#!/usr/bin/env python3 """Create ImageFolder symlink views for Kermany2018 from master_labels.csv.""" from __future__ import annotations import argparse import os from pathlib import Path import pandas as pd CLASSES = ["CNV", "DME", "DRUSEN", "NORMAL"] def safe_name(src: Path, i: int) -> str: return f"{i:08d}_{src.name}" def build_split(df: pd.DataFrame, split: str, out_root: Path) -> int: sub = df[df["split"] == split].reset_index(drop=True) total = 0 for cls in CLASSES: cls_dir = out_root / split / cls cls_dir.mkdir(parents=True, exist_ok=True) rows = sub[sub["dx"] == cls].reset_index(drop=True) for i, row in rows.iterrows(): src = Path(row["image_path"]) dst = cls_dir / safe_name(src, i) if dst.exists() or dst.is_symlink(): continue os.symlink(src, dst) total += 1 return total def main() -> None: parser = argparse.ArgumentParser() parser.add_argument( "--labels-csv", type=Path, default=Path("/data/temp/qinshengqian/c3/kermany_downstream/master_labels.csv"), ) parser.add_argument( "--out-root", type=Path, default=Path("/data/temp/qinshengqian/c3/kermany_imagefolder"), ) args = parser.parse_args() df = pd.read_csv(args.labels_csv) df = df[df["dx"].isin(CLASSES)].copy() args.out_root.mkdir(parents=True, exist_ok=True) for split in ["train", "val", "test"]: added = build_split(df, split, args.out_root) print(f"{split}: added {added}") for split in ["train", "val", "test"]: print(f"\n{split}") for cls in CLASSES: n = len(list((args.out_root / split / cls).glob("*"))) print(f" {cls}: {n}") print(f"\nKERMANY_IMAGEFOLDER_READY {args.out_root}") if __name__ == "__main__": main()