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The PHATE Operator get's stuck in the landmark operation when using precomputed knn_dist #175
Description
Describe the bug
The PHATE Operator get's stuck in the landmark operation when using precomputed knn_dist
To Reproduce
import phate
phate_op = phate.PHATE(knn_dist='precomputed', knn=7, t=10, n_jobs=-1)
emb = phate_op.fit_transform(D)
Expected behavior
Computation should take more or less the same time as version 1.0.11.
Actual behavior
Code never passes the landmark computation
Activity
MattScicluna commentedon Mar 3, 2026
Could you provide a complete, minimal example that reproduces the bug and attach any output (stdout/stderr)? If there’s no output, please confirm whether the code terminates or hangs.
MattScicluna commentedon Mar 4, 2026
I made a pytest to check this: #176
Currently it is passing. So there could be something else causing the bug.