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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: 831e854d30349a7b1e338f81b1dc10f1
size: 4612
params:
experiments/configs/embed/structural/node2vec.yaml:
params.WikiCS:
emb_dim: 128
lr: 0.01
batch_size: 128
walk_length: 20
walks_per_node: 10
context_size: 10
num_negative_samples: 1
p: 1
q: 1
num_epochs: 20
paths:
output:
embedding: embeddings/structural/n2v/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/n2v/WikiCS/
md5: 6d3cdf9e296d6d7af54206c2ee4f96d2.dir
size: 59916720
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: 256389f7597135e1892afa8f952b284c
size: 2814
params:
experiments/configs/embed/structural/line.yaml:
params.WikiCS:
emb_dim: 64
negative_ratio: 1
order: all
batch_size: 128
num_epochs: 10
paths:
output:
embedding: embeddings/structural/line/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/line/WikiCS/
md5: 4d2a08e1a6c8fa3056d475faa396cdf4.dir
size: 59916720
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: a8abe21749e987af191e39cb51712c86
size: 2948
params:
experiments/configs/embed/structural/sdne.yaml:
params.WikiCS:
emb_dim: 128
hidden_size: 256
nu1: 1e-05
nu2: 0.0001
alpha: 0.0001
beta: 5
batch_size: 128
num_epochs: 50
paths:
output:
embedding: embeddings/structural/sdne/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/sdne/WikiCS/
md5: cbfffca1a67a53428df47656d287bfc3.dir
size: 59916720
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: f4bdb925325917409ee736a15edef193
size: 2426
params:
experiments/configs/embed/attributed/tadw.yaml:
params.WikiCS:
emb_dim: 64
lr: 0.01
num_epochs: 20
paths:
output:
embedding: embeddings/attributed/tadw/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/attributed/tadw/WikiCS/
md5: 36f5d892213103bb066f688364b464f4.dir
size: 59916720
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: 4d2a08e1a6c8fa3056d475faa396cdf4.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 6d3cdf9e296d6d7af54206c2ee4f96d2.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: cbfffca1a67a53428df47656d287bfc3.dir
size: 59916720
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: 71abc17a9d5a7891c588e3f0fe40de18.dir
size: 59916720
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/n2v/WikiCS/
md5: b84a4dbc82bad4ebe5de10fc5d5f814b.dir
size: 59916720
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/sdne/WikiCS/
md5: 22f3142af25dd2ee3e88e913b2b4d020.dir
size: 59916720
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: 4d2a08e1a6c8fa3056d475faa396cdf4.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 6d3cdf9e296d6d7af54206c2ee4f96d2.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: cbfffca1a67a53428df47656d287bfc3.dir
size: 59916720
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: 0e91e0ff0ac5a6790ea18a360624293a.dir
size: 200328240
nfiles: 10
- path: data/embeddings/refined/naive/Concat/n2v/WikiCS/
md5: 06157daccdbc8a0ca0291cbe40276856.dir
size: 200328240
nfiles: 10
- path: data/embeddings/refined/naive/Concat/sdne/WikiCS/
md5: 24563b476fb710ae39aa6b1b977c74c5.dir
size: 200328240
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: 4d2a08e1a6c8fa3056d475faa396cdf4.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 6d3cdf9e296d6d7af54206c2ee4f96d2.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: cbfffca1a67a53428df47656d287bfc3.dir
size: 59916720
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: 129027524b570a65c9049200b0435f77.dir
size: 59916720
nfiles: 10
- path: data/embeddings/refined/naive/MLP/n2v/WikiCS/
md5: bc793f8a91789aa2ea0756f1f9a8e37e.dir
