with any type of matrix. When using the command G=graph(A) I get the following error:

>> G=graph(A)
Error using graph.validateEdgeProperties (line 375)
Edge properties must be a table.

Error in graph/set.EdgeProperties (line 330)
            G.EdgeProperties = graph.validateEdgeProperties(T);

Error in graph (line 278)
                    G.EdgeProperties = table(nonzeros(tril(A)), 'VariableNames', {'Weight'});

I am using R2019b. I have not used the graph function before on this version. What is the problem? It occurs irrespective of the matrix that I am using (it is a generic problem).

Thanks!

[Walter Roberson]

What shows up for

which -all table

[Elie Matar]

Hi Walter:

>> which -all table

C:\Program Files\MATLAB\R2019b\toolbox\matlab\datatypes\@table\table.m % table constructor

C:\Program Files\MATLAB\R2019b\toolbox\matlab\bigdata\@tall\table.m % tall method

Thanks!

Answer 1

[Christine Tobler]

Could you try starting a new MATLAB and just enter the following code:

>> A = ones(3);
>> G = graph(A);

If this gives the error message you mentioned, could you again run the following lines on command line?

>> T = table(nonzeros(tril(A)), 'VariableNames', {'Weight'})
>> istable(T)
>> class(T)

If this returns true and 'table', we'll have a deeper mystery to solve. If not, please let us know what is being displayed for you.

[Elie Matar]

Hi Christine,

Looks like it returns false for table, but class as Table! Output below... Help appreciated.

T = table(nonzeros(tril(A)), 'VariableNames', {'Weight'})

T =

6×1 table

Weight

______

1

1

1

1

1

1

>> istable(T)

ans =

logical

0

>> class(T)

ans =

'table'

[Elie Matar]

Also just to clarify, it did return the same error message opening a new matlab and the above output relates to the A=ones(3), G=graph(A)

[Christine Tobler]

Looking at the output from "which -all" you have pasted above, it would seem that this file is the problem:

C:\Program Files\MATLAB\spm12\external\fieldtrip\compat\matlablt2013b\istable.m

The input checking for graph enters that function istable, instead of the standard istable function - and this function returns false when the input is of class 'table'.

You should be able to resolve this by removing that directory, C:\Program Files\MATLAB\spm12\external\fieldtrip\compat\matlablt2013b\ from the MATLAB path (see rmpath).

[Elie Matar]

That solves it! Thankyou very much for your help. Really appreciated.

[Ofer Perl]

Christine's solution also worked for me, cheers!

Answer 2

[Steven Lord]

Can you confirm that A is a matrix? What does this show when executed immediately before you try to construct the graph from A?

whos A

If that shows A is a matrix, thinking along the same lines as Walter's idea, do you have your own functions named nonzeros, tril, or istable? Do these commands show versions of these functions other than the ones provided by MATLAB?

which -all nonzeros

which -all tril

which -all istable

[Elie Matar]

Hi Steven, thanks for reaching out. Those individual functions all seem to be working. Here is my output below. thanks in advance!

>> which -all nonzeros

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@char\nonzeros) % char method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@double\nonzeros) % double method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@int16\nonzeros) % int16 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@int32\nonzeros) % int32 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@int64\nonzeros) % int64 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@int8\nonzeros) % int8 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@logical\nonzeros) % logical method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@single\nonzeros) % single method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@uint16\nonzeros) % uint16 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@uint32\nonzeros) % uint32 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@uint64\nonzeros) % uint64 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\sparfun\@uint8\nonzeros) % uint8 method

nonzeros is a built-in method % connector.internal.LoggerLevel method

C:\Program Files\MATLAB\R2019b\toolbox\symbolic\symbolic\@sym\nonzeros.m % sym method

C:\Program Files\MATLAB\R2019b\toolbox\symbolic\symbolic\@symfun\nonzeros.m % symfun method

>> which -all tril

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@char\tril) % char method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@double\tril) % double method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@int16\tril) % int16 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@int32\tril) % int32 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@int64\tril) % int64 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@int8\tril) % int8 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@logical\tril) % logical method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@single\tril) % single method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@uint16\tril) % uint16 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@uint32\tril) % uint32 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@uint64\tril) % uint64 method

built-in (C:\Program Files\MATLAB\R2019b\toolbox\matlab\elmat\@uint8\tril) % uint8 method

tril is a built-in method % connector.internal.LoggerLevel method

C:\Program Files\MATLAB\R2019b\toolbox\symbolic\symbolic\@sym\tril.m % sym method

>> which -all istable

C:\Program Files\MATLAB\spm12\external\fieldtrip\compat\matlablt2013b\istable.m

C:\Program Files\MATLAB\R2019b\toolbox\matlab\datatypes\istable.m % Shadowed

[Steven Lord]

C:\Program Files\MATLAB\spm12\external\fieldtrip\compat\matlablt2013b\istable.m

This is taking precedence over istable function included in MATLAB. If possible rename it, remove it from the MATLAB path, or delete it altogether.

[Elie Matar]

Yes - thank you very much!