Install the Zoo Workflow

There are two ways to install the CoastSeg zoo workflow:

• Pixi
• Conda

Pixi is the recommended option.

Install with Pixi (Recommended)

Pixi is the recommended way to install the zoo workflow.

1. Open a terminal.
2. Go to the segmentation_workflow folder.

   cd CoastSeg/segmentation_workflow
   

3. Create and activate the Pixi environment.

   pixi shell
   

4. Wait for the environment to finish installing and activating.

5. Confirm the environment is active.
   • You will know it is active when you see (segmentation_workflow) in the terminal.

     (segmentation_workflow) C:\CoastSeg\segmentation_workflow
     

6. Exit the Pixi environment.

exit

Install with Conda

Conda also works, but we do not recommend it.

Warning

The Conda workflow requires you to run the models with the script run_zoo_segmentation_models.py in the folder segmentation_workflow and then run the script 3_zoo_workflow_extract_shorelines.py in the main CoastSeg environment to extract shorelines from the segmentations.

1. Open Miniforge.
2. Go to the CoastSeg/segmentation_workflow folder
   • Remember to use the location where you installed CoastSeg on your computer.

     cd <CoastSeg_location>
     cd segmentation_workflow
     

3. Install the Conda environment using the instructions in segmentation_workflow.

   conda env create -f conda.yml
   

   This workflow works fine, but Pixi is the recommended setup for the zoo workflow.