size: 59916720
nfiles: 10
- path: data/embeddings/refined/naive/MLP/sdne/WikiCS/
md5: e010c9ae83f4376e42ead5db8e406992.dir
size: 59916720
nfiles: 10
evaluate_node_classification@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/evaluate_node_classification.py
--dataset WikiCS
deps:
- path: data/embeddings/
md5: 674d71762f85ff00824888122d6d6f56.dir
size: 22082494080
nfiles: 720
- 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/line
- refined/GERF/n2v
- refined/GERF/sdne
outs:
- path: data/metrics/node_classification/WikiCS/
md5: 05980f25d6358c4e75ba6dd3e2909e34.dir
size: 2875247
nfiles: 19
make_report_tables:
cmd: PYTHONPATH=. python3 experiments/scripts/make_report_tables.py
deps:
- path: data/metrics/node_classification
md5: b14e517ad47fae9962e93a0e9b788752.dir
size: 12961825
nfiles: 76
- path: experiments/scripts/make_report_tables.py
md5: 596d1e0fd8efb8fea7b1618ed7149dda
size: 3377
outs:
- path: data/report_node_classification.txt
md5: 514d18011a966debbe7a059c64256e64
size: 1970
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: 831e854d30349a7b1e338f81b1dc10f1
size: 4612
params:
experiments/configs/embed/structural/node2vec.yaml:
params.Amazon-CS:
emb_dim: 128
lr: 0.01
batch_size: 128
walk_length: 20
walks_per_node: 10
context_size: 10
num_negative_samples: 1
p: 1
q: 1
num_epochs: 20
paths:
output:
embedding: embeddings/structural/n2v/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: d5888904e4ab95865c9aaec2291e471c.dir
size: 70417840
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: 256389f7597135e1892afa8f952b284c
size: 2814
params:
experiments/configs/embed/structural/line.yaml:
params.Amazon-CS:
emb_dim: 64
negative_ratio: 1
order: all
batch_size: 4096
num_epochs: 10
paths:
output:
embedding: embeddings/structural/line/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/line/Amazon-CS/
md5: 2cb66f0dc8d733e5c1c7d059f6a14d78.dir
size: 70417840
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: a8abe21749e987af191e39cb51712c86
size: 2948
params:
experiments/configs/embed/structural/sdne.yaml:
params.Amazon-CS:
emb_dim: 128
hidden_size: 256
nu1: 1e-05
nu2: 0.0001
alpha: 0.0001
beta: 5
batch_size: 128
num_epochs: 50
paths:
output:
embedding: embeddings/structural/sdne/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 8b4639c53f0c4f141feecc33d6f22128.dir
size: 70417840
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: 2cb66f0dc8d733e5c1c7d059f6a14d78.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: d5888904e4ab95865c9aaec2291e471c.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 8b4639c53f0c4f141feecc33d6f22128.dir
size: 70417840
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: 59fef0043e51fa24ab074383adf87806.dir
size: 492328880
nfiles: 10
- path: data/embeddings/refined/naive/Concat/n2v/Amazon-CS/
md5: 1a6eafc9be68a13e20d2b1977d23e69b.dir
size: 492328880
nfiles: 10
- path: data/embeddings/refined/naive/Concat/sdne/Amazon-CS/
md5: 4edde78c9c5e9d4cedb1054168ac13ec.dir
size: 492328880
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: 2cb66f0dc8d733e5c1c7d059f6a14d78.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: d5888904e4ab95865c9aaec2291e471c.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 8b4639c53f0c4f141feecc33d6f22128.dir
size: 70417840
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: d80e36a1011dc8e0ad63e7b5e1ffd0c9.dir
size: 70417840
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/n2v/Amazon-CS/
md5: 34b67816e1c9317f5e72f22ffdac425e.dir
size: 70417840
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/sdne/Amazon-CS/
