File size: 1,900 Bytes
a852516 | 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 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 | #!/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()
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