read_file

openalea.hydroroot.read_file.readCSVFile(filename)

Read and extract data from a csv file, supposed that the data is stored in 2 columns.

Parameters:

filename – string

Returns:

• data (array) - record array of (x, y) values, column headers recorded in dtype

openalea.hydroroot.read_file.read_archi_data(fn)

Read a csv (tab separated) file with the architecture in the following format

Parameters:

fn – (string) - the architecture filename in csv format with tab as delimiter

Returns:

• DataFrame, with columns from the csv plus:

  • a column ‘db’, the distance to base in m, and

  • a column ‘lr’, the lateral root lengths in m

  • a column ‘radius’, if ‘averaged_diameter_(mm)’ the radius in m

File structure:

‘distance_from_base_(mm)’	‘lateral_root_length_(mm)’	order	‘averaged_diameter_(mm)’
float	float	string	float

• order = 1 for laterals of 1st order ob the primary

• order = n-m for the lateral number m on the lateral number n of 1st order

• order = n-m-o for the lateral number o of the previous one

Column ‘averaged_diameter_(mm)’ is optional

Each branch finish with a nude part, i.e. a distance from base (the tip value) and a zero length The ‘averaged_diameter_(mm)’ is not mandatory, if present allow calculation of radii for each laterals if not the radii of PR and LR will be calculated in routine radius.ordered_radius. the resulting dataframe must be in meter and have the following column names: ‘db’, ‘lr’, ‘order’ and ‘radius’ (optional) these names are used in mtg_from_aqua_data to build the MTG

Download the source file ../../src/openalea/hydroroot/read_file.py.