mapchete-eo 2026.2.0__py3-none-any.whl

mapchete_eo/blacklist.txt

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+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_53NLF_20240401_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2B_53NLF_20240625_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2B_53NLF_20240804_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_7JDH_20241026_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_59QLA_20240102_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_59QLB_20240421_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_59NMD_20240126_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_58MGD_20240707_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_58MGD_20240915_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_58MGD_20241015_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_58LHQ_20240405_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_58LHQ_20240714_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_59KRP_20240612_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_58KGU_20240202_0_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2A_47XNH_20240603_1_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2B_48XWN_20240703_1_L2A
+https://earth-search.aws.element84.com/v1/collections/sentinel-2-l2a/items/S2B_49XDH_20240505_1_L2A

mapchete_eo/cli/__init__.py

@@ -0,0 +1,30 @@
+import click
+
+from mapchete_eo.cli.bounds import bounds
+from mapchete_eo.cli.s2_brdf import s2_brdf
+from mapchete_eo.cli.s2_cat_results import s2_cat_results
+from mapchete_eo.cli.s2_find_broken_products import s2_find_broken_products
+from mapchete_eo.cli.s2_jp2_static_catalog import s2_jp2_static_catalog
+from mapchete_eo.cli.s2_mask import s2_mask
+from mapchete_eo.cli.s2_mgrs import s2_mgrs
+from mapchete_eo.cli.s2_rgb import s2_rgb
+from mapchete_eo.cli.s2_verify import s2_verify
+from mapchete_eo.cli.static_catalog import static_catalog
+
+
+@click.group(help="Tools around mapchete EO package.")
+@click.pass_context
+def eo(ctx):
+    ctx.ensure_object(dict)
+
+
+eo.add_command(bounds)
+eo.add_command(s2_brdf)
+eo.add_command(s2_cat_results)
+eo.add_command(s2_find_broken_products)
+eo.add_command(s2_jp2_static_catalog)
+eo.add_command(s2_mask)
+eo.add_command(s2_mgrs)
+eo.add_command(s2_rgb)
+eo.add_command(s2_verify)
+eo.add_command(static_catalog)

mapchete_eo/cli/bounds.py

@@ -0,0 +1,22 @@
+import click
+import pystac
+from mapchete.cli.options import opt_debug
+from mapchete.path import MPath
+
+from mapchete_eo.cli import options_arguments
+from mapchete_eo.io.items import item_fix_footprint
+
+
+@click.command()
+@options_arguments.arg_stac_item
+@opt_debug
+def bounds(
+    stac_item: MPath,
+    **_,
+):
+    """Prints bounds of STAC item."""
+    item = item_fix_footprint(pystac.Item.from_file(stac_item))
+    if item.bbox:
+        click.echo(f"{' '.join(map(str, item.bbox))}")
+    else:
+        click.echo("item does not have a bounding box")

