Phenology image anaysis

Developed by Linh Ta, Bryan Heidorn, Jessica Guo, and David LeBauer

This repo contains scripts to process Phenocam canopy and ground images in order to better predict phenological processes (green up, brown down) for the EFI phenology competition.

Setting Up

Prerequisite:

You should have Anaconda or Miniconda installed, which should also include Python3.

Setting up the environment

Regardless of how you run the program, the scripts contained in this repository will require a few library to get set up. In here I will instruct you how to set up an environment in the running folder, so that the setting here does not affect your other project.

Make a new env in the current folder (optional)

Navigate to the folder containing the code, type conda create -p ./env python=3.7

It will create a Conda environment named env in the current folder.

Then anytime you want to use that environment, you can head into the folder and run conda activate ./env

To deactivate the environment, type conda deactivate

Then we should attach that environment to the Jupyter Notebook.

We will do it by installing ipykernel, type pip3 install --user ipykernel OR python3 -m pip install virtualenv

Then to attach the environment to Jupyter Notebook, run python3 -m ipykernel install --user --name=env

Everytime you want to run the notebook in the environment we set up, just click Kernel->Change Kernel-> Kernel Name

Install Package

We need to install many package, run conda install numpy conda install pandas conda install matplotlib conda install scipy conda install scikit-image pip install -U scikit-learn pip install opencv-python ```conda install jupyter notebook`