jialinzhang commited on
Commit ·
3477ac7
1
Parent(s): 453982c
Add syntheticSuccess c3
Browse filesThis view is limited to 50 files because it contains too many changes. See raw diff
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/_arf_generate.py +6 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/_arf_train.py +19 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/arf-c3-1000-20260321_060705.csv +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/arf-c3-2551-20260330_065245.csv +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/arf_model.pkl +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/gen_20260321_060705.log +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/gen_20260330_065245.log +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/input_snapshot.json +36 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/public_gate/normalized_schema_snapshot.json +68 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/public_gate/public_gate_report.json +37 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/public_gate/staged_input_manifest.json +73 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/runtime_result.json +14 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/arf/adapter_report.json +7 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/arf/adapter_transforms_applied.json +1 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/arf/model_input_manifest.json +75 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/staged_features.json +17 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/test.csv +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/train.csv +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/val.csv +3 -0
- syntheticSuccess/c3/arf/arf-c3-20260321_060642/train_20260321_060642.log +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/_bayesnet_generate.py +43 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/_bayesnet_train.py +62 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet-c3-1000-20260321_060813.csv +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet-c3-2551-20260330_065246.csv +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet_model.pkl +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/const_cols.json +1 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/gen_20260321_060813.log +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/gen_20260330_065246.log +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/input_snapshot.json +36 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/normalized_schema_snapshot.json +68 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/public_gate_report.json +37 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/staged_input_manifest.json +73 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/runtime_result.json +14 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/bayesnet/adapter_report.json +7 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/bayesnet/adapter_transforms_applied.json +1 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/bayesnet/model_input_manifest.json +75 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/staged_features.json +17 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/test.csv +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/train.csv +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/val.csv +3 -0
- syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/train_20260321_060730.log +3 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/ctgan-c3-1000-20260322_064442.csv +3 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/ctgan-c3-2551-20260330_065244.csv +3 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/ctgan_metadata.json +16 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/gen_20260322_064442.log +0 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/gen_20260330_065244.log +0 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/input_snapshot.json +36 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/models_300epochs/ctgan_300epochs.pt +3 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/models_300epochs/train_20260322_064041.log +3 -0
- syntheticSuccess/c3/ctgan/ctgan-c3-20260322_064041/public_gate/normalized_schema_snapshot.json +68 -0
syntheticSuccess/c3/arf/arf-c3-20260321_060642/_arf_generate.py
ADDED
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import pickle
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with open("/work/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/arf_model.pkl", "rb") as f:
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model = pickle.load(f)
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syn = model.forge(n=2551)
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syn.to_csv("/work/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/arf-c3-2551-20260330_065245.csv", index=False)
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print(f"[ARF] Generated 2551 rows -> /work/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/arf-c3-2551-20260330_065245.csv")
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/_arf_train.py
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import pickle
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import pandas as pd
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from arfpy import arf
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df = pd.read_csv("/work/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/train.csv")
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df = df.dropna(axis=1, how="all")
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print(f"[ARF] Training on {len(df)} rows, {len(df.columns)} cols")
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model = arf.arf(x=df)
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if hasattr(model, "fit"):
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model.fit()
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elif hasattr(model, "forde"):
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model.forde()
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else:
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raise RuntimeError("arfpy API: no fit() / forde()")
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with open("/work/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/arf_model.pkl", "wb") as f:
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pickle.dump(model, f)
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print(f"[ARF] Model saved -> /work/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/arf_model.pkl")
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/arf-c3-1000-20260321_060705.csv
ADDED
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version https://git-lfs.github.com/spec/v1
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oid sha256:cd6feeac5fc8ee5ba53b9fab2fa83e64fb1a51515c93b117742d8717fb3bba38
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size 82553
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/arf-c3-2551-20260330_065245.csv
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version https://git-lfs.github.com/spec/v1
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oid sha256:49657dd521742fb83de82074f557a1386bc4c564796907e24402395338de2be9
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size 210860
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/arf_model.pkl
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version https://git-lfs.github.com/spec/v1
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oid sha256:f0c6d377b3ec6366c3db6126615eef83f073bad8f1a97545a0f9d1b152cfab86
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size 11138547
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/gen_20260321_060705.log
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version https://git-lfs.github.com/spec/v1
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oid sha256:b94428688e0d87a4e79348ce8c44a65dd4f9f2a937e0228319039cefed0f8da2
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size 1070
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/gen_20260330_065245.log
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version https://git-lfs.github.com/spec/v1
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oid sha256:ee66115d5a180d771ace2ac108942833e8db9e3599e775534d52f6476b13169e
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size 1070
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/input_snapshot.json
ADDED
