birdMigration

A collection of methods for

• loading and preprocessing weather radar observations of bird movements
• loading environmental data from ERA5
• simulating nocturnal bird migration with an agent/indiviual based model.

Getting started

To use the birds python package for simulating nocturnal bird migration or for preprocessing weather radar data, install the package by running

python setup.py install

In addition, note that

• the R package uvaRadar is used to download weather radar data (requires login)
• the Python package cdsapi is used to download ERA5 reanalysis data (requires login; steps are described here)
• before accessing h5 data using wradlib run export WRADLIB_DATA=~/

Weather radar data loading

To load weather radar data from the database, first switch to the dataloading directory, specify the radars and times of interest in the config.yml file, and then run

python run_vpts_generation.py path/to/output_dir

ERA5 data loading

To load environmental data for the geographical extent covered by weather radars, first switch to the dataloading directory, and then run

python load_era5.py --root path/to/data_dir --years 2015 2016 2017

Simulating nocturnal bird migration

To simulate bird trajectories in parallel, switch to the simulation directory, and then run

python parallel_simulation.py --root path/to/data_dir