NotImplementedError: Pairwise operation is not implemented! about grakel HOT 3 CLOSED

You can have a list G_query that contains only the query graph, and a list G_corpus that contains the corpus graphs. Then, you can do the following:
gk = ShortestPath(normalize=True)
gk.fit(G_query)
K = gk.transform(G_corpus)
Matrix K will be an n x 1 matrix (where n is the number of corpus graphs), and will contain the kernel values between the query graph and all the corpus graphs.

from grakel.

Dear @kgoyal98 ,

If I understand correctly, what you want to do is to compare two graphs (the 1st and the 2nd) of the test set to each other. You can do this as follows:
kernel_val = gk.fit_transform(G_test[:2])[0,1]

If, on the other hand, you just want to generate the kernel matrix for the test samples, you can do the following:
K_test = gk.transform(G_test)

from grakel.

Is there no other way? Actually I wanted to compare one query graph with many other corpus graphs. One way is to add the query graph in list of corpus graphs and compute the kernel matrix of the resultant list. But, this will mean greater computational complexity (by a factor of number of corpus graphs).

from grakel.