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schema: '2.0'
stages:
embed_node2vec@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/node2vec.py --dataset
WikiCS --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/node2vec.py
md5: 6b7f6ceee5333cc2b17183e6d80f7c62
size: 1915
- path: src/embed/structural/node2vec.py
md5: 7afa219ee2979a8bb0d118cab4ebb526
size: 2719
params:
experiments/configs/embed/structural/n2v.yaml:
params.WikiCS:
batch_size: 256
context_size: 11
emb_dim: 128
lr: 0.015526135020330113
num_epochs: 20
num_negative_samples: 3
p: 0.9903532902564003
q: 0.6495195865065801
walk_length: 27
walks_per_node: 20
outs:
- path: data/embeddings/structural/n2v/WikiCS/
md5: 11f12adff0f40187511a56e6ad7c4fea.dir
size: 59916678
nfiles: 10
embed_line@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/line.py --dataset
WikiCS --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/line.py
md5: 202e83d692708bafbece1ae4461cb1fa
size: 1730
- path: src/embed/structural/line.py
md5: bb397890d7e8ae86e8fce49b20ac61e2
size: 1059
params:
experiments/configs/embed/structural/line.yaml:
params.WikiCS:
batch_size: 32
emb_dim: 128
negative_ratio: 0
num_epochs: 10
order: first
outs:
- path: data/embeddings/structural/line/WikiCS/
md5: ca9907319666d16bcbff374a97ece1d9.dir
size: 59916670
nfiles: 10
embed_sdne@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/sdne.py --dataset
WikiCS --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/sdne.py
md5: 27563b5321bd644f5b9289bb5a9d0654
size: 1770
- path: src/embed/structural/sdne.py
md5: 05dbed82355e314895b84e85d8f80925
size: 1153
params:
experiments/configs/embed/structural/sdne.yaml:
params.WikiCS:
alpha: 0.0006538975205078281
batch_size: 256
beta: 3.9129865692749264
emb_dim: 128
hidden_size: 256
nu1: 7.406097210272269e-05
nu2: 0.0008783294037345857
num_epochs: 50
outs:
- path: data/embeddings/structural/sdne/WikiCS/
md5: 9dace1a875018a42c72a63f76fc41481.dir
size: 59916670
nfiles: 10
embed_tadw@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/tadw.py --dataset
WikiCS --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/tadw.py
md5: 0dc38ece73761c588cff67042a1ea035
size: 1813
- path: src/embed/attributed/tadw.py
md5: 4f28414eb682677e8b96a00cecf1a5d4
size: 769
params:
experiments/configs/embed/attributed/tadw.yaml:
params.WikiCS:
emb_dim: 64
lambd: 8
lr: 0.0012673894851240107
num_epochs: 20
reduction_dimensions: 32
svd_iterations: 21
outs:
- path: data/embeddings/attributed/tadw/WikiCS/
md5: 4784222190f29ea00389b0934e276c7b.dir
size: 59916670
nfiles: 10
apply_concat_pca_refiner@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
ConcatPCA --dataset WikiCS
deps:
- path: data/embeddings/structural/line/WikiCS/
md5: ca9907319666d16bcbff374a97ece1d9.dir
size: 59916670
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 11f12adff0f40187511a56e6ad7c4fea.dir
size: 59916678
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: 9dace1a875018a42c72a63f76fc41481.dir
size: 59916670
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/ConcatPCA.yaml:
paths:
output:
embedding: data/embeddings/refined/naive/ConcatPCA/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/ConcatPCA/line/WikiCS/
md5: 43815b5fa29c08d8bd27d51fc92e649e.dir
size: 59916660
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/n2v/WikiCS/
md5: 87fd64921fe7cea007ec5d198e8412be.dir
size: 59916660
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/sdne/WikiCS/
md5: 60fc132c98d867b551f240fcdc229da9.dir
size: 59916660
nfiles: 10
apply_concat_refiner@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