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{
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"dataset_id": "c3",
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"model": "arf",
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"inputs": {
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"train_csv": {
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"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-train.csv",
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"exists": true,
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"size": 213326,
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"sha256": "a1ee97b37e9abc68953c8bb4c99a5f8535c68b121c60de73d3e23fd4beb516f3"
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},
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"val_csv": {
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"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-val.csv",
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"exists": true,
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"size": 26805,
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"sha256": "5f384eded9999ef705f6b10ae0d20ce981a1b92339d451e7feb3946e95fdcbd9"
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},
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"test_csv": {
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"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-test.csv",
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"exists": true,
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"size": 26871,
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"sha256": "3f0c932764d3321b9bc1ae15932af108b80382f4c89248839c02f48e1d08ffad"
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},
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"profile_json": {
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"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/artifacts/data_core/tabular/c3/c3-dataset_profile.json",
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"exists": true,
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"size": 2635,
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"sha256": "dfb01e28765bec4ac04cdb273987b23581194b35638d6450dac66f4525614335"
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},
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"contract_json": {
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"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/artifacts/data_core/tabular/c3/c3-dataset_contract_v1.json",
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"exists": true,
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"size": 2422,
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"sha256": "a408b4f800a67fc20e9bc37e847c54de7ed6f608b93d440c3933dead213acfca"
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}
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}
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}
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/public_gate/normalized_schema_snapshot.json
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{
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"dataset_id": "c3",
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"target_column": "EI",
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"task_type": "classification",
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"columns": [
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{
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"name": "EI",
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"role": "target",
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"semantic_type": "categorical",
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"nullable": false,
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"missing_tokens": [],
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| 12 |
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"parse_format": null,
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"impute_strategy": "mode",
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| 14 |
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"profile_stats": {
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| 15 |
+
"missing_rate": 0.0,
|
| 16 |
+
"unique_count": 3,
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| 17 |
+
"unique_ratio": 0.001176,
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| 18 |
+
"example_values": [
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| 19 |
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"EI",
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| 20 |
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"IE",
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"N"
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]
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}
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},
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{
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| 26 |
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"name": "ATRINS-DONOR-521",
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| 27 |
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"role": "id",
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| 28 |
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"semantic_type": "id",
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| 29 |
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"nullable": false,
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| 30 |
+
"missing_tokens": [],
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| 31 |
+
"parse_format": null,
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| 32 |
+
"impute_strategy": "keep_raw",
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| 33 |
+
"profile_stats": {
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| 34 |
+
"missing_rate": 0.0,
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| 35 |
+
"unique_count": 2541,
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| 36 |
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"unique_ratio": 0.99608,
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| 37 |
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"example_values": [
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| 38 |
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"HUMH19-DONOR-2562",
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| 39 |
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"HUMMHCD8A-ACCEPTOR-733",
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| 40 |
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"HUMGCB1-ACCEPTOR-6344",
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| 41 |
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"HUMNEBB-NEG-241",
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| 42 |
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"HUMATP1A2-NEG-2101"
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| 43 |
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]
|
| 44 |
+
}
|
| 45 |
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},
|
| 46 |
+
{
|
| 47 |
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"name": "CCAGCTGCATCACAGGAGGCCAGCGAGCAGGTCTGTTCCAAGGGCCTTCGAGCCAGTCTG",
|
| 48 |
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"role": "id",
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| 49 |
+
"semantic_type": "id",
|
| 50 |
+
"nullable": false,
|
| 51 |
+
"missing_tokens": [],
|
| 52 |
+
"parse_format": null,
|
| 53 |
+
"impute_strategy": "keep_raw",
|
| 54 |
+
"profile_stats": {
|
| 55 |
+
"missing_rate": 0.0,
|
| 56 |
+
"unique_count": 2426,
|
| 57 |
+
"unique_ratio": 0.951,
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| 58 |
+
"example_values": [
|
| 59 |
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"TCTGGGCTCCCAGAACCCACAACATGAAAGGTGAGGGNCTTCCTGCCACACTTGGGGTGG",
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| 60 |
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"TTGCTCAGCCTCGCTGCTTGCCTCCTGCAGACGCCGCCAGGCCGAGCCAGTTCCGGGTGT",
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| 61 |
+
"GGGACTCTGACCATCTGTTCCCACATTCAGCAAGTTCATTCCTGAGGGCTCCCAGAGAGT",
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| 62 |
+
"GCCAACTACAGGAACGTGATCCATACCTACAACATGCTTCCTGATGCCATGAGCTTTGAA",
|
| 63 |
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"GGGAGTCCTAGCCTGAGAGGCTGGGGGTCCATTTTGAGGTTAGAGAGGGGCAGTAGAGCA"
