WISRD Research & Engineering Journal

4.2.2 Installing PlantCV and Matplotlib

The PlantCV master README file is found on our study’s Github repository. The README file contains several ways to obtain the files for PlantCV. We installed a plantcv channel on Anaconda.Navigator in the following way: Download the Individual Edition of Anaconda: https://www.anaconda.com/products/individual In the terminal window (if you are on a PC, the anaconda prompt is in the Anaconda.Navigator folder underneath the Anaconda app): 1. Add conda-forge conda config --add channels conda-forge 2. Update conda conda update -n base -c defaults conda 3. Install PlantCV conda create -n plantcv plantcv 4. Install Matplotlib Jupyter Notebook is a platform becoming more popular with data scientists. It allows the user to run and visualize a workflow (in this case a PlantCV workflow). A local “notebook” was created for the coral imaging project, which stored PlantCV, the images to analyze, and any other files thought to be useful. In the terminal window: 1. Confirm that Anaconda already has Jupyter conda list jupyter conda install -c conda-forge matplotlib 4.2.3 Installing Jupyter Notebook

2. If Jupyter was not successfully installed, run conda install jupyter

3. Download the most recent version of Jupyter

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