>
> J = Matrix(6,6,lambda i,j:0)                 #  This is for the Jacobian

 vars = [x11,x12,x13,x22,x23,x33]
>

I'm not totally clear what you're doing here


>
> In [38]: for i in [0,1,2]:
>    ....: for j in [0,1,2]:
>    ....:     k = 3*i+j
>    ....:     for l in [0,1,2,3,4,5]:
>    ....:         J[k,l] = diff(Y[i,j], vars[l])
>    ....:
> ---------------------------------------------------------------------------
> IndexError                                Traceback (most recent call last)
> <ipython-input-38-46a5a73fca3d> in <module>()
>       3             k = 3*i+j
>       4             for l in [0,1,2,3,4,5]:
> ----> 5                     J[k,l] = diff(Y[i,j], vars[l])
>
In this line Y is of shape 3, 3 but i goes from 0 to 5. So you're going
outside the bounds of the Matrix. You're asking for the 3rd, 4th, and 5th,
row of a 3x3 matrix.

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