|
| 64 |
+
]
|
| 65 |
+
}
|
| 66 |
+
}
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]
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| 68 |
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}
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/public_gate/public_gate_report.json
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{
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"dataset_id": "c3",
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| 3 |
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"status": "pass",
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| 4 |
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"checks": [
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| 5 |
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{
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| 6 |
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"check_id": "PG001_csv_parse_ok",
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| 7 |
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"status": "pass"
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| 8 |
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},
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| 9 |
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{
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| 10 |
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"check_id": "PG002_split_header_consistent",
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| 11 |
+
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|
| 12 |
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| 13 |
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| 14 |
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|
| 15 |
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|
| 16 |
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| 17 |
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| 18 |
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|
| 19 |
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|
| 20 |
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| 21 |
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{
|
| 22 |
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|
| 23 |
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"status": "pass"
|
| 24 |
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|
| 25 |
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{
|
| 26 |
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|
| 27 |
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"status": "pass"
|
| 28 |
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|
| 29 |
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|
| 30 |
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|
| 31 |
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|
| 32 |
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|
| 33 |
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"train": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-train.csv",
|
| 34 |
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"val": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-val.csv",
|
| 35 |
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"test": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-test.csv"
|
| 36 |
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|
| 37 |
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|
syntheticSuccess/c3/arf/arf-c3-20260321_060642/public_gate/staged_input_manifest.json
ADDED
|
@@ -0,0 +1,73 @@
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|
|
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|
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|
|
|
|
|
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|
|
|
|
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|
|
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|
|
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|
|
|
|
|
|
|
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|
|
|
|
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|
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|
|
|
|
|
|
|
|
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|
|
|
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|
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|
|
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|
|
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|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
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|
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|
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|
|
|
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|
|
|
|
|
| 1 |
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{
|
| 2 |
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"dataset_id": "c3",
|
| 3 |
+
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|
| 4 |
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|
| 5 |
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"train_csv": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/train.csv",
|
| 6 |
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"val_csv": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/val.csv",
|
| 7 |
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"test_csv": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/test.csv",
|
| 8 |
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"features_json": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/staged_features.json",
|
| 9 |
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"public_gate_report": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/public_gate/public_gate_report.json",
|
| 10 |
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"column_schema": [
|
| 11 |
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{
|
| 12 |
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|
| 13 |
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| 14 |
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|
| 15 |
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| 16 |
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| 17 |
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| 19 |
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|
| 23 |
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|
| 24 |
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| 25 |
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| 26 |
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| 27 |
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|
| 28 |
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|
| 29 |
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|
| 30 |
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{
|
| 31 |
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"name": "ATRINS-DONOR-521",
|
| 32 |
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|
| 33 |
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| 35 |
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| 36 |
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| 38 |
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|
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| 43 |
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|
| 44 |
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|
| 45 |
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|
| 46 |
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|
| 47 |
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|
| 48 |
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|
| 49 |
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| 50 |
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| 51 |
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| 52 |
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|
| 53 |
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| 54 |
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| 55 |
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| 57 |
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| 58 |
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| 59 |
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| 65 |
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| 66 |
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|
| 67 |
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|
| 68 |
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|
| 69 |
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|
| 70 |
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|
