gds.fastRP.mutate creates all zeros!?

Neo4j Graph Platform Graph Algorithms/Graph Data Science
1

Hi, I created a graph with Document nodes and Word(lemmatized) nodes which is contained in the document, so Documents are connected through common Word nodes.

I projected the part of them like this:
call gds.graph.project.cypher(
'documentRootword',
'
match (n) where (n:Document and date("20220416")<=n.datePublished<=date("20220515")) or n:RootWord
return id(n) as id
',
'
match (d)-[:FROM_DOCUMENT]->(r:RootWord) where date("20220416")<=d.datePublished<=date("20220515")
return id(d) as source, id(r) as target
'
)

Then run fastRP like this:
call gds.fastRP.write(
'documentRootword',
{
embeddingDimension: 128,
iterationWeights: [1.0, 0.5, 0.5],
normalizationStrength: 0,
writeProperty: 'embedRootword',
randomSeed: 7
}
)

I know fastRP is designed for homogeneous graph. But I can usually create embeddings in heterogeous graph like this before and get useful similarities in them when I did it with GDS last year.

match (d:Document) where date("20220416")<=d.datePublished<=date("20220515")
return d.embedRootword limit 100
d.embedRootword
[0.049813542515039444, -0.033209025859832764, -0.06641805171966553, 0.03320902958512306, 0.016604511067271233, 3.2323665966060844e-9, 0.09962708503007889, -0.08302256464958191, 0.03320902958512306, 3.2323665966060844e-9, 0.14944063127040863, 3.2323665966060844e-9, 0.033209025859832764, 0.033209025859832764, 0.016604512929916382, -0.14944063127040863, -0.09962708503007889, 0.049813542515039444, -0.049813542515039444, 0.04981353506445885, 0.049813542515039444, -0.08302256464958191, 0.049813542515039444, -0.03320903703570366, -0.11623159050941467, 0.06641805171966553, 0.049813542515039444, 0.09962708503007889, 0.049813542515039444, 3.2323665966060844e-9, 0.11623159050941467, 0.23246318101882935, 0.13283610343933105, 0.06641805171966553, 0.06641805171966553, -0.033209025859832764, -0.016604512929916382, 0.0, -0.08302255719900131, -0.01660451665520668, -0.03320902958512306, -0.19925417006015778, 0.01660451665520668, 0.14944063127040863, -0.09962708503007889, -0.03320902958512306, -0.016604511067271233, -0.16604512929916382, 0.03320903703570366, 0.049813542515039444, -0.03320902958512306, 0.03320902958512306, -0.04981353506445885, 0.0830225721001625, -0.24906770884990692, -0.049813542515039444, 0.016604511067271233, 0.1826496422290802, 0.24906770884990692, 0.0830225721001625, -0.033209025859832764, 0.016604511067271233, -0.016604511067271233, 0.21585866808891296, -0.09962708503007889, -0.049813542515039444, 9.697100011862858e-9, -0.01660451665520668, -0.03320902958512306, -0.08302256464958191, 0.03320902958512306, -0.049813542515039444, 0.03320902958512306, -0.11623158305883408, -0.06641805171966553, 0.11623159050941467, 0.06641805171966553, -0.16604512929916382, 0.09962707757949829, -0.24906770884990692, -0.11623158305883408, -0.11623159050941467, -0.049813542515039444, -0.1826496422290802, 0.049813542515039444, 0.06641805171966553, 0.01660451665520668, 0.11623158305883408, -0.016604511067271233, -0.01660451665520668, 0.03320902958512306, 0.08302255719900131, 0.0, -0.049813542515039444, 0.09962708503007889, -0.049813542515039444, 0.049813542515039444, 0.033209025859832764, 0.016604511067271233, -0.03320903703570366, -3.2323665966060844e-9, 0.016604511067271233, -0.049813542515039444, 0.016604512929916382, -0.03320902958512306, 0.049813542515039444, 0.033209025859832764, -0.09962707757949829, 0.13283610343933105, 0.06641805917024612, 0.0830225721001625, 0.08302256464958191, -0.08302256464958191, -0.03320902958512306, 3.2323665966060844e-9, 0.06641805171966553, -0.14944063127040863, -0.06641805917024612, 0.0, -0.03320903703570366, 0.16604512929916382, -0.11623159050941467, -0.06641805171966553, -0.016604511067271233, -3.2323665966060844e-9, -0.033209025859832764, -0.0830225721001625, -0.08302256464958191]
....

But now with GDS 2.0.3 or 2.0.4, I cannot get the same embeddings in the memory from mutate procedure even though I can get the embeddins by Write procedure:
call gds.fastRP.mutate(
'documentRootword',
{
embeddingDimension: 128,
iterationWeights: [1.0, 0.5, 0.5],
normalizationStrength: 0,
mutateProperty: 'embedRootword',
randomSeed: 7
}
)

call gds.graph.streamNodeProperty(
'documentRootword',
'embedRootword'
)
yield nodeId, propertyValue
return nodeId, propertyValue limit 10
==> It returns all zeros for the values in the embeddings.

nodeId propertyValue
25 [0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0]
27 [0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0]

...

Am I doing something wrong?

2

Hello @Dongho ,
At the first glance you queries look correct.
Do I understand you correctly, that exactly the same workflow works if you use the write mode of FastRP instead of mutate?

Otherwise, my first idea is that your nodes are orphan nodes with no relationships.
To check that, you can use gds.degree.stream.
Also try to use a non-zero nodeSelfInfluence to avoid 0 embeddings for orphan nodes? (https://neo4j.com/docs/graph-data-science/current/machine-learning/node-embeddings/fastrp/#algorithms-embeddings-fastrp-node-self-influence)