md5: 80761c1ace94a38108705ef5f99b97c4.dir
size: 70417840
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: 2cb66f0dc8d733e5c1c7d059f6a14d78.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: d5888904e4ab95865c9aaec2291e471c.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 8b4639c53f0c4f141feecc33d6f22128.dir
size: 70417840
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: fa92d8cae2c32c29659c79adf3bdab0f.dir
size: 70417840
nfiles: 10
- path: data/embeddings/refined/naive/MLP/n2v/Amazon-CS/
md5: f8d4971aa5cead11c476b44ffa67c5c5.dir
size: 70417840
nfiles: 10
- path: data/embeddings/refined/naive/MLP/sdne/Amazon-CS/
md5: 27248d2b3f35cf30d579d439600f3939.dir
size: 70417840
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: f4bdb925325917409ee736a15edef193
size: 2426
params:
experiments/configs/embed/attributed/tadw.yaml:
params.Amazon-CS:
emb_dim: 64
lr: 0.01
num_epochs: 20
paths:
output:
embedding: embeddings/attributed/tadw/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/attributed/tadw/Amazon-CS/
md5: e4cae489d75bfae4341525a0ab9b2c80.dir
size: 70417840
nfiles: 10
evaluate_node_classification@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/evaluate_node_classification.py
--dataset Amazon-CS
deps:
- path: data/embeddings/
md5: 674d71762f85ff00824888122d6d6f56.dir
size: 22082494080
nfiles: 720
- 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/line
- refined/GERF/n2v
- refined/GERF/sdne
outs:
- path: data/metrics/node_classification/Amazon-CS/
md5: c7fa52e3dc055c54831c2bf7c9aea1c9.dir
size: 2871165
nfiles: 19
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: bf51f0a13e046f4f9fe0e779e5774958
size: 3579
params:
experiments/configs/embed/attributed/dgi.yaml:
params.WikiCS:
emb_dim: 128
lr: 0.001
num_epochs: 100
paths:
output:
embedding: embeddings/attributed/dgi/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/attributed/dgi/WikiCS/
md5: f53da7b771fa47817d6c0f1ec01eb30c.dir
size: 59916720
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: bf51f0a13e046f4f9fe0e779e5774958
size: 3579
params:
experiments/configs/embed/attributed/dgi.yaml:
params.Amazon-CS:
emb_dim: 128
lr: 0.001
num_epochs: 100
paths:
output:
embedding: embeddings/attributed/dgi/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/attributed/dgi/Amazon-CS/
md5: d0cf3602cbc8a0a15e4269d9e502bf24.dir
size: 70417840
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: 589b07c8fd4e6d24f16dcac4610c6d82
size: 3016
params:
experiments/configs/embed/attributed/fscnmf.yaml:
params.WikiCS:
emb_dim: 64
num_epochs: 500
paths:
output:
embedding: embeddings/attributed/fscnmf/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/attributed/fscnmf/WikiCS/
md5: 517c7d1686b2903f7f98f604eb781e90.dir
size: 59916720
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: 589b07c8fd4e6d24f16dcac4610c6d82
size: 3016
params:
experiments/configs/embed/attributed/fscnmf.yaml:
params.Amazon-CS:
emb_dim: 64
num_epochs: 500
paths:
output:
embedding: embeddings/attributed/fscnmf/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/attributed/fscnmf/Amazon-CS/
md5: 34f4d71aab506b9b521df74af66aa19a.dir
size: 70417840
nfiles: 10
hps_GERF@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/hps_GERF.py --dataset WikiCS
deps:
- path: data/embeddings/structural/line/WikiCS/
md5: 4d2a08e1a6c8fa3056d475faa396cdf4.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 6d3cdf9e296d6d7af54206c2ee4f96d2.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: cbfffca1a67a53428df47656d287bfc3.dir
size: 59916720
nfiles: 10
