"""Download, verify and open one small HESRT sample (public; no login needed)."""
from __future__ import annotations

import argparse
import json
from pathlib import Path

import anndata as ad
from PIL import Image

from hesrt_io import RELEASE_TAG, download_sample, load_catalog


def main() -> None:
    parser = argparse.ArgumentParser(description=__doc__)
    parser.add_argument("--gsm", default="GSM8915497", help="Default: 3.2 MB pancreas package")
    parser.add_argument("--revision", default=RELEASE_TAG)
    parser.add_argument("--output", type=Path, default=Path("hesrt_demo"))
    parser.add_argument("--cache-dir", default=None)
    args = parser.parse_args()
    catalog, revision = load_catalog(args.revision, args.cache_dir)
    selected = catalog.loc[catalog.gsm_id.eq(args.gsm)]
    if len(selected) != 1:
        parser.error(f"Expected one GSM, found {len(selected)}")
    row = selected.iloc[0]
    folder = download_sample(row, args.output, revision, args.cache_dir)
    data = ad.read_h5ad(folder / "spatial.h5ad", backed="r")
    try:
        coordinate_source = row.coordinate_location
        if coordinate_source == "obsm/spatial":
            coordinates = data.obsm["spatial"]
        elif coordinate_source == "obs/x,obs/y":
            coordinates = data.obs[["x", "y"]].to_numpy()
        else:
            raise ValueError(f"Inspect provenance for coordinate layout {coordinate_source!r}")
        with Image.open(folder / "wsi.tif") as image:
            print(json.dumps({"gsm_id": args.gsm, "revision": revision,
                "folder": str(folder), "shape": list(data.shape),
                "coordinate_source": coordinate_source, "coordinate_shape": list(coordinates.shape),
                "image_format": image.format, "image_size": list(image.size),
                "archive_and_all_members_verified": True}, indent=2))
    finally:
        data.file.close()
    print("Inspect alignment_qc.png and provenance.json before spatial modeling.")


if __name__ == "__main__":
    main()