| 71 |
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|
| 72 |
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|
| 73 |
+
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|
syntheticSuccess/c3/arf/arf-c3-20260321_060642/runtime_result.json
ADDED
|
@@ -0,0 +1,14 @@
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|
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|
| 1 |
+
{
|
| 2 |
+
"dataset_id": "c3",
|
| 3 |
+
"model": "arf",
|
| 4 |
+
"run_id": "arf-c3-20260321_060642",
|
| 5 |
+
"public_gate_status": "pass",
|
| 6 |
+
"adapter_ready_status": "pass",
|
| 7 |
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"train_status": "skipped",
|
| 8 |
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"generate_status": "success",
|
| 9 |
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|
| 10 |
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|
| 11 |
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|
| 12 |
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"synthetic_csv": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/arf-c3-2551-20260330_065245.csv"
|
| 13 |
+
}
|
| 14 |
+
}
|
syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/arf/adapter_report.json
ADDED
|
@@ -0,0 +1,7 @@
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|
| 1 |
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{
|
| 2 |
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|
| 3 |
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|
| 4 |
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|
| 5 |
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|
| 6 |
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"model_input_manifest": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/arf/model_input_manifest.json"
|
| 7 |
+
}
|
syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/arf/adapter_transforms_applied.json
ADDED
|
@@ -0,0 +1 @@
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|
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|
| 1 |
+
[]
|
syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/arf/model_input_manifest.json
ADDED
|
@@ -0,0 +1,75 @@
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| 1 |
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| 2 |
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|
| 3 |
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|
| 4 |
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|
| 5 |
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| 6 |
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| 7 |
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| 21 |
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| 23 |
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|
| 24 |
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| 25 |
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| 26 |
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| 27 |
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| 28 |
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| 30 |
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| 40 |
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| 41 |
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| 42 |
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| 43 |
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|
| 44 |
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| 45 |
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| 46 |
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| 47 |
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| 48 |
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|
| 49 |
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|
| 50 |
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| 51 |
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| 62 |
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| 63 |
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|
| 64 |
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| 65 |
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| 66 |
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| 67 |
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| 68 |
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| 69 |
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"public_manifest": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/public_gate/staged_input_manifest.json",
|
| 70 |
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"train_csv": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/train.csv",
|
| 71 |
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"val_csv": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/val.csv",
|
| 72 |
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|
| 73 |
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"features_json": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/staged/public/staged_features.json",
|
| 74 |
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"public_gate_report": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/arf/arf-c3-20260321_060642/public_gate/public_gate_report.json"
|
| 75 |
+
}
|
syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/staged_features.json
ADDED
|
@@ -0,0 +1,17 @@
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| 1 |
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[
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| 2 |
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{
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| 3 |
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|
| 4 |
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|
| 5 |
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|
| 6 |
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},
|
| 7 |
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{
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| 8 |
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"feature_name": "ATRINS-DONOR-521",
|
| 9 |
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"data_type": "ID",
|
| 10 |
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"is_target": false
|
| 11 |
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},
|
| 12 |
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{
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| 13 |
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|
| 14 |
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|
| 15 |
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|
| 16 |
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|
| 17 |
+
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|
syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/test.csv
ADDED
|
@@ -0,0 +1,3 @@
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| 3 |
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size 26550
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/train.csv
ADDED
|
@@ -0,0 +1,3 @@
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|
| 3 |
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size 210774
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/staged/public/val.csv
ADDED
|
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version https://git-lfs.github.com/spec/v1
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| 3 |
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size 26486
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syntheticSuccess/c3/arf/arf-c3-20260321_060642/train_20260321_060642.log
ADDED
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@@ -0,0 +1,3 @@
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size 443
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/_bayesnet_generate.py
ADDED
|
@@ -0,0 +1,43 @@
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|
|
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|
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|
|
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|
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|
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|
|
|
|
|
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|
|
|
|
|
|
|
|
|
| 1 |
+
import subprocess, sys, os
|
| 2 |
+
|
| 3 |
+
pip_libs = "/pip_libs"
|
| 4 |
+
sys.path.insert(0, pip_libs)
|
| 5 |
+
os.environ["PYTHONPATH"] = pip_libs + os.pathsep + os.environ.get("PYTHONPATH", "")
|
| 6 |
+
|
| 7 |
+
def _ensure_deps():
|
| 8 |
+
try:
|
| 9 |
+
import synthcity
|
| 10 |
+
except ModuleNotFoundError:
|
| 11 |
+
print("[BayesNet] synthcity not found - installing to cache...")
