Weather data README for the GenoPhenoEnvo Project

trait data and metadata are still being updated and have been removed temporarily from this README

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This repository contains source code and processed climate data for the GenoPhenoEnvo project. This repository supports one of our goals to provide open data and reproducible code in order to follow FAIR data principles and contribute to open science.

Weather Data

Contains the weather data during season dates for sorghum experiments at these locations

• Maricopa Agricultural Center, University of Arizona, Season 4
  • Coordinates: 33.069, -111.972
  • Elevation: 362 meters
  • Planting: 2017-04-20, Day 110
  • Last Day of Harvest: 2017-09-16, Day 259
• Maricopa Agricultural Center, University of Arizona, Season 6
  • Coordinates: 33.068941, -111.972244
  • Elevation: 362 meters
  • Planting: 2018-04-25, Day 115
  • Harvest: 2018-08-01, Day 213
• Kansas State University, Ashland Bottoms
  • Coordinates: 39.126, -96.677
  • Elevation: 325 meters
  • Planting: 2016-06-17, Day 169
  • Harvest: 2016-10-21, Day 295
• Clemson University Pee Dee Research and Education Center, South Carolina
  • Coordinates: 34.289, -79.737
  • Elevation: 42 meters
  • Planting: 2014-05-06, Day 126
  • Latest date in Clemson trait data: 2014-10-15, Day 288

Parameters and Units

• Date: YYYY-MM-DD format
• Day of year
• Minimum temperature: Celsius
• Maximum temperature: Celsius
• Mean temperature: Celsius
• Accumulated growing degree days (gdd): heat units
  • 10 degrees Celsius is base temperature for sorghum
  • Daily gdd value = ((max temp + min temp) / 2) - 10 (base temperature)
  • Accumulated growing degree days = cumulative sum of daily gdd values
• Minimum relative humidity: percentage
• Maximum relative humidity: percentage
• Mean relative humidity: percentage
• Vapor pressure deficit: Kilopascals

  es = (6.11 * np.exp((2500000/461) * (1/273 - 1/(273 + temp_avg))))
  vpd = (((100 - rh_avg)/1000) * es)
  

• Precipitation: millimeters
• Cumulative precipitation: millimeters
• First water deficit treatment: boolean value
  • True values only found in MAC Season 4
• Second water deficit treatment: boolean value
  • True values only found in MAC Season 4

Information about MAC season 4 water deficit treatments can be found here

Raw weather data CyVerse downloads

These urls will start an automatic download, which were used in the weather data cleaning code

• MAC season 4 weather
• MAC season 6 weather
• KSU hourly weather
• KSU daily weather
• Clemson daily temperatures
• Clemson daily relative humidity

Raw weather data sources

• Maricopa (Arizona) Agricultural Center
• Kansas Mesonet
• NASA Daymet - can search by coordinates
• Climate Engine - can search by coordinates

Data Processing

• Weather data that could not be found in all four seasons were dropped during processing, but can be accessed in the raw data
• The Python3 code used to process weather data can be found in the Jupyter notebook weather_data_cleaning.ipynb. All cells can be run to produce the processed output files:
  • mac_season_4_weather.csv
  • mac_season_6_weather.csv
  • ksu_weather.csv
  • clemson_weather.csv
• These processed data can also be downloaded directly from CyVerse using these automatic download links
  • MAC season 4 https://de.cyverse.org/dl/d/6D959379-0442-41FE-8BEE-890866ACF037/mac_season_4_weather.csv
  • MAC season 6 https://de.cyverse.org/dl/d/C6219045-8114-4068-B924-8C2CD54AB9FD/mac_season_6_weather.csv
  • KSU https://de.cyverse.org/dl/d/F53F6574-CE80-408E-B8C8-8983CB287F96/ksu_weather.csv
  • Clemson https://de.cyverse.org/dl/d/1EB28C81-10A1-4E1B-A406-1D0C6A20AF2D/clemson_weather.csv