Hello! Thanks for the great great work!
I encountered an issue while using nodevectors to train the prone embeddings:
I ran
G = cg.read_edgelist("..", directed=True, sep=',')
g2v = ProNE()
g2v.fit(G)
and I got:
ValueError Traceback (most recent call last)
Input In [34], in <cell line: 2>()
1 g2v = ProNE()
----> 2 g2v.fit(G)
File ~/miniforge3/envs/alphaA/lib/python3.8/site-packages/nodevectors/prone.py:82, in ProNE.fit(self, graph)
78 G = cg.csrgraph(graph)
79 features_matrix = self.pre_factorization(G.mat,
80 self.n_components,
81 self.exponent)
---> 82 vectors = ProNE.chebyshev_gaussian(
83 G.mat, features_matrix, self.n_components,
84 step=self.step, mu=self.mu, theta=self.theta)
85 self.model = dict(zip(G.nodes(), vectors))
File ~/miniforge3/envs/alphaA/lib/python3.8/site-packages/nodevectors/prone.py:154, in ProNE.chebyshev_gaussian(G, a, n_components, step, mu, theta)
151 return a
152 print(G.shape)
--> 154 A = sparse.eye(nnodes) + G
155 DA = preprocessing.normalize(A, norm='l1')
156 # L is graph laplacian
File ~/miniforge3/envs/alphaA/lib/python3.8/site-packages/scipy/sparse/base.py:414, in spmatrix.add(self, other)
412 elif isspmatrix(other):
413 if other.shape != self.shape:
--> 414 raise ValueError("inconsistent shapes")
415 return self._add_sparse(other)
416 elif isdense(other):
ValueError: inconsistent shapes
I further check the error and it showed that the G.mat is an asymmetric sparse matrix with shape (830421x830420)
Could you please give me any clue on this?
Hello! Thanks for the great great work!
I encountered an issue while using nodevectors to train the prone embeddings:
I ran
G = cg.read_edgelist("..", directed=True, sep=',')
g2v = ProNE()
g2v.fit(G)
and I got:
ValueError Traceback (most recent call last)
Input In [34], in <cell line: 2>()
1 g2v = ProNE()
----> 2 g2v.fit(G)
File ~/miniforge3/envs/alphaA/lib/python3.8/site-packages/nodevectors/prone.py:82, in ProNE.fit(self, graph)
78 G = cg.csrgraph(graph)
79 features_matrix = self.pre_factorization(G.mat,
80 self.n_components,
81 self.exponent)
---> 82 vectors = ProNE.chebyshev_gaussian(
83 G.mat, features_matrix, self.n_components,
84 step=self.step, mu=self.mu, theta=self.theta)
85 self.model = dict(zip(G.nodes(), vectors))
File ~/miniforge3/envs/alphaA/lib/python3.8/site-packages/nodevectors/prone.py:154, in ProNE.chebyshev_gaussian(G, a, n_components, step, mu, theta)
151 return a
152 print(G.shape)
--> 154 A = sparse.eye(nnodes) + G
155 DA = preprocessing.normalize(A, norm='l1')
156 # L is graph laplacian
File ~/miniforge3/envs/alphaA/lib/python3.8/site-packages/scipy/sparse/base.py:414, in spmatrix.add(self, other)
412 elif isspmatrix(other):
413 if other.shape != self.shape:
--> 414 raise ValueError("inconsistent shapes")
415 return self._add_sparse(other)
416 elif isdense(other):
ValueError: inconsistent shapes
I further check the error and it showed that the G.mat is an asymmetric sparse matrix with shape (830421x830420)
Could you please give me any clue on this?