|
| 12 |
+
subprocess.run(
|
| 13 |
+
[sys.executable, "-m", "pip", "install",
|
| 14 |
+
"--target", pip_libs, "synthcity==0.2.12", "numpy<2", "-q"],
|
| 15 |
+
check=True
|
| 16 |
+
)
|
| 17 |
+
import shutil, glob
|
| 18 |
+
for pat in ["torch", "torch-*", "torchvision", "torchvision-*",
|
| 19 |
+
"torchvision.libs", "torchgen", "nvidia*", "triton*"]:
|
| 20 |
+
for p in glob.glob(os.path.join(pip_libs, pat)):
|
| 21 |
+
if os.path.isdir(p): shutil.rmtree(p)
|
| 22 |
+
else: os.remove(p)
|
| 23 |
+
if pip_libs not in sys.path:
|
| 24 |
+
sys.path.insert(0, pip_libs)
|
| 25 |
+
|
| 26 |
+
_ensure_deps()
|
| 27 |
+
|
| 28 |
+
import pickle, json as _json
|
| 29 |
+
with open("/work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet_model.pkl", "rb") as f:
|
| 30 |
+
plugin = pickle.load(f)
|
| 31 |
+
syn = plugin.generate(count=2551).dataframe()
|
| 32 |
+
|
| 33 |
+
# Restore zero-variance columns that were dropped during training
|
| 34 |
+
const_path = "/work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet_model.pkl".replace("bayesnet_model.pkl", "const_cols.json")
|
| 35 |
+
if os.path.exists(const_path):
|
| 36 |
+
with open(const_path) as _f:
|
| 37 |
+
const_cols = _json.load(_f)
|
| 38 |
+
for col, val in const_cols.items():
|
| 39 |
+
syn[col] = val
|
| 40 |
+
print(f"[BayesNet] Restored constant column '{col}' = {val}")
|
| 41 |
+
|
| 42 |
+
syn.to_csv("/work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet-c3-2551-20260330_065246.csv", index=False)
|
| 43 |
+
print(f"[BayesNet] Generated 2551 rows -> /work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet-c3-2551-20260330_065246.csv")
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/_bayesnet_train.py
ADDED
|
@@ -0,0 +1,62 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
import subprocess, sys, os
|
| 2 |
+
|
| 3 |
+
pip_libs = "/pip_libs"
|
| 4 |
+
sys.path.insert(0, pip_libs)
|
| 5 |
+
os.environ["PYTHONPATH"] = pip_libs + os.pathsep + os.environ.get("PYTHONPATH", "")
|
| 6 |
+
|
| 7 |
+
def _ensure_deps():
|
| 8 |
+
try:
|
| 9 |
+
import synthcity
|
| 10 |
+
except ModuleNotFoundError:
|
| 11 |
+
print("[BayesNet] synthcity not found - installing to cache (first run, may take minutes)...")
