Extraction of reflectance from Sentinel-2 data
The vector file created in the previous step is used to extract reflectance from Sentinel-2 data.
Running this step using a script
Add the following instructions to your script to extract reflectance corresponding to datapoints saved in preprocessed_obs_path from Sentinel-2 time series. First make sure that the directory defined in the export_path variable exists.
from fordead.validation.extract_reflectance import extract_reflectance
extracted_reflectance_path = output_dir / "extracted_reflectance.csv"
extract_reflectance(
obs_path = preprocessed_obs_path,
sentinel_dir = sentinel_dir,
export_path = extracted_reflectance_path,
name_column = "id")
Running this step from the command invite
This step can also be ran from the command prompt.
fordead extract_reflectance --obs_path <MyWorkingDirectory>/vector/preprocessed_obs_tuto.shp --sentinel_dir <MyWorkingDirectory>/sentinel_data/validation_tutorial/sentinel_data/ --export_path <MyWorkingDirectory>/extracted_reflectance.csv --name_column id
The command fordead extract_reflectance -h will print the help information of this step. For example, to use it with the same parameters, the following command can be used:
The csv written in export_path includes the following attributes corresponding to the different pixels :
- epsg:
- area_name: Sentinel-2 tile ID when available
- id:
- id_pixel:
- Date: date of acquisition
- B2-B11: reflectance extracted from Sentinel-2 data for the corresponding pixel [sort by increasing wavelength: B2-B11, not B11-B8A]
- Mask:
The file will not be overwritten if the process is re-run with the same data. New Sentinel-2 acquisitions or ground observations will be appended to the file if added to the input data.
The update procedure can be tested with additional Sentinel-2 data located in