Concat --dataset WikiCS
deps:
- path: data/embeddings/structural/line/WikiCS/
md5: ca9907319666d16bcbff374a97ece1d9.dir
size: 59916670
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 11f12adff0f40187511a56e6ad7c4fea.dir
size: 59916678
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: 9dace1a875018a42c72a63f76fc41481.dir
size: 59916670
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/Concat.yaml:
paths:
output:
embedding: data/embeddings/refined/naive/Concat/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/Concat/line/WikiCS/
md5: 15d0c647ffeddf04e0b07fce350c76ad.dir
size: 200328180
nfiles: 10
- path: data/embeddings/refined/naive/Concat/n2v/WikiCS/
md5: 0ffeab626482c3583ccfb7859fa6a335.dir
size: 200328180
nfiles: 10
- path: data/embeddings/refined/naive/Concat/sdne/WikiCS/
md5: 08a1cb8ebb656354b40b8fb51ba8e332.dir
size: 200328180
nfiles: 10
apply_mlp_refiner@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
MLP --dataset WikiCS
deps:
- path: data/embeddings/structural/line/WikiCS/
md5: ca9907319666d16bcbff374a97ece1d9.dir
size: 59916670
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 11f12adff0f40187511a56e6ad7c4fea.dir
size: 59916678
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: 9dace1a875018a42c72a63f76fc41481.dir
size: 59916670
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/MLP.yaml:
WikiCS:
lr: 0.001
batch_size: 128
num_epochs: 20
paths:
output:
embedding: data/embeddings/refined/naive/MLP/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/MLP/line/WikiCS/
md5: fbac8f54790080f8fb2fbd8d50379459.dir
size: 59916664
nfiles: 10
- path: data/embeddings/refined/naive/MLP/n2v/WikiCS/
md5: 8d7cf69f500f5763464a0b2cc73b43bc.dir
size: 59916666
nfiles: 10
- path: data/embeddings/refined/naive/MLP/sdne/WikiCS/
md5: dc05f659ee19b3f654989af9b0a63c08.dir
size: 59916668
nfiles: 10
evaluate_node_classification@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/evaluate_node_classification.py
--dataset WikiCS
deps:
- path: data/embeddings/
md5: 2b3d531c8338127dfa97ef39af11320a.dir
size: 26033228521
nfiles: 1320
- path: experiments/scripts/evaluate_node_classification.py
md5: dc25a67637b47bd4957d57a704a05782
size: 1924
- path: src/tasks/node_classification.py
md5: 38d3dc3aa4fa6cc054693a92494160fb
size: 1531
params:
experiments/configs/node_classification.yaml:
embedding_methods:
- features
- structural/line
- structural/n2v
- structural/sdne
- attributed/fscnmf
- attributed/tadw
- attributed/dgi
- refined/naive/Concat/line
- refined/naive/Concat/n2v
- refined/naive/Concat/sdne
- refined/naive/ConcatPCA/line
- refined/naive/ConcatPCA/n2v
- refined/naive/ConcatPCA/sdne
- refined/naive/MLP/line
- refined/naive/MLP/n2v
- refined/naive/MLP/sdne
- refined/GERF_grid/line
- refined/GERF_grid/n2v
- refined/GERF_grid/sdne
- refined/GERF_uniform/line
- refined/GERF_uniform/n2v
- refined/GERF_uniform/sdne
- refined/GERF_homophily/line
- refined/GERF_homophily/n2v
- refined/GERF_homophily/sdne
outs:
- path: data/metrics/node_classification/WikiCS/
md5: 154f8dbda3a5fed963885adcd2e04c75.dir
size: 3827082
nfiles: 25
make_report_tables:
cmd: PYTHONPATH=. python3 experiments/scripts/make_report_tables.py
deps:
- path: data/metrics/link_prediction
md5: 873bf26fb217357e221542b5067c8ead.dir
size: 4078804
nfiles: 118
- path: data/metrics/node_classification
md5: d5827fe3d5c9f15f32ca3a6469850ce7.dir
size: 17246206
nfiles: 100
- path: experiments/scripts/make_report_tables.py
md5: 3ad31ca4f1f44b2a8525c5ae5a1c05fd
size: 4228
outs:
- path: data/report_link_prediction.txt