- path: experiments/scripts/refine/hps_GERF.py
md5: 71a2dc2aed287b54cb47ea7ab5854dd0
size: 3733
outs:
- path: data/hps/GERF/WikiCS/best.json
md5: 5ea8b08e8ea4791bae10ba57ec94c666
size: 323
- path: data/hps/GERF/WikiCS/log.csv
md5: 60cc7da64d8285f77265f58be7119c2e
size: 6446
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: 2cb66f0dc8d733e5c1c7d059f6a14d78.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: d5888904e4ab95865c9aaec2291e471c.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 8b4639c53f0c4f141feecc33d6f22128.dir
size: 70417840
nfiles: 10
- path: experiments/scripts/refine/hps_GERF.py
md5: 71a2dc2aed287b54cb47ea7ab5854dd0
size: 3733
outs:
- path: data/hps/GERF/Amazon-CS/best.json
md5: 1ddc4467af4410a1642a92f70bd716f8
size: 339
- path: data/hps/GERF/Amazon-CS/log.csv
md5: 34cce03124c0c53e6ee7eb8e27631628
size: 6448
apply_GERF@WikiCS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_GERF.py --dataset WikiCS
deps:
- path: data/embeddings/structural/line/WikiCS/
md5: 4d2a08e1a6c8fa3056d475faa396cdf4.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/n2v/WikiCS/
md5: 6d3cdf9e296d6d7af54206c2ee4f96d2.dir
size: 59916720
nfiles: 10
- path: data/embeddings/structural/sdne/WikiCS/
md5: cbfffca1a67a53428df47656d287bfc3.dir
size: 59916720
nfiles: 10
- path: data/hps/GERF/WikiCS/best.json
md5: 5ea8b08e8ea4791bae10ba57ec94c666
size: 323
- path: experiments/scripts/refine/apply_GERF.py
md5: 068b98d67c9a6660e0880cdd17f2f6c4
size: 2308
params:
experiments/configs/refine/GERF.yaml:
paths:
input:
best_params: data/hps/GERF/${dataset}/best.json
output:
embedding: data/embeddings/refined/GERF/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/GERF/line/WikiCS/
md5: f1cc4e41aa602e838be04bc7e647145f.dir
size: 59916720
nfiles: 10
- path: data/embeddings/refined/GERF/n2v/WikiCS/
md5: deee0bc46ee4c1eae5bfd9142a814d10.dir
size: 59916720
nfiles: 10
- path: data/embeddings/refined/GERF/sdne/WikiCS/
md5: 0a681d991818b6fb4dbacab3d6d21dfc.dir
size: 59916720
nfiles: 10
apply_GERF@Amazon-CS:
cmd: PYTHONPATH=. python3 experiments/scripts/refine/apply_GERF.py --dataset Amazon-CS
deps:
- path: data/embeddings/structural/line/Amazon-CS/
md5: 2cb66f0dc8d733e5c1c7d059f6a14d78.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-CS/
md5: d5888904e4ab95865c9aaec2291e471c.dir
size: 70417840
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-CS/
md5: 8b4639c53f0c4f141feecc33d6f22128.dir
size: 70417840
nfiles: 10
- path: data/hps/GERF/Amazon-CS/best.json
md5: 1ddc4467af4410a1642a92f70bd716f8
size: 339
- path: experiments/scripts/refine/apply_GERF.py
md5: 068b98d67c9a6660e0880cdd17f2f6c4
size: 2308
params:
experiments/configs/refine/GERF.yaml:
paths:
input:
best_params: data/hps/GERF/${dataset}/best.json
output:
embedding: data/embeddings/refined/GERF/${emb_method}/${dataset}/
structural_embedding_methods:
- n2v
- line
- sdne
outs:
- path: data/embeddings/refined/GERF/line/Amazon-CS/
md5: cd2b83799593b34d558d1efdbd9fe2c0.dir
size: 70417840
nfiles: 10
- path: data/embeddings/refined/GERF/n2v/Amazon-CS/
md5: 52cd4e1c663d8ae5af0dd58312094f37.dir
size: 70417840
nfiles: 10
- path: data/embeddings/refined/GERF/sdne/Amazon-CS/
md5: 416090dcb35770207bd8381d446b9acd.dir
size: 70417840
nfiles: 10
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: 831e854d30349a7b1e338f81b1dc10f1
size: 4612
params:
experiments/configs/embed/structural/node2vec.yaml:
params.Amazon-Photo:
emb_dim: 128
lr: 0.01
batch_size: 128
walk_length: 20
walks_per_node: 10
context_size: 10
num_negative_samples: 1
p: 1
q: 1
num_epochs: 20
paths:
output:
embedding: embeddings/structural/n2v/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: fc18240437067205c5c71343e101b5de.dir
size: 39175600
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: 256389f7597135e1892afa8f952b284c
size: 2814
params:
experiments/configs/embed/structural/line.yaml:
params.Amazon-Photo:
emb_dim: 64
negative_ratio: 1
order: all
batch_size: 256
num_epochs: 10
paths:
output:
embedding: embeddings/structural/line/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/line/Amazon-Photo/
md5: 3abaf23349b08c522694fccc212bd66a.dir
size: 39175600
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: a8abe21749e987af191e39cb51712c86
size: 2948
params:
experiments/configs/embed/structural/sdne.yaml:
params.Amazon-Photo:
emb_dim: 128
hidden_size: 256
nu1: 1e-05
nu2: 0.0001
alpha: 0.0001
beta: 5
batch_size: 128
num_epochs: 50
paths:
output:
embedding: embeddings/structural/sdne/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: 33a76166445a877a19218941f493b887.dir
size: 39175600
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: bf51f0a13e046f4f9fe0e779e5774958
size: 3579
params:
experiments/configs/embed/attributed/dgi.yaml:
params.Amazon-Photo:
emb_dim: 128
lr: 0.001
num_epochs: 100
paths:
output:
embedding: embeddings/attributed/dgi/${name}/emb_${idx}.pt
outs:
- path: data/embeddings/attributed/dgi/Amazon-Photo/
md5: 6aa4a0b5570df308035e1ddee169f356.dir
size: 39175600
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: 3abaf23349b08c522694fccc212bd66a.dir
size: 39175600
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: fc18240437067205c5c71343e101b5de.dir
size: 39175600
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: 33a76166445a877a19218941f493b887.dir
size: 39175600
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: 9c9aa2d7e7041680b0a919c82c8336d1.dir
size: 267145520
nfiles: 10
- path: data/embeddings/refined/naive/Concat/n2v/Amazon-Photo/
md5: f073b35f20cb12ec87ad469b2d4d7749.dir
size: 267145520
nfiles: 10
- path: data/embeddings/refined/naive/Concat/sdne/Amazon-Photo/
md5: 1c149574aa8ffee00189b69f30207fad.dir
size: 267145520
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: 3abaf23349b08c522694fccc212bd66a.dir
size: 39175600
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: fc18240437067205c5c71343e101b5de.dir
size: 39175600
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: 33a76166445a877a19218941f493b887.dir
size: 39175600
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: f970021d62e0a1684ce5805ccd10ccba.dir
size: 39175600
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/n2v/Amazon-Photo/
md5: 366bbe3628c21601f76f95422942c922.dir
size: 39175600
nfiles: 10
- path: data/embeddings/refined/naive/ConcatPCA/sdne/Amazon-Photo/
md5: 79842605c3efa7b88ef87be0c6812ec7.dir
size: 39175600
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: 3abaf23349b08c522694fccc212bd66a.dir
size: 39175600
nfiles: 10
- path: data/embeddings/structural/n2v/Amazon-Photo/
md5: fc18240437067205c5c71343e101b5de.dir
size: 39175600
nfiles: 10
- path: data/embeddings/structural/sdne/Amazon-Photo/
md5: 33a76166445a877a19218941f493b887.dir
size: 39175600
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: 96224714de5dd089ba4683c49b27bf94.dir
size: 39175600
nfiles: 10
- path: data/embeddings/refined/naive/MLP/n2v/Amazon-Photo/
md5: a0f226fcb11857eb87d0131c98094b78.dir
size: 39175600
nfiles: 10
- path: data/embeddings/refined/naive/MLP/sdne/Amazon-Photo/
md5: 739f4190278114edddeebaee6321d67f.dir
size: 39175600
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