|
| 12 |
+
# Install synthcity with numpy<2 to avoid conflicts
|
| 13 |
+
subprocess.run(
|
| 14 |
+
[sys.executable, "-m", "pip", "install",
|
| 15 |
+
"--target", pip_libs, "synthcity==0.2.12", "numpy<2", "-q"],
|
| 16 |
+
check=True
|
| 17 |
+
)
|
| 18 |
+
# Remove torch/torchvision from pip_libs to avoid shadowing system versions
|
| 19 |
+
import shutil, glob
|
| 20 |
+
for pat in ["torch", "torch-*", "torchvision", "torchvision-*",
|
| 21 |
+
"torchvision.libs", "torchgen", "nvidia*", "triton*"]:
|
| 22 |
+
for p in glob.glob(os.path.join(pip_libs, pat)):
|
| 23 |
+
if os.path.isdir(p): shutil.rmtree(p)
|
| 24 |
+
else: os.remove(p)
|
| 25 |
+
if pip_libs not in sys.path:
|
| 26 |
+
sys.path.insert(0, pip_libs)
|
| 27 |
+
|
| 28 |
+
_ensure_deps()
|
| 29 |
+
|
| 30 |
+
from synthcity.plugins import Plugins
|
| 31 |
+
import pickle
|
| 32 |
+
import pandas as pd
|
| 33 |
+
from synthcity.plugins.core.dataloader import GenericDataLoader
|
| 34 |
+
|
| 35 |
+
df = pd.read_csv("/work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/train.csv")
|
| 36 |
+
df = df.dropna(axis=1, how="all")
|
| 37 |
+
|
| 38 |
+
# Drop zero-variance columns (only 1 unique value) to avoid
|
| 39 |
+
# synthcity encoder KeyError during generation
|
| 40 |
+
import json as _json
|
| 41 |
+
const_cols = {}
|
| 42 |
+
for col in list(df.columns):
|
| 43 |
+
nuniq = df[col].nunique()
|
| 44 |
+
if nuniq <= 1:
|
| 45 |
+
const_cols[col] = df[col].iloc[0] if len(df) > 0 else None
|
| 46 |
+
df = df.drop(columns=[col])
|
| 47 |
+
print(f"[BayesNet] Dropped zero-variance column '{col}' (value={const_cols[col]})")
|
| 48 |
+
|
| 49 |
+
# Save constant columns info so generate can restore them
|
| 50 |
+
const_path = "/work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet_model.pkl".replace("bayesnet_model.pkl", "const_cols.json")
|
| 51 |
+
with open(const_path, "w") as _f:
|
| 52 |
+
_json.dump({k: str(v) for k, v in const_cols.items()}, _f)
|
| 53 |
+
|
| 54 |
+
print(f"[BayesNet] Training on {len(df)} rows, {len(df.columns)} cols")
|
| 55 |
+
|
| 56 |
+
loader = GenericDataLoader(df)
|
| 57 |
+
plugin = Plugins().get("bayesian_network")
|
| 58 |
+
plugin.fit(loader)
|
| 59 |
+
|
| 60 |
+
with open("/work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet_model.pkl", "wb") as f:
|
| 61 |
+
pickle.dump(plugin, f)
|
| 62 |
+
print(f"[BayesNet] Model saved -> /work/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet_model.pkl")
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet-c3-1000-20260321_060813.csv
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:75b06e33516879a8a10124782a27524d093df766246a8fa0a254654f5308b872
|
| 3 |
+
size 82612
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet-c3-2551-20260330_065246.csv
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:7d17b5c2f0fdcab4944050f7d2a1786a0df6adb087425b97ecbcac1b36e3b51b
|
| 3 |
+
size 210765
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/bayesnet_model.pkl
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:a9875b9185d4a437070b37b93d56816b5952d743327bfaaa3ed08f16b273e6d8
|
| 3 |
+
size 99624439
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/const_cols.json
ADDED
|
@@ -0,0 +1 @@
|
|
|
|
|
|
|
| 1 |
+
{}
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/gen_20260321_060813.log
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:690723e1f8e61e037297a0de571262f666b8f56e4cc20f2358fb2b59f3e58697
|
| 3 |
+
size 356
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/gen_20260330_065246.log
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:4c4d9067170c25efd90dee53f639ca6d15125b3259df43892278935cbf8ad589
|
| 3 |
+
size 480
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/input_snapshot.json
ADDED
|