md5: 78fe0b38ca684ffa856036889d8e4433
size: 2582
- path: data/report_node_classification.txt
md5: a863f927d0fce5d4731203f964e4d110
size: 2528
embed_node2vec@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/node2vec.py --dataset
Amazon-CS --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/node2vec.py
md5: 6b7f6ceee5333cc2b17183e6d80f7c62
size: 1915
- path: src/embed/structural/node2vec.py
md5: 7afa219ee2979a8bb0d118cab4ebb526
size: 2719
params:
experiments/configs/embed/structural/n2v.yaml:
params.Amazon-CS:
batch_size: 256
context_size: 8
emb_dim: 128
lr: 0.014882587046783491
num_epochs: 20
num_negative_samples: 1
p: 0.739931968708869
q: 1.1484292305792294
walk_length: 29
walks_per_node: 20
outs:
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: 7ec24281d8f4f230c4913f88b693c07f.dir
size: 70417797
nfiles: 10
embed_line@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/line.py --dataset
Amazon-CS --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/line.py
md5: 202e83d692708bafbece1ae4461cb1fa
size: 1730
- path: src/embed/structural/line.py
md5: bb397890d7e8ae86e8fce49b20ac61e2
size: 1059
params:
experiments/configs/embed/structural/line.yaml:
params.Amazon-CS:
batch_size: 1024
emb_dim: 128
negative_ratio: 0
num_epochs: 10
order: first
outs:
- path: data/embeddings/structural/line/Amazon-CS/
md5: 15e5bade62abdc8359bb5f5a513fe3d4.dir
size: 70417790
nfiles: 10
embed_sdne@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/sdne.py --dataset
Amazon-CS --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/sdne.py
md5: 27563b5321bd644f5b9289bb5a9d0654
size: 1770
- path: src/embed/structural/sdne.py
md5: 05dbed82355e314895b84e85d8f80925
size: 1153
params:
experiments/configs/embed/structural/sdne.yaml:
params.Amazon-CS:
alpha: 2.096087512750295e-05
batch_size: 256
beta: 4.463429019746708
emb_dim: 128
hidden_size: 128
nu1: 3.123777168711336e-05
nu2: 0.000977667668104079
num_epochs: 50
outs:
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 525f8e48e8df868200b8ad61cd396ee5.dir
size: 70417790
nfiles: 10
apply_concat_refiner@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
Concat --dataset Amazon-CS
deps:
- path: data/embeddings/structural/line/Amazon-CS/
md5: 15e5bade62abdc8359bb5f5a513fe3d4.dir
size: 70417790
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: 7ec24281d8f4f230c4913f88b693c07f.dir
size: 70417797
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 525f8e48e8df868200b8ad61cd396ee5.dir
size: 70417790
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/Concat.yaml:
paths:
output:
embedding: data/embeddings/refined/naive/Concat/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/Concat/line/Amazon-CS/
md5: b583a1505dadf524ab1e5f7bbf55c9dc.dir
size: 492328820
nfiles: 10
- path: data/embeddings/refined/naive/Concat/n2v/Amazon-CS/
md5: 888c392895fd7b702f230ed199509e38.dir
size: 492328820
nfiles: 10
- path: data/embeddings/refined/naive/Concat/sdne/Amazon-CS/
md5: ea299db609b9b187807599a90c90f2e3.dir
size: 492328820
nfiles: 10
apply_concat_pca_refiner@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
ConcatPCA --dataset Amazon-CS
deps:
- path: data/embeddings/structural/line/Amazon-CS/
md5: 15e5bade62abdc8359bb5f5a513fe3d4.dir
size: 70417790
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: 7ec24281d8f4f230c4913f88b693c07f.dir
size: 70417797
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 525f8e48e8df868200b8ad61cd396ee5.dir
size: 70417790
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/ConcatPCA.yaml:
paths:
output:
embedding: data/embeddings/refined/naive/ConcatPCA/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/ConcatPCA/line/Amazon-CS/
md5: f101064c15f8c0061a36538b9eb56d17.dir
size: 70417790
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/n2v/Amazon-CS/
md5: 2aa4cd01a685ef26d1ba17b4c63020a6.dir
size: 70417790
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/sdne/Amazon-CS/
md5: 88d8014af0c89923484710fe1df234dd.dir
size: 70417790
nfiles: 10
apply_mlp_refiner@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
MLP --dataset Amazon-CS
deps:
- path: data/embeddings/structural/line/Amazon-CS/
md5: 15e5bade62abdc8359bb5f5a513fe3d4.dir
size: 70417790
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: 7ec24281d8f4f230c4913f88b693c07f.dir
size: 70417797
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 525f8e48e8df868200b8ad61cd396ee5.dir
size: 70417790
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/MLP.yaml:
Amazon-CS:
lr: 0.001
batch_size: 128
num_epochs: 20
paths:
output:
embedding: data/embeddings/refined/naive/MLP/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/MLP/line/Amazon-CS/
md5: 8679cede7017a57a22390e26272d7acd.dir
size: 70417798
nfiles: 10
- path: data/embeddings/refined/naive/MLP/n2v/Amazon-CS/
md5: db3790a1ff80ac2dfe73ba5e90376cad.dir
size: 70417800
nfiles: 10
- path: data/embeddings/refined/naive/MLP/sdne/Amazon-CS/
md5: a41375dbe6e4759b49e07acc2ed530bc.dir
size: 70417800
nfiles: 10
embed_tadw@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/tadw.py --dataset
Amazon-CS --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/tadw.py
md5: 0dc38ece73761c588cff67042a1ea035
size: 1813
- path: src/embed/attributed/tadw.py
md5: 4f28414eb682677e8b96a00cecf1a5d4
size: 769
params:
experiments/configs/embed/attributed/tadw.yaml:
params.Amazon-CS:
emb_dim: 64
lambd: 1
lr: 0.0013739374279425401
num_epochs: 20
reduction_dimensions: 16
svd_iterations: 36
outs:
- path: data/embeddings/attributed/tadw/Amazon-CS/
md5: de6c899fc880672a536efc6fd9022a04.dir
size: 70417790
nfiles: 10
evaluate_node_classification@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/evaluate_node_classification.py
--dataset Amazon-CS
deps:
- path: data/embeddings/
md5: 2b3d531c8338127dfa97ef39af11320a.dir
size: 26033228521
nfiles: 1320
- path: experiments/scripts/evaluate_node_classification.py
md5: dc25a67637b47bd4957d57a704a05782
size: 1924
- path: src/tasks/node_classification.py
md5: 38d3dc3aa4fa6cc054693a92494160fb
size: 1531
params:
experiments/configs/node_classification.yaml:
embedding_methods:
- features
- structural/line
- structural/n2v
- structural/sdne
- attributed/fscnmf
- attributed/tadw
- attributed/dgi
- refined/naive/Concat/line
- refined/naive/Concat/n2v
- refined/naive/Concat/sdne
- refined/naive/ConcatPCA/line
- refined/naive/ConcatPCA/n2v
- refined/naive/ConcatPCA/sdne
- refined/naive/MLP/line
- refined/naive/MLP/n2v
- refined/naive/MLP/sdne
- refined/GERF_grid/line
- refined/GERF_grid/n2v
- refined/GERF_grid/sdne
- refined/GERF_uniform/line
- refined/GERF_uniform/n2v
- refined/GERF_uniform/sdne
- refined/GERF_homophily/line
- refined/GERF_homophily/n2v
- refined/GERF_homophily/sdne
outs:
- path: data/metrics/node_classification/Amazon-CS/
md5: c0811dda9d5f9aabca671ca19d2e8ebb.dir
size: 3819624
nfiles: 25
embed_dgi@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/dgi.py --dataset
WikiCS --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/dgi.py
md5: 2cfe6b3c9568f26a6e4441181c4833f7
size: 1601
- path: src/embed/attributed/dgi.py
md5: 5b2024dcca751529c41578a62d54ff92
size: 2035
params:
experiments/configs/embed/attributed/dgi.yaml:
params.WikiCS:
emb_dim: 128
lr: 0.0004877389523631676
num_epochs: 100
outs:
- path: data/embeddings/attributed/dgi/WikiCS/
md5: 956c43d45224b1198c12f0efc9a3af5c.dir
size: 59916679
nfiles: 10
embed_dgi@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/dgi.py --dataset
Amazon-CS --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/dgi.py
md5: 2cfe6b3c9568f26a6e4441181c4833f7
size: 1601
- path: src/embed/attributed/dgi.py
md5: 5b2024dcca751529c41578a62d54ff92
size: 2035
params:
experiments/configs/embed/attributed/dgi.yaml:
params.Amazon-CS:
emb_dim: 128
lr: 0.00022433497490294773
num_epochs: 100
outs:
- path: data/embeddings/attributed/dgi/Amazon-CS/
md5: 77a2e321f740fb7986a2b64ad96cf8cc.dir
size: 70417800
nfiles: 10
embed_fscnmf@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/fscnmf.py --dataset
WikiCS --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/fscnmf.py
md5: 35e2ef7c1dbf7316bc2d7eaca531ea3b
size: 1881
- path: src/embed/attributed/fscnmf.py
md5: db25cddb25bbdd70f095acd522f29254
size: 1413
params:
experiments/configs/embed/attributed/fscnmf.yaml:
params.WikiCS:
alpha_1: 1204
alpha_2: 1.4891700115683768
alpha_3: 0.6838041609077723
beta_1: 1337
beta_2: 1.340005869245568
beta_3: 1.3879204425017988
emb_dim: 64
num_epochs: 500
outs:
- path: data/embeddings/attributed/fscnmf/WikiCS/
md5: cba03dffcd183d72c82a1b124e2725c2.dir
size: 59916663
nfiles: 10
embed_fscnmf@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/fscnmf.py --dataset
Amazon-CS --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/fscnmf.py
md5: 35e2ef7c1dbf7316bc2d7eaca531ea3b
size: 1881
- path: src/embed/attributed/fscnmf.py
md5: db25cddb25bbdd70f095acd522f29254
size: 1413
params:
experiments/configs/embed/attributed/fscnmf.yaml:
params.Amazon-CS:
alpha_1: 227
alpha_2: 1.2886208038871247
alpha_3: 0.3802003542154301
beta_1: 100
beta_2: 0.25423894181169904
beta_3: 0.10867964292175775
emb_dim: 64
num_epochs: 500
outs:
- path: data/embeddings/attributed/fscnmf/Amazon-CS/
md5: 8300bac0745b33d00388af500d52cb39.dir
size: 70417780
nfiles: 10
hps_GERF@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/hps_GERF.py --dataset WikiCS
deps:
- path: data/embeddings/structural/line/WikiCS/
md5: ca9907319666d16bcbff374a97ece1d9.dir
size: 59916670
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 11f12adff0f40187511a56e6ad7c4fea.dir
size: 59916678
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: 9dace1a875018a42c72a63f76fc41481.dir
size: 59916670
nfiles: 10
- path: experiments/scripts/refine/hps_GERF.py
md5: 87c372b07e89124b5a6212ca4c044811
size: 3335
outs:
- path: data/hps/GERF/WikiCS/best.json
md5: 2f49561cb11c6387bae903673a0d2b56
size: 328
- path: data/hps/GERF/WikiCS/log.csv
md5: 5f091e8d3db8f1c90b4785e786db746c
size: 2762
hps_GERF@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/hps_GERF.py --dataset Amazon-CS
deps:
- path: data/embeddings/structural/line/Amazon-CS/
md5: 15e5bade62abdc8359bb5f5a513fe3d4.dir
size: 70417790
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: 7ec24281d8f4f230c4913f88b693c07f.dir
size: 70417797
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 525f8e48e8df868200b8ad61cd396ee5.dir
size: 70417790
nfiles: 10
- path: experiments/scripts/refine/hps_GERF.py
md5: 87c372b07e89124b5a6212ca4c044811
size: 3335
outs:
- path: data/hps/GERF/Amazon-CS/best.json
md5: d17dcea530d1a7df035740a2ba6191b9
size: 361
- path: data/hps/GERF/Amazon-CS/log.csv
md5: ea88fef471c58bac363be7feaeeaa0e0
size: 2761
embed_node2vec@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/node2vec.py --dataset
