| """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") |
|
|