@@ -0,0 +1,36 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"dataset_id": "c3",
|
| 3 |
+
"model": "bayesnet",
|
| 4 |
+
"inputs": {
|
| 5 |
+
"train_csv": {
|
| 6 |
+
"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-train.csv",
|
| 7 |
+
"exists": true,
|
| 8 |
+
"size": 213326,
|
| 9 |
+
"sha256": "a1ee97b37e9abc68953c8bb4c99a5f8535c68b121c60de73d3e23fd4beb516f3"
|
| 10 |
+
},
|
| 11 |
+
"val_csv": {
|
| 12 |
+
"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-val.csv",
|
| 13 |
+
"exists": true,
|
| 14 |
+
"size": 26805,
|
| 15 |
+
"sha256": "5f384eded9999ef705f6b10ae0d20ce981a1b92339d451e7feb3946e95fdcbd9"
|
| 16 |
+
},
|
| 17 |
+
"test_csv": {
|
| 18 |
+
"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/c3/c3-test.csv",
|
| 19 |
+
"exists": true,
|
| 20 |
+
"size": 26871,
|
| 21 |
+
"sha256": "3f0c932764d3321b9bc1ae15932af108b80382f4c89248839c02f48e1d08ffad"
|
| 22 |
+
},
|
| 23 |
+
"profile_json": {
|
| 24 |
+
"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/artifacts/data_core/tabular/c3/c3-dataset_profile.json",
|
| 25 |
+
"exists": true,
|
| 26 |
+
"size": 2635,
|
| 27 |
+
"sha256": "dfb01e28765bec4ac04cdb273987b23581194b35638d6450dac66f4525614335"
|
| 28 |
+
},
|
| 29 |
+
"contract_json": {
|
| 30 |
+
"path": "/data/jialinzhang/SynthesizePipeline-server/DatasetNew/artifacts/data_core/tabular/c3/c3-dataset_contract_v1.json",
|
| 31 |
+
"exists": true,
|
| 32 |
+
"size": 2422,
|
| 33 |
+
"sha256": "a408b4f800a67fc20e9bc37e847c54de7ed6f608b93d440c3933dead213acfca"
|
| 34 |
+
}
|
| 35 |
+
}
|
| 36 |
+
}
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/normalized_schema_snapshot.json
ADDED
|
@@ -0,0 +1,68 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"dataset_id": "c3",
|
| 3 |
+
"target_column": "EI",
|
| 4 |
+
"task_type": "classification",
|
| 5 |
+
"columns": [
|
| 6 |
+
{
|
| 7 |
+
"name": "EI",
|
| 8 |
+
"role": "target",
|
| 9 |
+
"semantic_type": "categorical",
|
| 10 |
+
"nullable": false,
|
| 11 |
+
"missing_tokens": [],
|
| 12 |
+
"parse_format": null,
|
| 13 |
+
"impute_strategy": "mode",
|
| 14 |
+
"profile_stats": {
|
| 15 |
+
"missing_rate": 0.0,
|
| 16 |
+
"unique_count": 3,
|
| 17 |
+
"unique_ratio": 0.001176,
|
| 18 |
+
"example_values": [
|
| 19 |
+
"EI",
|
| 20 |
+
"IE",
|
| 21 |
+
"N"
|
| 22 |
+
]
|
| 23 |
+
}
|
| 24 |
+
},
|
| 25 |
+
{
|
| 26 |
+
"name": "ATRINS-DONOR-521",
|
| 27 |
+
"role": "id",
|
| 28 |
+
"semantic_type": "id",
|
| 29 |
+
"nullable": false,
|
| 30 |
+
"missing_tokens": [],
|
| 31 |
+
"parse_format": null,
|
| 32 |
+
"impute_strategy": "keep_raw",
|
| 33 |
+
"profile_stats": {
|
| 34 |
+
"missing_rate": 0.0,
|
| 35 |
+
"unique_count": 2541,
|
| 36 |
+
"unique_ratio": 0.99608,
|
| 37 |
+
"example_values": [
|
| 38 |
+
"HUMH19-DONOR-2562",
|
| 39 |
+
"HUMMHCD8A-ACCEPTOR-733",
|
| 40 |
+
"HUMGCB1-ACCEPTOR-6344",
|
| 41 |
+
"HUMNEBB-NEG-241",
|
| 42 |
+
"HUMATP1A2-NEG-2101"
|
| 43 |
+
]
|
| 44 |
+
}
|
| 45 |
+
},
|
| 46 |
+
{
|
| 47 |
+
"name": "CCAGCTGCATCACAGGAGGCCAGCGAGCAGGTCTGTTCCAAGGGCCTTCGAGCCAGTCTG",
|
| 48 |
+
"role": "id",
|
| 49 |
+
"semantic_type": "id",
|
| 50 |
+
"nullable": false,
|
| 51 |
+
"missing_tokens": [],
|
| 52 |
+
"parse_format": null,
|
| 53 |
+
"impute_strategy": "keep_raw",
|
| 54 |
+
"profile_stats": {
|
| 55 |
+
"missing_rate": 0.0,
|
| 56 |
+
"unique_count": 2426,
|
| 57 |
+
"unique_ratio": 0.951,
|
| 58 |
+
"example_values": [
|
| 59 |
+
"TCTGGGCTCCCAGAACCCACAACATGAAAGGTGAGGGNCTTCCTGCCACACTTGGGGTGG",
|
| 60 |
+
"TTGCTCAGCCTCGCTGCTTGCCTCCTGCAGACGCCGCCAGGCCGAGCCAGTTCCGGGTGT",
|
| 61 |
+
"GGGACTCTGACCATCTGTTCCCACATTCAGCAAGTTCATTCCTGAGGGCTCCCAGAGAGT",
|
| 62 |
+
"GCCAACTACAGGAACGTGATCCATACCTACAACATGCTTCCTGATGCCATGAGCTTTGAA",
|
| 63 |
+
"GGGAGTCCTAGCCTGAGAGGCTGGGGGTCCATTTTGAGGTTAGAGAGGGGCAGTAGAGCA"