Amazon-Photo --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/node2vec.py
md5: 6b7f6ceee5333cc2b17183e6d80f7c62
size: 1915
- path: src/embed/structural/node2vec.py
md5: 7afa219ee2979a8bb0d118cab4ebb526
size: 2719
params:
experiments/configs/embed/structural/n2v.yaml:
params.Amazon-Photo:
batch_size: 256
context_size: 10
emb_dim: 128
lr: 0.01619429669481697
num_epochs: 20
num_negative_samples: 3
p: 0.8956405902580619
q: 1.3021330154973136
walk_length: 27
walks_per_node: 17
outs:
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: d343747d5872e7d32d5493eb19b4b874.dir
size: 39175560
nfiles: 10
embed_line@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/line.py --dataset
Amazon-Photo --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/line.py
md5: 202e83d692708bafbece1ae4461cb1fa
size: 1730
- path: src/embed/structural/line.py
md5: bb397890d7e8ae86e8fce49b20ac61e2
size: 1059
params:
experiments/configs/embed/structural/line.yaml:
params.Amazon-Photo:
batch_size: 64
emb_dim: 128
negative_ratio: 0
num_epochs: 10
order: first
outs:
- path: data/embeddings/structural/line/Amazon-Photo/
md5: 685557904a58128565acb9394c98041d.dir
size: 39175550
nfiles: 10
embed_sdne@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/structural/sdne.py --dataset
Amazon-Photo --num-retrains 10
deps:
- path: experiments/scripts/embed/structural/sdne.py
md5: 27563b5321bd644f5b9289bb5a9d0654
size: 1770
- path: src/embed/structural/sdne.py
md5: 05dbed82355e314895b84e85d8f80925
size: 1153
params:
experiments/configs/embed/structural/sdne.yaml:
params.Amazon-Photo:
alpha: 0.0004122915224267525
batch_size: 256
beta: 5.4047113784687895
emb_dim: 128
hidden_size: 512
nu1: 9.18909389592212e-05
nu2: 0.0007711930118292152
num_epochs: 50
outs:
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: a561c74121c9bfc0362b7cfc868cec65.dir
size: 39175550
nfiles: 10
embed_dgi@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/dgi.py --dataset
Amazon-Photo --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/dgi.py
md5: 2cfe6b3c9568f26a6e4441181c4833f7
size: 1601
- path: src/embed/attributed/dgi.py
md5: 5b2024dcca751529c41578a62d54ff92
size: 2035
params:
experiments/configs/embed/attributed/dgi.yaml:
params.Amazon-Photo:
emb_dim: 128
lr: 0.0005662724736601763
num_epochs: 100
outs:
- path: data/embeddings/attributed/dgi/Amazon-Photo/
md5: e24a009204b36e4c4e3b673d941e0681.dir
size: 39175560
nfiles: 10
apply_concat_refiner@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
Concat --dataset Amazon-Photo
deps:
- path: data/embeddings/structural/line/Amazon-Photo/
md5: 685557904a58128565acb9394c98041d.dir
size: 39175550
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: d343747d5872e7d32d5493eb19b4b874.dir
size: 39175560
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: a561c74121c9bfc0362b7cfc868cec65.dir
size: 39175550
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/Concat.yaml:
paths:
output:
embedding: data/embeddings/refined/naive/Concat/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/Concat/line/Amazon-Photo/
md5: ddd32fe66efcc5a7551ce414bb4e9250.dir
size: 267145460
nfiles: 10
- path: data/embeddings/refined/naive/Concat/n2v/Amazon-Photo/
md5: beb50f33d3d4dc42e6968039806f381a.dir
size: 267145460
nfiles: 10
- path: data/embeddings/refined/naive/Concat/sdne/Amazon-Photo/
md5: e3e01f52ba2d62aae67fac1dd4dafc5d.dir
size: 267145460
nfiles: 10
apply_concat_pca_refiner@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
ConcatPCA --dataset Amazon-Photo
deps:
- path: data/embeddings/structural/line/Amazon-Photo/
