I2FeaturesMap

Landsat5_old

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	10	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Landsat8

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	16	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Landsat8_old

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	10	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Landsat8_usgs

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’, ‘B8’, ‘B9’, ‘B10’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	16	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Landsat8_usgs_infrared

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
enable_sensor_gapfilling	False	Enable or disable gapfilling for landsat 8 and 9 IR data	bool	False	enable_sensor_gapfilling
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B10’, ‘B11’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	16	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Landsat8_usgs_optical

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
enable_sensor_gapfilling	True	Enable or disable gapfilling for landsat 8 and 9 optical data	bool	False	enable_sensor_gapfilling
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	16	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Landsat8_usgs_thermal

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
enable_sensor_gapfilling	False	Enable or disable gapfilling for landsat 8 and 9 thermal data(temperature and emissivity)	bool	False	enable_sensor_gapfilling
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B10’, ‘EMIS’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	16	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Sentinel_2

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	10	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Sentinel_2_L3A

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	10	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

Sentinel_2_S2C

Name	Default Value	Description	Type	Mandatory	Name
additional_features		OTB’s bandmath expressions, separated by comma	str	False	additional_features
end_date		The last date of interpolated image time series : YYYYMMDD format	str	False	end_date
keep_bands	[‘B1’, ‘B2’, ‘B3’, ‘B4’, ‘B5’, ‘B6’, ‘B7’]	The list of spectral bands used for classification	list	False	keep_bands
start_date		The first date of interpolated image time series : YYYYMMDD format	str	False	start_date
temporal_resolution	10	The temporal gap between two interpolations	int	False	temporal_resolution
write_reproject_resampled_input_dates_stack	True	flag to write of resampled stack image for each date	bool	False	write_reproject_resampled_input_dates_stack

Notes

end_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

keep_bands

WARNING

For this parameter to be taken into account,the extract_bands variable in the iota2_feature_extraction section must also be set to True:

iota2_feature_extraction :
{
  'extract_bands':True,
}

start_date

WARNING

For this parameter to be taken into account,the auto_date variable in the sensors_data_interpolationsection must also be set to False:

sensors_data_interpolation :
{
  'auto_date':False,
}

arg_train

Name	Default Value	Description	Type	Mandatory	Name
features	[‘NDVI’, ‘NDWI’, ‘Brightness’]	List of additional features computed	list	False	features

Notes

features

This parameter enable the computation of the three indices if available for the sensor used.There is no choice for using only one of them

builders

Name	Default Value	Description	Type	Mandatory	Name
builders_class_name	[‘I2Classification’]	The name of the class defining the builder	list	False	builders_class_name
builders_paths	/path/to/iota2/sources	The path to user builders	str	False	builders_paths

Notes

builders_class_name

Available builders are : ‘I2Classification’, ‘I2FeaturesMap’ and ‘I2Obia’