mapchete_eo/cli/options_arguments.py

@@ -0,0 +1,227 @@
+from typing import Optional
+
+import click
+import tqdm
+from mapchete.path import MPath
+
+from mapchete_eo.platforms.sentinel2.brdf.models import BRDFModels
+from mapchete_eo.io.profiles import rio_profiles
+from mapchete_eo.platforms.sentinel2.config import SceneClassification
+from mapchete_eo.platforms.sentinel2.source import Sentinel2Source
+from mapchete_eo.platforms.sentinel2.types import L2ABand, Resolution
+from mapchete_eo.time import to_datetime
+
+
+class TqdmUpTo(tqdm.tqdm):
+    """Provides `update_to(n)` which uses `tqdm.update(delta_n)`."""
+
+    def update_to(self, n: int = 1, nsize: int = 1, total: Optional[int] = None):
+        """
+        n  : int, optional
+            Number of blocks transferred so far [default: 1].
+        nsize  : int, optional
+            Size of each block (in tqdm units) [default: 1].
+        total  : int, optional
+            Total size (in tqdm units). If [default: None] remains unchanged.
+        """
+        if total is not None:
+            self.total = total
+        return self.update(n * nsize - self.n)  # also sets self.n = b * bsize
+
+
+def _str_to_list(_, __, value):
+    if value:
+        return value.split(",")
+    return []
+
+
+def _str_to_resolution(_, __, value):
+    if value:
+        return Resolution[value]
+
+
+def _str_to_rio_profile(_, __, value):
+    if value:
+        return rio_profiles[value]
+
+
+def _brdf_model_str_to_brdf(_, __, value):
+    if value:
+        if value == "none":
+            return None
+        else:
+            return BRDFModels[value]
+
+
+def _str_to_l2a_bands(_, __, value):
+    if value:
+        return [L2ABand[v] for v in value.split(",")]
+
+
+def _str_to_datetime(_, param, value):
+    if value:
+        return to_datetime(value)
+    raise ValueError(f"--{param.name} is mandatory")
+
+
+def _str_to_source(_, __, value):
+    if value:
+        return Sentinel2Source(collection=value)
+
+
+arg_stac_item = click.argument("stac-item", type=click.Path(path_type=MPath))
+arg_stac_items = click.argument(
+    "stac-items", type=click.Path(path_type=MPath), nargs=-1
+)
+arg_dst_path = click.argument("dst-path", type=click.Path(path_type=MPath))
+opt_dst_path = click.option(
+    "--dst-path", type=click.Path(path_type=MPath), default=".", show_default=True
+)
+opt_thumbnail_dir = click.option(
+    "--thumbnail-dir", type=click.Path(path_type=MPath), default=None, show_default=True
+)
+opt_blacklist = click.option(
+    "--blacklist",
+    type=click.Path(path_type=MPath),
+    default="s3://eox-mhub-cache/blacklist.txt",
+    show_default=True,
+)
+opt_s2_l2a_bands = click.option(
+    "--l2a-bands",
+    type=click.STRING,
+    callback=_str_to_l2a_bands,
+    help=f"List of L2A bands to be used. (Available bands: {','.join([band.name for band in L2ABand])})",
+    show_default=True,
+    default="B04,B03,B02",
+)
+opt_assets_rgb = click.option(
+    "--assets",
+    "-a",
+    type=click.STRING,
+    nargs=3,
+    default=["red", "green", "blue"],
+    show_default=True,
+)
+opt_resolution = click.option(
+    "--resolution",
+    type=click.Choice(list(Resolution.__members__.keys())),
+    default="original",
+    show_default=True,
+    callback=_str_to_resolution,
+    help="Resample assets to this resolution in meter.",
+)
+opt_rio_profile = click.option(
+    "--rio-profile",
+    type=click.Choice(list(rio_profiles.keys())),
+    default="cog_deflate",
+    callback=_str_to_rio_profile,
+    help="Available rasterio profiles for raster assets.",
+)
+opt_mask_footprint = click.option(
+    "--mask-footprint", is_flag=True, help="Mask by product footprint."
+)
+opt_mask_clouds = click.option("--mask-clouds", is_flag=True, help="Mask out clouds.")
+opt_mask_snow_ice = click.option(
+    "--mask-snow-ice", is_flag=True, help="Mask out snow and ice."
+)
+opt_mask_cloud_probability_threshold = click.option(
+    "--mask-cloud-probability-threshold",
+    type=click.INT,
+    default=100,
+    help="Mask out pixels with cloud probability over value.",
+    show_default=True,
+)
+opt_mask_snow_probability_threshold = click.option(
+    "--mask-snow-probability-threshold",
+    type=click.INT,
+    default=100,
+    help="Mask out pixels with snow probability over value.",
+    show_default=True,
+)
+opt_mask_scl_classes = click.option(
+    "--mask-scl-classes",
+    type=click.STRING,
+    callback=_str_to_list,
+    help=f"Available classes: {', '.join([scene_class.name for scene_class in SceneClassification])}",
+)
+opt_brdf_model = click.option(
+    "--brdf-model",
+    type=click.Choice([model.name for model in BRDFModels]),
+    default=BRDFModels.HLS,
+    callback=_brdf_model_str_to_brdf,
+    show_default=True,
+    help="BRDF model.",
+)
+opt_brdf_weight = click.option(
+    "--brdf-weight",
+    type=click.FLOAT,
+    default=1.0,
+    show_default=True,
+    help="BRDF model weight.",
+)
+opt_mgrs_tile = click.option("--mgrs-tile", type=click.STRING)
+opt_start_time = click.option(
+    "--start-time", type=click.STRING, callback=_str_to_datetime, help="Start time"
+)
+opt_end_time = click.option(
+    "--end-time", type=click.STRING, callback=_str_to_datetime, help="End time"
+)
+opt_source = click.option(
+    "--source",
+    type=click.STRING,
+    default="EarthSearch",
+    callback=_str_to_source,
+    help="Data source to be queried.",
+)
+opt_name = click.option("--name", type=click.STRING, help="Static catalog name.")
+opt_description = click.option(
+    "--description", type=click.STRING, help="Static catalog description."
+)
+opt_assets = click.option(
+    "--assets",
+    type=click.STRING,
+    callback=_str_to_list,
+    help="STAC item assets.",
+)
+opt_assets_dst_resolution = click.option(
+    "--assets-dst-resolution",
+    type=click.Choice(list(Resolution.__members__.keys())),
+    default="original",
+    show_default=True,
+    callback=_str_to_resolution,
+    help="Resample assets to this resolution in meter.",
+)
+opt_assets_dst_rio_profile = click.option(
+    "--assets-dst-rio-profile",
+    type=click.Choice(list(rio_profiles.keys())),
+    default="cog_deflate",
+    callback=_str_to_rio_profile,
+    help="Available rasterio profiles for raster assets.",
+)
+opt_copy_metadata = click.option(
+    "--copy-metadata", is_flag=True, help="Download granule metadata and QI bands."
+)
+opt_overwrite = click.option(
+    "--overwrite", "-o", is_flag=True, help="Overwrite existing files."
+)
+opt_dump_detector_footprints = click.option(
+    "--dump-detector-footprints",
+    is_flag=True,
+    help="Also dump products detector footprints.",
+)
+
+opt_out_dtype = click.option(
+    "--out-dtype", default="uint8", help="Out dType string; default: uint8"
+)
+
+opt_brdf_log10 = click.option(
+    "--brdf-log10",
+    is_flag=True,
+    help="Flag to switch BRDF input band convertion to log10. Default: False",
+)
+
+opt_brdf_detector_iter = click.option(
+    "--brdf-detector-iter",
+    is_flag=True,
+    help="Switch to switch if the brdf correction should be iterated over the detector footprints or merge them prefering higher angle value. Default: False",
+)

