#!/usr/bin/env python3 """Extract finished zip downloads into data/raw, then delete the zip to save disk.""" from __future__ import annotations import json import subprocess import zipfile from pathlib import Path ROOT = Path("/opt/dlami/nvme/workspace/skin_disease_classification") LOG = ROOT / "logs" STATE = ROOT / "logs" / "extract_state.json" JOBS = [ # job_log_name, zip_path, dest ("skindisnet1", ROOT / "data/downloads/skindisnet/SkinDisNet.zip", ROOT / "data/raw/skindisnet"), ("skindisnet2", ROOT / "data/downloads/skindisnet/SkinDisNet_2.zip", ROOT / "data/raw/skindisnet"), ("pad1", ROOT / "data/downloads/pad_ufes_20/imgs_part_1.zip", ROOT / "data/raw/pad_ufes_20/images"), ("pad2", ROOT / "data/downloads/pad_ufes_20/imgs_part_2.zip", ROOT / "data/raw/pad_ufes_20/images"), ("pad3", ROOT / "data/downloads/pad_ufes_20/imgs_part_3.zip", ROOT / "data/raw/pad_ufes_20/images"), ("isic2016_train", ROOT / "data/downloads/isic2016/ISBI2016_ISIC_Part3_Training_Data.zip", ROOT / "data/raw/isic2016/train"), ("isic2016_test", ROOT / "data/downloads/isic2016/ISBI2016_ISIC_Part3_Test_Data.zip", ROOT / "data/raw/isic2016/test"), ("isic2018_train", ROOT / "data/downloads/isic2018/ISIC2018_Task3_Training_Input.zip", ROOT / "data/raw/ham10000/train"), ("isic2018_train_gt", ROOT / "data/downloads/isic2018/ISIC2018_Task3_Training_GroundTruth.zip", ROOT / "data/raw/ham10000"), ("isic2018_val", ROOT / "data/downloads/isic2018/ISIC2018_Task3_Validation_Input.zip", ROOT / "data/raw/ham10000/val"), ("isic2018_val_gt", ROOT / "data/downloads/isic2018/ISIC2018_Task3_Validation_GroundTruth.zip", ROOT / "data/raw/ham10000"), ("isic2018_test", ROOT / "data/downloads/isic2018/ISIC2018_Task3_Test_Input.zip", ROOT / "data/raw/ham10000/test"), ("isic2018_test_gt", ROOT / "data/downloads/isic2018/ISIC2018_Task3_Test_GroundTruth.zip", ROOT / "data/raw/ham10000"), ("isic2019_train", ROOT / "data/downloads/isic2019/ISIC_2019_Training_Input.zip", ROOT / "data/raw/isic2019/train"), ("isic2019_test", ROOT / "data/downloads/isic2019/ISIC_2019_Test_Input.zip", ROOT / "data/raw/isic2019/test"), ("isic2024_train", ROOT / "data/downloads/isic2024/ISIC_2024_Training_Input.zip", ROOT / "data/raw/isic2024/train"), ("milk_train", ROOT / "data/downloads/milk10k/MILK10k_Training_Input.zip", ROOT / "data/raw/milk10k/train"), ("milk_test", ROOT / "data/downloads/milk10k/MILK10k_Test_Input.zip", ROOT / "data/raw/milk10k/test"), ("isic2020_train_jpeg", ROOT / "data/downloads/isic2020/ISIC_2020_Training_JPEG.zip", ROOT / "data/raw/isic2020/train"), ("isic2020_test_jpeg", ROOT / "data/downloads/isic2020/ISIC_2020_Test_JPEG.zip", ROOT / "data/raw/isic2020/test"), ] def job_done(name: str) -> bool: log = LOG / f"{name}.log" if not log.exists(): return False text = log.read_text(errors="replace") if f"END {name} rc=0" in text: return True # Direct wget jobs print: "... saved [bytes/bytes]" return " saved [" in text and text.rstrip().endswith("]") def load_state() -> dict: if STATE.exists(): return json.loads(STATE.read_text()) return {} def save_state(state: dict) -> None: STATE.write_text(json.dumps(state, indent=2)) def extract(zip_path: Path, dest: Path) -> None: dest.mkdir(parents=True, exist_ok=True) print(f"EXTRACT {zip_path.name} -> {dest}", flush=True) with zipfile.ZipFile(zip_path) as zf: zf.extractall(dest) zip_path.unlink() print(f"DELETED {zip_path.name}", flush=True) def main() -> None: state = load_state() for name, zip_path, dest in JOBS: if state.get(name) == "extracted": continue if not job_done(name): continue if not zip_path.exists(): print(f"MISSING zip for {name}", flush=True) continue extract(zip_path, dest) state[name] = "extracted" save_state(state) print("extract pass complete", json.dumps(state), flush=True) if __name__ == "__main__": main()