Files:

• push.sh - shell script to push local data to HPC (script args define dir on HPC and settings JSON to use)
• settings_builder.py - class to manage settings for different scripts
• settings/ - folder containing settings JSONs for jobs
• scripts/ - folder containing one off scripts for preparing survey data and anything else not a core utility used in following stages

Notes:

Files:

• s1_jobscripts - jobscript
• main.py - primary script called by jobscript
• data_prep.py - class/functions to generate sample data for training CNN
• create_grid.py - class to generate point grid
• runscript.py - core class/functions for running PyTorch CNN
• load_data.py - classes for reading Landsat imagery for CNN training data and extracting NTL imagery values for training data labels
• load_survey_data.py - class to load survey data for use with CNN predictions
• resnet.py - modified ResNet class (based on PyTorch ResNet class)
• vgg.py - modified VGG class (based on PyTorch VGG class) - NOT FUNCTION

Notes:

Files:

• s2_jobscript - jobscript

• second_stage_model.py - primary script called by jobscript

• model_prep.py - functions and classes for building second stage models

• merge_outputs.py - script to merge second stage model metrics

Files:

• build_surface_grid.py

Files:

• s4_main.py -

Notes:

• x

• running with full set of cnn features (or more; ntl, etc.) will make stage 2 take significantly longer. If testing, start with PCA instead of full feature set.
• when using MLP Classifier model, single variable models (e.g., only NTL) will not converge