Merge branch 'main' into pr/d-v-b/35

Author: emmanuelmathot

.github/workflows/ci.yml

@@ -50,7 +50,7 @@ jobs:
 
     - name: Run tests
       run: |
-        uv run pytest tests/ -v --tb=short -m "not network" --cov=eopf_geozarr --cov-report=xml --cov-report=term-missing
+        uv run pytest src/eopf_geozarr/tests/ -v --tb=short -m "not network" --cov=eopf_geozarr --cov-report=xml --cov-report=term-missing
 
     - name: Upload coverage to Codecov
       if: matrix.os == 'ubuntu-latest' && matrix.python-version == '3.11'
@@ -105,7 +105,7 @@ jobs:
 
     - name: Run network tests
       run: |
-        uv run pytest tests/ -v --tb=short -m "network"
+        uv run pytest src/eopf_geozarr/tests/ -v --tb=short -m "network"
 
   security:
     runs-on: ubuntu-latest

.vscode/launch.json

@@ -123,6 +123,80 @@
                 "AWS_ENDPOINT_URL": "https://s3.de.io.cloud.ovh.net/"
             },
 
+        },
+        {
+            "name": "Convert to GeoZarr Sentinel-1 GRD (Local)",
+            "type": "debugpy",
+            "request": "launch",
+            "module": "eopf_geozarr",
+            "args": [
+                "convert",
+                "https://objects.eodc.eu/e05ab01a9d56408d82ac32d69a5aae2a:202509-s01siwgrh/12/products/cpm_v256/S1C_IW_GRDH_1SDV_20250912T053648_20250912T053713_004087_0081FD_5AA4.zarr",
+                "./tests-output/eopf_geozarr/s1_test.zarr",
+                "--groups", "/measurements",
+                "--gcp-group", "/conditions/gcp",
+                "--spatial-chunk", "512",
+                "--min-dimension", "256",
+                "--tile-width", "256",
+                "--max-retries", "2",
+                "--dask-cluster",
+                "--verbose"
+            ],
+            "cwd": "${workspaceFolder}",
+            "justMyCode": false,
+            "console": "integratedTerminal",
+            "env": {
+                "PYTHONPATH": "${workspaceFolder}/eopf_geozarr/.venv/bin"
+            },
+        },
+        {
+            "name": "Convert to GeoZarr Sentinel-1 GRD (S3)",
+            "type": "debugpy",
+            "request": "launch",
+            "module": "eopf_geozarr",
+            "args": [
+                "convert",
+                "https://objects.eodc.eu/e05ab01a9d56408d82ac32d69a5aae2a:202509-s01siwgrh/12/products/cpm_v256/S1C_IW_GRDH_1SDV_20250912T053648_20250912T053713_004087_0081FD_5AA4.zarr",
+                "s3://esa-zarr-sentinel-explorer-fra/tests-output/eopf_geozarr/S1C_IW_GRDH_1SDV_20250912T053648_20250912T053713_004087_0081FD_5AA4.zarr",
+                "--groups", "/measurements",
+                "--gcp-group", "/conditions/gcp",
+                // "--crs-groups", "/conditions/geometry",
+                "--spatial-chunk", "512",
+                "--min-dimension", "256",
+                "--tile-width", "256",
+                "--max-retries", "2",
+                "--dask-cluster",
+                "--verbose"
+            ],
+            "cwd": "${workspaceFolder}",
+            "justMyCode": false,
+            "console": "integratedTerminal",
+            "env": {
+                "PYTHONPATH": "${workspaceFolder}/.venv/bin",
+                "AWS_PROFILE": "eopf-explorer-vs",
+                "AWS_DEFAULT_REGION": "de",
+                "AWS_ENDPOINT_URL": "https://s3.de.io.cloud.ovh.net/"
+            },
+
+        },
+        {
+            "name": "Info EOPF Zarr (Sample Service)",
+            "type": "debugpy",
+            "request": "launch",
+            "module": "eopf_geozarr",
+            "args": [
+                "info",
+                "https://objects.eodc.eu/e05ab01a9d56408d82ac32d69a5aae2a:202508-s02msil2a/11/products/cpm_v256/S2C_MSIL2A_20250811T112131_N0511_R037_T29TPF_20250811T152216.zarr",
+                "--verbose",
+                "--html-output", "eopf_dataset_info.html"
+            ],
+            "cwd": "${workspaceFolder}",
+            "justMyCode": false,
+            "console": "integratedTerminal",
+            "env": {
+                "PYTHONPATH": "${workspaceFolder}/.venv/bin",
+            },
+
         },
         {
             "name": "Info GeoZarr local",

src/eopf_geozarr/cli.py

@@ -7,6 +7,7 @@
 
 import argparse
 import sys
+import warnings
 from pathlib import Path
 from typing import Any, Optional
 
@@ -20,6 +21,13 @@
     validate_s3_access,
 )
 
+# Suppress xarray FutureWarning about timedelta decoding
+warnings.filterwarnings("ignore", message=".*", category=FutureWarning)
+
+warnings.filterwarnings("ignore", message=".*", category=UserWarning)
+
+warnings.filterwarnings("ignore", message=".*", category=RuntimeWarning)
+
 
 def setup_dask_cluster(enable_dask: bool, verbose: bool = False) -> Optional[Any]:
     """
@@ -166,6 +174,7 @@ def convert_command(args: argparse.Namespace) -> None:
             tile_width=args.tile_width,
             max_retries=args.max_retries,
             crs_groups=args.crs_groups,
+            gcp_group=args.gcp_group,
         )
 
         print("✅ Successfully converted EOPF dataset to GeoZarr format")
@@ -1087,6 +1096,11 @@ def create_parser() -> argparse.ArgumentParser:
         nargs="*",
         help="Groups that need CRS information added on best-effort basis (e.g., /conditions/geometry)",
     )
+    convert_parser.add_argument(
+        "--gcp-group",
+        type=str,
+        help="Groups where Ground Control Points (GCPs) are located (e.g., /conditions/gcp) (Sentinel-1)",
+    )
     convert_parser.add_argument(
         "--verbose", action="store_true", help="Enable verbose output"
     )