mapchete_eo/cli/s2_brdf.py

@@ -0,0 +1,77 @@
+from typing import List
+import click
+import numpy as np
+import pystac
+from mapchete.cli.options import opt_debug
+from mapchete.io import rasterio_open
+from mapchete.path import MPath
+
+from mapchete_eo.cli import options_arguments
+from mapchete_eo.io.profiles import COGDeflateProfile
+from mapchete_eo.platforms.sentinel2.brdf.config import BRDFModels
+from mapchete_eo.platforms.sentinel2.config import BRDFConfig
+from mapchete_eo.platforms.sentinel2.product import S2Product
+from mapchete_eo.platforms.sentinel2.metadata_parser.s2metadata import Resolution
+from mapchete_eo.platforms.sentinel2.types import L2ABand
+
+
+@click.command()
+@options_arguments.arg_stac_item
+@options_arguments.opt_dst_path
+@options_arguments.opt_s2_l2a_bands
+@options_arguments.opt_resolution
+@options_arguments.opt_brdf_model
+@options_arguments.opt_dump_detector_footprints
+@options_arguments.opt_brdf_detector_iter
+@opt_debug
+def s2_brdf(
+    stac_item: MPath,
+    dst_path: MPath,
+    l2a_bands: List[L2ABand] = [L2ABand.B04, L2ABand.B03, L2ABand.B02],
+    resolution: Resolution = Resolution["120m"],
+    brdf_model: BRDFModels = BRDFModels.HLS,
+    dump_detector_footprints=False,
+    brdf_detector_iter: bool = False,
+    **_,
+):
+    """Generate 8bit RGB image from Sentinel-2 product."""
+    item = pystac.Item.from_file(stac_item)
+    product = S2Product.from_stac_item(item)
+    if not resolution.value:
+        resolution = Resolution["10m"]
+    grid = product.metadata.grid(resolution)
+    click.echo(product)
+    for band in l2a_bands:
+        if dump_detector_footprints:
+            out_path = (
+                dst_path / stac_item.without_suffix().name
+                + f"_footprints_{band.name}_{resolution}.tif"
+            )
+            click.echo(
+                f"write detector footprint for band {band.name} to {str(out_path)}"
+            )
+            product.metadata.detector_footprints(band, grid).to_file(out_path)
+        out_path = (
+            dst_path / stac_item.without_suffix().name
+            + f"_brdf_{band.name}_{resolution}.tif"
+        )
+        click.echo(
+            f"write BRDF correction grid for band {band.name} to {str(out_path)}"
+        )
+        with rasterio_open(
+            out_path,
+            "w",
+            **COGDeflateProfile(grid.to_dict(), count=1, dtype=np.float32),
+        ) as dst:
+            dst.write(
+                product.read_brdf_grid(
+                    band,
+                    grid=grid,
+                    brdf_config=BRDFConfig(
+                        model=brdf_model,
+                        resolution=resolution,
+                        per_detector_correction=brdf_detector_iter,
+                    ),
+                ),
+                1,
+            )