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  • Introduction
  • Data Sources
  • Software
  • Scientific Objectives and Experimental Design
    • Protocols
      • Controlled Environment Protocols
      • Manual Field Data Protocols
      • Phenotractor Protocols
      • Sensor Calibration
      • Template Protocol
      • UAV Protocols
    • Experimental Design
      • Experimental Design Danforth
        • Sorghum Lines Danforth
      • Experimental Design Genomics
        • Sorghum Lines Genomics Year 1
        • Sorghum Lines Genomics Year 1 (continued)
        • Sorghum Lines Genomics Year 2
      • Experimental Design MAC
  • User Manual
    • What Data is Available
    • Data Products
      • Environmental conditions
      • Fluorescence intensity imaging
      • Genomics data
      • Geospatial information
      • Hyperspectral imaging data
      • Infrared heat imaging data
      • Multispectral imaging data
      • Meteorological data
      • Phenotype data
      • Point Cloud Data
    • How to Access Data
      • Using Clowder (Sensor and Genoomics data)
      • Using Globus (Sensor and Genomics data)
      • Using BETYdb (trait data, experimental metadata)
        • Accessing BETYdb via ArcMap and other GIS software
      • Using CoGe (Genomics)
      • Using CyVerse (Genomics)
      • Using Analysis Workbench (all data)
    • Data Use Policy
    • Manuscripts and Authorship Guidelines
    • Release / reprocessing schedule
  • Technical Documentation
    • Data Standards
      • Existing Data Standards
      • Agronomic and Phenotype Data Standards
      • Genomic Data Standards
      • Sensor Data Standards
      • Data Standards Committee
    • Directory Structure
    • Data Storage
    • Data Transfer
    • Data Processing Pipeline
      • Geospatial Time Series Structure
    • Data Backup
    • Data Collection
    • Data Product Creation
      • Genomic Data
      • Hyperspectral Data
    • Quality Assurance and Quality Control
    • Systems Configuration
  • Developer Manual
    • Submitting data to Clowder
    • Submitting data to BETYdb
    • Submitting Data to CoGe
    • Developing Clowder Extractors
  • Tutorials
  • Appendix
    • Code of Conduct
    • Collaboration Tools
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  • Raw Data
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  1. User Manual
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Environmental conditions

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Last updated 7 years ago

Environment conditions data is collected using the Vaisala CO2, Thies Clima weather sensors as well as lightning, irrigation, and weather data collected at the Maricopa site.

Data formats follow the for variable names and units. Environmental data are stored in the Geostreams database.

Data sources

  • WeatherStation coordinates are 33.074457 N, 111.975163 W

  • EnvironmentLogger is on top of the gantry system and is moveable.

  • Irrigation is managed at the field level. There are four regions that can be irrigated at different rates.

Data access

Level 1 data

Level 1 meteorological data is aggregated to from 1 Hz raw data to 5 minute averages or sums.

netCDF: 5s (12 per minute) observations

On Globus or Workbench you can find these data provided in both hourly and daily files. These files contain data at the original temporal resolution of 1/s. In addition, they contain the high resolution spectral radiometer data.

sites/ua-mac/Level_1/envlog_netcdf

  • hourly files: YYYY-MM-DD_HH-MM-SS_environmentallogger.nc

  • daily files: envlog_netcdf_L1_ua-mac_YYYY-MM-DD.nc

Geostreams: 5 minute observations

Here is the json representation of a single five-minute observation:

Data can be accessed using the geostreams API or the PEcAn meteorological workflow.

Here is the json representation of a single five-minute observation from Geostreams:

[
   {
      "geometry":{
         "type":"Point",
         "coordinates":[
            33.0745666667,
            -111.9750833333,
            0
         ]
      },
      "start_time":"2016-08-30T00:06:24-07:00",
      "type":"Feature",
      "end_time":"2016-08-30T00:10:00-07:00",
      "properties":{
         "precipitation_rate":0.0,
         "wind_speed":1.6207870370370374,
         "surface_downwelling_shortwave_flux_in_air":0.0,
         "northward_wind":0.07488770951583902,
         "relative_humidity":26.18560185185185,
         "air_temperature":300.17606481481516,
         "eastward_wind":1.571286062845733,
         "surface_downwelling_photosynthetic_photon_flux_in_air":0.0
      }
   },

Variable names and units

CF standard-name

units

bety

isimip

cruncep

narr

ameriflux

air_temperature

K

airT

tasAdjust

tair

air

TA (C)

air_temperature_max

K

tasmaxAdjust

NA

tmax

air_temperature_min

K

tasminAdjust

NA

tmin

air_pressure

Pa

air_pressure

PRESS (KPa)

mole_fraction_of_carbon_dioxide_in_air

mol/mol

CO2

moisture_content_of_soil_layer

kg m-2

soil_temperature

K

soilT

TS1 (NOT DONE)

relative_humidity

%

relative_humidity

rhurs

NA

rhum

RH

specific_humidity

1

specific_humidity

NA

qair

shum

CALC(RH)

water_vapor_saturation_deficit

Pa

VPD

VPD (NOT DONE)

surface_downwelling_longwave_flux_in_air

W m-2

same

rldsAdjust

lwdown

dlwrf

Rgl

surface_downwelling_shortwave_flux_in_air

W m-2

solar_radiation

rsdsAdjust

swdown

dswrf

Rg

surface_downwelling_photosynthetic_photon_flux_in_air

mol m-2 s-1

PAR

PAR (NOT DONE)

precipitation_flux

kg m-2 s-1

cccc

prAdjust

rain

acpc

PREC (mm/s)

degrees

wind_direction

WD

wind_speed

m/s

Wspd

WS

eastward_wind

m/s

eastward_wind

CALC(WS+WD)

northward_wind

m/s

northward_wind

CALC(WS+WD)

Raw Data

Data is available via Globus or Workbench:

  • /ua-mac/raw_data/co2sensor

  • /ua-mac/raw_data/EnvironmentLogger

  • /ua-mac/raw_data/irrigation

  • /ua-mac/raw_data/lightning

  • /ua-mac/raw_data/weather

Sensor information:

Computational pipeline

  • Description: EnvironmentalLogger raw files are converted to netCDF.

Known Issues

When the full field is irrigated (as is typical), the irrigated area is 5466.1 m2 (=215.2 m x 25.4 m)

In 2017:

  • Full field irrigated area from the start of the season to August 1 (103 dap) is 5466.1 m2 (=215.2 m x 25.4 m).

  • Well-watered treatment zones from August 1 to 15 (103 to 116 dap): 2513.5 m2 (=215.2 m x 11.68 m) in total, combined areas of non-contiguous blocks

  • Well-watered treatment zones from August 15 - 30 (116 to 131 dap): 3169.9 m2 (=215.2 m x 14.73 m), again in total as the combined areas of non-contiguous blocks

Github Issues

Data can be accessed using the geostreams API or the PEcAn meteorological workflow. These are illustrated in the .

These are illustrated in the .

Known issue: the irrigation data stream does not currently handle variable irrigation rates within the field. Specifically, we have not yet accounted for the Summer 2017 drought experiments. See for more information.

Climate and Forecast (CF) conventions
sensor data tutorials
sensor data tutorials
Vaisala CO2 Sensor collection
Thies Clima Sensor collection
Environmental Logger
terraref/reference-data#196
computing-pipeline#252 Developmet discussions
Downwelling Spectral radiometer calculations reference-data #30