|
| 64 |
+
]
|
| 65 |
+
}
|
| 66 |
+
}
|
| 67 |
+
]
|
| 68 |
+
}
|
syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/public_gate_report.json
ADDED
|
@@ -0,0 +1,37 @@
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/staged_input_manifest.json
ADDED
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| 1 |
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/runtime_result.json
ADDED
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@@ -0,0 +1,14 @@
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| 2 |
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| 3 |
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| 4 |
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| 5 |
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| 6 |
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| 7 |
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| 8 |
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| 9 |
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| 10 |
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| 11 |
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| 13 |
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| 14 |
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/bayesnet/adapter_report.json
ADDED
|
@@ -0,0 +1,7 @@
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| 1 |
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| 7 |
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/bayesnet/adapter_transforms_applied.json
ADDED
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@@ -0,0 +1 @@
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| 1 |
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/bayesnet/model_input_manifest.json
ADDED
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@@ -0,0 +1,75 @@
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"public_manifest": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/staged_input_manifest.json",
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| 70 |
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| 73 |
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| 74 |
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"public_gate_report": "/data/jialinzhang/SynthesizePipeline-server/output-SpecializedModels/c3/bayesnet/bayesnet-c3-20260321_060730/public_gate/public_gate_report.json"
|
| 75 |
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}
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/staged_features.json
ADDED
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@@ -0,0 +1,17 @@
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| 1 |
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[
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| 2 |
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| 4 |
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| 17 |
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/test.csv
ADDED
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@@ -0,0 +1,3 @@
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| 1 |
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version https://git-lfs.github.com/spec/v1
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oid sha256:be0c5bad6c59669b0f6ea2a0c953d0bb03ce62ce625357b1b136eabc2de34d99
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size 26550
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syntheticSuccess/c3/bayesnet/bayesnet-c3-20260321_060730/staged/public/train.csv
ADDED
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@@ -0,0 +1,3 @@
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| 1 |
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version https://git-lfs.github.com/spec/v1
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