builders_paths

If not indicated, the iota2 source directory is used: */iota2/sequence_builders/

chain

Name	Default Value	Description	Type	Mandatory	Name
compression_algorithm	ZSTD	Set the gdal compression algorithm to use: NONE, LZW, ZSTD (default).All rasters write with OTB will be compress with the chosen algorithm.	str	False	compression_algorithm
compression_predictor	2	Set the predictor for LZW and ZSTD compression: 1 (no predictor), 2 (horizontal differencing, default)	int	False	compression_predictor
first_step	None	The step group name indicating where the chain start	str	False	first_step
l5_path_old	None	Absolute path to Landsat-5 images coming from old THEIA format (D*H*)	str	False	l5_path_old
l8_path	None	Absolute path to Landsat-8 images comingfrom new tiled THEIA data	str	False	l8_path
l8_path_old	None	Absolute path to Landsat-8 images coming from old THEIA format (D*H*)	str	False	l8_path_old
l8_usgs_infrared_path	None	Absolute path to Landsat-8 images coming from USGS data	str	False	l8_usgs_infrared_path
l8_usgs_optical_path	None	Absolute path to Landsat-8 images coming from USGS data	str	False	l8_usgs_optical_path
l8_usgs_path	None	Absolute path to Landsat-8 images coming from USGS data	str	False	l8_usgs_path
l8_usgs_thermal_path	None	Absolute path to Landsat-8 images coming from USGS data	str	False	l8_usgs_thermal_path
last_step	None	The step group name indicating where the chain ends	str	False	last_step
list_tile	None	List of tile to process, separated by space	str	True	list_tile
logger_level	INFO	Set the logger level: NOTSET, DEBUG, INFO, WARNING, ERROR, CRITICAL	str	False	logger_level
minimum_required_dates	2	required minimum number of available dates for each sensor	int	False	minimum_required_dates
output_path	None	Absolute path to the output directory	str	True	output_path
proj	None	The projection wanted. Format EPSG:XXXX is mandatory	str	True	proj
remove_output_path	True	Before the launch of iota2, remove the content of output_path	bool	False	remove_output_path
s1_path	None	Absolute path to Sentinel-1 configuration file	str	False	s1_path
s2_l3a_output_path	None	Absolute path to store preprocessed data in a dedicated directory	str	False	s2_l3a_output_path
s2_l3a_path	None	Absolute path to Sentinel-2 L3A images (THEIA format)	str	False	s2_l3a_path
s2_output_path	None	Absolute path to store preprocessed data in a dedicated directory	str	False	s2_output_path
s2_path	None	Absolute path to Sentinel-2 images (THEIA format)	str	False	s2_path
s2_s2c_output_path	None	Absolute path to store preprocessed data in a dedicated directory	str	False	s2_s2c_output_path
s2_s2c_path	None	Absolute path to Sentinel-2 images (Sen2Cor format)	str	False	s2_s2c_path
spatial_resolution	[]	Output spatial resolution	list or scalar	False	spatial_resolution
user_feat_path	None	Absolute path to the user’s features path	str	False	user_feat_path

Notes

compression_predictor

It has been noted that in some cases, once the features are written to disk, the raster file may be empty. If this is the case, please change the predictor to 1 or 3.

output_path

Absolute path to the output directory.It is recommended to have one directory per run of the chain

remove_output_path

Before the launch of iota2, remove the content of output_path. Only if the first_step is init and the folder name is valid

spatial_resolution

The spatial resolution expected.It can be provided as integer or float,or as a list containing two values for non squared resolution

user_feat_path

Absolute path to the user’s features path. They must be stored by tiles

external_features

Name	Default Value	Description	Type	Mandatory	Name
concat_mode	True	enable the use of all features	bool	False	concat_mode
exogeneous_data	None	Path to a Geotiff file containing additional data to be used in external features	str	False	exogeneous_data
external_features_flag	False	enable the external features mode	bool	False	external_features_flag
functions	None	function list to be used to compute features	str/list	False	functions
module	/path/to/iota2/sources	absolute path for user source code	str	False	module
no_data_value	-10000	value considered as no_data in features map mosaic (‘I2FeaturesMap’ builder name)	int	False	no_data_value
output_name	None	temporary chunks are written using this name as prefix	str	False	output_name

Notes

concat_mode

if disabled, only external features are used in the whole processing

exogeneous_data

If the =exogeneous_data= contains ‘$TILE’, it will be replaced by the tile name being processed.If you want to reproject your data on given tiles, you can use the =split_raster_into_tiles.py= command line tool.