md5: 685557904a58128565acb9394c98041d.dir
size: 39175550
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: d343747d5872e7d32d5493eb19b4b874.dir
size: 39175560
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: a561c74121c9bfc0362b7cfc868cec65.dir
size: 39175550
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/ConcatPCA.yaml:
paths:
output:
embedding: data/embeddings/refined/naive/ConcatPCA/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/ConcatPCA/line/Amazon-Photo/
md5: a8c77ec0e8063ca12b3c714b447507bd.dir
size: 39175540
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/n2v/Amazon-Photo/
md5: ca35e13ad808c0bb6f0e365e4265d403.dir
size: 39175540
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/sdne/Amazon-Photo/
md5: 54e3eb39ec92f9db05268840a5880cad.dir
size: 39175540
nfiles: 10
apply_mlp_refiner@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_naive_refiner.py --method
MLP --dataset Amazon-Photo
deps:
- path: data/embeddings/structural/line/Amazon-Photo/
md5: 685557904a58128565acb9394c98041d.dir
size: 39175550
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: d343747d5872e7d32d5493eb19b4b874.dir
size: 39175560
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: a561c74121c9bfc0362b7cfc868cec65.dir
size: 39175550
nfiles: 10
- path: experiments/scripts/refine/apply_naive_refiner.py
md5: f9a2fa56d58139593ba0d029d5493a60
size: 2222
params:
experiments/configs/refine/naive/MLP.yaml:
Amazon-Photo:
lr: 0.001
batch_size: 128
num_epochs: 20
paths:
output:
embedding: data/embeddings/refined/naive/MLP/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/naive/MLP/line/Amazon-Photo/
md5: 27d055ed75dd0b301660c2a9beb09dba.dir
size: 39175555
nfiles: 10
- path: data/embeddings/refined/naive/MLP/n2v/Amazon-Photo/
md5: 4b265c769e30cc853fae5ceaa760bd39.dir
size: 39175555
nfiles: 10
- path: data/embeddings/refined/naive/MLP/sdne/Amazon-Photo/
md5: 92d18f66539780c9145d2aa9c1ba3f5c.dir
size: 39175559
nfiles: 10
embed_tadw@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/tadw.py --dataset
Amazon-Photo --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/tadw.py
md5: 0dc38ece73761c588cff67042a1ea035
size: 1813
- path: src/embed/attributed/tadw.py
md5: 4f28414eb682677e8b96a00cecf1a5d4
size: 769
params:
experiments/configs/embed/attributed/tadw.yaml:
params.Amazon-Photo:
emb_dim: 64
lambd: 9
lr: 0.0012924394318061566
num_epochs: 20
reduction_dimensions: 64
svd_iterations: 18
outs:
- path: data/embeddings/attributed/tadw/Amazon-Photo/
md5: 4f5a93d872aee3818373510f9e437872.dir
size: 39175541
nfiles: 10
embed_fscnmf@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/embed/attributed/fscnmf.py --dataset
Amazon-Photo --num-retrains 10
deps:
- path: experiments/scripts/embed/attributed/fscnmf.py
md5: 35e2ef7c1dbf7316bc2d7eaca531ea3b
size: 1881
- path: src/embed/attributed/fscnmf.py
md5: db25cddb25bbdd70f095acd522f29254
size: 1413
params:
experiments/configs/embed/attributed/fscnmf.yaml:
params.Amazon-Photo:
alpha_1: 255
alpha_2: 1.4441718246177857
alpha_3: 0.1923242321989463
beta_1: 224
beta_2: 0.3180584962714869
beta_3: 0.5952530860398961
emb_dim: 64
num_epochs: 500
outs:
- path: data/embeddings/attributed/fscnmf/Amazon-Photo/
md5: a7ec1de4d97e7c5051ef40851c6e89ff.dir
size: 39175542
nfiles: 10
hps_GERF@Amazon-Photo:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/hps_GERF.py --dataset Amazon-Photo
deps:
- path: data/embeddings/structural/line/Amazon-Photo/
md5: 685557904a58128565acb9394c98041d.dir
size: 39175550
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-Photo/