Datasets:
File size: 1,768 Bytes
40cf0a4 7c6e636 40cf0a4 7c6e636 40cf0a4 7c6e636 40cf0a4 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 | """Where the released files live, so every script agrees on one layout.
DATA_DIR the dataset repository checkout (default: this file's parent's parent)
MODEL_DIR the model repository checkout (default: DATA_DIR)
The default puts DATA_DIR one level above the directory holding these scripts,
which is the repository root in the published layout and the data directory in
the original working tree — so the same scripts run in both places unset.
The layout mirrors the published repositories:
DATA_DIR/graph.duckdb built by bootstrap.py
DATA_DIR/data/... released source files
DATA_DIR/graph/edge_ML_expected_ge5_pyg.pt released graph; rebuilt in place
DATA_DIR/figures/... figures and the UMAP coordinate cache
MODEL_DIR/edge_ML_expected_ge5_n2v.pt released embeddings
build_graph.py writes the graph back to its released path, so every downstream
script reads the same file whether you downloaded it or rebuilt it.
"""
import os
import pathlib
_DEFAULT = pathlib.Path(__file__).resolve().parent.parent
DATA_DIR = pathlib.Path(os.environ.get("DATA_DIR", str(_DEFAULT)))
MODEL_DIR = pathlib.Path(os.environ.get("MODEL_DIR", str(DATA_DIR)))
GRAPH_DIR = DATA_DIR / "graph"
FIGURES_DIR = DATA_DIR / "figures"
for _d in (GRAPH_DIR, FIGURES_DIR):
_d.mkdir(parents=True, exist_ok=True)
DB_PATH = str(DATA_DIR / "graph.duckdb")
GRAPH_PATH = str(GRAPH_DIR / "edge_ML_expected_ge5_pyg.pt")
EMB_PATH = str(MODEL_DIR / "edge_ML_expected_ge5_n2v.pt")
UMAP_NPY_PATH = str(FIGURES_DIR / "umap_coords.npy")
def figure_path(mode: str) -> str:
"""Released figure name for 'light' or 'dark'."""
return str(FIGURES_DIR / f"umap_species_{mode}.png")
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