Usage: =split_raster_into_tiles.py –help=.

functions

Can be a string of space-separated function namesCan be a list of either strings of function nameor lists of one function name and one argument mapping

pretrained_model

Name	Default Value	Description	Type	Mandatory	Name
boundary_buffer	None	List of boundary buffer size	list	False	boundary_buffer
function	None	Predict function name	str	False	function
mode	None	Algorythm nature (classification or regression)	str	False	mode
model	None	Serialized object containing the model	str	False	model
module	/path/to/iota2/sources	Absolute path to the python module	str	False	module

Notes

function

This function must have the imposed signature. It not accept any others parameters. All model dedicated parameters must be stored alongside the model.

mode

The python module must contains the predict function It must handle all the potential dependencies and import related to the correct model instanciation

model

In the configuration file, the mandatory keys $REGION and $SEED must be present as they are replaced by iota2. In case of only one region, the region value is set to 1. Look at the documentation about the model constraint.

module

The python module must contains the predict function It must handle all the potential dependencies and import related to the correct model instanciation

python_data_managing

Name	Default Value	Description	Type	Mandatory	Name
chunk_size_mode	split_number	The chunk split mode, currently the choice is ‘split_number’	str	False	chunk_size_mode
chunk_size_x	50	number of cols for one chunk	int	False	chunk_size_x
chunk_size_y	50	number of rows for one chunk	int	False	chunk_size_y
data_mode_access	gapfilled	choose which data can be accessed in custom features	str	False	data_mode_access
fill_missing_dates	False	fill raw data with no data if dates are missing	bool	False	fill_missing_dates
max_nn_inference_size	None	maximum batch inference size	int	False	max_nn_inference_size
number_of_chunks	50	the expected number of chunks	int	False	number_of_chunks
padding_size_x	0	The padding for chunk	int	False	padding_size_x
padding_size_y	0	The padding for chunk	int	False	padding_size_y

Notes

data_mode_access

Three values are allowed:

• gapfilled: give access only the gapfilled data

• raw: gives access only the original raw data

• both: provides access to both data

..Notes:: Data are spatialy resampled, these parameters concern only temporal interpolation

fill_missing_dates

If raw data access is enabled, this option considers all unique dates for all tiles and identify which dates are missing for each tile. A missing date is filled using a no data constant value.Cloud or saturation are not corrected, but masks are provided Masks contain three value: 0 for valid data, 1 for cloudy or saturated pixels, 2 for a missing date

max_nn_inference_size

Involved if a neural network inference is performed. If not set (None), the inference size will be the same as the one used during the learning stage

sensors_data_interpolation

Name	Default Value	Description	Type	Mandatory	Name
auto_date	True	Enable the use of start_date and end_date	bool	False	auto_date
use_additional_features	False	enable the use of additional features	bool	False	use_additional_features
use_gapfilling	True	enable the use of gapfilling (clouds/temporal interpolation)	bool	False	use_gapfilling
write_outputs	False	write temporary files	bool	False	write_outputs

Notes

auto_date

If True, iota2 will automatically guess the first and the last interpolation date. Else, start_date and end_date of each sensors will be used

write_outputs

Write the time series before and after gapfilling, the mask time series, and also the feature time series. This option required a large amount of free disk space.

slurm

Name	Default Value	Description	Type	Mandatory	Name
account	None	Feed the sbatch parameter ‘account’	str	False	account

Notes

account

The section ‘slurm’ is only available once the Slurm orchestrator is involved in jobs submission.

task_retry_limits

Name	Default Value	Description	Type	Mandatory	Name
allowed_retry	0	allow dask to retry a failed job N times	int	False	allowed_retry
maximum_cpu	4	the maximum number of CPU available	int	False	maximum_cpu
maximum_ram	16.0	the maximum amount of RAM available. (gB)	float	False	maximum_ram

Notes

maximum_cpu

the amount of cpu will be doubled if the task is killed due to ram overconsumption until maximum_cpu or allowed_retry are reach

maximum_ram

the amount of RAM will be doubled if the task is killed due to ram overconsumption until maximum_ram or allowed_retry are reach

userFeat

Name	Default Value	Description	Type	Mandatory	Name
arbo	/*	input folder hierarchy	str	False	arbo
patterns	ALT,ASP,SLP	key name for detect the input images	str	False	patterns