The lines in question are:
# Make efficient matrix that can be built
K = sparse.lil_matrix((N, N))
# Calculate K matrix (<i|pHp|j> in the LGL-nodes basis)
for i in range(Ne):
idx_s, idx_e = i*(Np-1), i*(Np-1)+Np
print(shape(K[idx_s:idx_e, idx_s:idx_e]))
print(shape(dmat.T.dot(sparse.spdiags(w*peq[idx_s:idx_e], 0, Np, Np)).dot(dmat)))
K[idx_s:idx_e, idx_s:idx_e] += dmat.T.dot(sparse.spdiags(w*peq[idx_s:idx_e], 0, Np, Np)).dot(dmat)
But, currently, Numpy is yielding the error
(8, 8)
(8, 8)
---------------------------------------------------------------------------
ValueError Traceback (most recent call last)
<ipython-input-62-cc7cc21f07e5> in <module>()
22
23 for _ in range(N):
---> 24 ll, q = getLL(Ne, Np, x_d, w_d, dmat_d, x, w, dL, peq*peq, data)
25 peq = (peq*q)
26
<ipython-input-61-a52c13d48b87> in getLL(Ne, Np, x_d, w_d, dmat_d, x, w, dmat, peq, data)
15 print(shape(K[idx_s:idx_e, idx_s:idx_e]))
16 print(shape(dmat.T.dot(sparse.spdiags(w*peq[idx_s:idx_e], 0, Np, Np)).dot(dmat)))
---> 17 K[idx_s:idx_e, idx_s:idx_e] += dmat.T.dot(sparse.spdiags(w*peq[idx_s:idx_e], 0, Np, Np)).dot(dmat)
18
19 # Re-make matrix for efficient vector products
/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/scipy/sparse/lil.py in __iadd__(self, other)
157
158 def __iadd__(self,other):
--> 159 self[:,:] = self + other
160 return self
161
/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/scipy/sparse/lil.py in __setitem__(self, index, x)
307
308 # Make x and i into the same shape
--> 309 x = np.asarray(x, dtype=self.dtype)
310 x, _ = np.broadcast_arrays(x, i)
311
/Library/Frameworks/Python.framework/Versions/3.4/lib/python3.4/site-packages/numpy/core/numeric.py in asarray(a, dtype, order)
460
461 """
--> 462 return array(a, dtype, copy=False, order=order)
463
464 def asanyarray(a, dtype=None, order=None):
ValueError: setting an array element with a sequence.
This is a little cryptic as it seems that the error is happening somewhere inside of the Numpy library---not in my code. But I'm not terribly familiar with numpy, per se, so perhaps I'm indirectly causing the error.
Both slices are of the same shape, so that doesn't seem to be the actual error.
The problem is that
(dmat.T.dot(sparse.spdiags(w*peq[idx_s:idx_e], 0, Np, Np)).dot(dmat)
is not a simple array. It has the right shape, but the elements are sparse matrices (the 'sequence' in the error message).
Turning the inner sparse matrix into a dense array should solve the problem:
dmat.T.dot(sparse.spdiags(w*peq[idx_s:idx_e], 0, Np, Np).A).dot(dmat)
The np.dot
method is not aware of sparse matrices, at least not in your version of numpy
(1.8?), so it treats it as sequence. Newer versions are 'sparse' aware.
Another solution is to use the sparse matrix product ( dot
or *
).
sparse.spdiags(...).dot(dmat etc)
I had to play around to get reasonable values for N,Np,Ns, dmat,peq
. You really should have given us small samples. It makes testing ideas much easier.
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